Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold475
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: 1773841
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 3 of 12
Found at i:446523 original size:76 final size:75
Alignment explanation
Indices: 446300--446558 Score: 217
Period size: 76 Copynumber: 3.4 Consensus size: 75
446290 TTGTTTTGGT
* * * * * * *
446300 TGTTGGTAAAATTGTAAAAACAACATATTCCCCATTATGTTCTTCTTTTTCAAGCTG-CTATCAG
1 TGTTGATAAAATTTTAGAAATAACATATTCCCAATCATGTTCTTCTTTTTCAGGCTGTC-ATCAG
* ** *
446364 TTTGTTTTGGT
65 ATTGTTTCAGC
* * *
446375 TATTGATAAATATTTTAGAAATAACATATTCCCTATCATGTTCTTCTTTTTCAGGCTGTTATCAG
1 TGTTGATAAA-ATTTTAGAAATAACATATTCCCAATCATGTTCTTCTTTTTCAGGCTGTCATCAG
*
446440 CTTGTTTC-GCC
65 ATTGTTTCAG-C
* *
446451 TGTTGATGAAAATTTTAGAAATTACATATTCCCAATCATTTTCCTT-TTCTTT-A-GCTTGTCAT
1 TGTTGAT-AAAATTTTAGAAATAACATATTCCCAATCATGTT-CTTCTT-TTTCAGGC-TGTCAT
446513 CA-ATTAGTTTCAGC
62 CAGATT-GTTTCAGC
* *
446527 TGTTGGTAAAAATTTTAGAAA-CACATATTCCC
1 TGTTGAT-AAAATTTTAGAAATAACATATTCCC
446559 TATTGTGTGC
Statistics
Matches: 154, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
75 23 0.15
76 121 0.79
77 10 0.06
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.43
Consensus pattern (75 bp):
TGTTGATAAAATTTTAGAAATAACATATTCCCAATCATGTTCTTCTTTTTCAGGCTGTCATCAGA
TTGTTTCAGC
Found at i:447479 original size:32 final size:33
Alignment explanation
Indices: 447443--447506 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
447433 CTTTTCAAGG
*
447443 TGTATCGATACTATG-AACATGTATCAATACAA
1 TGTATCGATACTAAGCAACATGTATCAATACAA
* *
447475 TGTATCGATACTAAGCAATATGTATCGATACA
1 TGTATCGATACTAAGCAACATGTATCAATACA
447507 TCTAGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (33 bp):
TGTATCGATACTAAGCAACATGTATCAATACAA
Found at i:448357 original size:65 final size:65
Alignment explanation
Indices: 448249--449157 Score: 740
Period size: 65 Copynumber: 13.9 Consensus size: 65
448239 CTTTTTCCTA
* * * *
448249 TTGTTAACGTGATGGTTTCACCCTGGTCAACTT-TTTTTCGACTTAGGTTTCGCCCTGGTCACCC
1 TTGTTGACGTGATGGTTTCACCCTAGTCAACTTCTTTTT-GACTTAGGTTTCACCTTGGTCACCC
448313 T
65 T
* * * *
448314 TTGTTGACGTGATTGTTTCACTCTGGTCAACTTCTTTTTGACTTAGGTTTCACATTGGTCACCCT
1 TTGTTGACGTGATGGTTTCACCCTAGTCAACTTCTTTTTGACTTAGGTTTCACCTTGGTCACCC-
448379 T
65 T
* * * * * *
448380 TTATTGATGTGATGGTTTCACCCTAGTCAAGTTCTTTTCGATTTAGGTTTCACCTTGGTCTCCCT
1 TTGTTGACGTGATGGTTTCACCCTAGTCAACTTCTTTTTGACTTAGGTTTCACCTTGGTCACCCT
* * * * * * *
448445 TTATTGACGTGATGGTTTTATCCTAGTCAACTT-TTTTTCAACTTAGGTTTCGCCCTGGTCACCT
1 TTGTTGACGTGATGGTTTCACCCTAGTCAACTTCTTTTT-GACTTAGGTTTCACCTTGGTCACCC
448509 T
65 T
** * * ** * * * *
448510 TTGTTGATATGATTGTTTCACCCTATTCAACTTCTTTTCAACATAGGCTTCACCTTAGCCACCTC
1 TTGTTGACGTGATGGTTTCACCCTAGTCAACTTCTTTTTGACTTAGGTTTCACCTTGGTCACC-C
448575 T
65 T
* * * * ** **
448576 TTGTTGATGTGATGGTTTCGCCCAAGTCATCTT-TTTTCAACTTAGGTTTCACCTTCATCACCCT
1 TTGTTGACGTGATGGTTTCACCCTAGTCAACTTCTTTTTGACTTAGGTTTCACCTTGGTCACCCT
* * * * * *
448640 TTGTTGACGTGATGGTTTCACCCTAATCAAATT-TTTTTTACTTAGGTTTTATCC-TAGTCACTT
1 TTGTTGACGTGATGGTTTCACCCTAGTCAACTTCTTTTTGACTTAGGTTTCA-CCTTGGTCAC-C
*
448703 TT
64 CT
* * * * * * * ** * *
448705 TTGTTGACGTAATAGATTT-GCCTTGGTTAACTTCTTTTTGACTTAAGTTTTGCCCTAGTCACCC
1 TTGTTGACGTGAT-GGTTTCACCCTAGTCAACTTCTTTTTGACTTAGGTTTCACCTTGGTCACCC
*
448769 C
65 T
* *
448770 TTGTTGACGTGATGGTTTTC-CCCT-GATCAATTTCTTTTCGACTTAGGTTTCACCTTGGTCACC
1 TTGTTGACGTGATGG-TTTCACCCTAG-TCAACTTCTTTTTGACTTAGGTTTCACCTTGGTCACC
448833 CT
64 CT
* * **
448835 TTGTTGACGTGATGGTTTCACCCTAGTCAACTTCCTTTTGACATAGGTTTTGCCTTGGTCACCCT
1 TTGTTGACGTGATGGTTTCACCCTAGTCAACTTCTTTTTGACTTAGGTTTCACCTTGGTCACCCT
* * ** * * * * *
448900 TTGTTGACATAATGGTTTTGCCCTGGTTAACTTCTTTTCGACTTAGGTTTCACCCTAGTCACCCT
1 TTGTTGACGTGATGGTTTCACCCTAGTCAACTTCTTTTTGACTTAGGTTTCACCTTGGTCACCCT
* * * * * *
448965 TGGTTGACATGATGGTTTTGCTTTGCTCTGGT-AACTT-TTTTTCGACGTAGGTTTCACCTTGGT
1 TTGTTGACGTGATGG-TTT-C---ACCCTAGTCAACTTCTTTTT-GACTTAGGTTTCACCTTGGT
*
449028 TACCCT
60 CACCCT
** * *** * *
449034 TTGTTGACGTGATGGTTTTGCCCTAGTCAACTTCTTTTCGACTTAGGTTTCACCCCAGCCACCTT
1 TTGTTGACGTGATGGTTTCACCCTAGTCAACTTCTTTTTGACTTAGGTTTCACCTTGGTCACCCT
* * * * * * * **
449099 TTATTGATGTGATGATTTCGCCTTGGTCAATTTCTTTTCAACTTAGGTTTCACCTTGGT
1 TTGTTGACGTGATGGTTTCACCCTAGTCAACTTCTTTTTGACTTAGGTTTCACCTTGGT
449158 TAACTTCCTT
Statistics
Matches: 676, Mismatches: 145, Indels: 46
0.78 0.17 0.05
Matches are distributed among these distances:
64 65 0.10
65 431 0.64
66 126 0.19
68 7 0.01
69 40 0.06
70 7 0.01
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (65 bp):
TTGTTGACGTGATGGTTTCACCCTAGTCAACTTCTTTTTGACTTAGGTTTCACCTTGGTCACCCT
Found at i:448739 original size:195 final size:194
Alignment explanation
Indices: 448249--449154 Score: 858
Period size: 195 Copynumber: 4.6 Consensus size: 194
448239 CTTTTTCCTA
* * * *
448249 TTGTTAACGTGATGGTTTCACCCTGGTCAACTTTTTTTCGACTTAGGTTTCGCCCTGGTCACCCT
1 TTGTTGACGTGATGGTTTCACCCTAGTCAACTTTTTTT-GACTTAGGTTTCACCCTGGTCACCTT
* * * *
448314 TTGTTGACGTGATTGTTT-CACTCTGGTCAACTTCTTTTTGACTTAGGTTTCACATTGGTCACCC
65 TTGTTGACGTGATTGTTTGC-CT-TGGTTAACTTCTTTTCGACTTAGGTTTCACCTTAGTCACCC
* * * * * *
448378 TTTTATTGATGTGATGG-TTTCACCCTAGTCAAGTTCTTTTCGATTTAGGTTTCACCTTGGTCTC
128 -TTTGTTGACGTGATGGTTTTCGCCCTAGTCAACTTCTTTTCGACTTAGGTTTCACCTTGGTCAC
448442 CCT
192 CCT
* * * * *
448445 TTATTGACGTGATGGTTTTATCCTAGTCAACTTTTTTTCAACTTAGGTTTCGCCCTGGTCACCTT
1 TTGTTGACGTGATGGTTTCACCCTAGTCAACTTTTTTT-GACTTAGGTTTCACCCTGGTCACCTT
** * * * * * * *
448510 TTGTTGATATGATTGTTTCACCCT-ATTCAACTTCTTTTCAACATAGGCTTCACCTTAGCCACCT
65 TTGTTGACGTGATTGTTT-GCCTTGGTT-AACTTCTTTTCGACTTAGGTTTCACCTTAGTCACC-
* * * * **
448574 CTTTGTTGATGTGATGG-TTTCGCCCAAGTCATCTT-TTTTCAACTTAGGTTTCACCTTCATCAC
127 CTTTGTTGACGTGATGGTTTTCGCCCTAGTCAACTTCTTTTCGACTTAGGTTTCACCTTGGTCAC
448637 CCT
192 CCT
* * * * * * *
448640 TTGTTGACGTGATGGTTTCACCCTAATCAAATTTTTTTTACTTAGGTTTTATCCTAGTCACTTTT
1 TTGTTGACGTGATGGTTTCACCCTAGTCAACTTTTTTTGACTTAGGTTTCACCCTGGTCAC-CTT
* * * * ** * *
448705 TTGTTGACGTAATAGATTTGCCTTGGTTAACTTCTTTTTGACTTAAGTTTTGCCCTAGTCACCCC
65 TTGTTGACGTGATTG-TTTGCCTTGGTTAACTTCTTTTCGACTTAGGTTTCACCTTAGTCACCCT
*
448770 TTGTTGACGTGATGGTTTTC-CCCT-GATCAATTTCTTTTCGACTTAGGTTTCACCTTGGTCACC
129 TTGTTGACGTGATGGTTTTCGCCCTAG-TCAACTTCTTTTCGACTTAGGTTTCACCTTGGTCACC
448833 CT
193 CT
* * ** * *
448835 TTGTTGACGTGATGGTTTCACCCTAGTCAACTTCCTTTTGACATAGGTTTTGCCTTGGTCACCCT
1 TTGTTGACGTGATGGTTTCACCCTAGTCAACTT-TTTTTGACTTAGGTTTCACCCTGGTCACCTT
* * * * *
448900 TTGTTGACATAATGGTTTTGCCCTGGTTAACTTCTTTTCGACTTAGGTTTCACCCTAGTCACCCT
65 TTGTTGACGTGATTG-TTTGCCTTGGTTAACTTCTTTTCGACTTAGGTTTCACCTTAGTCACCCT
* * * * * * *
448965 TGGTTGACATGATGGTTTTGCTTTGCTCTGGT-AACTTTTTTTCGACGTAGGTTTCACCTTGGTT
129 TTGTTGACGTGATGGTTTT-C---GCCCTAGTCAACTTCTTTTCGACTTAGGTTTCACCTTGGTC
449029 ACCCT
190 ACCCT
** * ** *
449034 TTGTTGACGTGATGGTTTTGCCCTAGTCAACTTCTTTTCGACTTAGGTTTCACCCCAGCCACCTT
1 TTGTTGACGTGATGGTTTCACCCTAGTCAACTT-TTTTTGACTTAGGTTTCACCCTGGTCACCTT
* * * * *
449099 TTATTGATGTGA-TGATTTCGCCTTGGTCAATTTCTTTTCAACTTAGGTTTCACCTT
65 TTGTTGACGTGATTG-TTT-GCCTTGGTTAACTTCTTTTCGACTTAGGTTTCACCTT
449155 GGTTAACTTC
Statistics
Matches: 578, Mismatches: 114, Indels: 33
0.80 0.16 0.05
Matches are distributed among these distances:
193 1 0.00
194 41 0.07
195 239 0.41
196 159 0.28
197 2 0.00
198 5 0.01
199 126 0.22
200 4 0.01
201 1 0.00
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.43
Consensus pattern (194 bp):
TTGTTGACGTGATGGTTTCACCCTAGTCAACTTTTTTTGACTTAGGTTTCACCCTGGTCACCTTT
TGTTGACGTGATTGTTTGCCTTGGTTAACTTCTTTTCGACTTAGGTTTCACCTTAGTCACCCTTT
GTTGACGTGATGGTTTTCGCCCTAGTCAACTTCTTTTCGACTTAGGTTTCACCTTGGTCACCCT
Found at i:448920 original size:33 final size:32
Alignment explanation
Indices: 448825--448985 Score: 98
Period size: 33 Copynumber: 4.9 Consensus size: 32
448815 GGTTTCACCT
* **
448825 TGGTCACCCTTTGTTGACGTGATGGTTTCACCC
1 TGGTCACCCTTTGTTGACAT-ATGGTTTTGCCC
* *
448858 TAGTCAACTTCC-TT-TTGACATA-GGTTTTGCCT
1 TGGTC-AC--CCTTTGTTGACATATGGTTTTGCCC
448890 TGGTCACCCTTTGTTGACATAATGGTTTTGCCC
1 TGGTCACCCTTTGTTGACAT-ATGGTTTTGCCC
* * * * **
448923 TGGTTAACTTCTTT-TCGACTTA-GGTTTCACCC
1 TGG-TCAC-CCTTTGTTGACATATGGTTTTGCCC
* *
448955 TAGTCACCCTTGGTTGACATGATGGTTTTGC
1 TGGTCACCCTTTGTTGACAT-ATGGTTTTGC
448986 TTTGCTCTGG
Statistics
Matches: 95, Mismatches: 21, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
29 2 0.02
30 5 0.05
31 17 0.18
32 23 0.24
33 24 0.25
34 16 0.17
35 6 0.06
36 2 0.02
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (32 bp):
TGGTCACCCTTTGTTGACATATGGTTTTGCCC
Found at i:449155 original size:32 final size:32
Alignment explanation
Indices: 449114--449191 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
449104 GATGTGATGA
* *
449114 TTTCGCCTTGGTCAA-TTTCTTTTCAACTTAGG
1 TTTCACCTTGGTCAACTTCCTTTT-AACTTAGG
* *
449146 TTTCACCTTGGTTAACTTCCTTTTGACTTAGG
1 TTTCACCTTGGTCAACTTCCTTTTAACTTAGG
* *
449178 TTTCATCTTAGTCA
1 TTTCACCTTGGTCA
449192 TTTTTTCATT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
32 31 0.82
33 7 0.18
ACGTcount: A:0.17, C:0.22, G:0.14, T:0.47
Consensus pattern (32 bp):
TTTCACCTTGGTCAACTTCCTTTTAACTTAGG
Found at i:452519 original size:20 final size:20
Alignment explanation
Indices: 452493--452547 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
452483 AAAAAGACAG
* *
452493 AATGTATCAATACATTCATA
1 AATGTATCGATACATTCAAA
* *
452513 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
452533 AATGTATCGATACAT
1 AATGTATCGATACAT
452548 CTGGGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:452528 original size:51 final size:50
Alignment explanation
Indices: 452391--452528 Score: 177
Period size: 51 Copynumber: 2.7 Consensus size: 50
452381 ATTTTAACTA
* * *
452391 AATGTATCGATACATTATTCAATGTATCGATACATCTGGGTAAGAAGACAG
1 AATGTATCGATACATTATAC-ATGTATCGATACATTTGGGTAAAAAGACAG
* * * *
452442 AATGTATTGATACATTGAAAAATATATCGATACATTTGGGTAAAAAGACAG
1 AATGTATCGATACATT-ATACATGTATCGATACATTTGGGTAAAAAGACAG
*
452493 AATGTATCAATACATTCATACATGTATCGATACATT
1 AATGTATCGATACATT-ATACATGTATCGATACATT
452529 GAAAAATGTA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
51 72 0.99
52 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (50 bp):
AATGTATCGATACATTATACATGTATCGATACATTTGGGTAAAAAGACAG
Found at i:453297 original size:45 final size:46
Alignment explanation
Indices: 453173--453297 Score: 153
Period size: 49 Copynumber: 2.7 Consensus size: 46
453163 AAGATGAGAG
* *
453173 AAGTGCCAACGTGCTAATTCAAGGCCAACGACATTGGGCTAAGGGAA
1 AAGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTAA-GGAA
* *
453220 AAGTGGACCATTGTGCTGATTCAAGGCCAACGACATTGGGCTAA-TAA
