Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5230303
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 140504 characters in sequence are not A, C, G, or T
File 4 of 29
Found at i:450581 original size:32 final size:32
Alignment explanation
Indices: 450540--450642 Score: 197
Period size: 32 Copynumber: 3.2 Consensus size: 32
450530 AGCTTCGTAG
*
450540 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
450572 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
450604 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
450636 CGATACA
1 CGATACA
450643 ACACTTATGT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:450725 original size:21 final size:21
Alignment explanation
Indices: 450699--450761 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
450689 GTTGGGACCT
450699 TGTATCGATACATTCT-AACAA
1 TGTATCGATACATT-TGAACAA
*
450720 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
*
450741 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
450762 AAATGTGATT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
20 1 0.03
21 39 0.98
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:452073 original size:27 final size:27
Alignment explanation
Indices: 452042--452114 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
452032 AACCACCCAT
*
452042 TGTTTGTCAAAAATTGTGGTTACTTTG
1 TGTTTGTCAAAAATAGTGGTTACTTTG
* *
452069 TGTTTGTCAAAAATAGTGGTTTCTTTT
1 TGTTTGTCAAAAATAGTGGTTACTTTG
* *
452096 TATTTGTCAAAAATGGTGG
1 TGTTTGTCAAAAATAGTGG
452115 CATGTTGTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.47
Consensus pattern (27 bp):
TGTTTGTCAAAAATAGTGGTTACTTTG
Found at i:455211 original size:13 final size:12
Alignment explanation
Indices: 455194--455234 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
455184 TAAAAAAAAT
*
455194 CAAAAGTAAACA
1 CAAAAATAAACA
455206 CAAAAATAAA-A
1 CAAAAATAAACA
455217 CAAAAA-AAACA
1 CAAAAATAAACA
455228 CACAAAA
1 CA-AAAA
455235 AAAAGTGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 3 0.12
11 10 0.38
12 13 0.50
ACGTcount: A:0.76, C:0.17, G:0.02, T:0.05
Consensus pattern (12 bp):
CAAAAATAAACA
Found at i:455235 original size:13 final size:12
Alignment explanation
Indices: 455201--455238 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
455191 AATCAAAAGT
455201 AAACACAAAAATA
1 AAACACAAAAA-A
455214 AAACA-AAAAAA
1 AAACACAAAAAA
*
455225 ACACACAAAAAA
1 AAACACAAAAAA
455237 AA
1 AA
455239 GTGTAAAGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 5 0.23
12 12 0.55
13 5 0.23
ACGTcount: A:0.82, C:0.16, G:0.00, T:0.03
Consensus pattern (12 bp):
AAACACAAAAAA
Found at i:456590 original size:30 final size:29
Alignment explanation
Indices: 456544--456738 Score: 173
Period size: 31 Copynumber: 6.5 Consensus size: 29
456534 CTCCCTTCTT
*
456544 AAAGTCCACGACTCAGTGGCATTTTGTCCC
1 AAAGTCCACAACTCAGTGGCATTTT-TCCC
*
456574 AAAGCCCACAACTCAGTGGCATTTTGTCCC
1 AAAGTCCACAACTCAGTGGCATTTT-TCCC
** *
456604 AAAGTCCATGACTCAGTGGCTTTTTTTCTCC
1 AAAGTCCACAACTCAGTGGC-ATTTTTC-CC
*
456635 AAAGTCCACAACTCAGTGGCAATCTCTTT-TC
1 AAAGTCCACAACTCAGTGGC-AT-T-TTTCCC
* *
456666 AAAGTCCACGACTCAGTGGCATCTTTTCTTC
1 AAAGTCCACAACTCAGTGGCAT-TTTTC-CC
* *
456697 AAAGCCCACAACTCTGTGGCATCCTTTT---
1 AAAGTCCACAACTCAGTGGCAT--TTTTCCC
456725 AAAGTCCACAACTC
1 AAAGTCCACAACTC
456739 CATGGCACCT
Statistics
Matches: 142, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
28 13 0.09
29 3 0.02
30 51 0.36
31 66 0.46
32 6 0.04
33 3 0.02
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
AAAGTCCACAACTCAGTGGCATTTTTCCC
Found at i:456640 original size:31 final size:31
Alignment explanation
Indices: 456544--456718 Score: 187
Period size: 31 Copynumber: 5.7 Consensus size: 31
456534 CTCCCTTCTT
*
456544 AAAGTCCACGACTCAGTGGCATTTTGTC-CC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
* * *
456574 AAAGCCCACAACTCAGTGGCATTTTGTC-CC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
* *
456604 AAAGTCCATGACTCAGTGGCTTTTTTTCTCC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
* *
456635 AAAGTCCACAACTCAGTGGCAATCTCTTT-T-C
1 AAAGTCCACGACTCAGTGGC-AT-TTTTTCTCC
* *
456666 AAAGTCCACGACTCAGTGGCATCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
* * *
456697 AAAGCCCACAACTCTGTGGCAT
1 AAAGTCCACGACTCAGTGGCAT
456719 CCTTTTAAAG
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
29 3 0.02
30 54 0.44
31 60 0.49
32 2 0.02
33 4 0.03
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.29
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTTTCTCC
Found at i:456845 original size:35 final size:34
Alignment explanation
Indices: 456722--457087 Score: 369
Period size: 33 Copynumber: 10.9 Consensus size: 34
456712 GTGGCATCCT
* *
456722 TTTAAAGTCCACAACTCCATGGCAC-CTTGTTCC
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTCC
* *
456755 TTTTAAGTCCACAACTCTGTGGCA-TCTTTTTCC
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTCC
* *
456788 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTC-C
* * * *
456823 TTTTAAGTCCATAACTCTGTGGCA-TCTTTTTTC
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTCC
* *
456856 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTC-C
* *
456891 TTTAAAGTCCATAACTCCGTGGCA-TCTCTTTCC
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTCC
* * *
456924 TTCAAAGTCCACAACTCAGTGGCATCCCTTTTTCC
1 TTTAAAGTCCACAACTCCGTGGCA-CTCTTTTTCC
* * *
456959 TGT-AAGTCCTACAACTCAGTGGCA-TCTCTTT-C
1 TTTAAAGTCC-ACAACTCCGTGGCACTCTTTTTCC
* *
456991 --T-AAGTCCACGACTCCGTGGCAC-CTTTTTCTT
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTTC-C
* *
457022 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTT-CC
*
457057 TTTTAAGTCCACAACTCCGTGGCAC-CTTTTT
1 TTTAAAGTCCACAACTCCGTGGCACTCTTTTT
457088 AAGTCAATAA
Statistics
Matches: 273, Mismatches: 44, Indels: 31
0.78 0.13 0.09
Matches are distributed among these distances:
29 17 0.06
30 7 0.03
32 1 0.00
33 96 0.35
34 59 0.22
35 92 0.34
36 1 0.00
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (34 bp):
TTTAAAGTCCACAACTCCGTGGCACTCTTTTTCC
Found at i:456851 original size:68 final size:67
Alignment explanation
Indices: 456722--457087 Score: 431
Period size: 68 Copynumber: 5.5 Consensus size: 67
456712 GTGGCATCCT
* * *
456722 TTTAAAGTCCACAACTCCATGGCACCTTGTTC-CTTTTAAGTCCACAACTCTGTGGCATCTTTTT
1 TTTAAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTTAAGTCCACAACTCTGTGGCATCTTTTT
456786 CC
66 CC
* *
456788 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTTTAAGTCCATAACTCTGTGGCATCTTTT
1 TTTAAAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTTTAAGTCCACAACTCTGTGGCATCTTTT
*
456853 TTC
65 TCC
* * * * *
456856 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGTCCATAACTCCGTGGCATCTCTT
1 TTTAAAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTTTAAGTCCACAACTCTGTGGCATCTTTT
456921 TCC
65 TCC
* * * * * *
456924 TTCAAAGTCCACAACTCAGTGGCATCCCTTTTTC--CTGTAAGTCCTACAACTCAGTGGCATCTC
1 TTTAAAGTCCACAACTCCGTGGCA--CCTTTTTCTTTTTTAAGTCC-ACAACTCTGTGGCATCTT
456987 TTT-C
63 TTTCC
* * *
456991 --T-AAGTCCACGACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTT
1 TTTAAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTTAAGTCCACAACTCTGTGGCA-TCTTTT
457053 TCCC
65 T-CC
*
457057 TTTTAAGTCCACAACTCCGTGGCACCTTTTT
1 TTTAAAGTCCACAACTCCGTGGCACCTTTTT
457088 AAGTCAATAA
Statistics
Matches: 259, Mismatches: 28, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
62 8 0.03
63 13 0.05
64 30 0.12
66 24 0.09
67 14 0.05
68 136 0.53
69 33 0.13
70 1 0.00
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (67 bp):
TTTAAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTTAAGTCCACAACTCTGTGGCATCTTTTT
CC
Found at i:457106 original size:27 final size:27
Alignment explanation
Indices: 457057--457112 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
457047 TCTTTTTCCC
* *
457057 TTTTAAGTCCACAACTCCGTGGCACCT
1 TTTTAAGTCAACAACTCCATGGCACCT
* * *
457084 TTTTAAGTCAATAACTCTATGGCATCT
1 TTTTAAGTCAACAACTCCATGGCACCT
457111 TT
1 TT
457113 CTCCTTTTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (27 bp):
TTTTAAGTCAACAACTCCATGGCACCT
Found at i:457298 original size:49 final size:49
Alignment explanation
Indices: 457180--462077 Score: 5382
Period size: 49 Copynumber: 99.9 Consensus size: 49
457170 GGCATCTTCT
* *
457180 TCTTTAAGACCAATGTCGCTGGCCATGAATCAGCACATTGGCA-----C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * *
457224 -CATTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCCTTGC
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTGC
*
457273 T-TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-----C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
457316 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCCTTG-
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTGC
* **
457364 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
*
457413 TCTTTACGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * ** *
457461 ATCTTTAAGTCCAATATCGGTGAACTTGAATCAGCATATTGGCACCTTTG-
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* *
457511 TTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
457559 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG-
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* **
457609 TCTTTAAGTCCAATGTCGCGGGCCTTGAATCAGCACATTGGCACCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * * *
457658 TCTTTACGTCCAATGTCGCTAGCTTTGAATCAGCACATTGGTACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * * *
457706 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCATTGTC
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTG-C
* * * * * *
457757 ACCTTTCAGTCCAATATCACTGGCCTTAAATCAGCATATTGGCACCCTTG-
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTGC
* *
457807 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG-A----AC
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
457851 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG-
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* * * **
457899 TTTTTAAGACCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
457948 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG-
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* **
457997 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
458046 TCTTTACGTCCAATGTCGCTGGCCTTGAATCGGCACATTGGCACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
458094 AACTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTG-
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* *
458144 TTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
458192 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG-
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* *
458242 TCTTTAAGTCCAATGTCGCTGGCCTTAAATCAGCACATTGGCGCCTTTG-
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* *
458291 TTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * * *
458339 ATCTTTAAGTCCAATATCGCTGGCCCTGATTCAGCATATTGGCACCTTTG-
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* * **
458389 TCTTTAAGTCCAATGTTGCTGGCCTTAAATCAGCACATTGGCACCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
458438 TCTTTACGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
458486 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG-
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* **
458536 TCTTTAAGTCCAATGTCGC-GAGCCTTGAATCAGCGCATTGGCACCTTTA
1 TCTTTAAGTCCAATGTCGCTG-GCCTTGAATCAGCACATTGGCACCTTGC
* * *
458585 TCTTTACGTCCAATGTCGCTGGCTTTGAATCAGCACATTGGTACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * * *
458633 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCATTGTC
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTG-C
* * * * * *
458684 ACCTTTCAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCATT-T
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* *
458734 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG-AAC--G-
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * **
458779 --TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * **
458826 TTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
458875 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG-
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* **
458924 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
458973 TCTTTACGTCCAATGTCGCTGGCCTTGAATCGGCACATTGGCACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
459021 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG-
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* *
459071 TTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * *
459119 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATCGGCACCTTTG-
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* *
459169 TCTTTAAGTCCAATGTCGCTGGCCTTAAATCAACACATTGGCACCTTTG-
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* * **
459218 TTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * *
459267 TCTTTAAGTCCAATATCGCTGGCCTTGATTCAGCATATTGGCACCTTTG-
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* **
459316 TCTTTAAGTCCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
459365 TCTTTACGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
459413 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG-
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* *
459463 TTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
459511 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG-
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* *
459561 TCTTTAAGTCCAATGTCGCTGGCCTTAAATCAACACATTGGCACCTTTG-
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* *
459610 TTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * *
459658 ATCTTTAAGTCCAATATCGCTGGCCTTGATTCAGCATATTGGCACCTTTG-
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* *
459708 TCTTTAAGTCCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCCTT-A
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTGC
* *
459757 TCTTTACGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
459805 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG-
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* *
459855 TTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * * *
459903 ATCTTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATCGGCACCTTTG-
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* *
459953 TCTTTAAGTCCAATGTCGCTGGCCTTAAATCAACACATTGGCACCTTTG-
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* *
460002 TTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * *
460050 ATCTTTAAGTCCAATATCGCTGGCCTTGATTCAGCATATTGGCACCTTTG-
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* *
460100 TCTTTAAGTCCAGTGTCGCTGGCCTTAAATCAGCACATTGGCACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * *
460148 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATCGGCACCTTG-
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
*
460197 TCTTTAAGT-CAATGTCGCTGGCCTT-AATCA-CACATTGGCATCTTTG-
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTGC
* * **
460243 TTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * *
460292 TCTTTAAGTCCAATATCGCTGGCCTTGATTCAGCATATTGGCACCTTTG-
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGC
* **
460341 TCTTTAAGTCCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
460390 TCTTTACGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
460438 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTG-C
460490 ATCTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-C
1 -TC-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
460540 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAGTC
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-G-C
* *
460592 ATCTTTTAAGTCCAATGTCGTTGGGCTTTGAATCAGCACATTGGCACCTT-C
1 -TC-TTTAAGTCCAATGTCGCT-GGCCTTGAATCAGCACATTGGCACCTTGC
* *
460643 ATCTTTAACATTCCTAAACCCGATGTCGCTGGCCTTGACTCAGCACATTGGCA-----C
1 -TCTTT-A-AGTCC---A----ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * * **
460697 T-TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTCAC
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC-CTTGC
* * *
460746 -CTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATT-G-A-C--AC
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * * * *
460789 -CTTTAAGTCCAGTATAGCTGGCCTTGAATCAGTATATTGGCACCTT-C
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * * * * **
460836 ACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGTACCTTTA
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * *
460886 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCATCACATTGG-AAC--G-
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * * * *
460931 --TTTAAGTCCAATATCGCTGGCCTTGGATCAGCATATTGGCGTCTTTGTC
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC-ACCTTG-C
* **
460980 ATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTCCC
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * * *
461030 TC-TTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTG-C
* * *
461080 ATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCATATTGGCACC-TCC
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * * *
461129 ATC-TTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTG-C
*
461180 ATGTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-C
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * *
461229 TTCTTTGAGTCCAATATCGCTGGCCTTGAATCAGC-CTATTGGCGCCTTTGTC
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCAC-ATTGGCACC-TTG-C
461281 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-C
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * * *
461330 TTCTTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTG-C
* **
461382 ATGTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
461432 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTG-C
461483 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-C
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * *
461532 ATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCGTC
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-G-C
** * * *
461584 ATCTTTAAAACCCAATGTCGTTGACCTTGAATCAACACATTGGCA--TT-C
1 -TCTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
461632 TTCTTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGGCACATT-C
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
** * *
461681 ATCTTTAAGTCCAATGTCATTGGCCTTGAAACAGCACATTGGCA-CTTTC
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * * *
461730 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTTA
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTG--C
* *
461783 TCTTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTAGCACCTT-C
1 TC-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * * ** *
461832 ATCTTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCGTCTTCGTTA
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-G--C
** * * *
461885 TCTTTAAAACCCAATGTCGTTGACCTTGAATCAACACATTGGCA--TT-C
1 TCTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* *
461932 TTCTTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGGTACCTT-C
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
* * **
461981 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTCGTC
1 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-G-C
* *
462033 ATCTTTAAAGCCCAATGTCGCTGGCCTTGACTCAGCACATTGGCA
1 -TCTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
462078 TTCTTCTTCA
Statistics
Matches: 4160, Mismatches: 493, Indels: 393
0.82 0.10 0.08
Matches are distributed among these distances:
43 245 0.06
44 4 0.00
45 10 0.00
46 17 0.00
47 98 0.02
48 157 0.04
49 2927 0.70
50 65 0.02
51 109 0.03
52 285 0.07
53 188 0.05
54 26 0.01
55 1 0.00
58 21 0.01
59 7 0.00
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (49 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGC
Found at i:457467 original size:98 final size:98
Alignment explanation
Indices: 457169--462077 Score: 5936
Period size: 98 Copynumber: 50.1 Consensus size: 98
457159 CACAAGTTGG
* * * *
457169 TGGCATCTTCTTCTTTAAGACCAATGTCGCTGGCCATGAATCAGCACATTGGCACC---A---TT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
*
457228 AAGTCCAATATCGCTGGCCTTGAATCAGCATAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
*
457261 TGGCACCCTTGC-T-TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----CT
1 TGGCA-CCTT-CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCT
*
457318 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
64 TTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* *
457353 TGGCACCCTT-GTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
1 TGGCA-CCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
457417 TACGTCCAATGTCGCTGGCCTTGAATCAGCACAT
65 TAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * ** * * *
457451 TGGCACCTTCATCTTTAAGTCCAATATCGGTGAACTTGAATCAGCATATTGGCACCTTTGTTTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* *
457516 AAGACCAATGTCGCTGGCCTTGAATCAGCACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * *
457549 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* *
457614 AAGTCCAATGTCGCGGGCCTTGAATCAGCACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * * * *
457647 TGGCACCTTTATCTTTACGTCCAATGTCGCTAGCTTTGAATCAGCACATTGGTACCTTCATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
*
457712 AAGTCCAATATCGCTGGCCTTGAATCAGCATAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * * * * * * * *
457745 TGGCGCATTGTCACCTTTCAGTCCAATATCACTGGCCTTAAATCAGCATATTGGCACCCTTGTCT
1 TGGCAC-CT-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCT
* *
457810 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
64 TTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * * *
457845 TGG-A-----ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTTTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* * *
457904 AAGACCAATGTCGCTGGCCTTGAATTAGCACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * *
457937 TGGCACCTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* *
458002 AAGTCCAATGTCGCTGGCCTTGAATCAACACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * * *
458035 TGGCACCTTTATCTTTACGTCCAATGTCGCTGGCCTTGAATCGGCACATTGGCACCTTCAACTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
458100 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
** * * *
458133 TGGCACCTTTGTTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
*
458198 AAGTCCAATATCGCTGGCCTTGAATCAGCATAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
** * * * *
458231 TGGCACCTTTGTCTTTAAGTCCAATGTCGCTGGCCTTAAATCAGCACATTGGCGCCTTTGTTTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* *
458296 AAGACCAATGTCGCTGGCCTTGAATCAGCACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * * *
458329 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCCTGATTCAGCATATTGGCACCTTTGTCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* * *
458394 AAGTCCAATGTTGCTGGCCTTAAATCAGCACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * *
458427 TGGCACCTTTATCTTTACGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
*
458492 AAGTCCAATATCGCTGGCCTTGAATCAGCATAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
** *
458525 TGGCACCTTTGTCTTTAAGTCCAATGTCGC-GAGCCTTGAATCAGCGCATTGGCACCTTTATCTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTG-GCCTTGAATCAGCACATTGGCACCTTTATCTT
* * *
458589 TACGTCCAATGTCGCTGGCTTTGAATCAGCACAT
65 TAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * * * *
458623 TGGTACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCATTGTCACCT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-T-ATCT
* * *
458688 TTCAGTCCAATATCACTGGCCTTGAATCAGCATAT
64 TTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* *
458723 TGGCACCATT-TTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG-A-----A-CGT
1 TGGCACC-TTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC-T
*
458780 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
64 TTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * *
458815 TGGCACCTTTATTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
*
458880 AAGTCCAATATCGCTGGCCTTGAATCAGCATAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
** *
458913 TGGCACCTTTGTCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTTATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* * *
458978 ACGTCCAATGTCGCTGGCCTTGAATCGGCACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * *
459011 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTTTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* *
459076 AAGACCAATGTCGCTGGCCTTGAATCAGCACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * *
459109 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATCGGCACCTTTGTCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* * *
459174 AAGTCCAATGTCGCTGGCCTTAAATCAACACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
** * *
459207 TGGCACCTTTGTTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* *
459272 AAGTCCAATATCGCTGGCCTTGATTCAGCATAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
** *
459305 TGGCACCTTTGTCTTTAAGTCCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTTTATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* * *
459370 ACGTCCAATGTTGCTGGCCTTGAATCAGCACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * *
459403 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTTTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* *
459468 AAGACCAATGTCGCTGGCCTTGAATCAGCACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * *
459501 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* * *
459566 AAGTCCAATGTCGCTGGCCTTAAATCAACACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
** * * *
459599 TGGCACCTTTGTTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* *
459664 AAGTCCAATATCGCTGGCCTTGATTCAGCATAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
** * *
459697 TGGCACCTTTGTCTTTAAGTCCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCCTTATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* * *
459762 ACGTCCAATGTTGCTGGCCTTGAATCAGCACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * *
459795 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTTTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* *
459860 AAGACCAATGTCGCTGGCCTTGAATCAGCACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * * *
459893 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATCGGCACCTTTGTCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* * *
459958 AAGTCCAATGTCGCTGGCCTTAAATCAACACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
** * * *
459991 TGGCACCTTTGTTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* *
460056 AAGTCCAATATCGCTGGCCTTGATTCAGCATAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
** * * *
460089 TGGCACCTTTGTCTTTAAGTCCAGTGTCGCTGGCCTTAAATCAGCACATTGGCACCTTCATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
*
460154 AAGTCCAATATCGCTGGCCTTGAATCAGCATAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * * *
460187 CGGCACCTT-GTCTTTAAGT-CAATGTCGCTGGCCTT-AATCA-CACATTGGCATCTTTGTTTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* *
460248 AAGACCAATGTCGCTGGCCTTGAATCAGCACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * * *
460281 TGGCACCTTTATCTTTAAGTCCAATATCGCTGGCCTTGATTCAGCATATTGGCACCTTTGTCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* *
460346 AAGTCCAATGTCGCTGGCCTTAAATCAGCACAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * *
460379 TGGCACCTTTATCTTTACGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
*
460444 AAGTCCAATATCGCTGGCCTTGAATCAGCATAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
*
460477 TGGCACCTTTGTCATCTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
1 TGGCACC--T-TCATC-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
*
460542 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
62 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * *
460579 TGGCACCTTAGTCATCTTTTAAGTCCAATGTCGTTGGGCTTTGAATCAGCACATTGGCACCTTCA
1 TGGCACC-T--TCATC-TTTAAGTCCAATGTCGCT-GGCCTTGAATCAGCACATTGGCACCTTTA
* * *
460644 TCTTTAACATTCCTAAACCCGATGTCGCTGGCCTTGACTCAGCACAT
61 TCTTT-A-AGTCC---A----ATATCGCTGGCCTTGAATCAGCACAT
* * * * *
460691 TGGCA----C-T-TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTCTCACCTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT-TTATCTT
* * *
460749 TAAGTCTAATGTAGCTGGCCTTGAATCAGCACAT
65 TAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * * * * * *
460783 T-G-A----CACCTTTAAGTCCAGTATAGCTGGCCTTGAATCAGTATATTGGCACCTTCACCTTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
* *
460842 AAGTCCAATATAGCTGGCCTTGAATCAGCATAT
66 AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * *
460875 TGGTACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCATCACATTGG-A-----A-CGTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC-TT
* *
460933 TAAGTCCAATATCGCTGGCCTTGGATCAGCATAT
65 TAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * ***
460967 TGGCGTCTTTGTCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTCCCTC
1 TGGC-AC-CT-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* *
461032 -TTAAGTCCAATATTGCTGGCCTTGAATCAGCATAT
63 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * **
461067 TGGCGCCTTTGTCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCATATTGGCACCTCCATC
1 TGGCACC--T-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* *
461132 -TTAAGTCCAATATCACTGGCCTTGAATCAGCATAT
63 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* *
461167 TGGCGCCTTTGTCATGTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCT-T
1 TGGCACC--T-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TAT
*
461231 CTTTGAGTCCAATATCGCTGGCCTTGAATCAGC-CTAT
62 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAC-AT
*
461268 TGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCT-T
1 TGGCACC--T-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TAT
* *
461332 CTTTAAATCCAATATCGCTGGCCTTGAATCAGCATAT
62 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* *
461369 TGGCGCCTTTGTCATGTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
1 TGGCACC--T-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
*
461434 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
63 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
*
461470 TGGCACCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TGGCACC--T-TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC
* *
461535 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCATAT
63 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
** * * *
461571 TGGCACCTTCGTCATCTTTAAAACCCAATGTCGTTGACCTTGAATCAACACATTGGCA--TTCT-
1 TGGCACC-T--TCATCTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TA
* *
461633 TCTTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACAT
61 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* ** *
461671 TGGCACATTCATCTTTAAGTCCAATGTCATTGGCCTTGAAACAGCACATTGGCA-CTTTCATCTT
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT-ATCTT
*
461735 TAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
65 TAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * * *
461769 TGGCGCCTTTGTTATCTTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTAGCACCTTCAT
1 TGGCACC--T-TCATC-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
* *
461834 CTTTAAGTCCAATATCGCTGGCCTTGAATTAGCATAT
62 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
** ** * * *
461871 TGGCGTCTTCGTTATCTTTAAAACCCAATGTCGTTGACCTTGAATCAACACATTGGCA--TTCT-
1 TGGCACCTTC---ATCTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TA
* *
461933 TCTTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACAT
61 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * **
461971 TGGTACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTCGTCATC
1 TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT--T-ATC
* * *
462036 TTTAAAGCCCAATGTCGCTGGCCTTGACTCAGCACAT
63 TTT-AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
462073 TGGCA
1 TGGCA
462078 TTCTTCTTCA
Statistics
Matches: 4290, Mismatches: 423, Indels: 198
0.87 0.09 0.04
Matches are distributed among these distances:
90 2 0.00
91 7 0.00
92 439 0.10
93 11 0.00
94 58 0.01
95 54 0.01
96 94 0.02
97 36 0.01
98 2379 0.55
99 11 0.00
100 427 0.10
101 385 0.09
102 315 0.07
103 36 0.01
104 2 0.00
105 5 0.00
108 1 0.00
112 28 0.01
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (98 bp):
TGGCACCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
Found at i:457539 original size:147 final size:147
Alignment explanation
Indices: 457169--462077 Score: 6011
Period size: 147 Copynumber: 33.4 Consensus size: 147
457159 CACAAGTTGG
* * * * * *
457169 TGGCATCTTCTTCTTTAAGACCAATGTCGCTGGCCATGAATCAGCACATTGGCACC---A---TT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * * * *
457228 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCCTT-GCTTTTAAGACCAATGTCGCT
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC-TTTAAGTCCAATGTCGCT
457292 GGCCTTGAATCAGCACAT
130 GGCCTTGAATCAGCACAT
* *
457310 TGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCCTTGTCTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* *
457369 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTACGTCCAATGTCGCTG
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
457434 GCCTTGAATCAGCACAT
131 GCCTTGAATCAGCACAT
* ** * *
457451 TGGCACCTTCATCTTTAAGTCCAATATCGGTGAACTTGAATCAGCATATTGGCACCTTTGTTTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * *
457516 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
*
457581 GCCTTGAATCAGCATAT
131 GCCTTGAATCAGCACAT
** * * *
457598 TGGCACCTTTGTCTTTAAGTCCAATGTCGCGGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * * * * *
457663 ACGTCCAATGTCGCTAGCTTTGAATCAGCACATTGGTACCTTCATCTTTAAGTCCAATATCGCTG
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
*
457728 GCCTTGAATCAGCATAT
131 GCCTTGAATCAGCACAT
* * * * * * * *
457745 TGGCGCATTGTCACCTTTCAGTCCAATATCACTGGCCTTAAATCAGCATATTGGCACCCTTGTCT
1 TGGCAC-CT-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCT
* * *
457810 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG-A-----ACCTTTAAGTCCAATATCGC
64 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGC
*
457869 TGGCCTTGAATCAGCATAT
129 TGGCCTTGAATCAGCACAT
** * * * * *
457888 TGGCACCTTTGTTTTTAAGACCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTTATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * *
457953 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGTCCAATGTCGCTG
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
*
458018 GCCTTGAATCAACACAT
131 GCCTTGAATCAGCACAT
* * * * * * *
458035 TGGCACCTTTATCTTTACGTCCAATGTCGCTGGCCTTGAATCGGCACATTGGCACCTTCAACTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * * *
458100 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTTTTTAAGACCAATGTCGCTG
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
458165 GCCTTGAATCAGCACAT
131 GCCTTGAATCAGCACAT
*
458182 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * * * *
458247 AAGTCCAATGTCGCTGGCCTTAAATCAGCACATTGGCGCCTTTGTTTTTAAGACCAATGTCGCTG
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
458312 GCCTTGAATCAGCACAT
131 GCCTTGAATCAGCACAT
* * *
458329 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCCTGATTCAGCATATTGGCACCTTTGTCTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * * *
458394 AAGTCCAATGTTGCTGGCCTTAAATCAGCACATTGGCACCTTTATCTTTACGTCCAATGTTGCTG
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
458459 GCCTTGAATCAGCACAT
131 GCCTTGAATCAGCACAT
*
458476 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* *
458541 AAGTCCAATGTCGC-GAGCCTTGAATCAGCGCATTGGCACCTTTATCTTTACGTCCAATGTCGCT
66 AAGTCCAATGTCGCTG-GCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
*
458605 GGCTTTGAATCAGCACAT
130 GGCCTTGAATCAGCACAT
* * * *
458623 TGGTACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCATTGTCACCT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-T-ATCT
* * * * *
458688 TTCAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCATTT-TCTTTAAGACCAATGTCG
64 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTTATCTTTAAGTCCAATGTCG
458752 CTGGCCTTGAATCAGCACAT
128 CTGGCCTTGAATCAGCACAT
*
458772 TGG-A-----A-CGTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATTTT
1 TGGCACCTTCATC-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
458830 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCGCT
65 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
*
458895 GGCCTTGAATCAGCATAT
130 GGCCTTGAATCAGCACAT
** * * *
458913 TGGCACCTTTGTCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTTATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * * *
458978 ACGTCCAATGTCGCTGGCCTTGAATCGGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
*
459043 GCCTTGAATCAGCATAT
131 GCCTTGAATCAGCACAT
** * * * * *
459060 TGGCACCTTTGTTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * * *
459125 AAGTCCAATATCGCTGGCCTTGAATCAGCATATCGGCACCTTTGTCTTTAAGTCCAATGTCGCTG
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* *
459190 GCCTTAAATCAACACAT
131 GCCTTGAATCAGCACAT
** * * * *
459207 TGGCACCTTTGTTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * * *
459272 AAGTCCAATATCGCTGGCCTTGATTCAGCATATTGGCACCTTTGTCTTTAAGTCCAATGTCGCTG
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
*
459337 GCCTTAAATCAGCACAT
131 GCCTTGAATCAGCACAT
* * * * * *
459354 TGGCACCTTTATCTTTACGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * * * *
459419 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTTTTTAAGACCAATGTCGCTG
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
459484 GCCTTGAATCAGCACAT
131 GCCTTGAATCAGCACAT
*
459501 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * * * *
459566 AAGTCCAATGTCGCTGGCCTTAAATCAACACATTGGCACCTTTGTTTTTAAGACCAATGTCGCTG
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
459631 GCCTTGAATCAGCACAT
131 GCCTTGAATCAGCACAT
* *
459648 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGATTCAGCATATTGGCACCTTTGTCTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * * *
459713 AAGTCCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCCTTATCTTTACGTCCAATGTTGCTG
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
459778 GCCTTGAATCAGCACAT
131 GCCTTGAATCAGCACAT
* *
459795 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTTTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * *
459860 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* *
459925 GCTTTGAATCAGCATAT
131 GCCTTGAATCAGCACAT
* ** * * * * * *
459942 CGGCACCTTTGTCTTTAAGTCCAATGTCGCTGGCCTTAAATCAACACATTGGCACCTTTGTTTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * *
460007 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
* *
460072 GCCTTGATTCAGCATAT
131 GCCTTGAATCAGCACAT
** * * * * *
460089 TGGCACCTTTGTCTTTAAGTCCAGTGTCGCTGGCCTTAAATCAGCACATTGGCACCTTCATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * * *
460154 AAGTCCAATATCGCTGGCCTTGAATCAGCATATCGGCACC-TTGTCTTTAAGT-CAATGTCGCTG
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
460217 GCCTT-AATCA-CACAT
131 GCCTTGAATCAGCACAT
* ** * * * *
460232 TGGCATCTTTGTTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * * *
460297 AAGTCCAATATCGCTGGCCTTGATTCAGCATATTGGCACCTTTGTCTTTAAGTCCAATGTCGCTG
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
*
460362 GCCTTAAATCAGCACAT
131 GCCTTGAATCAGCACAT
* * * * * *
460379 TGGCACCTTTATCTTTACGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* *
460444 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTTAAGTCCAATGTC
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-ATC-TTTAAGTCCAATGTC
460509 GCTGGCCTTGAATCAGCACAT
127 GCTGGCCTTGAATCAGCACAT
460530 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAGTCATC
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-ATC
* * * *
460595 TTTTAAGTCCAATGTCGTTGGGCTTTGAATCAGCACATTGGCACCTTCATCTTTAACATTCCTAA
63 -TTTAAGTCCAATGTCGCT-GGCCTTGAATCAGCACATTGGCACCTTTATCTTT-A-AGTCC---
*
460660 ACCCGATGTCGCTGGCCTTGACTCAGCACAT
121 A----ATGTCGCTGGCCTTGAATCAGCACAT
* * *
460691 TGGCA----C-T-TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTCTCACCTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT-TTATCTT
* * * * * *
460749 TAAGTCTAATGTAGCTGGCCTTGAATCAGCACATT-G-A-C---ACCTTTAAGTCCAGTATAGCT
65 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCT
* *
460808 GGCCTTGAATCAGTATAT
130 GGCCTTGAATCAGCACAT
* * *
460826 TGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGTACCTTTATCTTT
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * *
460891 AAGTCCAATGTAGCTGGCCTTGAATCATCACATTGG-A-----A-CGTTTAAGTCCAATATCGCT
66 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC-TTTAAGTCCAATGTCGCT
* *
460949 GGCCTTGGATCAGCATAT
130 GGCCTTGAATCAGCACAT
* * * * * ***
460967 TGGCGTCTTTGTCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTCCCTC
1 TGGC-AC-CT-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * * *
461032 -TTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATG
63 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-ATCTTTAAGTCCAATG
* *
461096 TTGCTGGCCTTGAATCAGCATAT
125 TCGCTGGCCTTGAATCAGCACAT
* * * *
461119 TGGCACCTCCATC-TTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATG
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATC
* *
461183 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCT-TCTTTGAGTCCAATATC
63 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TATCTTTAAGTCCAATGTC
461247 GCTGGCCTTGAATCAGC-CTAT
127 GCTGGCCTTGAATCAGCAC-AT
* * *
461268 TGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCT-T
1 TGGCACC--T-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TAT
* * * * *
461332 CTTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATGTTTAAGTCCAAT
62 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-ATCTTTAAGTCCAAT
461397 GTCGCTGGCCTTGAATCAGCACAT
124 GTCGCTGGCCTTGAATCAGCACAT
*
461421 TGGCACCTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATC
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATC
* * *
461486 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATTG
63 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCG
*
461551 CTGGCCTTGAATCAGCATAT
128 CTGGCCTTGAATCAGCACAT
** * * * * *
461571 TGGCACCTTCGTCATCTTTAAAACCCAATGTCGTTGACCTTGAATCAACACATTGGCA--TTCT-
1 TGGCACC-T--TCATCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TA
* * *
461633 TCTTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGGCACATTCATCTTTAAGTCCAATGT
61 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGT
** *
461698 CATTGGCCTTGAAACAGCACAT
126 CGCTGGCCTTGAATCAGCACAT
* *
461720 TGGCACTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTTATC
1 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TTATC
* * * *
461785 TTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTAGCACCTTCATCTTTAAGTCCAATATC
63 -TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTC
* *
461850 GCTGGCCTTGAATTAGCATAT
127 GCTGGCCTTGAATCAGCACAT
** ** * * * * *
461871 TGGCGTCTTCGTTATCTTTAAAACCCAATGTCGTTGACCTTGAATCAACACATTGGCA--TTCT-
1 TGGCACCTTC---ATCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TA
* * * *
461933 TCTTTAAGTCCAATGTCGCTGGCCTTGACTCAGCACATTGGTACCTTCATCTTTAAGTCCAATAT
61 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGT
*
461998 CGCTGGCCTTGAATCAGCATAT
126 CGCTGGCCTTGAATCAGCACAT
** * * * *
462020 TGGTGCCTTCGTCATCTTTAAAGCCCAATGTCGCTGGCCTTGACTCAGCACATTGGCA
1 TGGCACC-T--TCATCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
462078 TTCTTCTTCA
Statistics
Matches: 4235, Mismatches: 418, Indels: 222
0.87 0.09 0.05
Matches are distributed among these distances:
135 65 0.02
137 1 0.00
139 2 0.00
140 4 0.00
141 354 0.08
142 15 0.00
143 224 0.05
144 66 0.02
145 62 0.01
146 24 0.01
147 2184 0.52
148 46 0.01
149 411 0.10
150 159 0.04
151 204 0.05
152 92 0.02
153 130 0.03
154 47 0.01
155 89 0.02
156 24 0.01
157 2 0.00
161 30 0.01
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (147 bp):
TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTCGCTG
GCCTTGAATCAGCACAT
Found at i:462836 original size:19 final size:19
Alignment explanation
Indices: 462812--462881 Score: 113
Period size: 19 Copynumber: 3.7 Consensus size: 19
462802 TTTCAACAAT
*
462812 TTGTATCGATACATTAGTG
1 TTGTATCGATACATAAGTG
462831 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
462850 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
*
462869 TTGTATCAATACA
1 TTGTATCGATACA
462882 ATGTACTGCT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:462952 original size:13 final size:13
Alignment explanation
Indices: 462934--462958 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
462924 ATTACTCAAA
462934 TGTATCGATACAT
1 TGTATCGATACAT
462947 TGTATCGATACA
1 TGTATCGATACA
462959 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:466394 original size:22 final size:23
Alignment explanation
Indices: 466362--466422 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
466352 ATTTAAGTCA
466362 TTTTAAT-TTTAAATTAATCAAG
1 TTTTAATATTTAAATTAATCAAG
*
466384 -TTTAATATTTAAGTTAATCAAG
1 TTTTAATATTTAAATTAATCAAG
*
466406 TTTTAGTTATTTAAATT
1 TTTTA-ATATTTAAATT
466423 TAGATTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 6 0.18
22 14 0.42
23 4 0.12
24 9 0.27
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (23 bp):
TTTTAATATTTAAATTAATCAAG
Found at i:466563 original size:16 final size:16
Alignment explanation
Indices: 466542--466579 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
466532 CTATTTCGGG
466542 TTATTTTGAATTTGAA-
1 TTATTTTGAATTT-AAT
*
466558 TTATTTTGAGTTTAAT
1 TTATTTTGAATTTAAT
466574 TTATTT
1 TTATTT
466580 CAAGTTCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (16 bp):
TTATTTTGAATTTAAT
Found at i:467586 original size:34 final size:33
Alignment explanation
Indices: 467540--467692 Score: 173
Period size: 34 Copynumber: 4.5 Consensus size: 33
467530 TGGTAAAAAC
467540 CACCATTTAATCAACAATGGCAACCTACCAAAT
1 CACCATTTAATCAACAATGGCAACCTACCAAAT
** * *
467573 TTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CAC-CATTTAATCAACAATGGCAACCTACCAAAT
* * *
467607 CTCCCATTTAGTCAATAATGGCAAACC-ACCAAAT
1 C-ACCATTTAATCAACAATGGC-AACCTACCAAAT
* * *
467641 CACCAATTTAATCAACAATGGTAAACTACTAAAT
1 CACC-ATTTAATCAACAATGGCAACCTACCAAAT
467675 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
467693 TCTCCCACTT
Statistics
Matches: 99, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
33 20 0.20
34 75 0.76
35 4 0.04
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGCAACCTACCAAAT
Found at i:467651 original size:68 final size:67
Alignment explanation
Indices: 467540--467692 Score: 202
Period size: 68 Copynumber: 2.3 Consensus size: 67
467530 TGGTAAAAAC
** *
467540 CACCATTTAATCAACAATGGCAACCTACCAAATTTCTCATTTAATCAACAATGGTAAGCTACCAA
1 CACCATTTAATCAACAATGGCAACCTACCAAATCACTCATTTAATCAACAATGGTAAACTACCAA
467605 AT
66 AT
* * *
467607 CTCCCATTTAGTCAATAATGGCAAACC-ACCAAATCAC-CAATTTAATCAACAATGGTAAACTAC
1 C-ACCATTTAATCAACAATGGC-AACCTACCAAATCACTC-ATTTAATCAACAATGGTAAACTAC
*
467670 TAAAT
63 CAAAT
467675 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
467693 TCTCCCACTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
67 16 0.22
68 53 0.73
69 4 0.05
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (67 bp):
CACCATTTAATCAACAATGGCAACCTACCAAATCACTCATTTAATCAACAATGGTAAACTACCAA
AT
Found at i:471737 original size:19 final size:19
Alignment explanation
Indices: 471710--471751 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
471700 TCACGTGTAG
471710 AGTAACCGTATACT-TGAAT
1 AGTAACCGTATA-TGTGAAT
*
471729 AGTACCCGTATATGTGAAT
1 AGTAACCGTATATGTGAAT
471748 AGTA
1 AGTA
471752 TCCTCGACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (19 bp):
AGTAACCGTATATGTGAAT
Found at i:472195 original size:33 final size:33
Alignment explanation
Indices: 472051--472205 Score: 143
Period size: 34 Copynumber: 4.6 Consensus size: 33
472041 AGTTTGATAA
* *
472051 AAATCACCATTTAATCAACAATGGCAACCTATC
1 AAATCACCATTTAATCAACAATGACAAACTATC
** * * *
472084 AAATTTCTCATTTAATCAAAAATGATAAGCTATC
1 AAATCAC-CATTTAATCAACAATGACAAACTATC
* * * * *
472118 AAATCTTCCATTTAGTCAACAACG-CAAACCACC
1 AAATC-ACCATTTAATCAACAATGACAAACTATC
*
472151 AAATCACCCATTTAATCAACAATGATAAACTA-C
1 AAATCA-CCATTTAATCAACAATGACAAACTATC
472184 TAAATCACCATTTAATCAACAA
1 -AAATCACCATTTAATCAACAA
472206 GTCAAACACA
Statistics
Matches: 98, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
33 46 0.47
34 50 0.51
35 2 0.02
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.26
Consensus pattern (33 bp):
AAATCACCATTTAATCAACAATGACAAACTATC
Found at i:473852 original size:21 final size:21
Alignment explanation
Indices: 473826--473865 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
473816 TATAAAAAAT
473826 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
473847 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
473866 AATAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:476353 original size:2 final size:2
Alignment explanation
Indices: 476346--476382 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
476336 TTCCAGTCAA
476346 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
476383 ACTTTGTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:477666 original size:26 final size:26
Alignment explanation
Indices: 477637--477687 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
477627 ATCTAAAATT
*
477637 TCAGATAAAGTTAAACTTTATCAATC
1 TCAGATAAAATTAAACTTTATCAATC
* *
477663 TCAGGTAAAATTGAACTTTATCAAT
1 TCAGATAAAATTAAACTTTATCAAT
477688 TCTATCTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (26 bp):
TCAGATAAAATTAAACTTTATCAATC
Found at i:480407 original size:26 final size:27
Alignment explanation
Indices: 480378--480428 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
480368 TTTCTTGATT
480378 GAAA-AACGGGGTTGGAGTATCCCCTC
1 GAAAGAACGGGGTTGGAGTATCCCCTC
*
480404 GAAAGAATGGGGTTGGAGTATCCCC
1 GAAAGAACGGGGTTGGAGTATCCCC
480429 GATGATGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.27, C:0.20, G:0.33, T:0.20
Consensus pattern (27 bp):
GAAAGAACGGGGTTGGAGTATCCCCTC
Found at i:482788 original size:20 final size:19
Alignment explanation
Indices: 482724--482795 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
482714 AAAAAGACAT
*
482724 AATGTATCGATATATTACAG
1 AATGTATCGATATATTA-AA
* * *
482744 AATATATCGATACATTCATA
1 AATGTATCGATATATT-AAA
*
482764 TATGTATCGATATATTGAAA
1 AATGTATCGATATATT-AAA
482784 AATGTATCGATA
1 AATGTATCGATA
482796 CATCTGGGTA
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 40 0.98
21 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (19 bp):