1 AAGT-G-CCAATGTGCTGATTCAAGGCCAACGACATTGGGCTAAGGAA
* * *
453267 ACGTGCCAATATGCTGATTCAATGCCAACGA
1 AAGTGCCAATGTGCTGATTCAAGGCCAACGA
453298 TATCAGACTT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
45 23 0.34
46 1 0.01
47 9 0.13
48 1 0.01
49 34 0.50
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.21
Consensus pattern (46 bp):
AAGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTAAGGAA
Found at i:453425 original size:32 final size:31
Alignment explanation
Indices: 453375--453563 Score: 107
Period size: 28 Copynumber: 6.4 Consensus size: 31
453365 TTTTTTAAAA
* * *
453375 AAAAAGGTGCCACTAACTTGTGTGGGCTTTG
1 AAAAGGGTACCACCAACTTGTGTGGGCTTTG
*
453406 AAAAGAGTTACCACCAACTTGTGTGGGCTTTG
1 AAAAG-GGTACCACCAACTTGTGTGGGCTTTG
* *
453438 -AAAGGGTGCCACCGAC-T-TGTGGGCTTTG
1 AAAAGGGTACCACCAACTTGTGTGGGCTTTG
*** *
453466 -AAAGGGTATGCCATTGAC-T-TGTGAGCTTTG
1 AAAAGGGTA--CCACCAACTTGTGTGGGCTTTG
* **
453496 -AAAGGGTGCCACTGAC-T-TGTGGGCTTTG
1 AAAAGGGTACCACCAACTTGTGTGGGCTTTG
* **
453524 -AAGGGGTACCACTGAC-T-TGTGGGCTTTG
1 AAAAGGGTACCACCAACTTGTGTGGGCTTTG
*
453552 -AAAGGGTGCCAC
1 AAAAGGGTACCAC
453564 TGACTTATAG
Statistics
Matches: 137, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
28 72 0.53
29 1 0.01
30 33 0.24
31 8 0.06
32 23 0.17
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.28
Consensus pattern (31 bp):
AAAAGGGTACCACCAACTTGTGTGGGCTTTG
Found at i:453466 original size:28 final size:28
Alignment explanation
Indices: 453427--453922 Score: 609
Period size: 28 Copynumber: 17.5 Consensus size: 28
453417 CACCAACTTG
*
453427 TGTGGGCTTTGAAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
453455 TGTGGGCTTTGAAAGGGTATGCCATTGACT
1 TGTGGGCTTTGAAAGGG--TGCCACTGACT
*
453485 TGTGAGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
453513 TGTGGGCTTTGAAGGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
453541 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
453569 TATAGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
453597 TATGGGCTCTGGAAGGGTGCCATTGATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
* * *
453626 GTGTGGGCTTTGAAAAGGTATGCCATTAACT
1 -TGTGGGCTTTG-AAAGG-GTGCCACTGACT
453657 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
453685 TGTGGGCTTTG-AAGGGATGCCAATGACT
1 TGTGGGCTTTGAAAGGG-TGCCACTGACT
* *
453713 TGTGGTCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GGTGCCACTGACT
*
453742 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
453770 TGTGAGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
453798 AGTGGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
453826 TATGAGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
453854 TGTGAGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
453882 TGTGGGCTTTGAAAGGATGCCATTGACC
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
453910 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
453923 GAGATGAACG
Statistics
Matches: 412, Mismatches: 46, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
27 5 0.01
28 316 0.77
29 32 0.08
30 46 0.11
31 5 0.01
32 8 0.02
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:455231 original size:24 final size:23
Alignment explanation
Indices: 455171--455232 Score: 99
Period size: 22 Copynumber: 2.7 Consensus size: 23
455161 TCTAGACCCC
455171 TTTTTTGTTTTTTTATTTTTGGTA
1 TTTTTTGTTTTTTT-TTTTTGGTA
*
455195 TTTTTTG-TTTTTTTTCTTGGTA
1 TTTTTTGTTTTTTTTTTTTGGTA
455217 TTTTTTGTTTTTTTTT
1 TTTTTTGTTTTTTTTT
455233 GTACGAAGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
22 15 0.42
23 14 0.39
24 7 0.19
ACGTcount: A:0.05, C:0.02, G:0.11, T:0.82
Consensus pattern (23 bp):
TTTTTTGTTTTTTTTTTTTGGTA
Found at i:468535 original size:14 final size:15
Alignment explanation
Indices: 468516--468544 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
468506 GGGAATGGAC
468516 TTTTGTTGA-GTTTT
1 TTTTGTTGATGTTTT
468530 TTTTGTTGATGTTTT
1 TTTTGTTGATGTTTT
468545 GCTAAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.00, G:0.21, T:0.72
Consensus pattern (15 bp):
TTTTGTTGATGTTTT
Found at i:469053 original size:20 final size:20
Alignment explanation
Indices: 469027--469081 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
469017 CAGAATGTAG
* *
469027 AATGTATCGATACATT-CAT
1 AATGTATCAATACATTGAAT
469046 ACATGTATCAATACATTGAAT
1 A-ATGTATCAATACATTGAAT
469067 AATGTATCAATACAT
1 AATGTATCAATACAT
469082 CTGGGTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 1 0.03
20 28 0.88
21 3 0.09
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.35
Consensus pattern (20 bp):
AATGTATCAATACATTGAAT
Found at i:469122 original size:19 final size:20
Alignment explanation
Indices: 469096--469151 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
469086 GTAAAAGGAC
*
469096 AAAATGTATCGATACATT-C
1 AAAATGTATCGATACATTAA
*
469115 ATAATGTATCGATACATTAA
1 AAAATGTATCGATACATTAA
469135 AAAATGTATCGATACAT
1 AAAATGTATCGATACAT
469152 CTAGGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (20 bp):
AAAATGTATCGATACATTAA
Found at i:469142 original size:70 final size:71
Alignment explanation
Indices: 469027--469161 Score: 218
Period size: 70 Copynumber: 1.9 Consensus size: 71
469017 CAGAATGTAG
* * *
469027 AATGTATCGATACATTCATACATGTATCAATACATTGAATAATGTATCAATACATCTGGGTAAAA
1 AATGTATCGATACATTCATACATGTATCAATACATTAAAAAATGTATCAATACATCTAGGTAAAA
469092 GGACAA
66 GGACAA
* *
469098 AATGTATCGATACATTCATA-ATGTATCGATACATTAAAAAATGTATCGATACATCTAGGTAAAA
1 AATGTATCGATACATTCATACATGTATCAATACATTAAAAAATGTATCAATACATCTAGGTAAAA
469162 ATATGACTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
70 39 0.66
71 20 0.34
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (71 bp):
AATGTATCGATACATTCATACATGTATCAATACATTAAAAAATGTATCAATACATCTAGGTAAAA
GGACAA
Found at i:469690 original size:33 final size:33
Alignment explanation
Indices: 469653--469719 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
469643 CAAATGTGAT
469653 GGTTTTG-TCTTGGTCAACCTCTTTTAGACTTAA
1 GGTTTTGCTC-TGGTCAACCTCTTTTAGACTTAA
* *
469686 GGTTTTGCTCTGGTCAACTTCTTTTTGACTTAA
1 GGTTTTGCTCTGGTCAACCTCTTTTAGACTTAA
469719 G
1 G
469720 TCTCACTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.16, C:0.18, G:0.19, T:0.46
Consensus pattern (33 bp):
GGTTTTGCTCTGGTCAACCTCTTTTAGACTTAA
Found at i:471518 original size:21 final size:21
Alignment explanation
Indices: 471493--471535 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
471483 ATCCTTATTG
471493 GTACATTTGC-TATTATTTTAT
1 GTACATTTGCATA-TATTTTAT
*
471514 GTACATTTTCATATATTTTAT
1 GTACATTTGCATATATTTTAT
471535 G
1 G
471536 ATTAGCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (21 bp):
GTACATTTGCATATATTTTAT
Found at i:471855 original size:165 final size:166
Alignment explanation
Indices: 471562--471876 Score: 370
Period size: 165 Copynumber: 1.9 Consensus size: 166
471552 ATGTAGGGAC
* * * * *
471562 TAAAATGAAAATTTTTAAAAGCTTAGGATTAAATAGTAAATTTTAATTTTTAGAAGTGAAAACAT
1 TAAAATGAAAATTTTCAAAAGCTTAGGATTAAATAGGAAATTATAATTTTTAGAAGTAAAAACAC
* * * * *
471627 CATTTTAGGCATTTTTAGAGATTTCTATTATTCCTATGGCATTCCTTAGGGGCATAGAAATTTTT
66 CATCTTAGGCATTTTTAGAGATTTCTATTATTCCTATGGCACTCCTTAGGGACATAAAAATTTTC
471692 AAAACATTT-CGTATTCTCTTAGTTTTTCATTAGGTA
131 AAAAC-TTTACGTATTCTCTTAGTTTTTCATTAGGTA
* * *
471728 TAAAATG-GAATTTTCAAAAGCTTAGGGATTAAATAGGAAA-TATAGTTTTTAGAAG-AAAAATA
1 TAAAATGAAAATTTTCAAAAGCTTA-GGATTAAATAGGAAATTATAATTTTTAGAAGTAAAAACA
* ** * * **
471790 CCATCTTAGTCATTTTCTTTAGATTTTTATTATTCCTATGGCCCT-CTATAGGGATGTAAAAATT
65 CCATCTTAGGCATTTT-TAGAGATTTCTATTATTCCTATGGCACTCCT-TAGGGACATAAAAATT
*
471854 TTCAGAACTTTACGTATTCTCTT
128 TTCAAAACTTTACGTATTCTCTT
471877 GCTTTTCTGT
Statistics
Matches: 124, Mismatches: 21, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
164 23 0.19
165 80 0.65
166 21 0.17
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (166 bp):
TAAAATGAAAATTTTCAAAAGCTTAGGATTAAATAGGAAATTATAATTTTTAGAAGTAAAAACAC
CATCTTAGGCATTTTTAGAGATTTCTATTATTCCTATGGCACTCCTTAGGGACATAAAAATTTTC
AAAACTTTACGTATTCTCTTAGTTTTTCATTAGGTA
Found at i:472266 original size:155 final size:153
Alignment explanation
Indices: 472059--472536 Score: 484
Period size: 155 Copynumber: 3.1 Consensus size: 153
472049 GGCATTTTCA
* * * * * *
472059 TAATTTTGTAGAACCAAGTCATAGTTTGTCATCAAGATGCTTTTACGCCAAAGGTGGGTATTTAG
1 TAATTTTTTAAAACAAAGTCTTAGTTTGTCAT-TAGATGCTTTTATGCCAAAGGTGGGTATTTAG
* * * * *
472124 GATATGTTCATCCTATTTATGATCCTTTTAAGTCCTTTAGGGTTACTTGGATATTTTTATGTCAA
65 GATAGGTTCATCCTATTTATGATCTTTTTAAGTCCTTTAGAGTTACTTGGATAATTTAATGTCAA
472189 AGATATACCCATAGGGGTATTTTTG
130 AG-TATACCCATAGGGGTATTTTTG
* * *
472214 TAATTTTTTAAAACTAAATTC-TAGTTTGTCATTGGGATGCTTTTATGCCAAAGGTGTGTATTTA
1 TAATTTTTTAAAAC-AAAGTCTTAGTTTGTCATT-AGATGCTTTTATGCCAAAGGTGGGTATTTA
* * * *
472278 GGATAGGTACGT-CTCATTTATGATCATTTTTAA-TCTTTTAGAGTTA-TTGGGATAATTTCATG
64 GGATAGGTTCATCCT-ATTTATGATC-TTTTTAAGTCCTTTAGAGTTACTT-GGATAATTTAATG
* *
472340 TCGAAAG--TACCCATAGGGTTATTTTCG
126 TC-AAAGTATACCCATAGGGGTATTTTTG
* * * * *
472367 TAATTTTCTTAGAACCAAGTCTTAGTTTGTCATCTAGATGCTTTCATGCTAAAAGTGGGTATTTA
1 TAATTTT-TTAAAACAAAGTCTTAGTTTGTCAT-TAGATGCTTTTATGCCAAAGGTGGGTATTTA
* * * * *
472432 GGATAGGTTTATCCCAGTTATGATTCTTTTTAAGTCCTTTAGAGTTAC-GGAGATACTTTAATGT
64 GGATAGGTTCATCCTATTTATGA-TCTTTTTAAGTCCTTTAGAGTTACTTG-GATAATTTAATG-
* * * *
472496 TGAAGGTATACCCATAAGGGCATTTTTG
126 TCAAAGTATACCCATAGGGGTATTTTTG
472524 TAATTTTTTAAAA
1 TAATTTTTTAAAA
472537 AACTGAGTCA
Statistics
Matches: 264, Mismatches: 42, Indels: 33
0.78 0.12 0.10
Matches are distributed among these distances:
153 29 0.11
154 70 0.27
155 122 0.46
156 20 0.08
157 23 0.09
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (153 bp):
TAATTTTTTAAAACAAAGTCTTAGTTTGTCATTAGATGCTTTTATGCCAAAGGTGGGTATTTAGG
ATAGGTTCATCCTATTTATGATCTTTTTAAGTCCTTTAGAGTTACTTGGATAATTTAATGTCAAA
GTATACCCATAGGGGTATTTTTG
Found at i:472669 original size:20 final size:21
Alignment explanation
Indices: 472646--472695 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
472636 TATGTGAATA
*
472646 TATCGATACAATTCA-AAATG
1 TATCGATACAATCCATAAATG
472666 TATCGATAC-ATCCATAAATG
1 TATCGATACAATCCATAAATG
*
472686 TATTGATACA
1 TATCGATACA
472696 TTAAGTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (21 bp):
TATCGATACAATCCATAAATG
Found at i:472742 original size:20 final size:20
Alignment explanation
Indices: 472717--472756 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
472707 GGCTAGTTTT
*
472717 TTAAGTAATGTATCGATACA
1 TTAAGTAACGTATCGATACA
472737 TTAAGTAACGTATCGATACA
1 TTAAGTAACGTATCGATACA
472757 ATGTTGTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (20 bp):
TTAAGTAACGTATCGATACA
Found at i:474519 original size:28 final size:27
Alignment explanation
Indices: 474480--474556 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 27
474470 TTTTGGAGAT
474480 AATAACGGGGTTGGAGTATCCCC-TCGA
1 AATAACGGGGTTGGAGTATCCCCAT-GA
474507 AGATAACGGGGTTGGAGTATCCCCGATGA
1 A-ATAACGGGGTTGGAGTATCCCC-ATGA
* *
474536 AATAATGAGGTTGGAGTATCC
1 AATAACGGGGTTGGAGTATCC
474557 TCGATTGTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
27 1 0.02
28 40 0.89
29 3 0.07
30 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (27 bp):
AATAACGGGGTTGGAGTATCCCCATGA
Found at i:474640 original size:52 final size:51
Alignment explanation
Indices: 474545--474718 Score: 165
Period size: 52 Copynumber: 3.4 Consensus size: 51
474535 AAATAATGAG
* ** *
474545 GTTGGAGTATCCTCGATT-GTGAAAAATTGGTGTTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTAGAAATAAAA-CGGA
* **
474597 GTTGGAGTATCCCTGATTAAAGGAAAATTGGTGTTTT-GAAAATAAAACCCA
1 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTAG-AAATAAAACGGA
** ** *
474648 GGTTGGAGTATCCCCGATT-GTGGAAAATTAATGTTTTAGAAATAAAACCGGG
1 -GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTAGAAATAAAA-CGGA
*
474700 GTTAGAGTATCCCCGATTA
1 GTTGGAGTATCCCCGATTA
474719 TGAGAAATCA
Statistics
Matches: 100, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
51 42 0.42
52 47 0.47
53 11 0.11
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTAGAAATAAAACGGA
Found at i:474693 original size:51 final size:51
Alignment explanation
Indices: 474543--474763 Score: 196
Period size: 51 Copynumber: 4.3 Consensus size: 51
474533 TGAAATAATG
* * * ** *
474543 AGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAA-TC
1 AGGTTGGAGTATCCCCGATTATGGAAAATTAATG-TTTTAGAAATAAAACCC
* * * **
474594 GGAGTTGGAGTATCCCTGATTAAAGGAAAATTGGTGTTTT-GAAAATAAAACCC
1 AG-GTTGGAGTATCCCCGATT-ATGGAAAATTAATGTTTTAG-AAATAAAACCC
* *
474647 AGGTTGGAGTATCCCCGATTGTGGAAAATTAATGTTTTAGAAATAAAACCG
1 AGGTTGGAGTATCCCCGATTATGGAAAATTAATGTTTTAGAAATAAAACCC
* * * * * * *
474698 GGGTTAGAGTATCCCCGATTAT-GAGAAATCAATATTTTGGAAATAAAGCCG
1 AGGTTGGAGTATCCCCGATTATGGA-AAATTAATGTTTTAGAAATAAAACCC
474749 AGGTTGGAGTATCCC
1 AGGTTGGAGTATCCC
474764 TTCAGAAATA
Statistics
Matches: 141, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
50 2 0.01
51 80 0.57
52 46 0.33
53 13 0.09
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (51 bp):
AGGTTGGAGTATCCCCGATTATGGAAAATTAATGTTTTAGAAATAAAACCC
Found at i:474793 original size:79 final size:79
Alignment explanation
Indices: 474696--474871 Score: 257
Period size: 79 Copynumber: 2.2 Consensus size: 79
474686 GAAATAAAAC
* * *
474696 CGGGGTTAGAGTATCCCCGATTATGAGAAATCAATATTTT-GGAAATAAAGCCGAGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAAG-AATAAAGCAGAGGTTGGAGTA
*
474760 TCCCTTC-AGAAATAA
65 TCCCCTCGA-AAATAA
* * *
474775 CGGGGTTGGAGTACCCCCGATTATGAGAAATCAATATTTTAAGAATAAAGTAGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAAGAATAAAGCAGAGGTTGGAGTAT
474840 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
474854 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
474872 AATGATTAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 85 0.98
80 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAAGAATAAAGCAGAGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:474964 original size:53 final size:51
Alignment explanation
Indices: 474883--475006 Score: 133
Period size: 51 Copynumber: 2.4 Consensus size: 51
474873 ATGATTAACG
* * * ** *
474883 GAGTTGGAGTATACCCGATTGTGAAAAATTGGTGTTTTTTGGAAATAAAATCA
1 GAGTTGGAGTATCCCCGATTATGAAAAATT--AGCATTTTGAAAATAAAATCA
*
474936 GAGTTGGAGTATCCCCGATTAT-AGAAAATTAGCATTTTGAAAATAAAATCG
1 GAGTTGGAGTATCCCCGATTATGA-AAAATTAGCATTTTGAAAATAAAATCA
* *
474987 GAGTGGGAATATCCCCGATT
1 GAGTTGGAGTATCCCCGATT
475007 GTGGAGAATT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
51 34 0.56
52 1 0.02
53 26 0.43
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (51 bp):
GAGTTGGAGTATCCCCGATTATGAAAAATTAGCATTTTGAAAATAAAATCA
Found at i:477385 original size:13 final size:13
Alignment explanation
Indices: 477367--477392 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
477357 CAAAGAATAG
477367 ATGTATCGATACA
1 ATGTATCGATACA
477380 ATGTATCGATACA
1 ATGTATCGATACA
477393 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:477389 original size:34 final size:33
Alignment explanation
Indices: 477346--477410 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
477336 AACTTCCTAG
*
477346 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
*
477380 ATGTATCGATACACAGAAAAATGTATCGATA
1 ATGTATCGATACAAAGAAAAATGTATCGATA
477411 TATTTCCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 12 0.41
34 17 0.59
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:477468 original size:19 final size:20
Alignment explanation
Indices: 477444--477497 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
477434 AGCGATACAT
*
477444 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGAA
**
477463 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACTGAA
477484 TGTATCGATACAAA
1 TGTATCGATACAAA
477498 TTATTGGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAAAACTGAA
Found at i:477576 original size:21 final size:21
Alignment explanation
Indices: 477552--477609 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
477542 ACATTTGTAG
477552 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
*
477573 AATGTATCGATACATTCTACA
1 AATGTATCGATACATTCCACA
477594 AATGTATCGATACATT
1 AATGTATCGATACATT
477610 TGGATAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATTCCACA
Found at i:479324 original size:27 final size:26
Alignment explanation
Indices: 479284--479336 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
479274 TAATTTTTAT
*
479284 TTGAAAAATGGGGTTAGAGTATCCCC
1 TTGAAAAATAGGGTTAGAGTATCCCC
*
479310 TTGAAGAAATAGGGTTAGAGTGTCCCC
1 TTGAA-AAATAGGGTTAGAGTATCCCC
479337 AATGATGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.26
Consensus pattern (26 bp):
TTGAAAAATAGGGTTAGAGTATCCCC
Found at i:481859 original size:51 final size:52
Alignment explanation
Indices: 481727--481862 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
481717 TGCCTGCATG
* * * * *
481727 TATCAATACATTAAAGAATGTATCGATATATTTGGGTCAAAAACCAAGAATG
1 TATCAATACAATGAAGAATGTATCGATACATTTGGATCAAAAACCAAGAATC
* * *
481779 TATCAATATAATGAAGAATGTATCAATACATTTGGATCAAAACCCAA-AATC
1 TATCAATACAATGAAGAATGTATCGATACATTTGGATCAAAAACCAAGAATC
481830 TAT-AGATACAATGGAA-AATGTATCGATACATTT
1 TATCA-ATACAAT-GAAGAATGTATCGATACATTT
481863 TCAATCCAGA
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
50 1 0.01
51 28 0.39
52 43 0.60
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.29
Consensus pattern (52 bp):
TATCAATACAATGAAGAATGTATCGATACATTTGGATCAAAAACCAAGAATC
Found at i:484466 original size:39 final size:38
Alignment explanation
Indices: 484392--484466 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 38
484382 CTTAATATTT
*
484392 GTTGCTAATTAACAACGAATATTTTTTTTACAAAATTA
1 GTTGCTAATTAACAACGAATATTTTTTTTAAAAAATTA
* *
484430 GTTGCTAATTTACGACGAACTA-TTTTTTTAGAAAAAT
1 GTTGCTAATTAACAACGAA-TATTTTTTTTA-AAAAAT
484467 ATTCATTACA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 25 0.78
39 7 0.22
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (38 bp):
GTTGCTAATTAACAACGAATATTTTTTTTAAAAAATTA
Found at i:487232 original size:84 final size:85
Alignment explanation
Indices: 487089--487256 Score: 239
Period size: 84 Copynumber: 2.0 Consensus size: 85
487079 AAATTAGGGA
* *
487089 AAGAAAAACTAACCATCCTAGTGAAATGTAACAAATTTAGCTTAAAGAACTCGTTTTTGTTGCAA
1 AAGAAAAACTAACCATCCTAGTGAAATGTAACAAATTTAGCTCAAAGAACTCATTTTTGTTGCAA
* *
487154 GAGCATTTTTGCAAATGGGG
66 GAGCATTCTTCCAAATGGGG
* * * * *
487174 AAGAAAAACTAACCATCCTGGTGAGATG-CATAAATTTAGCTCAAAGAACTCATTTTTGTTGTAA
1 AAGAAAAACTAACCATCCTAGTGAAATGTAACAAATTTAGCTCAAAGAACTCATTTTTGTTGCAA
*
487238 GAGCGTTCTTCCAAATGGG
66 GAGCATTCTTCCAAATGGG
487257 AGATGATGTG
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 47 0.64
85 26 0.36
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.29
Consensus pattern (85 bp):
AAGAAAAACTAACCATCCTAGTGAAATGTAACAAATTTAGCTCAAAGAACTCATTTTTGTTGCAA
GAGCATTCTTCCAAATGGGG
Found at i:487945 original size:19 final size:19
Alignment explanation
Indices: 487920--487977 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
487910 ATGTATCGAC
*
487920 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
487939 TCATTGTATCAATACATGG
1 ACATTGTATCGATACATGG
487958 ACAAATTGTATCGATACATG
1 AC--ATTGTATCGATACATG
487978 AAACTAGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 17 0.53
21 15 0.47
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:488043 original size:13 final size:13
Alignment explanation
Indices: 488022--488052 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
488012 CGATACATGG
*
488022 TACAATGTATCGA
1 TACATTGTATCGA
488035 TACATTGTATCGA
1 TACATTGTATCGA
488048 TACAT
1 TACAT
488053 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:488048 original size:33 final size:32
Alignment explanation
Indices: 488006--488072 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
487996 CTATCACTAT
488006 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
488039 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
488072 T
1 T
488073 AGCTTGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:494249 original size:13 final size:13
Alignment explanation
Indices: 494232--494282 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
494222 CAACATTCCT
* *
494232 TGTATCGATATAT
1 TGTATCGATACAA
494245 TGTATCGATACAA
1 TGTATCGATACAA
494258 TGTATCGATACAA
1 TGTATCGATACAA
494271 TGTATCGATACA
1 TGTATCGATACA
494283 TTAGGTACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:494427 original size:21 final size:21
Alignment explanation
Indices: 494403--494443 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
494393 CAAATTCTCC
494403 ACAAAT-TTTCTATTTTTCACT
1 ACAAATATTTC-ATTTTTCACT
494424 ACAAATACTTTCATTTTTCA
1 ACAAATA-TTTCATTTTTCA
494444 TCAAAATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.49
Consensus pattern (21 bp):
ACAAATATTTCATTTTTCACT
Found at i:496135 original size:22 final size:22
Alignment explanation
Indices: 496110--496203 Score: 128
Period size: 19 Copynumber: 4.5 Consensus size: 22
496100 AATTTTTACA
496110 TAAGGGGGAGAAGATAATTGTT
1 TAAGGGGGAGAAGATAATTGTT
*
496132 TAA-GAGG-G-AGATAATTGTT
1 TAAGGGGGAGAAGATAATTGTT
496151 TAAGGGGGAGAAGATAATTGTT
1 TAAGGGGGAGAAGATAATTGTT
*
496173 TAA-GGGG-G-AGATAATCGTT
1 TAAGGGGGAGAAGATAATTGTT
496192 TAAGGGGGAGAA
1 TAAGGGGGAGAA