AATGTATCGATATATTAAA
Found at i:482792 original size:40 final size:39
Alignment explanation
Indices: 482721--482798 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
482711 GGTAAAAAGA
*
482721 CATAATGTATCGATATATTACAGAATATATCGATACATT
1 CATAATGTATCGATATATTACAAAATATATCGATACATT
*
482760 CATATATGTATCGATATATTGA-AAAATGTATCGATACAT
1 CATA-ATGTATCGATATATT-ACAAAATATATCGATACAT
482799 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
39 4 0.11
40 30 0.86
41 1 0.03
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (39 bp):
CATAATGTATCGATATATTACAAAATATATCGATACATT
Found at i:483432 original size:28 final size:29
Alignment explanation
Indices: 483385--484751 Score: 565
Period size: 28 Copynumber: 47.9 Consensus size: 29
483375 CACTAACTTC
483385 TGTGGGCTTT-AAAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* *
483413 CGTTGGCTTTGAAAGA-ATGCCACTGACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
*
483441 TGTGGGCTTTGGAAG-GATGCCACTGACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* *
483469 TGTGGGCTTGGAAA-AGATGCCACCGACTT
1 TGTGGGCTTTGAAAGAGATGCCACTGAC-T
* * * **
483498 GTGTGGGCTTTGAAATGGGTTACCACCAACTT
1 -TGTGGGCTTTGAAA-GAGATGCCACTGAC-T
*
483530 GTGTGGGCTTTGAAATGAGTTGCCA-TCGACTT
1 -TGTGGGCTTTGAAA-GAGATGCCACT-GAC-T
* * * **
483562 GTGTGGGCTTTCAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA-GAGATGCCACTGAC-T
* * * *
483594 GTGTGGGCTTTGAAATAGGTTTCCAC-CAGCT
1 -TGTGGGCTTTGAAAGA-GATGCCACTGA-CT
* * * **
483625 TGTATGGGCTTTGAAATGGGTTACCACCAACTT
1 TG--TGGGCTTTGAAA-GAGATGCCACTGAC-T
* * *
483658 GTGTGGGCTTTCAAATGAGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA-GAGATGCCACTGAC-T
* *
483690 GTGTGGGCTTTGAAAG-GGTGCCACCGACT
1 -TGTGGGCTTTGAAAGAGATGCCACTGACT
* * *
483719 TGTATGGCCTTTGAAA-AGATACCACCGACT
1 TG--TGGGCTTTGAAAGAGATGCCACTGACT
* * * **
483749 TATGGGCTTTGAAATGGGCTGCCACCAACTT
1 TGTGGGCTTTGAAA-GAGATGCCACTGAC-T
* *
483780 GTGTGGGCTTTG-AAGTGATGCCACTAACT
1 -TGTGGGCTTTGAAAGAGATGCCACTGACT
* *
483809 TGTGGGCTTTGAAAG-GCTGCCACTAACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
483837 TGTGGGCTTTGAAATG-G-TGCCACTGACT
1 TGTGGGCTTTGAAA-GAGATGCCACTGACT
483865 TGTGGGCTTTGAAAG-GATGCCACTGACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * *
483893 TGTGAGCTTTGAAATGGGCTGCCACTGACTT
1 TGTGGGCTTTGAAA-GAGATGCCACTGAC-T
* *
483924 GTGTGGGCTTTG-AAGTGATGCCACTAACT
1 -TGTGGGCTTTGAAAGAGATGCCACTGACT
*
483953 TGTGGGCTTTGAAAG-GATGTCACTGACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
483981 TGTGGGCTTTGAAATG-G-TGCCACTGACT
1 TGTGGGCTTTGAAA-GAGATGCCACTGACT
*
484009 TGTGGGCTTTGAAAG-GATACCACTGACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
484037 TGTGGGCTTTGAAA-AGATGCCACTGACT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
*
484065 TATGGGCTTTGAGAAG-GATGCCACTGACT
1 TGTGGGCTTTGA-AAGAGATGCCACTGACT
* *
484094 TGTGGGCTTTGAAAG-G-TGCCACAGATT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * *
484121 TGTGGAC-TTAAAAG-GATGCCA-TGGAGT
1 TGTGGGCTTTGAAAGAGATGCCACT-GACT
* * * *
484148 TGT-GGATTTCAAA-AGAGTGCCACAGAGT
1 TGTGGGCTTTGAAAGAGA-TGCCACTGACT
* * * * * *
484176 TTTGGAC-TTAAAAG-GGTGCCACGGAGT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * * * *
484203 TGTGGAC-TT-AAAAATATGCCACGGAGT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * * *
484230 TGTGGAC-TTAAAAG-GGTGCCAC-AACGT
1 TGTGGGCTTTGAAAGAGATGCCACTGAC-T
* * * *
484257 TGTGGAC-TT-AAAG-GGTGCCACGGAGT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * * *
484283 TGTGGAG-TTTAAAAG-GGTGCCACGGAGT
1 TGTGG-GCTTTGAAAGAGATGCCACTGACT
* * * *
484311 TGTGGACTTTAAAAG-GATGCCACGGAGT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * * * *
484339 TATGGACTTT-AAA-ATATGCCACAGAGT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * * * *
484366 TGTGGACTTTAAAAG-GTTGCCACAGAGT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * *
484394 TGTGGGC-TTAAAAG-GATGCCACAGAGT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
** * * *
484421 TGTGGATTTTAAAAAGAAATGCCACTGAAT
1 TGTGGGCTTT-GAAAGAGATGCCACTGACT
** * * *
484451 CATGGACTTTAAAAGAG-TGCCA-TGAAGT
1 TGTGGGCTTTGAAAGAGATGCCACTG-ACT
* * * * *
484479 TGTGGAC-TTAAAAG-GGTGCCACGGAGT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * * * *
484506 TGTGGAC-TT-AAAAATATGCCACGGAGT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * * * *
484533 TGTGGAC-TTAAAAG-GGTGCCACAGAGT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * * *
484560 TGTGGAC-TT-AAAG-GGTGCCACGGAGT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * * * *
484586 TGTGGACTTTAAAAG-GGTGCCACGGAGT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * * *
484614 TGTGGACTTTAAAAG-GATGCCACGGAGT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * * *
484642 TGTGGACTTT-AAA-ATATGCCACGGAGT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * * *
484669 TGTGGACTTTAAAAG-GATGCCACAGAGT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
* * *
484697 TGTGGGC-TTAAAAG-GATGCCACAGAGT
1 TGTGGGCTTTGAAAGAGATGCCACTGACT
** * *
484724 TGTGGATTTTAAAAAGAAATGCCACTGA
1 TGTGGGCTTT-GAAAGAGATGCCACTGA
484752 ATCATGGACT
Statistics
Matches: 1135, Mismatches: 132, Indels: 142
0.81 0.09 0.10
Matches are distributed among these distances:
26 57 0.05
27 258 0.23
28 461 0.41
29 63 0.06
30 117 0.10
31 9 0.01
32 166 0.15
33 2 0.00
34 2 0.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (29 bp):
TGTGGGCTTTGAAAGAGATGCCACTGACT
Found at i:483563 original size:64 final size:63
Alignment explanation
Indices: 483469--484050 Score: 463
Period size: 64 Copynumber: 9.7 Consensus size: 63
483459 GCCACTGACT
* * *
483469 TGTGGGCTTGGAAA--AGATGCCACCGACTTGTGTGGGCTTTGAAATGGGTTACCACCAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCA-CGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTG
*
483531 TGTGGGCTTTGAAATGAGTTGCCATCGACTTGTGTGGGCTTTCAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCA-CGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * * *
483595 TGTGGGCTTTGAAAT-AGGTTTCCACCAGCTTGTATGGGCTTTGAAATGGGTTACCACCAACTTG
1 TGTGGGCTTTGAAATGA-GTTGCCACGA-CTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* *
483659 TGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAA-GGG-TGCCACCGACTTG
1 TGTGGGCTTTGAAATGAGTTGCCA-CGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * * * * *
483721 TATGGCCTTTGAAA--AGATACCACCGAC-T-TATGGGCTTTGAAATGGGCTGCCACCAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCA-CGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * * *
483781 TGTGGGCTTTGAAGTGA--TGCCACTAAC-T-TGTGGGCTTTGAAA--GGCTGCCACTAAC-T-
1 TGTGGGCTTTGAAATGAGTTGCCAC-GACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* **
483837 TGTGGGCTTTGAAATG-G-TGCCACTGAC-T-TGTGGGCTTTGAAA--GGATGCCACTGAC-T-
1 TGTGGGCTTTGAAATGAGTTGCCAC-GACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * * * * *
483893 TGTGAGCTTTGAAATGGGCTGCCACTGACTTGTGTGGGCTTTG-AA-GTGATGCCACTAAC-T-
1 TGTGGGCTTTGAAATGAGTTGCCAC-GACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * **
483953 TGTGGGCTTTGAAA-G-GATGTCACTGAC-T-TGTGGGCTTTGAAAT-GG-TGCCACTGAC-T-
1 TGTGGGCTTTGAAATGAGTTGCCAC-GACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* *
484009 TGTGGGCTTTGAAA-G-GATACCACTGAC-T-TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAATGAGTTGCCAC-GACTTGTGTGGGCTTTGAAA
484051 AGATGCCACT
Statistics
Matches: 457, Mismatches: 44, Indels: 44
0.84 0.08 0.08
Matches are distributed among these distances:
56 127 0.28
57 6 0.01
58 45 0.10
59 9 0.02
60 90 0.20
62 36 0.08
63 6 0.01
64 135 0.30
65 3 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (63 bp):
TGTGGGCTTTGAAATGAGTTGCCACGACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTG
Found at i:483599 original size:96 final size:96
Alignment explanation
Indices: 483486--483793 Score: 412
Period size: 96 Copynumber: 3.3 Consensus size: 96
483476 TTGGAAAAGA
* *
483486 TGCCACCGACTTGTGTGGGCTTTGAAATGGGTTACCACCAACTTGTGTGGGCTTTGAAATGAGTT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGTTACCACCAACTTGTATGGGCTTTGAAATGAGTT
* *
483551 GCCATCGACTTGTGTGGGCTTTCAAATGGGT
66 ACCACCGACTTGTGTGGGCTTTCAAATGGGT
* * * *
483582 TGCCACCAACTTGTGTGGGCTTTGAAATAGGTTTCCACCAGCTTGTATGGGCTTTGAAATGGGTT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGTTACCACCAACTTGTATGGGCTTTGAAATGAGTT
* *
483647 ACCACCAACTTGTGTGGGCTTTCAAATGAGT
66 ACCACCGACTTGTGTGGGCTTTCAAATGGGT
* * * * *
483678 TGCCACCGACTTGTGTGGGCTTTGAAA-GGG-TGCCACCGACTTGTATGGCCTTTGAAA--AGAT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGTTACCACCAACTTGTATGGGCTTTGAAATGAGTT
* * *
483739 ACCACCGAC-T-TATGGGCTTTGAAATGGGC
66 ACCACCGACTTGTGTGGGCTTTCAAATGGGT
483768 TGCCACCAACTTGTGTGGGCTTTGAA
1 TGCCACCAACTTGTGTGGGCTTTGAA
483794 GTGATGCCAC
Statistics
Matches: 188, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
90 40 0.21
91 1 0.01
92 10 0.05
94 23 0.12
95 2 0.01
96 112 0.60
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (96 bp):
TGCCACCAACTTGTGTGGGCTTTGAAATGGGTTACCACCAACTTGTATGGGCTTTGAAATGAGTT
ACCACCGACTTGTGTGGGCTTTCAAATGGGT
Found at i:483953 original size:144 final size:145
Alignment explanation
Indices: 483372--484115 Score: 692
Period size: 144 Copynumber: 5.0 Consensus size: 145
483362 AAAAAAAATG
* * * *
483372 TGCCACTAACTTCTGTGGGCTTT-AAA-GAGATGCCACTGACTCGTTGGCTTTGAAAGAATGCCA
1 TGCCACTAACTTGTGTGGGCTTTGAAATG-G-TGCCACTGACTTGTGGGCTTTGAAAGGATGCCA
* * ** **
483435 CTGACTTGTGGGCTTTGGAA-GGATGCCACTGAC-T-TGTGGGCTTGGAAAAGATGCCACCGACT
64 CTGACTTGTGGGCTTTGAAATGGATGCCACTGACTTGTGTGGGCTTTGAAGTGATGCCACTAAC-
483497 TGTGTGGGCTTTGAAATGGGT
128 T-TGTGGGCTTTGAAA--GGT
* * * *
483518 TACCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCA-TCGACTTGTGTGGGCTTTCAAATGGGT
1 TGCCACTAACTTGTGTGGGCTTTGAAATG-G-TGCCACT-GAC-T-TGTGGGCTTTGAAA--GGA
** * * * * * *
483582 TGCCACCAACTTGTGTGGGCTTTGAAATAGGTTTCCAC-CAGCTTGTATGGGCTTTGAAATGGGT
59 TGCCACTGAC-T-TGTGGGCTTTGAAAT-GGATGCCACTGA-CTTGTGTGGGCTTTG-AA-GTGA
* * *
483646 TACCACCAACTTGTGTGGGCTTTCAAATGAGT
118 TGCCACTAAC-T-TGTGGGCTTTGAAA-G-GT
** * * * * *
483678 TGCCACCGACTTGTGTGGGCTTTGAAAGGGTGCCACCGACTTGTATGGCCTTTGAAAAGATACCA
1 TGCCACTAACTTGTGTGGGCTTTGAAATGGTGCCACTGACTTG--TGGGCTTTGAAAGGATGCCA
* * * **
483743 CCGACTTATGGGCTTTGAAATGGGCTGCCACCAACTTGTGTGGGCTTTGAAGTGATGCCACTAAC
64 CTGACTTGTGGGCTTTGAAAT-GGATGCCACTGACTTGTGTGGGCTTTGAAGTGATGCCACTAAC
*
483808 TTGTGGGCTTTGAAAGGC
128 TTGTGGGCTTTGAAAGGT
483826 TGCCACTAAC-T-TGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACT
1 TGCCACTAACTTGTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACT
* *
483889 GACTTGTGAGCTTTGAAATGGGCTGCCACTGACTTGTGTGGGCTTTGAAGTGATGCCACTAACTT
66 GACTTGTGGGCTTTGAAAT-GGATGCCACTGACTTGTGTGGGCTTTGAAGTGATGCCACTAACTT
*
483954 GTGGGCTTTGAAAGGA
130 GTGGGCTTTGAAAGGT
* * *
483970 TGTCACTGAC-T-TGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTGAAAGGATACCACT
1 TGCCACTAACTTGTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACT
* * *
484033 GACTTGTGGGCTTTGAAA-AGATGCCACTGAC-T-TATGGGCTTTGAGAAG-GATGCCACTGACT
66 GACTTGTGGGCTTTGAAATGGATGCCACTGACTTGTGTGGGCTTT--GAAGTGATGCCACTAACT
484094 TGTGGGCTTTGAAAGG-
129 TGTGGGCTTTGAAAGGT
484110 TGCCAC
1 TGCCAC
484116 AGATTTGTGG
Statistics
Matches: 507, Mismatches: 68, Indels: 52
0.81 0.11 0.08
Matches are distributed among these distances:
140 14 0.03
141 29 0.06
142 15 0.03
144 171 0.34
146 48 0.09
147 5 0.01
148 20 0.04
149 2 0.00
150 24 0.05
151 1 0.00
152 19 0.04
153 3 0.01
154 48 0.09
155 3 0.01
156 19 0.04
157 2 0.00
158 27 0.05
159 4 0.01
160 53 0.10
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (145 bp):
TGCCACTAACTTGTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACT
GACTTGTGGGCTTTGAAATGGATGCCACTGACTTGTGTGGGCTTTGAAGTGATGCCACTAACTTG
TGGGCTTTGAAAGGT
Found at i:484123 original size:27 final size:28
Alignment explanation
Indices: 483691--485065 Score: 667
Period size: 28 Copynumber: 49.5 Consensus size: 28
483681 CACCGACTTG
* * *
483691 TGTGGGCTTTGAAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * * * *
483719 TGTATGGCCTTTGAAAAGATACCACCGACT
1 TG--TGGGCTTTGAAAGGATGCCACAGAGT
* * *
483749 TATGGGCTTTGAAATGGGCTGCCACCA-ACTT
1 TGTGGGCTTTGAAA--GGATGCCA-CAGA-GT
*
483780 GTGTGGGCTTTG-AAGTGATGCCACTA-ACT
1 -TGTGGGCTTTGAAAG-GATGCCAC-AGAGT
* *
483809 TGTGGGCTTTGAAAGGCTGCCACTA-ACT
1 TGTGGGCTTTGAAAGGATGCCAC-AGAGT
* *
483837 TGTGGGCTTTGAAATGG-TGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACAGAGT
* *
483865 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * * *
483893 TGTGAGCTTTGAAATGGGCTGCCACTGACTT
1 TGTGGGCTTTGAAA--GGATGCCACAGA-GT
*
483924 GTGTGGGCTTTG-AAGTGATGCCACTA-ACT
1 -TGTGGGCTTTGAAAG-GATGCCAC-AGAGT
* * *
483953 TGTGGGCTTTGAAAGGATGTCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* *
483981 TGTGGGCTTTGAAATGG-TGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACAGAGT
* * *
484009 TGTGGGCTTTGAAAGGATACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * *
484037 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * *
484065 TATGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACAGAGT
*
484094 TGTGGGCTTTGAAAGG-TGCCACAGATT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * **
484121 TGTGGAC-TTAAAAGGATGCCATGGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * *
484148 TGT-GGATTTCAAAAGAGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGA-TGCCACAGAGT
* * * * *
484176 TTTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * ** *
484203 TGTGGAC-TTAAAAATATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * *
484230 TGTGGAC-TTAAAAGGGTGCCACA-ACGT
1 TGTGGGCTTTGAAAGGATGCCACAGA-GT
* * *
484257 TGTGGAC-TT-AAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * *
484283 TGTGGAG-TTTAAAAGGGTGCCACGGAGT
1 TGTGG-GCTTTGAAAGGATGCCACAGAGT
* * *
484311 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * **
484339 TATGGACTTT-AAAATATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * *
484366 TGTGGACTTTAAAAGGTTGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
*
484394 TGTGGGC-TTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
** * * * *
484421 TGTGGATTTTAAAAAGAAATGCCACTGAAT
1 TGTGGGCTTT-GAAAG-GATGCCACAGAGT
** * * *
484451 CATGGACTTT-AAAAGAGTGCCA-TGAAGT
1 TGTGGGCTTTGAAAGGA-TGCCACAG-AGT
* * * *
484479 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * ** *
484506 TGTGGAC-TTAAAAATATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * *
484533 TGTGGAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * *
484560 TGTGGAC-TT-AAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * * *
484586 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * *
484614 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* ** *
484642 TGTGGACTTT-AAAATATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* *
484669 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
*
484697 TGTGGGC-TTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
** * * * *
484724 TGTGGATTTTAAAAAGAAATGCCACTGAAT
1 TGTGGGCTTT-GAAAG-GATGCCACAGAGT
** * * *
484754 CATGGACTTT-AAAAGAGTGCCA-TGAAGT
1 TGTGGGCTTTGAAAGGA-TGCCACAG-AGT
* * * **
484782 TGTGGAC-TTAAAAGGGTGCCATGGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * **
484809 TGTGGAC-TTAAAAGGATGCCATGGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * *
484836 TGTGGAC-TT------CTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * * *
484857 TGTGGACTTT-AAAGGGTGCCACAAAAT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * * *
484884 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * * * *
484911 TGTGGACTCTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* *
484939 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * * *
484967 TGTGGACTTTAAAAAGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * *
484995 TGTGGAC-TTAAAAGGATGCCACATAGT
1 TGTGGGCTTTGAAAGGATGCCACAGAGT
* * **
485022 TGTGGACTTTAAAAGGAAATGCCATTGAGT
1 TGTGGGCTTTGAAAGG--ATGCCACAGAGT
* *
485052 CGTGGACTTTGAAA
1 TGTGGGCTTTGAAA
485066 AGGTCACAGT
Statistics
Matches: 1139, Mismatches: 145, Indels: 124
0.81 0.10 0.09
Matches are distributed among these distances:
21 17 0.01
22 2 0.00
26 53 0.05
27 379 0.33
28 498 0.44
29 52 0.05
30 111 0.10
31 7 0.01
32 20 0.02
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACAGAGT
Found at i:484705 original size:303 final size:304
Alignment explanation
Indices: 483980--485067 Score: 1499
Period size: 303 Copynumber: 3.6 Consensus size: 304
483970 TGTCACTGAC
* * * * * * * * * * *
483980 TTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTGAAAGGATACCACTGACTTGTGGGCT
1 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACT
* * * * * * * *
484045 TTGAAAAGATGCCACTGACTTATGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTGAAAGG
66 TT-AAAAGATGCCACAGAGTTGTGGACTTT-AAAAGGATGCCACAGAGTTGTGGGC-TTAAAAGG
* * * * **
484110 -TGCCACAGATTTGTGGA-CTT-AAAAG-GATGCCA-TGGAGTTGTGGA-TTTCAAAAGAGTGCC
128 ATGCCACAGAGTTGTGGATTTTAAAAAGAAATGCCACT-GAATCATGGACTTTCAAAAGAGTGCC