496204 TTTTTTTAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
19 27 0.43
20 9 0.14
21 9 0.14
22 18 0.29
ACGTcount: A:0.36, C:0.01, G:0.37, T:0.26
Consensus pattern (22 bp):
TAAGGGGGAGAAGATAATTGTT
Found at i:496167 original size:41 final size:41
Alignment explanation
Indices: 496110--496203 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
496100 AATTTTTACA
*
496110 TAAGGGGGAGAAGATAATTGTTTAAGAGGGAGATAATTGTT
1 TAAGGGGGAGAAGATAATTGTTTAAGAGGGAGATAATCGTT
*
496151 TAAGGGGGAGAAGATAATTGTTTAAGGGGGAGATAATCGTT
1 TAAGGGGGAGAAGATAATTGTTTAAGAGGGAGATAATCGTT
496192 TAAGGGGGAGAA
1 TAAGGGGGAGAA
496204 TTTTTTTAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.36, C:0.01, G:0.37, T:0.26
Consensus pattern (41 bp):
TAAGGGGGAGAAGATAATTGTTTAAGAGGGAGATAATCGTT
Found at i:496837 original size:13 final size:13
Alignment explanation
Indices: 496816--496846 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
496806 CGATACATGG
*
496816 TACAATGTATCGA
1 TACATTGTATCGA
496829 TACATTGTATCGA
1 TACATTGTATCGA
496842 TACAT
1 TACAT
496847 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:496842 original size:33 final size:32
Alignment explanation
Indices: 496800--496866 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
496790 CTATCACTAT
496800 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
496833 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
496866 T
1 T
496867 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:502482 original size:52 final size:52
Alignment explanation
Indices: 502425--502561 Score: 211
Period size: 52 Copynumber: 2.6 Consensus size: 52
502415 ACTTAATTGG
* * *
502425 ATGTATCGATACATTAAAGAATGTATCGATACATTTGGGTCAAAAACCCAGA
1 ATGTATCGATACAATAAAGAATGTATCGATACATTTAGGTCAAAAACCCAAA
* *
502477 ATGTATCGACACAATGAAGAATGTATCGATACATTTAGGTCAAAAACCCAAA
1 ATGTATCGATACAATAAAGAATGTATCGATACATTTAGGTCAAAAACCCAAA
* *
502529 ATGTATCAATACAATAAAAAATGTATCGATACA
1 ATGTATCGATACAATAAAGAATGTATCGATACA
502562 ATTTCTTTTC
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.26
Consensus pattern (52 bp):
ATGTATCGATACAATAAAGAATGTATCGATACATTTAGGTCAAAAACCCAAA
Found at i:502551 original size:20 final size:20
Alignment explanation
Indices: 502526--502563 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
502516 TCAAAAACCC
502526 AAAATGTATCAATACAATAA
1 AAAATGTATCAATACAATAA
*
502546 AAAATGTATCGATACAAT
1 AAAATGTATCAATACAAT
502564 TTCTTTTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (20 bp):
AAAATGTATCAATACAATAA
Found at i:502627 original size:20 final size:21
Alignment explanation
Indices: 502602--502653 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
502592 AAAAGGTCCA
* *
502602 GTATCGATATATTCACTT-AT
1 GTATCGATACATTAACTTGAT
*
502622 GTATCGATACATTAACTTGTT
1 GTATCGATACATTAACTTGAT
502643 GTATCGATACA
1 GTATCGATACA
502654 AATTATAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (21 bp):
GTATCGATACATTAACTTGAT
Found at i:506756 original size:95 final size:95
Alignment explanation
Indices: 506593--506767 Score: 323
Period size: 95 Copynumber: 1.8 Consensus size: 95
506583 TTGGAAAGAT
*
506593 ATTTTGACATAATTTACGAGAAAAATACTACAAAATTCATGAAAAATGTTTTAGCATTTTAAAAT
1 ATTTTGACATAATTTACGAGAAAAATACTAAAAAATTCATGAAAAATGTTTTAGCATTTTAAAAT
506658 GATTTTTGACACCATGACTGCTATTTTAGC
66 GATTTTTGACACCATGACTGCTATTTTAGC
*
506688 ATTTTGACATAATTTACGGGAAAAATACTAAAAAATTCATGAAAAATGTTTTAGCATTTTAAAAT
1 ATTTTGACATAATTTACGAGAAAAATACTAAAAAATTCATGAAAAATGTTTTAGCATTTTAAAAT
*
506753 GATTTTTGACGCCAT
66 GATTTTTGACACCAT
506768 ACTAATTTTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 77 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (95 bp):
ATTTTGACATAATTTACGAGAAAAATACTAAAAAATTCATGAAAAATGTTTTAGCATTTTAAAAT
GATTTTTGACACCATGACTGCTATTTTAGC
Found at i:507606 original size:20 final size:19
Alignment explanation
Indices: 507583--507632 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
507573 AAGCCCAGAA
* *
507583 GTATCGATACATATTGCTTT
1 GTATCGATACATACT-CATT
* *
507603 GTATCAATACATGCTCATT
1 GTATCGATACATACTCATT
507622 GTATCGATACA
1 GTATCGATACA
507633 AAAAGAATTG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (19 bp):
GTATCGATACATACTCATT
Found at i:508664 original size:17 final size:18
Alignment explanation
Indices: 508634--508667 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
508624 TGGATCATGG
508634 AAAATGCATGGAACAAAA
1 AAAATGCATGGAACAAAA
508652 AAAATGCAT-GAACAAA
1 AAAATGCATGGAACAAA
508668 GGTTGTCAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.62, C:0.12, G:0.15, T:0.12
Consensus pattern (18 bp):
AAAATGCATGGAACAAAA
Found at i:510424 original size:21 final size:21
Alignment explanation
Indices: 510371--510426 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
510361 TTTTTGTCCA
*
510371 AATGTATCAATACATTGTTAG
1 AATGTATCGATACATTGTTAG
510392 AATGTATCGATACATTGTTAG
1 AATGTATCGATACATTGTTAG
*
510413 AATGTATTGATACA
1 AATGTATCGATACA
510427 AGGTCCCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTGTTAG
Found at i:510503 original size:13 final size:13
Alignment explanation
Indices: 510485--510509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
510475 CATAAAGTGT
510485 TGTATCGATACAA
1 TGTATCGATACAA
510498 TGTATCGATACA
1 TGTATCGATACA
510510 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:510520 original size:32 final size:33
Alignment explanation
Indices: 510465--510528 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
510455 TTCAACGATT
510465 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
510498 TGTATCGATACAT-AAGTGTTGTATCGATACA
1 TGTATCGATACATAAAGTGTTGTATCGATACA
510529 TAAGTTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 18 0.58
33 13 0.42
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:510522 original size:19 final size:19
Alignment explanation
Indices: 510464--510547 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
510454 TTTCAACGAT
510464 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
510484 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
510498 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
510516 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
*
510535 TTGTACCGATACA
1 TTGTATCGATACA
510548 ATGTAAGCTA
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
13 11 0.20
15 2 0.04
17 2 0.04
19 29 0.52
20 12 0.21
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:510668 original size:52 final size:52
Alignment explanation
Indices: 510623--510751 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
510613 CACTGATCTT
* *
510623 TGTATCGATACATGCAGGCAAGTTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
510675 TGTATGGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
510727 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
510752 TCATATTTCG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:518037 original size:20 final size:20
Alignment explanation
Indices: 517990--518064 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
517980 AAAAAGACAT
*
517990 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
518009 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
518030 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
518050 AATGTATCGATACAT
1 AATGTATCGATACAT
518065 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:518058 original size:40 final size:39
Alignment explanation
Indices: 517987--518064 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
517977 GGTAAAAAGA
* *
517987 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
518026 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
518065 CAAGGTAAAA
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:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:521474 original size:21 final size:22
Alignment explanation
Indices: 521448--521488 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
521438 TTCCAAACAC
*
521448 AAAAAACACAAAA-AAAAAAGA
1 AAAAAAAACAAAACAAAAAAGA
521469 AAAAAAAACAAAACAAAAAA
1 AAAAAAAACAAAACAAAAAA
521489 TCTTAGTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (22 bp):
AAAAAAAACAAAACAAAAAAGA
Found at i:522627 original size:66 final size:66
Alignment explanation
Indices: 522495--522802 Score: 315
Period size: 66 Copynumber: 4.6 Consensus size: 66
522485 TACCTTCTTA
* *
522495 AAGTCCACGACTCCGTGGCACCTTCTT--TTCAAAGCCCACAACTCCGTGGCACTTTTTGTTCCT
1 AAGTCCACGACTCCGTGGCACCTT-TTCCTTTAAAGCCCACAACTCCGTGGCACTCTTT-TTCCT
522558 TTT
64 TTT
* * * * * *
522561 AAGTCCACGACCCCGTGGCATCTTGTTCCTTTTAAGTCCACAACTCTGTGGCAC-CTTTTTCTTT
1 AAGTCCACGACTCCGTGGCACCTT-TTCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTT
522625 TT
65 TT
* * * * *
522627 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCCGTGGCAC-C-TTTTCT
1 -AAGTCCACGACTCCGTGGCACC-TTTTCCTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCC
522690 TTTT
63 TTTT
* * *
522694 AAGTCCACAACCCCGTGGCACCTTTTTCCTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTTCC
1 AAGTCCACGACTCCGTGGCACC-TTTTCCTTT-AAAGCCCACAACTCCGTGGCACTC-TTTTTCC
522759 TTTT
63 TTTT
* *
522763 AAGTCCACGACTCCATGGCACC--TACCTTTCAAAGCCCACA
1 AAGTCCACGACTCCGTGGCACCTTTTCCTTT-AAAGCCCACA
522803 CAAGTCGGTG
Statistics
Matches: 205, Mismatches: 29, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
66 97 0.47
67 38 0.19
68 42 0.20
69 28 0.14
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (66 bp):
AAGTCCACGACTCCGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
T
Found at i:522646 original size:34 final size:34
Alignment explanation
Indices: 522492--522785 Score: 307
Period size: 34 Copynumber: 8.8 Consensus size: 34
522482 AAATACCTTC
*
522492 TTAAAGTCCACGACTCCGTGGCACC---TTCTTT
1 TTAAAGTCCACAACTCCGTGGCACCTTTTTCTTT
* * *
522523 TCAAAGCCCACAACTCCGTGGCA-CTTTTTGTTCCT
1 TTAAAGTCCACAACTCCGTGGCACCTTTTTCTT--T
* * * * * *
522558 TTTAAGTCCACGACCCCGTGGCATCTTGTTCCTT
1 TTAAAGTCCACAACTCCGTGGCACCTTTTTCTTT
*
522592 TT-AAGTCCACAACTCTGTGGCACCTTTTTCTTT
1 TTAAAGTCCACAACTCCGTGGCACCTTTTTCTTT
*
522625 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
1 TTAAAGTCCACAACTCCGTGGCACCTTTTTCTTT
* * *
522659 TCAAAGCCCACCACTCCGTGGCACC-TTTTCTTT
1 TTAAAGTCCACAACTCCGTGGCACCTTTTTCTTT
* *
522692 TT-AAGTCCACAACCCCGTGGCACCTTTTTCCTT
1 TTAAAGTCCACAACTCCGTGGCACCTTTTTCTTT
* *
522725 TCAAAGTCCACAACTCCGTGGCACTCTTTTTTCCTT
1 TTAAAGTCCACAACTCCGTGGCAC-C-TTTTTCTTT
* *
522761 TT-AAGTCCACGACTCCATGGCACCT
1 TTAAAGTCCACAACTCCGTGGCACCT
522786 ACCTTTCAAA
Statistics
Matches: 220, Mismatches: 32, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
30 1 0.00
31 20 0.09
32 19 0.09
33 49 0.22
34 76 0.35
35 39 0.18
36 16 0.07
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.34
Consensus pattern (34 bp):
TTAAAGTCCACAACTCCGTGGCACCTTTTTCTTT
Found at i:522721 original size:100 final size:101
Alignment explanation
Indices: 522495--522785 Score: 387
Period size: 100 Copynumber: 2.9 Consensus size: 101
522485 TACCTTCTTA
* *
522495 AAGTCCACGACTCCGTGGCACC---TTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTGTTCC
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTT-TTCC
* *
522557 TTTTAAGTCCACGACCCCGTGGCATCTTGTTCCTTTT
65 TTTTAAGTCCACGACTCCGTGGCACCTTGTTCCTTTT
* *
522594 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
* * *
522657 TTTCAAAGCCCACCACTCCGTGGCACCTT-TTCTTTTT
66 TTT--AAGTCCACGACTCCGTGGCACCTTGTTCCTTTT
* * *
522694 AAGTCCACAACCCCGTGGCACCTTTTTCCTTTCAAAGTCCACAACTCCGTGGCACTCTTTTTTCC
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTC-TTTTTCC
*
522759 TTTTAAGTCCACGACTCCATGGCACCT
65 TTTTAAGTCCACGACTCCGTGGCACCT
522786 ACCTTTCAAA
Statistics
Matches: 167, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
99 25 0.15
100 59 0.35
101 44 0.26
102 34 0.20
103 5 0.03
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.33
Consensus pattern (101 bp):
AAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
TTTAAGTCCACGACTCCGTGGCACCTTGTTCCTTTT
Found at i:522815 original size:33 final size:32
Alignment explanation
Indices: 522778--522848 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
522768 CACGACTCCA
522778 TGGCACCTACCTTTC-AAAGCCCACACAAGTCGG
1 TGGCACCT-CC-TTCAAAAGCCCACACAAGTCGG
* *
522811 TGGCAACCTTCTTCAAAAGCCCACACAAGTTGG
1 TGGC-ACCTCCTTCAAAAGCCCACACAAGTCGG
522844 TGGCA
1 TGGCA
522849 TCTTCTTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 4 0.12
33 26 0.76
34 4 0.12
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (32 bp):
TGGCACCTCCTTCAAAAGCCCACACAAGTCGG
Found at i:522898 original size:21 final size:21
Alignment explanation
Indices: 522874--522941 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
522864 ATATAGCTGG
522874 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* *
522895 CCTTTAAGTC--CA-ATGTAGCTA
1 CCTTGAA-TCAGCACAT-TGGC-A
522916 GCCTTGAATCAGCACATTGGCA
1 -CCTTGAATCAGCACATTGGCA
522938 CCTT
1 CCTT
522942 TAAGTCCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:522908 original size:43 final size:43
Alignment explanation
Indices: 522853--523077 Score: 333
Period size: 43 Copynumber: 5.1 Consensus size: 43
522843 GTGGCATCTT
*
522853 CTTTACGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
522896 CTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
522939 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
522986 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAT
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
523031 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
523074 CTTT
1 CTTT
523078 TCCATCTTTA
Statistics
Matches: 164, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
43 123 0.75
47 1 0.01
49 40 0.24
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:523029 original size:92 final size:91
Alignment explanation
Indices: 522853--523130 Score: 413
Period size: 92 Copynumber: 3.0 Consensus size: 91
522843 GTGGCATCTT
* *
522853 CTTTACGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C-CTTTAAGTCCAATGTAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTCTTTAAGTCCAATGTAG
*
522913 CTAGCCTTGAATCAGCACATTGGCAC
66 CTGGCCTTGAATCAGCACATTGGCAC
522939 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCTTTAAGTCCAATGTA
*
523004 GCTGGCCTTGAATCAGCACATTGGCAT
65 GCTGGCCTTGAATCAGCACATTGGCAC
*
523031 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-C-TCTTTAAGTCCAAT
*
523096 GTAGCTGGCCTTGAATCAGCACATTGACATC
62 GTAGCTGGCCTTGAATCAGCACATTGGCA-C
523127 CTTT
1 CTTT
523131 TTCTTATCTT
Statistics
Matches: 174, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
86 40 0.23
90 1 0.01
92 85 0.49
94 2 0.01
95 42 0.24
96 4 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (91 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCAC
Found at i:523106 original size:52 final size:53
Alignment explanation
Indices: 523028--523168 Score: 167
Period size: 52 Copynumber: 2.6 Consensus size: 53
523018 AGCACATTGG
* *
523028 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTTTTC
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTC
* *
523080 CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTC
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCC-TTTTC
* * * * * *
523134 TTATCTTTTAGCCCAATATCGTTGGCCGTGAATCA
1 -CATCTTTAAGTCCAATATAGCTGGCCTTGAATCA
523169 ACATATTGGT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
52 41 0.55
53 2 0.03
54 5 0.07
55 26 0.35
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (53 bp):
CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTC
Found at i:523848 original size:13 final size:13
Alignment explanation
Indices: 523830--523886 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
523820 CATAAAGTGT
523830 TGTATCGATACAA
1 TGTATCGATACAA
523843 TGTATCGATACATAA
1 TGTATCGATAC--AA
523858 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
523875 TGTATCGATACA
1 TGTATCGATACA
523887 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:523865 original size:32 final size:32
Alignment explanation
Indices: 523810--523910 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
523800 TTCAACAATT
523810 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
523843 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
523875 TGTATCGATACATAAGTTTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
523907 TGTA
1 TGTA
523911 AGCTACTGCC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 53 0.80
33 13 0.20
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:523867 original size:19 final size:18
Alignment explanation
Indices: 523808--523905 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
523798 ATTTCAACAA
523808 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
523827 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
523843 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
523859 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
523875 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
523891 TTTTGTATCAATACA
1 -TTTGTATCGATACA
523906 ATGTAAGCTA
Statistics
Matches: 65, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 23 0.35
20 12 0.18
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:523966 original size:13 final size:13
Alignment explanation
Indices: 523948--523975 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
523938 ATTACTCAAA
523948 TGTATCGATACAT
1 TGTATCGATACAT
523961 TGTATCGATACAT
1 TGTATCGATACAT
523974 TG
1 TG
523976 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:524037 original size:52 final size:52
Alignment explanation
Indices: 523981--524109 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
523971 CATTGATCTT
*
523981 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
524033 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
524085 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
524110 TCATATTTTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:527163 original size:61 final size:58
Alignment explanation
Indices: 527098--527264 Score: 172
Period size: 61 Copynumber: 2.8 Consensus size: 58
527088 TTGAGAAGAA
* * * *
527098 TGCCAATGTGTTGATTCAAGGTCAGCGAAATTGGACTTAAAGATGTGAAAAATGATAAAGG
1 TGCCAATATGCTGATTCAAGG-CAGCGATATTGG-CTTAAAGATGAGAAAAATGAT-AAGG
* * * * *
527159 TGCCAATATACTGATTCATGGCCAGCGATATCAGGCTTAAAGGTGAGAAGAATGATAAGG
1 TGCCAATATGCTGATTCAAGG-CAGCGATAT-TGGCTTAAAGATGAGAAAAATGATAAGG
* *
527219 TACCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTAATGATGA
1 TGCCAATATGCTGATTCAAGGC-AGCGATATT-GGCTTAAAGATGA
527265 CAAATGTGCC
Statistics
Matches: 87, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
59 1 0.01
60 41 0.47
61 43 0.49
62 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (58 bp):
TGCCAATATGCTGATTCAAGGCAGCGATATTGGCTTAAAGATGAGAAAAATGATAAGG
Found at i:527246 original size:60 final size:61
Alignment explanation
Indices: 527109--527264 Score: 172
Period size: 60 Copynumber: 2.6 Consensus size: 61
527099 GCCAATGTGT
* * * * *
527109 TGATTCAAGGTCAGCGAAAT-TGGACTTAAAGATGTGAAAAATGATAAAGGTGCCAATATAC
1 TGATTCAAGGCCAGCGATATCAGG-CTTAAAGATGAGAAAAATGATAAAGGTACCAATATAC
* * * *
527170 TGATTCATGGCCAGCGATATCAGGCTTAAAGGTGAGAAGAATGAT-AAGGTACCAATATGC
1 TGATTCAAGGCCAGCGATATCAGGCTTAAAGATGAGAAAAATGATAAAGGTACCAATATAC
* ** *
527230 TGATTCAAGGCTAGCGATATTGGGCTTAATGATGA
1 TGATTCAAGGCCAGCGATATCAGGCTTAAAGATGA
527265 CAAATGTGCC
Statistics
Matches: 79, Mismatches: 15, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
60 42 0.53
61 35 0.44
62 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (61 bp):
TGATTCAAGGCCAGCGATATCAGGCTTAAAGATGAGAAAAATGATAAAGGTACCAATATAC
Found at i:527283 original size:52 final size:51
Alignment explanation
Indices: 527215--527788 Score: 358
Period size: 52 Copynumber: 10.8 Consensus size: 51
527205 GAAGAATGAT
* * * *
527215 AAGGTACCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTAATGATGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA-GATGACA
* * *
527267 AATGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAGATGACA
* * * * * * * * * *
527319 AAGGCGCTAGTATGCTGATTCAAGACTAGCAATATTGGACTTGAGAAAGAAA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAG-ATGACA
* * *
527371 AAGGTACCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACGAGAAGAATGATA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT---------AAG-ATGACA
* * *** *
527432 AAGGTGCTAATATGCTGATTCAAAGCCAATAATATTGGACTTAAAGATGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAGATGACA
* * * * **
527484 AAGGTGCTAATGTACTGATTCAAAGCCAATGACATTGGACTTAAAGATGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAGATGACA
* * * * * * *
527536 AAGATGTCAATATGCTGA-TCAAGGCCAGCGATAATGGACTTGAAAAAGAAA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAGATGACA
* * *** * *
527587 AAGGTGCCAATGTGCTAATTCAAGTTTAGCGACATTAGACTTAAAGATGAGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAGATGACA
* * * * ** * * * **
527639 AAAGCGCTAATGTGCTGATTCAAGATCAGTGACATTGGGCTTAGGAATGTTA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAG-ATGACA
* * * * * *
527691 AAGATGCCAATATGCTGATTCAAGGCCAGCAATATCGGACTTAAAGAAAGAAA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAG-ATGACA
* *
527744 AATGGGTGCCAATATACTGATTCAAGGCCAGTGACATTGGACTTA
1 AA--GGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA
527789 GAAAGAGATG
Statistics