* *
484169 A-CAGAGTTTTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAATATGCCACGGAGTTGT
192 ATGA-AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAATATGCCACGGAGTTGT
484233 GGACTTAAAAGGGTGCCACA-ACGTTGTGGACTTAAAGGGTGCCACGGAG
256 GGACTTAAAAGGGTGCCACAGA-GTTGTGGACTTAAAGGGTGCCACGGAG
* *
484282 TTGTGGAGTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTATGGACT
1 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACT
* *
484347 TTAAAATATGCCACAGAGTTGTGGACTTTAAAAGGTTGCCACAGAGTTGTGGGCTTAAAAGGATG
66 TTAAAAGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGGCTTAAAAGGATG
484412 CCACAGAGTTGTGGATTTTAAAAAGAAATGCCACTGAATCATGGACTTT-AAAAGAGTGCCATGA
131 CCACAGAGTTGTGGATTTTAAAAAGAAATGCCACTGAATCATGGACTTTCAAAAGAGTGCCATGA
484476 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAATATGCCACGGAGTTGTGGACT
196 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAATATGCCACGGAGTTGTGGACT
484541 TAAAAGGGTGCCACAGAGTTGTGGACTTAAAGGGTGCCACGGAG
261 TAAAAGGGTGCCACAGAGTTGTGGACTTAAAGGGTGCCACGGAG
484585 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACT
1 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACT
* *
484650 TTAAAATATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGGCTTAAAAGGATG
66 TTAAAAGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGGCTTAAAAGGATG
484715 CCACAGAGTTGTGGATTTTAAAAAGAAATGCCACTGAATCATGGACTTT-AAAAGAGTGCCATGA
131 CCACAGAGTTGTGGATTTTAAAAAGAAATGCCACTGAATCATGGACTTTCAAAAGAGTGCCATGA
* ** *
484779 AGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGATGCCATGGAGTTGTGGACT
196 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAATATGCCACGGAGTTGTGGACT
* * ** *
484844 T------CTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACAAAA
261 TAAAAGGGTGCCACAGAGTTGTGGAC-TTAAAGGGTGCCACGGAG
* *
484883 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTCTAAAAGGGTGCCACGGAGTTGTGGACT
1 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACT
* * *
484947 TTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAT
66 TTAAAA-GATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGGCTTAAAAGGAT
* * * * * * *
485012 GCCACATAGTTGTGGACTTTAAAAGGAAATGCCATTGAGTCGTGGACTTTGAAAAG
130 GCCACAGAGTTGTGGATTTTAAAAAGAAATGCCACTGAATCATGGACTTTCAAAAG
485068 GTCACAGTAC
Statistics
Matches: 718, Mismatches: 57, Indels: 25
0.90 0.07 0.03
Matches are distributed among these distances:
297 77 0.11
298 120 0.17
299 12 0.02
300 37 0.05
301 24 0.03
302 59 0.08
303 383 0.53
304 6 0.01
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (304 bp):
TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACT
TTAAAAGATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGGCTTAAAAGGATG
CCACAGAGTTGTGGATTTTAAAAAGAAATGCCACTGAATCATGGACTTTCAAAAGAGTGCCATGA
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAATATGCCACGGAGTTGTGGACT
TAAAAGGGTGCCACAGAGTTGTGGACTTAAAGGGTGCCACGGAG
Found at i:484787 original size:28 final size:28
Alignment explanation
Indices: 483952--485037 Score: 1001
Period size: 27 Copynumber: 39.6 Consensus size: 28
483942 TGCCACTAAC
* * * * * *
483952 TTGTGGGCTTTGAAAGGATGTCACTGAC
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * * * *
483980 TTGTGGGCTTTGAAATGGTGCCACTGAC
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * * * * *
484008 TTGTGGGCTTTGAAAGGATACCACTGAC
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * * *
484036 TTGTGGGCTTTGAAAA-GATGCCACTGAC
1 TTGTGGACTTT-AAAAGGGTGCCACGGAG
* * * * * *
484064 TTATGGGCTTTGAGAAGGATGCCACTGAC
1 TTGTGGACTTT-AAAAGGGTGCCACGGAG
* * * *
484093 TTGTGGGCTTTGAAA-GGTGCCACAGAT
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
484120 TTGTGGAC-TTAAAAGGATGCCATGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
484147 TTGTGGA-TTTCAAAAGAGTGCCACAGAG
1 TTGTGGACTTT-AAAAGGGTGCCACGGAG
*
484175 TTTTGGAC-TTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
***
484202 TTGTGGAC-TTAAAAATATGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
484229 TTGTGGAC-TTAAAAGGGTGCCAC-AACG
1 TTGTGGACTTTAAAAGGGTGCCACGGA-G
484256 TTGTGGAC-TT-AAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
484282 TTGTGGAGTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
484310 TTGTGGACTTTAAAAGGATGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* ** *
484338 TTATGGACTTTAAAA-TATGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
484365 TTGTGGACTTTAAAAGGTTGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * *
484393 TTGTGGGC-TTAAAAGGATGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* ** * *
484420 TTGTGGATTTTAAAAAGAAATGCCACTGAA
1 TTGTGGACTTT-AAAAG-GGTGCCACGGAG
** * * *
484450 TCATGGACTTTAAAAGAGTGCCATGAAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
484478 TTGTGGAC-TTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
***
484505 TTGTGGAC-TTAAAAATATGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
484532 TTGTGGAC-TTAAAAGGGTGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
484559 TTGTGGAC-TT-AAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
484585 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
484613 TTGTGGACTTTAAAAGGATGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
**
484641 TTGTGGACTTTAAAA-TATGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
484668 TTGTGGACTTTAAAAGGATGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * *
484696 TTGTGGGC-TTAAAAGGATGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* ** * *
484723 TTGTGGATTTTAAAAAGAAATGCCACTGAA
1 TTGTGGACTTT-AAAAG-GGTGCCACGGAG
** * * *
484753 TCATGGACTTTAAAAGAGTGCCATGAAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
484781 TTGTGGAC-TTAAAAGGGTGCCATGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
484808 TTGTGGAC-TTAAAAGGATGCCATGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
484835 TTGTGGAC-TT------CTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
** *
484856 TTGTGGACTTT-AAAGGGTGCCACAAAA
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
484883 TTGTGGAC-TTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
484910 TTGTGGACTCTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
484938 TTGTGGACTTTAAAAGGATGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
484966 TTGTGGACTTTAAAAAGATGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* **
484994 TTGTGGAC-TTAAAAGGATGCCACATAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
485021 TTGTGGACTTTAAAAGG
1 TTGTGGACTTTAAAAGG
485038 AAATGCCATT
Statistics
Matches: 913, Mismatches: 116, Indels: 58
0.84 0.11 0.05
Matches are distributed among these distances:
21 17 0.02
22 2 0.00
26 51 0.06
27 392 0.43
28 372 0.41
29 45 0.05
30 34 0.04
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (28 bp):
TTGTGGACTTTAAAAGGGTGCCACGGAG
Found at i:484849 original size:21 final size:21
Alignment explanation
Indices: 484825--484865 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
484815 CTTAAAAGGA
*
484825 TGCCATGGAGTTGTGGACTTC
1 TGCCACGGAGTTGTGGACTTC
484846 TGCCACGGAGTTGTGGACTT
1 TGCCACGGAGTTGTGGACTT
484866 TAAAGGGTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.20, G:0.34, T:0.32
Consensus pattern (21 bp):
TGCCACGGAGTTGTGGACTTC
Found at i:493499 original size:20 final size:20
Alignment explanation
Indices: 493468--493539 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
493458 AAAAAGACAT
* *
493468 AATGTCTCGATATATTGCAG
1 AATGTATCGATATATTGCAA
* *
493488 AATATATCGATACATT-CATA
1 AATGTATCGATATATTGCA-A
* *
493508 CATGTATCGATATATTGAAA
1 AATGTATCGATATATTGCAA
493528 AATGTATCGATA
1 AATGTATCGATA
493540 CATCTGGATA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 2 0.05
20 38 0.93
21 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (20 bp):
AATGTATCGATATATTGCAA
Found at i:493536 original size:40 final size:39
Alignment explanation
Indices: 493465--493542 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
493455 GGTAAAAAGA
* * *
493465 CATAATGTCTCGATATATTGCAGAATATATCGATACATT
1 CATAATGTATCGATATATTGAAAAATATATCGATACATT
*
493504 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATATATTGAAAAATATATCGATACAT
493543 CTGGATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATATATTGAAAAATATATCGATACATT
Found at i:497817 original size:24 final size:24
Alignment explanation
Indices: 497771--497820 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
497761 TTTGGTAAGA
*
497771 TTGATTTTCATTTAACTTGATAAT
1 TTGATTTTCATTTAACTTAATAAT
*
497795 TTGATTTTTATTTATA-TTAATAAT
1 TTGATTTTCATTTA-ACTTAATAAT
497819 TT
1 TT
497821 TGCTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (24 bp):
TTGATTTTCATTTAACTTAATAAT
Found at i:501913 original size:21 final size:20
Alignment explanation
Indices: 501884--501926 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
501874 GGCTAGTGTG
*
501884 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
501905 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
501925 GG
1 GG
501927 TGGGTGTTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:502225 original size:21 final size:21
Alignment explanation
Indices: 502201--502247 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
502191 TTTGAAGCTG
502201 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
*
502221 AATTTGAAGTGAAAAACAAGT
1 ATTTTGAAGTGAAAAACAAGT
502242 ATTTTG
1 ATTTTG
502248 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:504484 original size:15 final size:15
Alignment explanation
Indices: 504464--504493 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
504454 TGTTCATCGA
504464 TTTCATTTGGAGCTT
1 TTTCATTTGGAGCTT
*
504479 TTTCATTTTGAGCTT
1 TTTCATTTGGAGCTT
504494 CCTCAATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.17, T:0.57
Consensus pattern (15 bp):
TTTCATTTGGAGCTT
Found at i:508600 original size:13 final size:13
Alignment explanation
Indices: 508582--508607 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
508572 AATTTTTTGG
508582 TGTATCGATACAT
1 TGTATCGATACAT
508595 TGTATCGATACAT
1 TGTATCGATACAT
508608 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:510254 original size:26 final size:26
Alignment explanation
Indices: 510224--510282 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
510214 ACTTATCTAG
* *
510224 AATCCTAAATAAAATTAAATTTTATC
1 AATCCTAAATAAAATTAAACTTAATC
* * *
510250 AATCCCAGATAAAATTAAACTTAATT
1 AATCCTAAATAAAATTAAACTTAATC
510276 AATCCTA
1 AATCCTA
510283 TCTCTATAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (26 bp):
AATCCTAAATAAAATTAAACTTAATC
Found at i:510483 original size:2 final size:2
Alignment explanation
Indices: 510476--510500 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
510466 ACCATAAGCC
510476 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
510501 ATAATCAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:510649 original size:2 final size:2
Alignment explanation
Indices: 510642--510675 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
510632 GCTATCATTC
510642 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
510676 TAGATACTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:513278 original size:13 final size:14
Alignment explanation
Indices: 513251--513280 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
513241 AAAAGGAATG
513251 AATTAAAATAATAA
1 AATTAAAATAATAA
513265 AATTAAAA-AATAA
1 AATTAAAATAATAA
513278 AAT
1 AAT
513281 ACATAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATTAAAATAATAA
Found at i:513286 original size:22 final size:22
Alignment explanation
Indices: 513254--513310 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
513244 AGGAATGAAT
*
513254 TAAAATAATAAAATTAA-AAAA
1 TAAAATAATAAAATAAACAAAA
513275 TAAAATACAT-AAATAAACAAAA
1 TAAAATA-ATAAAATAAACAAAA
513297 TAAAATAAATAAAA
1 TAAAAT-AATAAAA
513311 AATAATTAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 13 0.42
22 14 0.45
23 4 0.13
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAAATAATAAAATAAACAAAA
Found at i:513297 original size:9 final size:9
Alignment explanation
Indices: 513254--513310 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
513244 AGGAATGAAT
513254 TAAAAT-AA
1 TAAAATAAA
*
513262 TAAAATTAA
1 TAAAATAAA
513271 -AAAATAAA
1 TAAAATAAA
*
513279 -ATACATAAA
1 TA-AAATAAA
513288 TAAACA-AAA
1 TAAA-ATAAA
513297 TAAAATAAA
1 TAAAATAAA
513306 TAAAA
1 TAAAA
513311 AATAATTAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
8 15 0.37
9 24 0.59
10 2 0.05
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (9 bp):
TAAAATAAA
Found at i:514292 original size:29 final size:29
Alignment explanation
Indices: 514236--514320 Score: 75
Period size: 29 Copynumber: 3.0 Consensus size: 29
514226 TTTATATAAA
* * *
514236 ATAAAGATTTATTTAGATAAAATCAAATG
1 ATAAAGACTTATTTAAATAAAATAAAATG
* * *
514265 ATAAAGACTTATTTAAATACATTAAAATT
1 ATAAAGACTTATTTAAATAAAATAAAATG
* *
514294 ATAACA-ATTTACTTAAA-AAAATAAAAT
1 ATAA-AGACTTATTTAAATAAAATAAAAT
514321 ATTTCATATT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
28 8 0.18
29 36 0.80
30 1 0.02
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.34
Consensus pattern (29 bp):
ATAAAGACTTATTTAAATAAAATAAAATG
Found at i:518506 original size:6 final size:6
Alignment explanation
Indices: 518495--518536 Score: 54
Period size: 5 Copynumber: 7.3 Consensus size: 6
518485 CAATATCACA
518495 TTTATT TTTATT TTTA-T TTTA-T TTTA-T TTTATT TTGTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT-TATT TT
518537 AATAAAATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 15 0.44
6 13 0.38
7 6 0.18
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:518520 original size:22 final size:22
Alignment explanation
Indices: 518495--518537 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
518485 CAATATCACA
518495 TTTATTTTTATTTT-TATTTTAT
1 TTTA-TTTTATTTTGTATTTTAT
518517 TTTATTTTATTTTGTATTTTA
1 TTTATTTTATTTTGTATTTTA
518538 ATAAAATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTATTTTATTTTGTATTTTAT
Found at i:519456 original size:18 final size:20
Alignment explanation
Indices: 519435--519471 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
519425 TTAGTAATAT
519435 AATATT-AATTAAT-ATAAC
1 AATATTAAATTAATGATAAC
519453 AATATTAAATTAATGATAA
1 AATATTAAATTAATGATAA
519472 TAATTGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 7 0.41
20 4 0.24
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AATATTAAATTAATGATAAC
Found at i:520976 original size:40 final size:40
Alignment explanation
Indices: 520931--521038 Score: 114
Period size: 40 Copynumber: 2.7 Consensus size: 40
520921 TATATTTTTA
* *
520931 TCATATTTATATATTTTACGATATTATAAT-CGTATTATAT
1 TCATATTTATATATTTTA-AATATTATAATACATATTATAT
* *
520971 TCATATTATATAAATTTTAAATAATAT-ATACATATTATAT
1 TCATATT-TATATATTTTAAATATTATAATACATATTATAT
*
521011 T-ATATTTAAATTATTTTATAATATTATA
1 TCATATTTATA-TATTTTA-AATATTATA
521039 TTTATATAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.05
39 13 0.23
40 30 0.54
41 10 0.18
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (40 bp):
TCATATTTATATATTTTAAATATTATAATACATATTATAT
Found at i:521014 original size:16 final size:16
Alignment explanation
Indices: 520966--521054 Score: 62
Period size: 14 Copynumber: 5.7 Consensus size: 16
520956 ATAATCGTAT
520966 TATATTCATATTATATA
1 TATATT-ATATTATATA
* * *
520983 AATTTTAAATAATATATA
1 TATATT--ATATTATATA
* *
521001 CATATTATATTATATT
1 TATATTATATTATATA
*
521017 TAAATTAT-TT-TATA
1 TATATTATATTATATA
521031 -ATATTATATT-TATA
1 TATATTATATTATATA
521045 TA-ATTATATT
1 TATATTATATT
521055 TAATATTATC
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
13 6 0.11
14 17 0.30
15 3 0.05
16 14 0.25
17 4 0.07
18 13 0.23
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TATATTATATTATATA
Found at i:521015 original size:18 final size:16
Alignment explanation
Indices: 520967--521047 Score: 53
Period size: 16 Copynumber: 5.0 Consensus size: 16
520957 TAATCGTATT
520967 ATATTCATATTATATAA
1 ATATT-ATATTATATAA
* * *
520984 ATTTTAAATAATATATAC
1 ATATT--ATATTATATAA
*
521002 ATATTATATTATATTTA
1 ATATTATATTATA-TAA
521019 A-ATTAT-TT-TAT-A
1 ATATTATATTATATAA
521031 ATATTATATTTATATAA
1 ATATTATA-TTATATAA
521048 TTATATTTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
12 2 0.04
13 6 0.12
14 2 0.04
15 4 0.08
16 15 0.31
17 7 0.14
18 13 0.27
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATTATATTATATAA
Found at i:521018 original size:29 final size:30
Alignment explanation
Indices: 520966--521045 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
520956 ATAATCGTAT
* *
520966 TATATTCATATTATA-TAAATTTTAAA-TAA
1 TATATACATATTATATTATA-TTTAAATTAA
*
520995 TATATACATATTATATTATATTTAAATTAT
1 TATATACATATTATATTATATTTAAATTAA
*
521025 TTTATA-ATATTATATTTATAT
1 TATATACATATTATA-TTATAT
521046 AATTATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
29 28 0.64
30 16 0.36
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (30 bp):
TATATACATATTATATTATATTTAAATTAA
Found at i:521039 original size:40 final size:38
Alignment explanation
Indices: 520933--521061 Score: 106
Period size: 40 Copynumber: 3.3 Consensus size: 38
520923 TATTTTTATC
* * *
520933 ATATTTATATATTTTACGATATTATA-ATCGTATTATATT
1 ATATTTAAATATTTTA-AATATTATATA-CATATTATATT
*
520972 CATATTATATAA-ATTTTAAATAATATATACATATTATATT
1 -ATATT-TA-AATATTTTAAATATTATATACATATTATATT
**
521012 ATATTTAAATTATTTTATAATATTATATTTATA-TA-ATT
1 ATATTTAAA-TATTTTA-AATATTATATACATATTATATT
521050 ATATTT-AATATT
1 ATATTTAAATATT
521062 ATCAAGACAC
Statistics
Matches: 76, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
36 4 0.05
37 4 0.05
38 11 0.14
39 13 0.17
40 34 0.45
41 9 0.12
42 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (38 bp):
ATATTTAAATATTTTAAATATTATATACATATTATATT
Found at i:526085 original size:28 final size:28
Alignment explanation
Indices: 526052--526117 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
526042 TTTTTTATAA
*
526052 ATTAATTAA-ATTTAATAAATAATAATGT
1 ATTAATTAATATTTAATAAA-AATAATAT
*
526080 ATTAATTATTATTTTTAATAAAAATAATAT
1 ATTAATTA--ATATTTAATAAAAATAATAT
526110 -TTAATTAA
1 ATTAATTAA
526118 CTCTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
27 1 0.03
28 8 0.24
29 7 0.21
30 8 0.24
31 9 0.27
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (28 bp):
ATTAATTAATATTTAATAAAAATAATAT
Found at i:526356 original size:112 final size:112
Alignment explanation
Indices: 526099--526378 Score: 352
Period size: 118 Copynumber: 2.4 Consensus size: 112
526089 TATTTTTAAT
* * *
526099 AAAAATAATATTTAATTAACTCT-AAAAAATTTACATTAATAAATTAAAATATTAATTATT-T-T
1 AAAAATAATATTTAATTAAATTTAAAAAAATTTACATTAACAAATTAAAATATTAATTATTATGT
* *
526161 TTTAAAATAAAAAATAAAAATAAAAAGGGTTTATTATTATTATTTTTAATAAAATT
66 TTT----T-----ATAAAAATAAAAAGGATTTATTATTATTATTTTTAATAAAATA
* *
526217 AAAAATAATATTTAATTAAGTTTAAAAAAA-TTATATTAACAAATTAAAATATTAATTATTATGT
1 AAAAATAATATTTAATTAAATTTAAAAAAATTTACATTAACAAATTAAAATATTAATTATTATGT
* *
526281 TTTTATAAAAATAAAAAGTATTTTTTATTATTATTTTTTAATAAAATA
66 TTTTATAAAAATAAAAAGGATTTATTATTATTA-TTTTTAATAAAATA
*
526329 AAAAATGATATTTAATTAAATTTAAAAAAATTTACATTAACAAATTAAAA
1 AAAAATAATATTTAATTAAATTTAAAAAAATTTACATTAACAAATTAAAA
526379 AAATAACATT
Statistics
Matches: 146, Mismatches: 11, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
111 26 0.18
112 41 0.28
113 18 0.12
116 1 0.01
118 49 0.34
119 7 0.05
120 4 0.03
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.42
Consensus pattern (112 bp):
AAAAATAATATTTAATTAAATTTAAAAAAATTTACATTAACAAATTAAAATATTAATTATTATGT
TTTTATAAAAATAAAAAGGATTTATTATTATTATTTTTAATAAAATA
Found at i:526376 original size:23 final size:24
Alignment explanation
Indices: 526350--526409 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
526340 TTAATTAAAT
526350 TTAAAAAAATTTACA-TTAACAAA
1 TTAAAAAAATTTACATTTAACAAA
* **
526373 TTAAAAAAA-TAACATTTAAGGAA
1 TTAAAAAAATTTACATTTAACAAA
526396 TTAAAATAAATTTA
1 TTAAAA-AAATTTA
526410 TCGTTATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 4 0.13
23 21 0.70
24 3 0.10
25 2 0.07
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (24 bp):
TTAAAAAAATTTACATTTAACAAA
Found at i:526401 original size:111 final size:111
Alignment explanation
Indices: 526174--526405 Score: 283
Period size: 112 Copynumber: 2.1 Consensus size: 111
526164 AAAATAAAAA
* * *
526174 ATAAAAATAAAAAGGGTTTATTATTATTATTTTTAATAAAATTAAAAATAATATTTAATTAAGTT
1 ATAAAAATAAAAAGGATTTATTATTATTATTTTTAATAAAATAAAAAATAATATTTAATTAAATT
* * * * * ***
526239 TAAAAAAATTATATTAACAAATTAAAATATTAATTATTATGTTTTT
66 TAAAAAAATTACATTAACAAATTAAAAAAATAAATATTAAGTGAAT
* * *
526285 ATAAAAATAAAAAGTATTTTTTATTATTATTTTTTAATAAAATAAAAAATGATATTTAATTAAAT
1 ATAAAAATAAAAAGGATTTATTATTATTA-TTTTTAATAAAATAAAAAATAATATTTAATTAAAT
526350 TTAAAAAAATTTACATTAACAAATTAAAAAAATAACAT-TTAAG-GAAT
65 TTAAAAAAA-TTACATTAACAAATTAAAAAAATAA-ATATTAAGTGAAT
526397 -T-AAAATAAA
1 ATAAAAATAAA
526406 TTTATCGTTA
Statistics
Matches: 104, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
110 8 0.08
111 27 0.26
112 42 0.40
113 26 0.25
114 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (111 bp):
ATAAAAATAAAAAGGATTTATTATTATTATTTTTAATAAAATAAAAAATAATATTTAATTAAATT
TAAAAAAATTACATTAACAAATTAAAAAAATAAATATTAAGTGAAT
Found at i:526818 original size:16 final size:15
Alignment explanation
Indices: 526787--526816 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
526777 AATTATAATA
526787 AAAACTTTTTATTTT
1 AAAACTTTTTATTTT
*
526802 AAAATTTTTTATTTT
1 AAAACTTTTTATTTT
526817 TATAAAAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
AAAACTTTTTATTTT
Found at i:526884 original size:125 final size:120
Alignment explanation
Indices: 526652--527010 Score: 410
Period size: 125 Copynumber: 2.9 Consensus size: 120
526642 AAAAAATAAA
* * *
526652 AAAATATTATTATAATAAATTTTTTAATTTAAAATTTTTATTTTAAAAAACATAATAATTAATAT
1 AAAA-ATTATAATAATAAACTTTTTATTTTAAAATTTTTATTTTAAAAAACATAATAATTAATAT
*
526717 TTTAATTTGTTAATGTAAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATT
65 TTTAATTTGTTAATGT-AATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATT
526774 AAAAATTATAATAA-AAACTTTTTATTTTAAAATTTTTTATTTTTATAAAAACATAATAATTAAT
1 AAAAATTATAATAATAAACTTTTTATTTTAAAA-TTTTTA-TTTTA-AAAAACATAATAATT-A-
*
526838 ATTATTTTTAATTTGTTAATGT-ATTTTTTAAAGTTAATTAAATATTATTTTTAATTTTATT
61 A-TA-TTTTAATTTGTTAATGTAATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATT
* * * ***
526899 AAAAA-AATAATAATAAACCCTTTTTATTTT--TATTTAATTTTTTTAATTTA-A-AA-AATTAA
1 AAAAATTATAATAATAAA--CTTTTTATTTTAAAATTT--TTATTTTAAAAAACATAATAATTAA
* *
526958 TATTTTAATTTGTTAATATAATTTTTTTAAAAGTTAATTAAATATTATTTTTA
62 TATTTTAATTTGTTAATGTAA-TTTTTT-AAACTTAATTAAATATTATTTTTA
527011 TTAAAAATAA
Statistics
Matches: 210, Mismatches: 12, Indels: 32
0.83 0.05 0.13
Matches are distributed among these distances:
117 16 0.08
118 3 0.01
119 7 0.03
120 41 0.20
121 19 0.09
122 11 0.05
123 16 0.08
124 13 0.06
125 52 0.25
126 4 0.02
127 28 0.13
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (120 bp):
AAAAATTATAATAATAAACTTTTTATTTTAAAATTTTTATTTTAAAAAACATAATAATTAATATT
TTAATTTGTTAATGTAATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATT
Found at i:526899 original size:22 final size:21
Alignment explanation
Indices: 526835--526901 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
526825 CATAATAATT
*
526835 AATATTATTTTTAATTTGTTA
1 AATATTATTTTTAATTTATTA
* * *
526856 ATGTATT-TTTTAAAGTTAATTA
1 A-ATATTATTTTTAA-TTTATTA
526878 AATATTATTTTTAATTTTATTA
1 AATATTATTTTTAA-TTTATTA
526900 AA
1 AA
526902 AAAATAATAA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
21 11 0.31
22 24 0.69
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.58
Consensus pattern (21 bp):
AATATTATTTTTAATTTATTA
Found at i:527021 original size:26 final size:26
Alignment explanation
Indices: 526972--527021 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
526962 TTAATTTGTT
*
526972 AATATAATTTTTTTAAAAGTTAATTA
1 AATATAATTTTTTTAAAAGATAATTA
*
526998 AATATTATTTTTATTAAAA-ATAAT
1 AATATAATTTTT-TTAAAAGATAAT
527022 AATTAATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
AATATAATTTTTTTAAAAGATAATTA
Found at i:527058 original size:120 final size:117
Alignment explanation
Indices: 526708--527074 Score: 286
Period size: 120 Copynumber: 3.0 Consensus size: 117
526698 AAAACATAAT
*
526708 AATTAATATTTTAATTTGTTAATGTAAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTAT
1 AATTAATATTTTAATTTGTTAATGT-AATTTTTTAAAGTTAATTAAATATTA-----T-TTTTAT
* * * * * * **
526773 TAAAAATTATAATAAAAAC-TTTTTATTT-TAAAATTTTTT-ATTTTTATAA-AAACATAA
59 TAAAAATAATAATTAATACATTATTATTTAT-TAATTTTTTAATTTTTTTAATTTACA-AA
526830 TAATTAATATTATTTTTAATTTGTTAATGT-ATTTTTTAAAGTTAATTAAATATTATTTTTAATT
1 -AATT-A-A-TA-TTTTAATTTGTTAATGTAATTTTTTAAAGTTAATTAAATATTATTTTT-A--
* * ***
526894 TTATTAAAAAAATAA-TAATAAACCCTT-TTTATT--TTTATTTAATTTTTTTAATTTA-AAA
58 TTA--AAAATAATAATTAATACATTATTATTTATTAATTT-TTTAATTTTTTTAATTTACAAA
*
526952 AATTAATATTTTAATTTGTTAATATAATTTTTTTAAAAGTTAATTAAATATTATTTTTATTAAAA
1 AATTAATATTTTAATTTGTTAATGTAA-TTTTTT-AAAGTTAATTAAATATTATTTTTATTAAAA
** *
527017 ATAATAATTAATACATTATTATTTATTACATTTTTTAAATTTAATTAATTTATAAA
64 ATAATAATTAATACATTATTATTTATTA-ATTTTTT-AATTTTTTTAATTTACAAA
527073 AA
1 AA
527075 AACTAAAATG
Statistics
Matches: 199, Mismatches: 21, Indels: 50
0.74 0.08 0.19
Matches are distributed among these distances:
115 9 0.05
116 8 0.04
117 25 0.13
118 3 0.02
119 15 0.08
120 42 0.21
121 12 0.06
122 8 0.04
123 20 0.10
124 13 0.07
125 25 0.13
126 2 0.01
127 17 0.09
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (117 bp):
AATTAATATTTTAATTTGTTAATGTAATTTTTTAAAGTTAATTAAATATTATTTTTATTAAAAAT
AATAATTAATACATTATTATTTATTAATTTTTTAATTTTTTTAATTTACAAA
Found at i:527967 original size:88 final size:89
Alignment explanation
Indices: 527600--528176 Score: 741
Period size: 87 Copynumber: 6.4 Consensus size: 89
527590 AATAAATGTG
* * * *
527600 ATTATATCTAAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAAGTTGACTGATTGTAAATGTCA
1 ATTATATCTGAGAATCGGATTCTTTTTTATAG-AAAAAA-AAGA-CTGACTGATTGTAAATGTCA
* *
527665 GACTCCAAGAATTAGACTAATGCATGA
63 GACTACAAGGATTAGACTAATGCATGA
* * * * * *
527692 ATTATATTTGAGAATCAGATT-TTTTTTGTAGAAAACAAAG-TTGACTGATTATAAATGTCAGAC
1 ATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAAAGACTGACTGATTGTAAATGTCAGAC
*** *
527755 TGTTAGGATTAGATTAATGCATGA
66 TACAAGGATTAGACTAATGCATGA
* * *
527779 ATTATATCTGAGAATTGGATTCTTTTTTATAGAAAAAAAAGAAAGACTGATTGATTGTAAATATC
1 ATTATATCTGAGAATCGGATTCTTTTTTATAG---AAAAA-AAAGACTGACTGATTGTAAATGTC
527844 AGACTACAAGGATTAGACTAATGCATGA
62 AGACTACAAGGATTAGACTAATGCATGA
* *
527872 ATTATATTTGAGAATCGGATTCTTTTTTATAGAAAAAAAAG-TTGACTGATTGTAAATGTCAGAC
1 ATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAAAGACTGACTGATTGTAAATGTCAGAC
527936 TACAAGGATTAGACTAATGCATGA
66 TACAAGGATTAGACTAATGCATGA
* * * *
527960 ATTATATTTGAGAATCAGATTC-TTTTTATA-TAAAAAAAGACTGATTGATTGTAAATGTCAGAC
1 ATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAAAGACTGACTGATTGTAAATGTCAGAC
* *
528023 TACAAGGATTAGACTAATACATAA
66 TACAAGGATTAGACTAATGCATGA
* * *
528047 ATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAAAAGAAGACTGATTGATTGTAAATATCAG
1 ATTATATCTGAGAATCGGATTCTTTTTTATAG-AAAAAA-AAGACTGACTGATTGTAAATGTCAG
*
528112 ACTGCAAGGATTAGACTAATGCATGA
64 ACTACAAGGATTAGACTAATGCATGA
* *
528138 ATTATATCTGAGAATCGAATTCTTTTTTATAGGAAAAAA
1 ATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAA
528177 GAAAGATTGC
Statistics
Matches: 428, Mismatches: 46, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
86 8 0.02
87 131 0.31
88 82 0.19
89 7 0.02
90 20 0.05
91 90 0.21
92 21 0.05
93 69 0.16
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (89 bp):
ATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAAAGACTGACTGATTGTAAATGTCAGAC
TACAAGGATTAGACTAATGCATGA
Found at i:528081 original size:268 final size:266
Alignment explanation
Indices: 527600--528176 Score: 895
Period size: 268 Copynumber: 2.1 Consensus size: 266
527590 AATAAATGTG
*
527600 ATTATATCTAAGAATCGAATTCTTTTTTATAGAAAAAAAGAAAAGTTGACTGATTGTAAATGTCA
1 ATTATATCTGAGAATCGAATTCTTTTTTATAG---AAAA-AAAAGTTGACTGATTGTAAATGTCA
* * *
527665 GACTCCAAGAATTAGACTAATGCATGAATTATATTTGAGAATCAGATTTTTTTTGTAGAAAACAA
62 GACTACAAGAATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTTTTTATAGAAAACAA
* *** * * * *
527730 AGTTGACTGATTATAAATGTCAGACTGTTAGGATTAGATTAATGCATGAATTATATCTGAGAATT
127 AGCTGACTGATTATAAATGTCAGACTACAAGGATTAGACTAATACATAAATTATATCTGAGAATC
*
527795 GGATTCTTTTTTATAGAAAAAAAAGAAAGACTGATTGATTGTAAATATCAGACTACAAGGATTAG
192 AGATTCTTTTTTATAG-AAAAAAAG-AAGACTGATTGATTGTAAATATCAGACTACAAGGATTAG
527860 ACTAATGCATGA
255 ACTAATGCATGA
* *
527872 ATTATATTTGAGAATCGGATTCTTTTTTATAGAAAAAAAAGTTGACTGATTGTAAATGTCAGACT
1 ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAAGTTGACTGATTGTAAATGTCAGACT
* *
527937 ACAAGGATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTTTTTATATAAAA-AAAGAC
66 ACAAGAATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTTTTTATAGAAAACAAAG-C
* *
528001 TGATTGATTGTAAATGTCAGACTACAAGGATTAGACTAATACATAAATTATATCTGAGAATCAGA
130 TGACTGATTATAAATGTCAGACTACAAGGATTAGACTAATACATAAATTATATCTGAGAATCAGA
*
528066 TTCTTTTTTATAGAAAAAAAGAAGACTGATTGATTGTAAATATCAGACTGCAAGGATTAGACTAA
195 TTCTTTTTTATAGAAAAAAAGAAGACTGATTGATTGTAAATATCAGACTACAAGGATTAGACTAA
528131 TGCATGA
260 TGCATGA
*
528138 ATTATATCTGAGAATCGAATTCTTTTTTATAGGAAAAAA
1 ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAA
528177 GAAAGATTGC
Statistics
Matches: 281, Mismatches: 23, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
266 86 0.31
267 12 0.04
268 150 0.53
269 4 0.01
272 29 0.10
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (266 bp):
ATTATATCTGAGAATCGAATTCTTTTTTATAGAAAAAAAAGTTGACTGATTGTAAATGTCAGACT
ACAAGAATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTTTTTATAGAAAACAAAGCT
GACTGATTATAAATGTCAGACTACAAGGATTAGACTAATACATAAATTATATCTGAGAATCAGAT
TCTTTTTTATAGAAAAAAAGAAGACTGATTGATTGTAAATATCAGACTACAAGGATTAGACTAAT
GCATGA
Found at i:528264 original size:70 final size:70
Alignment explanation
Indices: 528114--528251 Score: 199
Period size: 70 Copynumber: 2.0 Consensus size: 70
528104 AATATCAGAC
* **
528114 TGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGAATTCTTTTTTATAGGAAAAAAGA
1 TGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGAATTCTTTTGTATAAAAAAAAAGA
528179 AAGAT
66 AAGAT
*
528184 TGCAAGGATTAGACTAATGCATGAATTGTA-CATGAGAATCGAATTTCTTTTGGTA-AAAAAAAA
1 TGCAAGGATTAGACTAATGCATGAATTATATC-TGAGAATCGAA-TTCTTTT-GTATAAAAAAAA
528247 AGAAA
63 AGAAA
528252 AGTTGGTTGA
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
69 1 0.02
70 40 0.66
71 18 0.30
72 2 0.03
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.30
Consensus pattern (70 bp):
TGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGAATTCTTTTGTATAAAAAAAAAGA
AAGAT
Found at i:531929 original size:11 final size:11
Alignment explanation
Indices: 531906--531965 Score: 75
Period size: 11 Copynumber: 5.5 Consensus size: 11
531896 ATAAATTTGT
*
531906 ATAATTTATAA
1 ATAAATTATAA
*
531917 ATAAATTAAAA
1 ATAAATTATAA
*
531928 ATAATTTATAA
1 ATAAATTATAA
*
531939 ATAAATTAGAA
1 ATAAATTATAA
*
531950 ATAATTTATAA
1 ATAAATTATAA
531961 ATAAA
1 ATAAA
531966 AAGTAATAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (11 bp):
ATAAATTATAA
Found at i:531934 original size:22 final size:22
Alignment explanation
Indices: 531906--531965 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
531896 ATAAATTTGT
531906 ATAATTTATAAATAAATTAAAA
1 ATAATTTATAAATAAATTAAAA
*
531928 ATAATTTATAAATAAATTAGAA
1 ATAATTTATAAATAAATTAAAA
531950 ATAATTTATAAATAAA
1 ATAATTTATAAATAAA
531966 AAGTAATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
ATAATTTATAAATAAATTAAAA
Found at i:531940 original size:18 final size:20
Alignment explanation
Indices: 531906--531972 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 20
531896 ATAAATTTGT
531906 ATAATTTATAAATAAATTAAAA
1 ATAA-TTAT-AATAAATTAAAA
*
531928 ATAATTTATAAATAAATTAGAA
1 ATAA-TTAT-AATAAATTAAAA
531950 ATAATT-T-ATAAA-TAAAA
1 ATAATTATAATAAATTAAAA
531967 AGTAAT
1 A-TAAT
531973 AATACATGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.12
18 9 0.21
20 1 0.02
21 2 0.05
22 25 0.60
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
ATAATTATAATAAATTAAAA
Found at i:535229 original size:2 final size:2
Alignment explanation
Indices: 535222--535253 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
535212 CCCTTCAAAC
535222 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
535254 TAAGGACTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:535230 original size:152 final size:150
Alignment explanation
Indices: 534952--535228 Score: 353
Period size: 152 Copynumber: 1.8 Consensus size: 150
534942 AAGAAAAAGG
* * *
534952 GCTAAAGCCCAAAAAAAAAATTATAGAGGAAGATGGTGTAAATGTCTACAATTAAAGTCTTGGTC
1 GCTAAAGCACAAAAAAAAAATTATAGAGGAAGATGGTGTAAATGTCTACAATTAAAGCCTTGGCC
* * *
535017 TTGGCCAAGGTCAAATAATAATTAAGACAATTATTCCTCTTTACCCGTCAACTACATATATAAAA
66 TTCGCCAAGATCAAATAATAATTAACACAATTATTCCTCTTTACCCGTCAACTACATATATAAAA
535082 TAATCAAAGTGCAAAGTAGT
131 TAATCAAAGTGCAAAGTAGT
* * *
535102 GCTAAAGCAC-AAAGAAAAATTATAGAGGAAGATGGTGCTGTAAATGTCTCCATTTAAAGCCTTG
1 GCTAAAGCACAAAAAAAAAATTATAGAGGAAGAT-G-G-TGTAAATGTCTACAATTAAAGCCTTG
*** * * * * *
535166 GCCTTCGTTGAGATTAGATAATGATTAACACAATTATTTCTCTTTACCCTTCAA--ACATATATA
63 GCCTTCGCCAAGATCAAATAATAATTAACACAATTATTCCTCTTTACCCGTCAACTACATATATA
535229 TATATATATA
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
149 22 0.21
150 19 0.18
151 1 0.01
152 65 0.61
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (150 bp):
GCTAAAGCACAAAAAAAAAATTATAGAGGAAGATGGTGTAAATGTCTACAATTAAAGCCTTGGCC
TTCGCCAAGATCAAATAATAATTAACACAATTATTCCTCTTTACCCGTCAACTACATATATAAAA
TAATCAAAGTGCAAAGTAGT
Found at i:535438 original size:18 final size:18
Alignment explanation
Indices: 535415--535456 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
535405 GAACAAGGTC
*
535415 TTTATATATGACTTATTT
1 TTTATATATGACTTATAT
*
535433 TTTATATATTACTTATAT
1 TTTATATATGACTTATAT
535451 TTTATA
1 TTTATA
535457 ATATATATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTATATATGACTTATAT
Found at i:542999 original size:21 final size:21
Alignment explanation
Indices: 542974--543023 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
542964 TTTATTTGCC
*
542974 TTTGTAAAGCTTAAACAACCT
1 TTTGTAAAGCATAAACAACCT
* * *
542995 TTTGTAAAGCATGAGCTACCT
1 TTTGTAAAGCATAAACAACCT
543016 TTTGTAAA
1 TTTGTAAA
543024 TATTTTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (21 bp):
TTTGTAAAGCATAAACAACCT
Found at i:543448 original size:59 final size:59
Alignment explanation
Indices: 543372--543598 Score: 301
Period size: 59 Copynumber: 3.8 Consensus size: 59
543362 TTGGTATCAC
** *
543372 TGATAGTGAGGGCGCCATGGTGGCAATTAGGAATTAGGATTGAAGTGACTTGGCGTCAT
1 TGATAGTGATAGCGCCATGGTGGCAATTAGGAATCAGGATTGAAGTGACTTGGCGTCAT
* * * * * * * **
543431 TGATAGTGATGGTGCCATGGTGACGATTAGGAATTAGGATTAAAGTGACTTGGTGTCGC
1 TGATAGTGATAGCGCCATGGTGGCAATTAGGAATCAGGATTGAAGTGACTTGGCGTCAT
* * *
543490 TGAAAGTGATAGCGCCATGGTGGCAATTAGGAATCAAGATTGAAGTGACTTGGCATCAT
1 TGATAGTGATAGCGCCATGGTGGCAATTAGGAATCAGGATTGAAGTGACTTGGCGTCAT
**
543549 TGATAGTGATAGCGCCATGGTGGTGATTAGGAATCAGGATTGAAGTGACT
1 TGATAGTGATAGCGCCATGGTGGCAATTAGGAATCAGGATTGAAGTGACT
543599 AGGTGTTACT
Statistics
Matches: 144, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 144 1.00
ACGTcount: A:0.28, C:0.11, G:0.33, T:0.28
Consensus pattern (59 bp):
TGATAGTGATAGCGCCATGGTGGCAATTAGGAATCAGGATTGAAGTGACTTGGCGTCAT
Found at i:543523 original size:118 final size:118
Alignment explanation
Indices: 543383--543604 Score: 354
Period size: 118 Copynumber: 1.9 Consensus size: 118
543373 GATAGTGAGG
* * * * *
543383 GCGCCATGGTGGCAATTAGGAATTAGGATTGAAGTGACTTGGCGTCATTGATAGTGATGGTGCCA
1 GCGCCATGGTGGCAATTAGGAATCAAGATTGAAGTGACTTGGCATCATTGATAGTGATAGCGCCA
* *
543448 TGGTGACGATTAGGAATTAGGATTAAAGTGACTTGGTGTCGCTGAAAGTGATA
66 TGGTGACGATTAGGAATCAGGATTAAAGTGACTAGGTGTCGCTGAAAGTGATA
543501 GCGCCATGGTGGCAATTAGGAATCAAGATTGAAGTGACTTGGCATCATTGATAGTGATAGCGCCA
1 GCGCCATGGTGGCAATTAGGAATCAAGATTGAAGTGACTTGGCATCATTGATAGTGATAGCGCCA
** *
543566 TGGTGGTGATTAGGAATCAGGATTGAAGTGACTAGGTGT
66 TGGTGACGATTAGGAATCAGGATTAAAGTGACTAGGTGT
543605 TACTCGTACT
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
118 94 1.00
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.28
Consensus pattern (118 bp):
GCGCCATGGTGGCAATTAGGAATCAAGATTGAAGTGACTTGGCATCATTGATAGTGATAGCGCCA
TGGTGACGATTAGGAATCAGGATTAAAGTGACTAGGTGTCGCTGAAAGTGATA
Found at i:548037 original size:6 final size:6
Alignment explanation
Indices: 548026--548119 Score: 51
Period size: 6 Copynumber: 16.2 Consensus size: 6
548016 GAATTTTATC
* * *
548026 TCTTTT TCTTTT TCTCTT TC--CT TCTTATT TC-TTT TCCTTT TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTT-TT TCTTTT TCTTTT TCTTTT
*
548072 TC--TT TC-TTT TCATTTCT TGCTTTTT TCTTTT T-TTCT T-TTTT TCTTTT
1 TCTTTT TCTTTT TC-TTT-T T-C-TTTT TCTTTT TCTTTT TCTTTT TCTTTT
548119 T
1 T
548120 TCCCCACTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 20
0.72 0.07 0.20
Matches are distributed among these distances:
4 7 0.10
5 16 0.23
6 34 0.48
7 6 0.08
8 4 0.06
9 4 0.06
ACGTcount: A:0.02, C:0.20, G:0.01, T:0.77
Consensus pattern (6 bp):
TCTTTT
Found at i:548050 original size:16 final size:16
Alignment explanation
Indices: 548019--548074 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
548009 TTTGCTTGAA
548019 TTTTATCTCTTT--TTC
1 TTTT-TCTCTTTCCTTC
548034 TTTTTCTCTTTCCTTC
1 TTTTTCTCTTTCCTTC
548050 TTATTTCT-TTTCCTTTTC
1 TT-TTTCTCTTTCC--TTC
548068 TTTTTCT
1 TTTTTCT
548075 TTCTTTTCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 7 0.19
15 4 0.11
16 10 0.28
17 10 0.28
18 5 0.14
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTCTCTTTCCTTC
Found at i:548077 original size:16 final size:15
Alignment explanation
Indices: 548029--548119 Score: 62
Period size: 17 Copynumber: 5.7 Consensus size: 15
548019 TTTTATCTCT
548029 TTTTCTTTTTCTCTT-
1 TTTTCTTTTTCT-TTC
*
548044 TCCTTCTTATTTCTTTTCC
1 T-TTTCTT-TTTC-TTT-C
548063 TTTTCTTTTTCTTTC
1 TTTTCTTTTTCTTTC
548078 TTTTCATTTCTTGCTTT-
1 TTTTC-TTT-TT-CTTTC
*
548095 TTTCTTTTTTTCTTT-
1 TTT-TCTTTTTCTTTC
548110 TTTTCTTTTT
1 TTTTCTTTTT
548120 TCCCCACTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
14 6 0.10
15 14 0.22
16 13 0.21
17 18 0.29
18 11 0.17
19 1 0.02
ACGTcount: A:0.02, C:0.20, G:0.01, T:0.77
Consensus pattern (15 bp):
TTTTCTTTTTCTTTC
Found at i:548077 original size:21 final size:21
Alignment explanation
Indices: 548026--548082 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
548016 GAATTTTATC
*
548026 TCTTTTTCTTT-TTCT-CTTT
1 TCTTTTTCTTTCTTTTCCTTT
* * *
548045 CCTTCTTATTTCTTTTCCTTT
1 TCTTTTTCTTTCTTTTCCTTT
548066 TCTTTTTCTTTCTTTTC
1 TCTTTTTCTTTCTTTTC
548083 ATTTCTTGCT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
19 8 0.28
20 3 0.10
21 18 0.62
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (21 bp):
TCTTTTTCTTTCTTTTCCTTT
Found at i:548094 original size:24 final size:22
Alignment explanation
Indices: 548027--548119 Score: 63
Period size: 23 Copynumber: 4.3 Consensus size: 22
548017 AATTTTATCT
*
548027 CTTTTTCTTTTTCTCTTTCCTT-
1 CTTTTTCTTTTTTTCTTT-CTTG
*
548049 CTTATTTC---TTTTCCTT-TT-
1 CTT-TTTCTTTTTTTCTTTCTTG
548067 CTTTTTCTTTCTTTTCATTTCTTG
1 CTTTTTCTTT-TTTTC-TTTCTTG
* *
548091 CTTTTTTCTTTTTTTCTTTTTTT
1 C-TTTTTCTTTTTTTCTTTCTTG
548114 CTTTTT
1 CTTTTT
548120 TCCCCACTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 18
0.71 0.06 0.22
Matches are distributed among these distances:
17 4 0.07
18 5 0.09
20 6 0.11
21 5 0.09
22 10 0.18
23 12 0.21
24 6 0.11
25 9 0.16
ACGTcount: A:0.02, C:0.20, G:0.01, T:0.76
Consensus pattern (22 bp):
CTTTTTCTTTTTTTCTTTCTTG
Found at i:548098 original size:21 final size:21
Alignment explanation
Indices: 548053--548102 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
548043 TTCCTTCTTA
*
548053 TTTCTTTTCCTTTTCTTTTTC
1 TTTCTTTTCCATTTCTTTTTC
548074 TTTCTTTT-CATTTCTTGCTTT-
1 TTTCTTTTCCATTTCTT--TTTC
548095 TTTCTTTT
1 TTTCTTTT
548103 TTTCTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 7 0.27
21 16 0.62
22 3 0.12
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTCTTTTCCATTTCTTTTTC
Found at i:548120 original size:16 final size:16
Alignment explanation
Indices: 548028--548120 Score: 66
Period size: 16 Copynumber: 5.8 Consensus size: 16
548018 ATTTTATCTC
*
548028 TTTTTCTTTTTCTCTT
1 TTTTTCTTTTTTTCTT
** *
548044 TCCTTC-TTATTTCTT
1 TTTTTCTTTTTTTCTT
*
548059 TTCCTTT-TCTTTTTCTT
1 TT--TTTCTTTTTTTCTT
* *
548076 TCTTTTCATTTCTTGC-T
1 T-TTTTC-TTTTTTTCTT
548093 TTTTTCTTTTTTTCTT
1 TTTTTCTTTTTTTCTT
548109 TTTTTCTTTTTT
1 TTTTTCTTTTTT
548121 CCCCACTTTA
Statistics
Matches: 57, Mismatches: 13, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
15 14 0.25
16 25 0.44
17 12 0.21
18 6 0.11
ACGTcount: A:0.02, C:0.19, G:0.01, T:0.77
Consensus pattern (16 bp):
TTTTTCTTTTTTTCTT
Found at i:549139 original size:20 final size:20
Alignment explanation
Indices: 549114--549161 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
549104 GTTCTATCAA
*
549114 TTATTAATTTACTTTAATT-T
1 TTATTAATTTA-TATAATTAT
549134 TTATTAAATTTATATAATTAT
1 TTATT-AATTTATATAATTAT
549155 TTATTAA
1 TTATTAA
549162 GTGTTGATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATTAATTTATATAATTAT
Found at i:549145 original size:21 final size:21
Alignment explanation
Indices: 549114--549161 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
549104 GTTCTATCAA
*
549114 TTATT-AATTTACTTTAATT-T
1 TTATTAAATTTA-TATAATTAT
549134 TTATTAAATTTATATAATTAT
1 TTATTAAATTTATATAATTAT
549155 TTATTAA
1 TTATTAA
549162 GTGTTGATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTAAATTTATATAATTAT
Found at i:551842 original size:22 final size:20
Alignment explanation
Indices: 551803--551866 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 20
551793 AAAAATTTAA
*
551803 AAAATATTTTTATCTTAATATT
1 AAAAT-TTTTTATATTAA-ATT
* *
551825 TATATTTTTTATAATTAAATT
1 AAAATTTTTTAT-ATTAAATT
551846 AAAATTTATTTATTATTAAAT
1 AAAATTT-TTTA-TATTAAAT
551867 AATATTCAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 15 0.44
22 18 0.53
23 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
AAAATTTTTTATATTAAATT
Found at i:552334 original size:24 final size:24
Alignment explanation
Indices: 552289--552334 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
552279 AGAATATAAA
* * *
552289 TTTAAATATTTAATTATAATTATT
1 TTTAAATACTAAATAATAATTATT
*
552313 TTTAAATACTAAATAATTATTA
1 TTTAAATACTAAATAATAATTA
552335 GAAAATGTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTAAATACTAAATAATAATTATT
Found at i:552923 original size:21 final size:21
Alignment explanation
Indices: 552899--552939 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
552889 TGGAACTACA
552899 TTTAAA-AAATAATAAATATAT
1 TTTAAATAAA-AATAAATATAT
*
552920 TTTAAATAAAAATATATATA
1 TTTAAATAAAAATAAATATA
552940 ATGGAAGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TTTAAATAAAAATAAATATAT
Found at i:553109 original size:50 final size:50
Alignment explanation
Indices: 553046--553267 Score: 245
Period size: 50 Copynumber: 4.3 Consensus size: 50
553036 ATTAAAAAAC
*
553046 TATTT-AAAATAATAAAAGATTAAAA-ATTTTATATTAAATCTCAAATTTT
1 TATTTAAAAATAATAAAA-ATTAAAATATTTTATATTAAATCTCAAATTAT
* *
553095 TATTTAAAAATAATAAAAAATTAAAAGGTATTTTTATATTAAATCTCGAATAAT
1 TATTTAAAAATAAT-AAAAATTAAAA--TA-TTTTATATTAAATCTCAAATTAT
* * *
553149 AATTTAAAAATAA-AAAATTTATAAATATTTTATATTAAATCCCAAATTAT
1 TATTTAAAAATAATAAAAATTA-AAATATTTTATATTAAATCTCAAATTAT
* *
553199 TAATTAAAAATAATAAAAATTAAAAATATTTTATATTAAATC-CTAGAATTAC
1 TATTTAAAAATAATAAAAATT-AAAATATTTTATATTAAATCTC-A-AATTAT
*
553251 AATTTAAAACATAATAA
1 TATTTAAAA-ATAATAA
553268 TTTTTTTACT
Statistics
Matches: 147, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
49 5 0.03
50 47 0.32
51 32 0.22
52 20 0.14
53 11 0.07
54 32 0.22
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (50 bp):
TATTTAAAAATAATAAAAATTAAAATATTTTATATTAAATCTCAAATTAT
Found at i:553203 original size:51 final size:51
Alignment explanation
Indices: 553047--553264 Score: 209
Period size: 51 Copynumber: 4.2 Consensus size: 51
553037 TTAAAAAACT
* *
553047 ATTT-AAAATAATAAAAGATTA-AAA-ATTTTATATTAAATCTCAAATT-TTT
1 ATTTAAAAATAA-AAAA-ATTATAAATATTTTATATTAAATCCCAAATTATTA
* * *
553096 ATTTAAAAATAATAAAAAATTA-AAAGGTATTTTTATATTAAATCTCGAA-TAATA
1 ATTTAAAAAT-A-AAAAAATTATAAA--TA-TTTTATATTAAATCCCAAATTATTA
*
553150 ATTTAAAAATAAAAAATTTATAAATATTTTATATTAAATCCCAAATTATTA
1 ATTTAAAAATAAAAAAATTATAAATATTTTATATTAAATCCCAAATTATTA
* * *
553201 A-TTAAAAATAATAAAAATTAAAAATATTTTATATTAAATCCTAGAATTA-CA
1 ATTTAAAAATAA-AAAAATTATAAATATTTTATATTAAATCCCA-AATTATTA
553252 ATTTAAAACATAA
1 ATTTAAAA-ATAA
553265 TAATTTTTTT
Statistics
Matches: 144, Mismatches: 11, Indels: 24
0.80 0.06 0.13
Matches are distributed among these distances:
49 4 0.03
50 39 0.27
51 42 0.29
52 20 0.14
53 10 0.07
54 29 0.20
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (51 bp):
ATTTAAAAATAAAAAAATTATAAATATTTTATATTAAATCCCAAATTATTA
Found at i:553206 original size:104 final size:103
Alignment explanation
Indices: 553066--553264 Score: 285
Period size: 104 Copynumber: 1.9 Consensus size: 103
553056 AATAAAAGAT
* * * *
553066 TAAAAATTTTATATTAAATCTCAAATTTTTATTTAAAAATAATAAAAAATTAAAAGGTATTTTTA
1 TAAAAATTTTATATTAAATCCCAAATTATTAATTAAAAATAAT-AAAAATTAAAA-ATA-TTTTA
* *
553131 TATTAAAT-CTCGAATAATAATTTAAAA-ATAAAAAATTTA
63 TATTAAATCCTAGAATAACAATTTAAAACATAAAAAATTTA
*
553170 TAAATATTTTATATTAAATCCCAAATTATTAATTAAAAATAATAAAAATTAAAAATATTTTATAT
1 TAAAAATTTTATATTAAATCCCAAATTATTAATTAAAAATAATAAAAATTAAAAATATTTTATAT
*
553235 TAAATCCTAGAATTACAATTTAAAACATAA
66 TAAATCCTAGAATAACAATTTAAAACATAA
553265 TAATTTTTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
101 13 0.15
102 18 0.21
103 15 0.18
104 39 0.46
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (103 bp):
TAAAAATTTTATATTAAATCCCAAATTATTAATTAAAAATAATAAAAATTAAAAATATTTTATAT
TAAATCCTAGAATAACAATTTAAAACATAAAAAATTTA
Found at i:553639 original size:22 final size:23
Alignment explanation
Indices: 553614--553672 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
553604 TTAGTCAAAA
553614 TCATATGTATATAT-AATTAT-AG
1 TCATATGTATAT-TCAATTATAAG
* *
553636 TCATATGTACATTCAGTTATAAG
1 TCATATGTATATTCAATTATAAG
553659 -CATATGTATATTCA
1 TCATATGTATATTCA
553673 TTTTTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 1 0.03
22 29 0.91
23 2 0.06
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.42
Consensus pattern (23 bp):
TCATATGTATATTCAATTATAAG
Found at i:553847 original size:55 final size:54
Alignment explanation
Indices: 553783--553888 Score: 153
Period size: 55 Copynumber: 1.9 Consensus size: 54
553773 TATTGTCTTC
553783 AAAACATATTTTATATTAAATCCTAGAATCA-TAATTTAAAAAATAATAAAAAATTT
1 AAAACATATTTTATATTAAAT-CTAGAATCACT-ATTT-AAAAATAATAAAAAATTT
* *
553839 AAAA-ATATTTTATATTAAATCTCGAATTACTATTTAAAAATAATAAAAAA
1 AAAACATATTTTATATTAAATCTAGAATCACTATTTAAAAATAATAAAAAA
553889 AATTAAAAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
53 15 0.32
54 11 0.23
55 17 0.36
56 4 0.09
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (54 bp):
AAAACATATTTTATATTAAATCTAGAATCACTATTTAAAAATAATAAAAAATTT
Found at i:554346 original size:52 final size:51
Alignment explanation
Indices: 554260--554433 Score: 181
Period size: 51 Copynumber: 3.4 Consensus size: 51
554250 TAAAAAATTC
* **
554260 ATTATTTTTCAAATTGTAATTTTGAGATTTAATATAATATATTTTAAATTTTT
1 ATTATTTTTTAAATAATAA-TTTGAGATTTAATATAA-ATATTTTAAATTTTT
* * *
554313 ATTATTTTTTAAATAATAATTTGAGATTTAATATGAAATTTTTTTATTTTTT
1 ATTATTTTTTAAATAATAATTTGAGATTTAATAT-AAATATTTTAAATTTTT
* * * * *
554365 A-TAATTTTTAAATAGTAATTTAAGATTCAATATAAAATATTTTGAATTTTT
1 ATTATTTTTTAAATAATAATTTGAGATTTAATAT-AAATATTTTAAATTTTT
*
554416 -TAATATTTTTAAATAATA
1 ATTAT-TTTTTAAATAATA
554434 TTTTTAATAT
Statistics
Matches: 101, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
51 43 0.43
52 40 0.40
53 18 0.18
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (51 bp):
ATTATTTTTTAAATAATAATTTGAGATTTAATATAAATATTTTAAATTTTT
Found at i:554384 original size:51 final size:50
Alignment explanation
Indices: 554263--554430 Score: 176
Period size: 52 Copynumber: 3.2 Consensus size: 50
554253 AAAATTCATT
* * *
554263 ATTTTTCAAATTGTAATTTTGAGATTTAATATAATATATTTTAAATTTTTATTA
1 ATTTTT-AAATAGTAA-TTTGAGATTTAATATAA-ATTTTTTAATTTTTTA-TA
* * *
554317 TTTTTTAAATAATAATTTGAGATTTAATATGAAATTTTTTTATTTTTTATA
1 ATTTTTAAATAGTAATTTGAGATTTAATAT-AAATTTTTTAATTTTTTATA
* * *
554368 ATTTTTAAATAGTAATTTAAGATTCAATATAAAATATTTTGAATTTTTTA-A
1 ATTTTTAAATAGTAATTTGAGATTTAATAT-AAAT-TTTTTAATTTTTTATA
554419 TATTTTTAAATA
1 -ATTTTTAAATA
554431 ATATTTTTAA
Statistics
Matches: 98, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
51 33 0.34
52 51 0.52
53 9 0.09
54 5 0.05
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (50 bp):
ATTTTTAAATAGTAATTTGAGATTTAATATAAATTTTTTAATTTTTTATA
Found at i:554442 original size:12 final size:13
Alignment explanation
Indices: 554416--554440 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
554406 TTGAATTTTT
554416 TAATATTTTTAAA
1 TAATATTTTTAAA
554429 TAATATTTTTAA
1 TAATATTTTTAA
554441 TATATCTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATATTTTTAAA
Found at i:554559 original size:18 final size:18
Alignment explanation
Indices: 554538--554572 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
554528 ATTTTAATAT
554538 ATATATATTTATTATTTG
1 ATATATATTTATTATTTG
*
554556 ATATATATTTGTTATTT
1 ATATATATTTATTATTT
554573 TTTACATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (18 bp):
ATATATATTTATTATTTG
Found at i:554795 original size:43 final size:41
Alignment explanation
Indices: 554716--554818 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 41
554706 AAAATGCTTT
** *
554716 TAAATTTTTATTATTTTTAAATTGTAATTTAAGATTTAATA
1 TAAATTTTTATTATTTTTAAATAATAATTCAAGATTTAATA
** *
554757 TAAATTTTTAATTAATTTTTAAATAATAATTCGTGATTTAGTA
1 TAAATTTTT-ATT-ATTTTTAAATAATAATTCAAGATTTAATA
554800 TAAAATATTTT-TTATTTTT
1 T-AAAT-TTTTATTATTTTT
554819 TGTATCTAGC
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
41 9 0.17
42 9 0.17
43 26 0.50
44 4 0.08
45 4 0.08
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.56
Consensus pattern (41 bp):
TAAATTTTTATTATTTTTAAATAATAATTCAAGATTTAATA
Found at i:559747 original size:10 final size:10
Alignment explanation
Indices: 559720--559758 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
559710 GATGAAATGG
559720 GAAAAAG-AA
1 GAAAAAGAAA
*
559729 GAGAAAGAAA
1 GAAAAAGAAA
*
559739 GTAAAAGAAA
1 GAAAAAGAAA
559749 GAAAAAGAAA
1 GAAAAAGAAA
559759 ATGAAAGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
9 6 0.24
10 19 0.76
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:559765 original size:20 final size:20
Alignment explanation
Indices: 559722--559772 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
559712 TGAAATGGGA
* *
559722 AAAAG-AAGAGAAAGAAAGT
1 AAAAGAAAGAAAAAGAAAAT
559741 AAAAGAAAGAAAAAGAAAAT
1 AAAAGAAAGAAAAAGAAAAT
*
559761 GAAAGGAAAGAA
1 -AAAAGAAAGAA
559773 GGAAGGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 5 0.19
20 12 0.44
21 10 0.37
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.04
Consensus pattern (20 bp):
AAAAGAAAGAAAAAGAAAAT
Found at i:560838 original size:19 final size:18
Alignment explanation
Indices: 560805--560851 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
560795 TTTCCCCCCT
*
560805 CCCACCCCCCACCCTTCA
1 CCCACCCCCCACCCTCCA
*
560823 CCCACCCCCACCCCCTCCA
1 CCCACCCCC-CACCCTCCA
*
560842 CCCTCCCCCC
1 CCCACCCCCC
560852 CTTACCCCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.13, C:0.79, G:0.00, T:0.09
Consensus pattern (18 bp):
CCCACCCCCCACCCTCCA
Found at i:561144 original size:41 final size:41
Alignment explanation
Indices: 561106--561192 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
561096 CCCCCCCCTC
561106 CCCCGTCACCCCCCCCCCCCCTCCCCACCCCACTCCCCCCA
1 CCCCGTCACCCCCCCCCCCCCTCCCCACCCCACTCCCCCCA
* * ** * * *
561147 CCCCTTCACTCCCCCTTCCCCTCCCCCCCCCCCTTCCTCCCA
1 CCCCGTCACCCCCCCCCCCCCTCCCCACCCCAC-TCCCCCCA
561189 CCCC
1 CCCC
561193 CCCGCTCCCC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 27 0.71
42 11 0.29
ACGTcount: A:0.07, C:0.78, G:0.01, T:0.14
Consensus pattern (41 bp):
CCCCGTCACCCCCCCCCCCCCTCCCCACCCCACTCCCCCCA
Found at i:561145 original size:57 final size:57
Alignment explanation
Indices: 561042--561192 Score: 139
Period size: 57 Copynumber: 2.6 Consensus size: 57
561032 TATTCCTACT
* ***
561042 CCCTCCCCACCTCCCCCCCCCCACCCCTTCCCC-CCCCTTCACCCCCCTTTCCTTC-CCCC
1 CCCT-CCC-CCTCCCCCCCCCC-CCCC-TCCCCACCCCTACACCCCCCACCCCTTCACCCC
* *
561101 CCCTCCCCCGTCACCCCCCCCCCCCCTCCCCACCCC-ACTCCCCCCACCCCTTCACTCC
1 CCCTCCCCC-TC-CCCCCCCCCCCCCTCCCCACCCCTACACCCCCCACCCCTTCACCCC
* *
561159 CCCTTCCCCTCCCCCCCCCCCTTCCT-CCCACCCC
1 CCCTCCCCCTCCCCCCCCCCC-CCCTCCCCACCCC
561193 CCCGCTCCCC
Statistics
Matches: 79, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
56 18 0.23
57 24 0.30
58 24 0.30
59 13 0.16
ACGTcount: A:0.06, C:0.77, G:0.01, T:0.16
Consensus pattern (57 bp):
CCCTCCCCCTCCCCCCCCCCCCCCTCCCCACCCCTACACCCCCCACCCCTTCACCCC
Found at i:561201 original size:42 final size:41
Alignment explanation
Indices: 561123--561203 Score: 99
Period size: 42 Copynumber: 2.0 Consensus size: 41
561113 ACCCCCCCCC
**
561123 CCCCTCCCCACCCCACTCCCCCCACCCCTTCACTCCCCCTT
1 CCCCTCCCCACCCCACTCCCCCCACCCCCCCACTCCCCCTT
* * * *
561164 CCCCTCCCCCCCCCCCTTCCTCCCACCCCCCCGCTCCCCC
1 CCCCTCCCCACCCCAC-TCCCCCCACCCCCCCACTCCCCC
561204 CACCCTCCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 14 0.42
42 19 0.58
ACGTcount: A:0.06, C:0.78, G:0.01, T:0.15
Consensus pattern (41 bp):
CCCCTCCCCACCCCACTCCCCCCACCCCCCCACTCCCCCTT
Found at i:561205 original size:17 final size:18
Alignment explanation
Indices: 561157--561208 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
561147 CCCCTTCACT
561157 CCCCCTTCCCCTCC-CCCC
1 CCCCCTTCCCC-CCACCCC
*
561175 CCCCCTTCCTCCCACCCC
1 CCCCCTTCCCCCCACCCC
*
561193 CCCGC-TCCCCCCACCC
1 CCCCCTTCCCCCCACCC
561209 TCCCACCACA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 12 0.40
18 18 0.60
ACGTcount: A:0.04, C:0.81, G:0.02, T:0.13
Consensus pattern (18 bp):
CCCCCTTCCCCCCACCCC
Found at i:561213 original size:8 final size:8
Alignment explanation
Indices: 561097--561215 Score: 53
Period size: 8 Copynumber: 14.2 Consensus size: 8
561087 CCTTTCCTTC
*
561097 CCCCCCCT
1 CCCCCCCA
*
561105 CCCCCGTCA
1 CCCCC-CCA
561114 CCCCCCC-
1 CCCCCCCA
561121 CCCCCCTC-
1 CCCCCC-CA
561129 CCCACCCCA
1 CCC-CCCCA
561138 CTCCCCCCA
1 C-CCCCCCA
**
561147 CCCCTTCA
1 CCCCCCCA
**
561155 CTCCCCCTT
1 C-CCCCCCA
*
561164 CCCCTCCCC
1 CCCC-CCCA
*
561173 CCCCCCCT
1 CCCCCCCA
* *
561181 TCCTCCCA
1 CCCCCCCA
*
561189 CCCCCCCG
1 CCCCCCCA
561197 CTCCCCCCA
1 C-CCCCCCA
*
561206 CCCTCCCA
1 CCCCCCCA
561214 CC
1 CC
561216 ACACTTTCCT
Statistics
Matches: 83, Mismatches: 20, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
7 6 0.07
8 42 0.51
9 33 0.40
10 2 0.02
ACGTcount: A:0.07, C:0.79, G:0.02, T:0.13
Consensus pattern (8 bp):
CCCCCCCA
Found at i:561327 original size:18 final size:17
Alignment explanation
Indices: 561290--561349 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 17
561280 TCCCCTTCAA
*
561290 CCCCCCCCCTTCACCTCCC
1 CCCCCCCCCCT-A-CTCCC
561309 CCCCACCCCCCT-CTCCC
1 CCCC-CCCCCCTACTCCC
561326 CCCCCCCCCCTACCTCCC
1 CCCCCCCCCCTA-CTCCC
561344 CCCCCC
1 CCCCCC
561350 TATTACCCAC
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
16 7 0.19
17 9 0.24
18 11 0.30
19 4 0.11
20 6 0.16
ACGTcount: A:0.05, C:0.83, G:0.00, T:0.12
Consensus pattern (17 bp):
CCCCCCCCCCTACTCCC
Found at i:561329 original size:20 final size:19
Alignment explanation
Indices: 561290--561957 Score: 94
Period size: 20 Copynumber: 33.2 Consensus size: 19
561280 TCCCCTTCAA
561290 CCCCCCCCCT-TCACCTCCCC
1 CCCCCCCCCTCTC-CC-CCCC
561310 CCCACCCCCCTCTCCCCCCC
1 CCC-CCCCCCTCTCCCCCCC
*
561330 CCCCCCTACCTC-CCCCCCC
1 CCCCCC-CCCTCTCCCCCCC
*
561349 CTATTACCCACCCCTC-CCCCCCC
1 C-----CCCCCCCCTCTCCCCCCC
* *
561372 CCCCCCCACCAACACCCCCCC
1 CCCCCCC-CC-TCTCCCCCCC
* ***
561393 CCCCCACCC-C-CCCCTTT
1 CCCCCCCCCTCTCCCCCCC
*
561410 CCCCTCCCC-C-CCCCCCC
1 CCCCCCCCCTCTCCCCCCC
* * * **
561427 CCCCACCCTTCACCTTTCCC
1 CCCCCCCCCTCTCC-CCCCC
** * * *
561447 TTCCCCCCCTATCACCACC
1 CCCCCCCCCTCTCCCCCCC
* *
561466 CCTCCCCCTTCTTACTCCCCCC
1 CCCCCCCCCTC-T-C-CCCCCC
561488 CCCCCCCCC-C-CCCCCCC
1 CCCCCCCCCTCTCCCCCCC
* *
561505 CCCACCCCCT-TCCCACCTTACA
1 CCCCCCCCCTCTCCC-CC---CC
** * *
561527 CGTCCCTCTTCTCCCCCCACC
1 CCCCCCCCCTCT-CCCCC-CC
*
561548 CCCCCCCCCTTCCCCCCCCC
1 CCCCCCCCC-TCTCCCCCCC
*
561568 CCCCCCCCCTTCCACCCCACACCCC
1 CCCCCCCCC-T---CTCC-C-CCCC
*
561593 CCCCCCCCCTTTCCCCCACC
1 CCCCCCCCCTCTCCCCC-CC
** *
561613 CCCCCCCCC-C-AACCCTC
1 CCCCCCCCCTCTCCCCCCC
* *
561630 CCCCCCACC-CTACCCCCC
1 CCCCCCCCCTCTCCCCCCC
*
561648 CCCCCCCTCTAC-CCCCCCC
1 CCCCCCCCCT-CTCCCCCCC
561667 CTTCAACCCCCCACGTTTCTCCCCCCC
1 C--C--CCCCCC-C---TCTCCCCCCC
*
561694 CTACCACCCCCCTCAACCCCACCC
1 C--CC-CCCCCCTC-TCCCC-CCC
*
561718 CCCGTCCCCCC-CACCCCCCC
1 CCC--CCCCCCTCTCCCCCCC
* * *
561738 CCCCCACCCCCCAAACCCCCTCT
1 CCCCC-CCCCTC--TCCCCC-CC
*
561761 CCCCCCCCCAC-CCCTTCCCC
1 CCCCCCCCCTCTCCC--CCCC
*
561781 CACCCCCCCTC-CCCCCCC
1 CCCCCCCCCTCTCCCCCCC
* * * *
561799 CTCACCTCCTCACCACCCCC
1 CCCCCCCCCTCTCC-CCCCC
561819 CCGACCCCCCC-C-CCCCCCAC
1 CC--CCCCCCCTCTCCCCCC-C
*
561839 CCTCACCGCCCTC-CCCCCCC
1 CC-C-CCCCCCTCTCCCCCCC
* *
561859 TCCCCCCACT-TCCCCCACC
1 CCCCCCCCCTCTCCCCC-CC
* *
561878 ACCCCCCCCAC-CCACCCCC
1 CCCCCCCCCTCTCC-CCCCC
*
561897 CCCATCCGCCCT-TCCATCCCCC
1 CCC--CCCCCCTCTCC--CCCCC
561919 CCCCCCCCC-C-CCCCCCC
1 CCCCCCCCCTCTCCCCCCC
561936 CCCCCCCCC-C-CCCCCCC
1 CCCCCCCCCTCTCCCCCCC
561953 ACCCC
1 -CCCC
561958 TGCCCTTCCC
Statistics
Matches: 486, Mismatches: 90, Indels: 146
0.67 0.12 0.20
Matches are distributed among these distances:
17 69 0.14
18 54 0.11
19 66 0.14
20 100 0.21
21 61 0.13
22 50 0.10
23 40 0.08
24 14 0.03
25 15 0.03
26 6 0.01
27 11 0.02
ACGTcount: A:0.09, C:0.79, G:0.01, T:0.11
Consensus pattern (19 bp):
CCCCCCCCCTCTCCCCCCC
Found at i:561368 original size:1 final size:1
Alignment explanation
Indices: 561359--561430 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
561349 CTATTACCCA
* * ** * * *** *
561359 CCCCTCCCCCCCCCCCCCCCACCAACACCCCCCCCCCCCACCCCCCCCTTTCCCCTCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
561424 CCCCCCC
1 CCCCCCC
561431 ACCCTTCACC
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.07, C:0.86, G:0.00, T:0.07
Consensus pattern (1 bp):
C
Found at i:561435 original size:28 final size:28
Alignment explanation
Indices: 561358--561436 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 28
561348 CCTATTACCC
*
561358 ACCCCT-CCCCCCCCCCCCCCCA-CC-A
1 ACCCCTCCCCCCCCCCCCCCCCACCCTT
* *
561383 ACACC-CCCCCCCCCCACCCCC-CCCTT
1 ACCCCTCCCCCCCCCCCCCCCCACCCTT
*
561409 TCCCCTCCCCCCCCCCCCCCCCACCCTT
1 ACCCCTCCCCCCCCCCCCCCCCACCCTT
561437 CACCTTTCCC
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
25 20 0.47
26 3 0.07
27 15 0.35
28 5 0.12
ACGTcount: A:0.09, C:0.82, G:0.00, T:0.09
Consensus pattern (28 bp):
ACCCCTCCCCCCCCCCCCCCCCACCCTT
Found at i:561486 original size:1 final size:1
Alignment explanation
Indices: 561482--561513 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
561472 CCTTCTTACT
*
561482 CCCCCCCCCCCCCCCCCCCCCCCCCCACCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
561514 TTCCCACCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.03, C:0.97, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:561515 original size:67 final size:68
Alignment explanation
Indices: 561409--561639 Score: 168
Period size: 65 Copynumber: 3.5 Consensus size: 68
561399 CCCCCCCCTT
* **
561409 TCCCCTCCCCCCCCCCCCCCCCACCCTTCACCTTTCCCTTCCCCCCCTATCACCACCCCTCCCCC
1 TCCCCACCCCCCCCCCCCCCCC-CCCCCCACC---CCCTTCCCCCCCTATCACCACCCCTCCCCC
561474 TTCTTAC
62 TTCTTAC
* * *
561481 TCCCC-CCCCCCCCCCCCCCCCCCCCCCACCCCCTT-CCCACCT-T-A-CA--CGTCCCTCTTC-
1 TCCCCACCCCCCCCCCCCCCCCCCCCCCACCCCCTTCCCCCCCTATCACCACCCCTCCCCCTTCT
561538 T-C
66 TAC
* * *
561540 CCCCCACCCCCCCCCCCTTCCCCCCCCCCCCCCCCCCTTCCACCCC-A-CACC-CCCC-CCCCC-
1 TCCCCA-CCCCCCCCCC--CCCCCCCCCCCCACCCCCTTCCCCCCCTATCACCACCCCTCCCCCT
* *
561600 CCTTTC
63 TCTTAC
561606 -CCCCACCCCCCCCCCCCAACCCTCCCCCCCACCC
1 TCCCCACCCCCCCCCCCC--CCC-CCCCCCCACCC
561640 TACCCCCCCC
Statistics
Matches: 131, Mismatches: 13, Indels: 37
0.72 0.07 0.20
Matches are distributed among these distances:
59 5 0.04
60 1 0.01
61 19 0.15
62 2 0.02
63 21 0.16
64 20 0.15
65 22 0.17
66 8 0.06
67 5 0.04
70 7 0.05
71 16 0.12
72 5 0.04
ACGTcount: A:0.08, C:0.77, G:0.00, T:0.15
Consensus pattern (68 bp):
TCCCCACCCCCCCCCCCCCCCCCCCCCCACCCCCTTCCCCCCCTATCACCACCCCTCCCCCTTCT
TAC
Found at i:561550 original size:1 final size:1
Alignment explanation
Indices: 561539--561957 Score: 109
Period size: 1 Copynumber: 419.0 Consensus size: 1
561529 TCCCTCTTCT
* ** ** * * * **
561539 CCCCCCACCCCCCCCCCCTTCCCCCCCCCCCCCCCCCCTTCCACCCCACACCCCCCCCCCCCCTT
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
* * ** * * ** * ** *
561604 TCCCCCACCCCCCCCCCCCAACCCTCCCCCCCACCCTACCCCCCCCCCCCCTCTACCCCCCCCCT
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
* ** * **** * ** * * ** * ** *
561669 TCAACCCCCCACGTTTCTCCCCCCCCTACCACCCCCCTCAACCCCACCCCCCGTCCCCCCCACCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
* *** * * * ** * *
561734 CCCCCCCCCACCCCCCAAACCCCCTCTCCCCCCCCCACCCCTTCCCCCACCCCCCCTCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
* * * * * * ** * * * * * *
561799 CTCACCTCCTCACCACCCCCCCGACCCCCCCCCCCCCCACCCTCACCGCCCTCCCCCCCCTCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
* ** * * * * ** * ** **
561864 CCACTTCCCCCACCACCCCCCCCACCCACCCCCCCCATCCGCCCTTCCATCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
*
561929 CCCCCCCCCCCCCCCCCCCCCCCCACCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
561958 TGCCCTTCCC
Statistics
Matches: 294, Mismatches: 124, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 294 1.00
ACGTcount: A:0.09, C:0.81, G:0.01, T:0.09
Consensus pattern (1 bp):
C
Found at i:561559 original size:22 final size:21
Alignment explanation
Indices: 561482--561952 Score: 156
Period size: 21 Copynumber: 21.5 Consensus size: 21
561472 CCTTCTTACT
* *
561482 CCCCCCCCCCC-CCCCCCCCC
1 CCCCCCCCCCCTTCCCCCCCA
**
561502 CCCCCCACCCCCTTCCCACCTTA
1 CCCCCC-CCCCCTTCCC-CCCCA
* ** *
561525 -CACGTCCCTCTTCTCCCCCCA
1 CCCCCCCCCCCTTC-CCCCCCA
561546 CCCCCCCCCCCTTCCCCCCC-
1 CCCCCCCCCCCTTCCCCCCCA
561566 CCCCCCCCCCCTTCCACCCCACA
1 CCCCCCCCCCCTTCC-CCCC-CA
*
561589 CCCCCCCCCCCCCTTTCCCCCACCC
1 --CCCCCCCCCCC-TTCCCCC-CCA
*
561614 CCCCCCCCCAACCCTCCCCCCCA
1 CCCCCCCCC--CCTTCCCCCCCA
** *
561637 CCCTACCCCCC--CCCCCCCT
1 CCCCCCCCCCCTTCCCCCCCA
*
561656 CTACCCCCCCCCTTCAACCCCCCA
1 C-CCCCCCCCCCTTC--CCCCCCA
**
561680 CGTTTCTCCCCCCCCTACCACCCCCCTCAA
1 C----C-CCCCCCCC--CTTCCCCCC-C-A
* *
561710 CCCCACCCCCCGTCCCCCCCA
1 CCCCCCCCCCCTTCCCCCCCA
** *
561731 CCCCCCCCCCCCACCCCCCAA
1 CCCCCCCCCCCTTCCCCCCCA
* * *
561752 ACCCCCTCTCC--CCCCCCCA
1 CCCCCCCCCCCTTCCCCCCCA
** * *
561771 CCCCTTCCCCC-ACCCCCCCT
1 CCCCCCCCCCCTTCCCCCCCA
* * *
561791 CCCCCCCCCTCACCTCCTCACCA
1 CCCCCCCCC-C-CTTCCCCCCCA
**
561814 CCCCCCCGACCCCCCCCCCCCCCA
1 -CCCCCC--CCCCCTTCCCCCCCA
* *
561838 CCCTCACCGCCC-T-CCCCCC-
1 CCC-CCCCCCCCTTCCCCCCCA
* *
561857 CCTCCCCCCACTTCCCCCACCA
1 CCCCCCCCCCCTTCCCCC-CCA
**
561879 CCCCCCCCACCCACCCCCCCCA
1 CCCCCCCC-CCCTTCCCCCCCA
* * ** *
561901 TCCGCCCTTCCATCCCCCCC-
1 CCCCCCCCCCCTTCCCCCCCA
** *
561921 CCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCTTCCCCCCCA
561942 CCCCCCCCCCC
1 CCCCCCCCCCC
561953 ACCCCTGCCC
Statistics
Matches: 335, Mismatches: 75, Indels: 81
0.68 0.15 0.16
Matches are distributed among these distances:
18 5 0.01
19 24 0.07
20 66 0.20
21 77 0.23
22 39 0.12
23 42 0.13
24 29 0.09
25 25 0.07
26 9 0.03
27 1 0.00
28 13 0.04
29 1 0.00
30 4 0.01
ACGTcount: A:0.09, C:0.80, G:0.01, T:0.10
Consensus pattern (21 bp):
CCCCCCCCCCCTTCCCCCCCA
Found at i:561598 original size:48 final size:47
Alignment explanation
Indices: 561540--561952 Score: 179
Period size: 50 Copynumber: 8.3 Consensus size: 47
561530 CCCTCTTCTC
* *
561540 CCCCCACCCCCCCCCCCTTCCCCCCCCCCCCCCCC-CCTTCCACCCCA
1 CCCCC-CCCCCCCCCCCTTCCCCCCCCCCCCCCCCACCCTCCCCCCCA
* *
561587 CACCCCCCCCCCCCCTTTCCCCCACCCCCCCCCCCCAACCCTCCCCCCCA
1 CCCCCCCCCCCCCCCCTT-CCCC-CCCCCCCCCCCC-ACCCTCCCCCCCA
*
561637 CCCTACCCCCCCCCCCCCTCTACCCCCCCCCTTCAACCCCCCACGTTTCTCCCCCCCCTA
1 CCC--CCCCCCCCCCCCCT-T-CCCCCCCCC--C--CCCCCCAC---CCT-CCCCCCC-A
* ** * **
561697 CCACCCCCCTCAACCCC--ACCCCCCGTCCCCCCCACCC-CCCCCCC-
1 CC-CCCCCCCCCCCCCCTTCCCCCCCCCCCCCCCCACCCTCCCCCCCA
*** * * *
561741 CCACCCCCCAAACCCCCTCTCCCCCCCCCACCCCTTCC-CCCACCCCCCCT
1 CC-CCCCCCCCCCCCCCT-TCCCCCCCCC-CCCC-CCCACCCTCCCCCCCA
* * **
561791 CCCCCCCCCTCACCTCC-TCACCACCCCCCCGACCCC-CCC-CCCCCCCA
1 CCCCCCCCC-CCCCCCCTTC-CC-CCCCCCCCCCCCCACCCTCCCCCCCA
* * **
561838 CCCTCACCGCCCTCCCCCCCCT-CCCCCCACTTCCCCCACCAC-CCCCCCCA
1 CCC-C-CC-CCC-CCCCCCCTTCCCCCCCCCCCCCCCCACC-CTCCCCCCCA
*
561888 CCCACCCCCCCCATCCGCCCTTCCATCCCCCCCCCCCCC-CCC-CCCCCCC-
1 CCC-CCCCCCCC--CC-CCCTTCC-CCCCCCCCCCCCCCACCCTCCCCCCCA
561937 CCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCC
561953 ACCCCTGCCC
Statistics
Matches: 287, Mismatches: 41, Indels: 78
0.71 0.10 0.19
Matches are distributed among these distances:
44 14 0.05
45 3 0.01
46 21 0.07
47 26 0.09
48 48 0.17
49 32 0.11
50 59 0.21
51 12 0.04
52 28 0.10
53 6 0.02
54 1 0.00
55 8 0.03
56 6 0.02
58 2 0.01
59 17 0.06
60 3 0.01
61 1 0.00
ACGTcount: A:0.09, C:0.81, G:0.01, T:0.09
Consensus pattern (47 bp):
CCCCCCCCCCCCCCCCTTCCCCCCCCCCCCCCCCACCCTCCCCCCCA
Found at i:562111 original size:20 final size:20
Alignment explanation
Indices: 562086--562165 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
562076 AAGAGAAGAG
* * *
562086 AAAGAAAGTAAAGGAAATCA
1 AAAGAAAGAAAAAGAAAGCA
*
562106 AAAGAAAGAAAAAGTAAGCA
1 AAAGAAAGAAAAAGAAAGCA
* * *
562126 AAAGAAAAAGAAAAGACAGGA
1 AAAGAAAGA-AAAAGAAAGCA
*
562147 AATCAGAAGGAAAAAGAAA
1 AA--AGAAAGAAAAAGAAA
562166 AAAATTTTGT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 24 0.52
21 10 0.22
22 7 0.15
23 5 0.11
ACGTcount: A:0.69, C:0.05, G:0.21, T:0.05
Consensus pattern (20 bp):
AAAGAAAGAAAAAGAAAGCA
Found at i:563461 original size:21 final size:21
Alignment explanation
Indices: 563435--563475 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
563425 ATAGCCCATT
*
563435 GTATTGATACATGTCAAGATC
1 GTATTGATACATGACAAGATC
563456 GTATTGATACATGACAAGAT
1 GTATTGATACATGACAAGAT
563476 TATATGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (21 bp):
GTATTGATACATGACAAGATC
Found at i:681123 original size:50 final size:49
Alignment explanation
Indices: 680974--681126 Score: 129
Period size: 50 Copynumber: 3.1 Consensus size: 49
680964 GTTATTTAAA
* *
680974 AAATAAAAAAATTAAAAAGTGTATTTATATGTAAA--CTCGAA-TACTAATTT
1 AAATAAAAAAATTAAAAA-TATTTTTATAT-TAAATCCT-GAATTAC-AATTT
* * *
681024 AAAATAAAAAAATTTATAAATA-TTTTATA-TAAATCC-CAATATATTAATTT
1 -AAATAAAAAAA-TTAAAAATATTTTTATATTAAATCCTGAAT-TA-CAATTT
*
681074 AAATATAAAAATTAAAAATATTTTTATATTAAATCCTAGAATTACAATTT
1 AAATAAAAAAATTAAAAATATTTTTATATTAAATCCT-GAATTACAATTT
681124 AAA
1 AAA
681127 ACATATAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
48 14 0.17
49 17 0.20
50 29 0.35
51 14 0.17
52 9 0.11
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (49 bp):
AAATAAAAAAATTAAAAATATTTTTATATTAAATCCTGAATTACAATTT
Done.