Matches: 398, Mismatches: 108, Indels: 30
0.74 0.20 0.06
Matches are distributed among these distances:
51 41 0.10
52 268 0.67
53 13 0.03
54 1 0.00
55 34 0.09
61 41 0.10
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (51 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAGATGACA
Found at i:527405 original size:104 final size:104
Alignment explanation
Indices: 527223--527794 Score: 395
Period size: 104 Copynumber: 5.4 Consensus size: 104
527213 ATAAGGTACC
* * * * * * * *
527223 AATATGCTGATTCAAGGCTAGCGATATTGGGCTTAATG-ATGACAAATGTGCCAATGTGCTGATT
1 AATATGCTGATTCAAGACCAGCAATATTGGACTTGA-GAAAGAAAAAGGTGCCAATGTGCTGATT
527287 CAAGGCCAGCGACATTGGACTTAAAAATGACAAAGGCGCT
65 CAAGGCCAGCGACATTGGACTTAAAAATGACAAAGGCGCT
* * *
527327 AGTATGCTGATTCAAGACTAGCAATATTGGACTTGAGAAAGAAAAAGGTACCAATGTGCTGATTC
1 AATATGCTGATTCAAGACCAGCAATATTGGACTTGAGAAAGAAAAAGGTGCCAATGTGCTGATTC
* *
527392 AAGGCCAGCGACATTGGACTTAAAGACGAGAAGAATGATAAAGGTGCT
66 AAGGCCAGCGACATTGGACTT-------A-AA-AATGACAAAGGCGCT
** * * *
527440 AATATGCTGATTCAA-AGCCAATAATATTGGACTT-A-AAGATGACAAAGGTGCTAATGTACTGA
1 AATATGCTGATTCAAGA-CCAGCAATATTGGACTTGAGAA-A-GAAAAAGGTGCCAATGTGCTGA
* ** * **
527502 TTCAAAGCCAATGACATTGGACTTAAAGATGACAAAGATG-T
63 TTCAAGGCCAGCGACATTGGACTTAAAAATGACAAAGGCGCT
* * * * *
527543 CAATATGCTGA-TCAAGGCCAGCGATAATGGACTTGAAAAAGAAAAAGGTGCCAATGTGCTAATT
1 -AATATGCTGATTCAAGACCAGCAATATTGGACTTGAGAAAGAAAAAGGTGCCAATGTGCTGATT
*** * * * *
527607 CAAGTTTAGCGACATTAGACTTAAAGATGAGAAAAGCGCT
65 CAAGGCCAGCGACATTGGACTTAAAAATGACAAAGGCGCT
* * ** * * * ** * *
527647 AATGTGCTGATTCAAGATCAGTGACATTGGGCTT-AGGAATGTTAAAGATGCCAATATGCTGATT
1 AATATGCTGATTCAAGACCAGCAATATTGGACTTGA-GAAAGAAAAAGGTGCCAATGTGCTGATT
* * * * * * *
527711 CAAGGCCAGCAATATCGGACTTAAAGAAAGAAAAATGGGTGCC
65 CAAGGCCAGCGACATTGGACTTAAA-AATGACAAA--GGCGCT
* * ** *
527754 AATATACTGATTCAAGGCCAGTGACATTGGACTT-AGAAAGA
1 AATATGCTGATTCAAGACCAGCAATATTGGACTTGAGAAAGA
527795 GATGGTTTGA
Statistics
Matches: 366, Mismatches: 79, Indels: 44
0.75 0.16 0.09
Matches are distributed among these distances:
103 76 0.21
104 154 0.42
105 10 0.03
106 5 0.01
107 33 0.09
111 3 0.01
112 5 0.01
113 80 0.22
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (104 bp):
AATATGCTGATTCAAGACCAGCAATATTGGACTTGAGAAAGAAAAAGGTGCCAATGTGCTGATTC
AAGGCCAGCGACATTGGACTTAAAAATGACAAAGGCGCT
Found at i:527518 original size:113 final size:113
Alignment explanation
Indices: 527312--527530 Score: 273
Period size: 113 Copynumber: 1.9 Consensus size: 113
527302 TGGACTTAAA
* * *
527312 AATGACAAAGGCGCTAGTATGCTGATTCAAGACTAGCAATATTGGACTTGAGAAAGAAAAAGGTA
1 AATGACAAAGGCGCTAATATGCTGATTCAAGACCAACAATATTGGACTTGAGAAAGAAAAAGGTA
* * *
527377 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACGAGAAG
66 CCAATGTACTGATTCAAAGCCAACGACATTGGACTTAAAGACGAGAAG
* * * *
527425 AATGATAAAGGTGCTAATATGCTGATTCAA-AGCCAATAATATTGGACTT-A-AAGATGACAAAG
1 AATGACAAAGGCGCTAATATGCTGATTCAAGA-CCAACAATATTGGACTTGAGAA-A-GAAAAAG
* * *
527487 GTGCTAATGTACTGATTCAAAGCCAATGACATTGGACTTAAAGA
63 GTACCAATGTACTGATTCAAAGCCAACGACATTGGACTTAAAGA
527531 TGACAAAGAT
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
111 2 0.02
112 3 0.03
113 85 0.94
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (113 bp):
AATGACAAAGGCGCTAATATGCTGATTCAAGACCAACAATATTGGACTTGAGAAAGAAAAAGGTA
CCAATGTACTGATTCAAAGCCAACGACATTGGACTTAAAGACGAGAAG
Found at i:527599 original size:216 final size:216
Alignment explanation
Indices: 527143--527639 Score: 595
Period size: 216 Copynumber: 2.3 Consensus size: 216
527133 CTTAAAGATG
* * * * * * *
527143 TGAAAAATGATAAAGGTGCCAATATACTGATTCATGGCCAGCGATATCAGG-CTTAAAGGTGAGA
1 TGAAAAA-GAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACAT-TGGACTTAAAGATGAGA
* * * * * * *
527207 AGAATGATAAGGTACCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTAATGATGACAAATGT
64 AGAATGATAAGGTACCAATATGCTGATTCAAAGCCAACAATATTGGACTTAAAGATGACAAAGGT
* * * * *
527272 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAAGGCGCTAGTATGCTGA
129 GCCAATGTACTGATTCAAAGCCAACGACATTGGACTTAAAAATGACAAAGACGCTAATATGCTGA
* *
527337 TTCAAGACTAGCAATATTGGACT
194 TTCAAGACCAGCAATAATGGACT
* * *
527360 TGAGAAAGAAAAAGGTACCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACGAGAAG
1 TGAAAAAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAG
* * *
527425 AATGATAAAGGTGCTAATATGCTGATTCAAAGCCAATAATATTGGACTTAAAGATGACAAAGGTG
66 AATGAT-AAGGTACCAATATGCTGATTCAAAGCCAACAATATTGGACTTAAAGATGACAAAGGTG
* * * *
527490 CTAATGTACTGATTCAAAGCCAATGACATTGGACTTAAAGATGACAAAGATG-TCAATATGCTGA
130 CCAATGTACTGATTCAAAGCCAACGACATTGGACTTAAAAATGACAAAGACGCT-AATATGCTGA
* *
527554 -TCAAGGCCAGCGATAATGGACT
194 TTCAAGACCAGCAATAATGGACT
* *** *
527576 TGAAAAAGAAAAAGGTGCCAATGTGCTAATTCAAGTTTAGCGACATTAGACTTAAAGATGAGAA
1 TGAAAAAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAA
527640 AAGCGCTAAT
Statistics
Matches: 236, Mismatches: 41, Indels: 7
0.83 0.14 0.02
Matches are distributed among these distances:
215 2 0.01
216 127 0.54
217 107 0.45
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (216 bp):
TGAAAAAGAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAG
AATGATAAGGTACCAATATGCTGATTCAAAGCCAACAATATTGGACTTAAAGATGACAAAGGTGC
CAATGTACTGATTCAAAGCCAACGACATTGGACTTAAAAATGACAAAGACGCTAATATGCTGATT
CAAGACCAGCAATAATGGACT
Found at i:527694 original size:155 final size:158
Alignment explanation
Indices: 527469--527756 Score: 381
Period size: 155 Copynumber: 1.8 Consensus size: 158
527459 AATAATATTG
* *
527469 GACTTAAAGATGACAAAGGTGCTAATGTACTGATTCAAAGCCAATGACATTGGACTTAAAGATGA
1 GACTTAAAGATGACAAAAGCGCTAATGTACTGATTCAAAGCCAATGACATTGGACTTAAAGATGA
* * *
527534 CAAAGATGTCAATATGCTGA-TCAAGGCCAGCGATAAT-GGACTTGAA-AAAGAAAAA-GGTGCC
66 CAAAGATGCCAATATGCTGATTCAAGGCCAGCAAT-ATCGGACTTAAAGAAAGAAAAAGGGTGCC
527595 AATGTGCTAATTCAAGTTTAGCGACATTA
130 AATGTGCTAATTCAAGTTTAGCGACATTA
* * * * * *
527624 GACTTAAAGATGAGAAAAGCGCTAATGTGCTGATTC-AAGATCAGTGACATTGGGCTT-AGGAAT
1 GACTTAAAGATGACAAAAGCGCTAATGTACTGATTCAAAG-CCAATGACATTGGACTTAAAG-AT
**
527687 GTTAAAGATGCCAATATGCTGATTCAAGGCCAGCAATATCGGACTTAAAGAAAGAAAAATGGGTG
64 GACAAAGATGCCAATATGCTGATTCAAGGCCAGCAATATCGGACTTAAAGAAAGAAAAA-GGGTG
527752 CCAAT
128 CCAAT
527757 ATACTGATTC
Statistics
Matches: 113, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
154 5 0.04
155 69 0.61
156 21 0.19
157 9 0.08
159 9 0.08
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.24
Consensus pattern (158 bp):
GACTTAAAGATGACAAAAGCGCTAATGTACTGATTCAAAGCCAATGACATTGGACTTAAAGATGA
CAAAGATGCCAATATGCTGATTCAAGGCCAGCAATATCGGACTTAAAGAAAGAAAAAGGGTGCCA
ATGTGCTAATTCAAGTTTAGCGACATTA
Found at i:528001 original size:35 final size:32
Alignment explanation
Indices: 527840--528018 Score: 143
Period size: 32 Copynumber: 5.5 Consensus size: 32
527830 CTAACAACAT
* * *
527840 TGGGC-TTAG-AAAGTGATGCCACCGACTTGTG
1 TGGGCTTTAGAAAAG-GTTGCCACCAATTTGTG
* * * * * *
527871 TGGGCTTTTGAGAGGGTTTCCACCGACTTGTG
1 TGGGCTTTAGAAAAGGTTGCCACCAATTTGTG
* *
527903 TAGGCTTT-GAGAAGGGTTGCCACCAATTTGTG
1 TGGGCTTTAGA-AAAGGTTGCCACCAATTTGTG
* *
527935 TGGGCTTTAGAAAAGGTTGCCATCAACTTGTG
1 TGGGCTTTAGAAAAGGTTGCCACCAATTTGTG
527967 TGGGCTTTAGAAGGAAAAGG-TGCCACCAATTTGTG
1 TGGGCTTT---A-GAAAAGGTTGCCACCAATTTGTG
528002 TGGGCTTTTA-AAAAGGT
1 TGGGC-TTTAGAAAAGGT
528019 GAGGAGTGTC
Statistics
Matches: 122, Mismatches: 16, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
31 13 0.11
32 75 0.61
33 5 0.04
35 19 0.16
36 10 0.08
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (32 bp):
TGGGCTTTAGAAAAGGTTGCCACCAATTTGTG
Found at i:528006 original size:67 final size:64
Alignment explanation
Indices: 527856--528018 Score: 177
Period size: 64 Copynumber: 2.5 Consensus size: 64
527846 TAGAAAGTGA
* * * * * * * *
527856 TGCCACCGACTTGTGTGGGCTTTTGAGAGGGTTTCCACCGACTTGTGTAGGCTTTGAGAAGGGT
1 TGCCACCAATTTGTGTGGGCTTTAGAAAAGGTTGCCACCAACTTGTGTAGGCTTTGAGAAGGGG
* *
527920 TGCCACCAATTTGTGTGGGCTTTAGAAAAGGTTGCCATCAACTTGTGTGGGCTTT-AGAAGGAAA
1 TGCCACCAATTTGTGTGGGCTTTAGAAAAGGTTGCCACCAACTTGTGTAGGCTTTGAGAAGG---
527984 AGG
63 -GG
527987 TGCCACCAATTTGTGTGGGCTTTTA-AAAAGGT
1 TGCCACCAATTTGTGTGGGC-TTTAGAAAAGGT
528019 GAGGAGTGTC
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
63 6 0.07
64 46 0.55
67 28 0.33
68 4 0.05
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.31
Consensus pattern (64 bp):
TGCCACCAATTTGTGTGGGCTTTAGAAAAGGTTGCCACCAACTTGTGTAGGCTTTGAGAAGGGG
Found at i:528967 original size:13 final size:13
Alignment explanation
Indices: 528951--528980 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
528941 ATACATTGTT
*
528951 CATTGTATTGATA
1 CATTGTATCGATA
528964 CATTGTATCGATA
1 CATTGTATCGATA
528977 CATT
1 CATT
528981 TTGCATTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:528975 original size:33 final size:33
Alignment explanation
Indices: 528933--528998 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
528923 TTTTCACAAT
*
528933 TTGTATCGATACATTGTT-CATTGTATTGATACA
1 TTGTATCGATACATT-TTGCATTGTATCGATACA
528966 TTGTATCGATACATTTTGCATTGTATCGATACA
1 TTGTATCGATACATTTTGCATTGTATCGATACA
528999 AATTGTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 2 0.06
33 29 0.94
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (33 bp):
TTGTATCGATACATTTTGCATTGTATCGATACA
Found at i:531433 original size:51 final size:51
Alignment explanation
Indices: 531358--531532 Score: 201
Period size: 51 Copynumber: 3.5 Consensus size: 51
531348 AAATTTCTAG
* * **
531358 ATTTTTCAT-CTCGGGGATACTCCAA-TCCCGGTTCCATTTCCAAAACATCA
1 ATTTTTCATAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACATCA
* * * * *
531408 ATTTTTCTTAATCGGGGATACTCCAACTCCGATTTTTTTTCTAAAGCATCG
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCA
** * *
531459 ATTTACCATAATCGGGGATACTTCAACTCCGATTTTATTTCCAAAACACCA
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCA
*
531510 ATTTTTCATAATTGGGGATACTC
1 ATTTTTCATAATCGGGGATACTC
531533 AAACCCCGTT
Statistics
Matches: 101, Mismatches: 22, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
50 8 0.08
51 92 0.91
52 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (51 bp):
ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCA
Found at i:531556 original size:28 final size:27
Alignment explanation
Indices: 531523--531596 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 27
531513 TTTCATAATT
*
531523 GGGGATACTCAAACCCCGTTA-TTTCA
1 GGGGATACTCCAACCCCGTTATTTTCA
531549 TCGGGGATACTCCAACCCCGTTATTTTCGA
1 --GGGGATACTCCAACCCCGTTATTTTC-A
531579 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
531597 ACTTTATATC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
28 38 0.88
29 4 0.09
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTATTTTCA
Found at i:531658 original size:107 final size:107
Alignment explanation
Indices: 531472--531750 Score: 380
Period size: 107 Copynumber: 2.6 Consensus size: 107
531462 TACCATAATC
* * * * * * * *
531472 GGGGATACTTCAACTCCGATTTTATTTCCAAAACACCAATTTTTCATAATTGGGGATACTCAAAC
1 GGGGATACTCCAACCCCGACTTTATATCTAAAATACCAATTTTTCATAATCGGGGATACTCCAAC
* *
531537 CCCGTTATTTCATCGGGGATACTCCAACCCCGTTATTTTCGA
66 CCCGTTATGTCATCGGGGATACTCCAACCCCGTTATTTTCAA
***
531579 GGGGATACTCCAACCCCGACTTTATATCTAAAATATTGATTTTTCATAATCAGGGG-TACTCCAA
1 GGGGATACTCCAACCCCGACTTTATATCTAAAATACCAATTTTTCATAATC-GGGGATACTCCAA
**
531643 CCCCGTTATGTCATCGGGGATACTCCAATTCCGTTATTTTCAA
65 CCCCGTTATGTCATCGGGGATACTCCAACCCCGTTATTTTCAA
* * *
531686 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATATCTAAAATACCAATTTTTCATAATCGGGGATACTCCAAC
531751 TCCGATTTTT
Statistics
Matches: 149, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
106 4 0.03
107 141 0.95
108 4 0.03
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATATCTAAAATACCAATTTTTCATAATCGGGGATACTCCAAC
CCCGTTATGTCATCGGGGATACTCCAACCCCGTTATTTTCAA
Found at i:531670 original size:28 final size:28
Alignment explanation
Indices: 531630--531703 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
531620 TTTCATAATC
531630 AGGGG-TACTCCAACCCCGTTA-TGTCA
1 AGGGGATACTCCAACCCCGTTATTGTCA
* ** *
531656 TCGGGGATACTCCAATTCCGTTATTTTCA
1 -AGGGGATACTCCAACCCCGTTATTGTCA
531685 AGGGGATACTCCAACCCCG
1 AGGGGATACTCCAACCCCG
531704 ATTTTATTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 4 0.11
28 30 0.79
29 4 0.11
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (28 bp):
AGGGGATACTCCAACCCCGTTATTGTCA
Found at i:531749 original size:51 final size:52
Alignment explanation
Indices: 531686--531804 Score: 163
Period size: 52 Copynumber: 2.3 Consensus size: 52
531676 TTATTTTCAA
*
531686 GGGGATACTCCAACCCCGA-TTTTA-TTTCTAAAATACCAATTTT-TCACAATC
1 GGGGATACTCCAACCCCGATTTTTATTTTC-AAAACACCAATTTTCT-ACAATC
* *
531737 GGGGATACTCCAACTCCGATTTTTATTTTCAAAACACCAATTTTCTATAATC
1 GGGGATACTCCAACCCCGATTTTTATTTTCAAAACACCAATTTTCTACAATC
*
531789 AGGGATACTCCAACCC
1 GGGGATACTCCAACCC
531805 TGTTATTTCC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 18 0.30
52 37 0.62
53 5 0.08
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGATTTTTATTTTCAAAACACCAATTTTCTACAATC
Found at i:531869 original size:79 final size:80
Alignment explanation
Indices: 531737--531957 Score: 293
Period size: 80 Copynumber: 2.8 Consensus size: 80
531727 TTTCACAATC
* * *
531737 GGGGATACTCCAACTCCGATTTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACTCCAA
1 GGGGATACTCCAACCCCGA-TTTTACTTTCAAAACACCGATTTTCTATAATCAGGGATACTCCAA
531802 CCCTGTTATTTCCGA-
65 CCCTGTTATTTCCGAG
* * * * *
531817 GGGGATACTCTAACCCCGATTTTAGTTTCAAAATATCGATTTTCTATAATCAGGGATATTCCAAC
1 GGGGATACTCCAACCCCGATTTTACTTTCAAAACACCGATTTTCTATAATCAGGGATACTCCAAC
*
531882 CCTGTTATTTTCGAG
66 CCTGTTATTTCCGAG
* * * *
531897 GGGGATACTCCAATCCTGATTTTACTTCCAAAACACCGATTTT-TCATAATCGGGGATACTC
1 GGGGATACTCCAACCCCGATTTTACTTTCAAAACACCGATTTTCT-ATAATCAGGGATACTC
531958 TAGCCCCGTT
Statistics
Matches: 122, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
79 55 0.45
80 67 0.55
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (80 bp):
GGGGATACTCCAACCCCGATTTTACTTTCAAAACACCGATTTTCTATAATCAGGGATACTCCAAC
CCTGTTATTTCCGAG
Found at i:538595 original size:79 final size:79
Alignment explanation
Indices: 538498--538693 Score: 223
Period size: 79 Copynumber: 2.5 Consensus size: 79
538488 AATGGGGTTT
** * * ** * *
538498 GAGTATCCCCTTAAAAATAACAGGGTTGGAGTATCCTCGGTTGTGAAAAATCGATGA-TTAGGAA
1 GAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAAT-ATTTAGGAA
*
538562 ATAAAATCGGGATTG
65 ATAAAACCGGGATTG
* *
538577 GAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAA
1 GAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTAGGAAA
* *
538642 TAAAGCCGGGGTTG
66 TAAAACCGGGATTG
* ** *
538656 GAGTATCCCCTCGGAGGTAATGGGGTTGGAGTATCCCC
1 GAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCC
538694 GATGAAATAA
Statistics
Matches: 99, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 1 0.01
79 98 0.99
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (79 bp):
GAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTAGGAAA
TAAAACCGGGATTG
Found at i:538691 original size:107 final size:108
Alignment explanation
Indices: 538574--538773 Score: 260
Period size: 107 Copynumber: 1.9 Consensus size: 108
538564 AAAATCGGGA
* * *
538574 TTGGAGTATCCCC-TTGGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTT
1 TTGGAGTATCCCCGAT-GAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTTT
* **
538637 GGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAATGGGG
65 GGAAATAAAACCGAAGTTGGAGTATCCCCTCGGAGGTAATGGGG
* * * ** *
538681 TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGATGTTTTTG
1 TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTTTG
*
538746 GAAATAAAATCGAAGTTGGAGTATCCCC
66 GAAATAAAACCGAAGTTGGAGTATCCCC
538774 GATTAAAGGA
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
107 48 0.62
108 30 0.38
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (108 bp):
TTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTTTG
GAAATAAAACCGAAGTTGGAGTATCCCCTCGGAGGTAATGGGG
Found at i:538777 original size:52 final size:51
Alignment explanation
Indices: 538708--538840 Score: 167
Period size: 52 Copynumber: 2.6 Consensus size: 51
538698 AAATAACGAG
* * * *
538708 GTTGGAGTATCCTCGATTGTGAAAAATTGATGTTTTTGGAAATAAAATCGAA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGATG-TTTTGAAAATAAAACCGAA
** * **
538760 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-GTGGAAAATTGATGTTTTGAAAATAAAACCGAA
538812 GTTGGAGTATCCCCGATTGTGGAAAATTG
1 GTTGGAGTATCCCCGATTGTGGAAAATTG
538841 GGAAACTTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
51 9 0.13
52 50 0.72
53 10 0.14
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTGAAAATAAAACCGAA
Found at i:541050 original size:13 final size:13
Alignment explanation
Indices: 541032--541057 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
541022 ACAAAGATCG
541032 ATGTATCGATACA
1 ATGTATCGATACA
541045 ATGTATCGATACA
1 ATGTATCGATACA
541058 CTTCCTTAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:541068 original size:21 final size:21
Alignment explanation
Indices: 541044--541085 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
541034 GTATCGATAC
541044 AATGTATCGATACACTTCCTT
1 AATGTATCGATACACTTCCTT
*
541065 AATGTATCGATACATTTCCTT
1 AATGTATCGATACACTTCCTT
541086 GGCAGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACACTTCCTT
Found at i:541264 original size:10 final size:9
Alignment explanation
Indices: 541248--541272 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
541238 CAAAAATGTG
541248 ATTTTTTTT
1 ATTTTTTTT
541257 ATTTTTTTT
1 ATTTTTTTT
541266 ATTTTTT
1 ATTTTTT
541273 ATTTTAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:542206 original size:55 final size:54
Alignment explanation
Indices: 542123--542534 Score: 529
Period size: 55 Copynumber: 7.4 Consensus size: 54
542113 AGAGAAAGCA
* * *
542123 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
542178 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
542233 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
** * *
542294 TCCTGCTCTTTGAGGACTGAAAGTGCCACCGGCTTGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
542348 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * *
542403 TCCCGCTCTTTAAGGGCTGAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
542458 TCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
542513 TCCTGCTCTTTGAGGACT-AAAG
1 TCCTGCTCTTTGAGGACTGAAAG
542535 GGTGAAAGGA
Statistics
Matches: 315, Mismatches: 33, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
53 1 0.00
54 32 0.10
55 231 0.73
60 23 0.07
61 28 0.09
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:542413 original size:170 final size:169
Alignment explanation
Indices: 541993--542530 Score: 744
Period size: 170 Copynumber: 3.1 Consensus size: 169
541983 AGAGGAAAAT
* *** *
541993 AAAGTGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAA
1 AAAG-GCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTATGTGGGCTTT-AAAAGG--A
* * *
542058 GGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCA
62 ---GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGAGAAGGCG
* *
542123 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTATGGGCTTTG
123 TCCTGCTCTTTGAGGATT-GAAAGTGCCACCAACTTGTGTGGGCTTTG
* *
542171 AAAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCGTCC
1 AAAGGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAGTCC
542236 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCTGCT
66 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-GAGAAGGCGTCCTGCT
* ** *
542301 CTTTGAGGACTGAAAGTGCCACCGGCTTGTGTGGGCTTTA
130 CTTTGAGGATTGAAAGTGCCACCAACTTGTGTGGGCTTTG
*
542341 AAAGGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCC
1 AAAGGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAGTCC
* * * * *
542406 CGCTCTTTAAGGGCTGAAAGGTGCCACCAACTTATGTGGGCTTT----GA-AAGGTGTCCTGCTC
66 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAGAAGGCGTCCTGCTC
542466 TTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
131 TTTGAGGATTGAAA-GTGCCACCAACTTGTGTGGGCTTTG
542506 AAAGGCATCCTGCTCTTTGAGGACT
1 AAAGGCATCCTGCTCTTTGAGGACT
542531 AAAGGGTGAA
Statistics
Matches: 330, Mismatches: 28, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
164 26 0.08
165 49 0.15
170 129 0.39
171 72 0.22
176 6 0.02
177 44 0.13
178 4 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (169 bp):
AAAGGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAGTCC
TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAGAAGGCGTCCTGCTC
TTTGAGGATTGAAAGTGCCACCAACTTGTGTGGGCTTTG
Found at i:542441 original size:225 final size:228
Alignment explanation
Indices: 542001--542510 Score: 742
Period size: 225 Copynumber: 2.2 Consensus size: 228
541991 ATAAAGTGCA
* * * **
542001 TCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAGGCGTCCT
*
542066 GCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTC
65 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-CAAAGAG--AGCATCCTGCTC
* * * * *
542131 TTTGAGGATTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT
127 TTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTAAAAGGAGTCCCGCTCTTTAAGGACT
*
542196 GGGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCG
192 GGAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCG
542233 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGA-AAGGCGTCCT
**
542298 GCTCTTTGAGGACT-GAAAGTGCCACCGGCTTGTGTGGGCTTT-AAA-AG-GCATCCTGCTCTTT
65 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTCAAAGAGAGCATCCTGCTCTTT
* * * *
542359 GAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCCGCTCTTTAAGGGCT-GA
130 GAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTAAAAGGAGTCCCGCTCTTTAAGGACTGGA
* *
542423 AAGGTGCCACCAACTTATGTGGGCTTTGAAAGGTG
195 AA-GTGCCACCAACTTATGTGGGCTTTAAAAGGCG
*
542458 TCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
542511 CATCCTGCTC
Statistics
Matches: 255, Mismatches: 21, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
224 3 0.01
225 149 0.58
228 2 0.01
229 3 0.01
231 31 0.12
232 67 0.26
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (228 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCGTCCTG
CTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTCAAAGAGAGCATCCTGCTCTTTG
AGGACTGGAAAATGCCACCAACTTGTATGGGCTTTAAAAGGAGTCCCGCTCTTTAAGGACTGGAA
AGTGCCACCAACTTATGTGGGCTTTAAAAGGCG
Found at i:542456 original size:29 final size:28
Alignment explanation
Indices: 542420--542510 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 28
542410 CTTTAAGGGC
542420 TGAAAGGTGCCACCAACTTATGTGGGCTT
1 TGAAAGGTGCCACCAACTT-TGTGGGCTT
** * * *
542449 TGAAAGGTGTCCTGC-TCTTTG-AGG-AT
1 TGAAAGGTG-CCACCAACTTTGTGGGCTT
542475 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTT-TGTGGGCTT
542504 TGAAAGG
1 TGAAAGG
542511 CATCCTGCTC
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
25 3 0.06
26 13 0.28
27 4 0.09
28 4 0.09
29 20 0.43
30 3 0.06
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (28 bp):
TGAAAGGTGCCACCAACTTTGTGGGCTT
Found at i:543616 original size:12 final size:11
Alignment explanation
Indices: 543602--543658 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
543592 AAGCAGATTC
543602 TCTTTTTTTTT
1 TCTTTTTTTTT
*
543613 CTCTTTTTTCTT
1 -TCTTTTTTTTT
*
543625 TGTTTTTTTTT
1 TCTTTTTTTTT
*
543636 TGTTTTTTTTAT
1 TCTTTTTTTT-T
543648 T-TTTTATTTTT
1 TCTTTT-TTTTT
543659 AAAAAGAATG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
11 24 0.60
12 16 0.40
ACGTcount: A:0.04, C:0.07, G:0.04, T:0.86
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:543631 original size:24 final size:23
Alignment explanation
Indices: 543604--543658 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
543594 GCAGATTCTC
*
543604 TTTTTTTTTCTCTTTTTTCTTTGT
1 TTTTTTTTTCTCTTTTTTATTT-T
* *
543628 TTTTTTTTTGTTTTTTTTATTTT
1 TTTTTTTTTCTCTTTTTTATTTT
*
543651 TTATTTTT
1 TTTTTTTT
543659 AAAAAGAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.04, C:0.05, G:0.04, T:0.87
Consensus pattern (23 bp):
TTTTTTTTTCTCTTTTTTATTTT
Found at i:555378 original size:79 final size:79
Alignment explanation
Indices: 555281--555479 Score: 213
Period size: 79 Copynumber: 2.5 Consensus size: 79
555271 AACGGGGTTG
* * * * * *
555281 GAGTATCCCCTTGAAAATAACAGGGTTGGAGTATCCCCGGTTGTGA-AAAGTCGATGA-TTAGGA
1 GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAA-TCAAT-ATTTAGGA
*
555344 AATAAAATCAGGATTA
64 AATAAAACCAGGATTA
* * *
555360 GAGTATCCCCTCGGAAATAACGGGGTTGAAGTATCCCCAATTATGAGAAATCAATATTTTGGAAA
1 GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGGAAA
* * * *
555425 TAAAGCCGGGGTTG
66 TAAAACCAGGATTA
* **
555439 GAGTATCCCCTCTGAGGTAACGGGGTTGGAGTATCCCCGAT
1 GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
555480 GAAATAACGA
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
78 1 0.01
79 95 0.96
80 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (79 bp):
GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGGAAA
TAAAACCAGGATTA
Found at i:555471 original size:28 final size:28
Alignment explanation
Indices: 555431--555502 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
555421 GAAATAAAGC
** **
555431 CGGGGTTGGAGTATCCCCTCTGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
555459 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
555487 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
555503 TCGTTTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:555605 original size:51 final size:54
Alignment explanation
Indices: 555511--555611 Score: 147
Period size: 51 Copynumber: 1.9 Consensus size: 54
555501 CCTCGTTTGT
*
555511 GAAAACTTGGTGCTTTTGGAAAAAAAATCGGAGTTGAAGTATCCCCGATTAAAG
1 GAAAACTTGGTGCTTTTGGAAAAAAAACCGGAGTTGAAGTATCCCCGATTAAAG
*
555565 GAAAA-TTGGTG-TTTT-GAAAATAAAACCGG-GTTGGAGTATCCCCGATT
1 GAAAACTTGGTGCTTTTGGAAAA-AAAACCGGAGTTGAAGTATCCCCGATT
555612 GTGGAAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
51 22 0.50
52 11 0.25
53 6 0.14
54 5 0.11
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (54 bp):
GAAAACTTGGTGCTTTTGGAAAAAAAACCGGAGTTGAAGTATCCCCGATTAAAG
Found at i:557886 original size:13 final size:13
Alignment explanation
Indices: 557868--557893 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
557858 ACAAAGATCG
557868 ATGTATCGATACA
1 ATGTATCGATACA
557881 ATGTATCGATACA
1 ATGTATCGATACA
557894 CTTCCTAAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:557904 original size:21 final size:21
Alignment explanation
Indices: 557880--557920 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
557870 GTATCGATAC
557880 AATGTATCGATACACTTCCTA
1 AATGTATCGATACACTTCCTA
* *
557901 AATGTATTGATACATTTCCT
1 AATGTATCGATACACTTCCT
557921 TGGCAGTAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.39
Consensus pattern (21 bp):
AATGTATCGATACACTTCCTA
Found at i:557970 original size:19 final size:20
Alignment explanation
Indices: 557946--557999 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
557936 GGCGATACAT
*
557946 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGAA
**
557965 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACTGAA
557986 TGTATCGATACAAA
1 TGTATCGATACAAA
558000 TTATTGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAAAACTGAA
Found at i:558109 original size:17 final size:18
Alignment explanation
Indices: 558087--558120 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
558077 AAATGTGATT
558087 TTTTTTATTTTT-TTTTA
1 TTTTTTATTTTTATTTTA
558104 TTTTTTATTTTTATTTT
1 TTTTTTATTTTTATTTT
558121 TTGTTTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (18 bp):
TTTTTTATTTTTATTTTA
Found at i:558114 original size:13 final size:13
Alignment explanation
Indices: 558084--558127 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
558074 CAAAAATGTG
558084 ATTTTT-TTTATTT
1 ATTTTTATTT-TTT
*
558097 TTTTTTATTTTTT
1 ATTTTTATTTTTT
558110 ATTTTTATTTTTT
1 ATTTTTATTTTTT
*
558123 GTTTT
1 ATTTT
558128 AGAAACACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 24 0.89
14 3 0.11
ACGTcount: A:0.11, C:0.00, G:0.02, T:0.86
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:558145 original size:14 final size:14
Alignment explanation
Indices: 558126--558154 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
558116 ATTTTTTGTT
558126 TTAGAAACACTCTA
1 TTAGAAACACTCTA
558140 TTAGAAACACTCTA
1 TTAGAAACACTCTA
558154 T
1 T
558155 CTCGACTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (14 bp):
TTAGAAACACTCTA
Found at i:559868 original size:12 final size:12
Alignment explanation
Indices: 559847--559878 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
559837 TAGACCCTTC
559847 TTTTTT-TTATT
1 TTTTTTGTTATT
559858 TTTTTTGTTATT
1 TTTTTTGTTATT
559870 TTTTTTGTT
1 TTTTTTGTT
559879 GTTGTTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.88
Consensus pattern (12 bp):
TTTTTTGTTATT
Found at i:567359 original size:60 final size:60
Alignment explanation
Indices: 567266--567446 Score: 362
Period size: 60 Copynumber: 3.0 Consensus size: 60
567256 AACACGATTA
567266 CATCTGAAAATATCTAACGTGATTACACTGTGTAATCATGAGATCAAGAAAATTCAAAAG
1 CATCTGAAAATATCTAACGTGATTACACTGTGTAATCATGAGATCAAGAAAATTCAAAAG
567326 CATCTGAAAATATCTAACGTGATTACACTGTGTAATCATGAGATCAAGAAAATTCAAAAG
1 CATCTGAAAATATCTAACGTGATTACACTGTGTAATCATGAGATCAAGAAAATTCAAAAG
567386 CATCTGAAAATATCTAACGTGATTACACTGTGTAATCATGAGATCAAGAAAATTCAAAAG
1 CATCTGAAAATATCTAACGTGATTACACTGTGTAATCATGAGATCAAGAAAATTCAAAAG
567446 C
1 C
567447 TGCTGCTCGC
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 121 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (60 bp):
CATCTGAAAATATCTAACGTGATTACACTGTGTAATCATGAGATCAAGAAAATTCAAAAG
Found at i:568517 original size:96 final size:96
Alignment explanation
Indices: 568353--568545 Score: 377
Period size: 96 Copynumber: 2.0 Consensus size: 96
568343 CTATGGCATG
568353 ATGGGAAGTGTATTGATTAAAGGGGGAAGATTGGTAGATGAATCGCCCATCTAATTGATCTTCTA
1 ATGGGAAGTGTATTGATTAAAGGGGGAAGATTGGTAGATGAATCGCCCATCTAATTGATCTTCTA
568418 TGGTCACTACGAAGTGACCAAAATTTGGAGT
66 TGGTCACTACGAAGTGACCAAAATTTGGAGT
568449 ATGGGAAGTGTATTGATTAAAGGGGGAAGATTGGTAGATGAATCGCCCATCTAATTGATCTTCTA
1 ATGGGAAGTGTATTGATTAAAGGGGGAAGATTGGTAGATGAATCGCCCATCTAATTGATCTTCTA
*
568514 TGGTCACTACGAAGTGACCGAAATTTGGAGT
66 TGGTCACTACGAAGTGACCAAAATTTGGAGT
568545 A
1 A
568546 GCCACCGATC
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (96 bp):
ATGGGAAGTGTATTGATTAAAGGGGGAAGATTGGTAGATGAATCGCCCATCTAATTGATCTTCTA
TGGTCACTACGAAGTGACCAAAATTTGGAGT
Found at i:571635 original size:32 final size:32
Alignment explanation
Indices: 571557--571663 Score: 171
Period size: 32 Copynumber: 3.4 Consensus size: 32
571547 GTAGTAGCTT
* * *
571557 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACAGTGTATTGATACAACACTTA
*
571589 TGTAT-GATACAGTGTATTGATACAACATTTA
1 TGTATCGATACAGTGTATTGATACAACACTTA
571620 TGTATCGATACAGTGTATTGATACAACACTTA
1 TGTATCGATACAGTGTATTGATACAACACTTA
571652 TGTATCGATACA
1 TGTATCGATACA
571664 TTTACTATCT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
31 28 0.41
32 41 0.59
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAGTGTATTGATACAACACTTA
Found at i:572537 original size:52 final size:48
Alignment explanation
Indices: 572476--572747 Score: 186
Period size: 52 Copynumber: 5.4 Consensus size: 48
572466 TGTGCTGAGA
* *
572476 CAAGGCCAACGACATTGGGCTTAGGAATGTTAACGATGCCAATATGATGATT
1 CAAGGCCAACGACATTGGACTTAGG-ATG--AAAG-TGCCAATATGATGATT
* * * *
572528 CAAGGCCAACGATATTGGACTTAAGGATGAAAGTGCTAATGTGCTGATT
1 CAAGGCCAACGACATTGGACTT-AGGATGAAAGTGCCAATATGATGATT
* * * * *
572577 CAAGGCCAGCGACATTGGTCTTAAAGATGACGAAAGCGCCAATATGCTGATT
1 CAAGGCCAACGACATTGGACTT--AG--GATGAAAGTGCCAATATGATGATT
* * * * * *
572629 CAAGGCCAGCGATATTGGA-TTAAAAGATGAAGGTGCCAATGTGCTGATT
1 CAAGGCCAACGACATTGGACTT--AGGATGAAAGTGCCAATATGATGATT
** * * *
572678 CAAGGCCAGGGACATTGGACTTAAAGATGACGAAGGTACCAATATGCTGATT
1 CAAGGCCAACGACATTGGACTT-AGGATGA--AA-GTGCCAATATGATGATT
* *
572730 TAAGGCCAACGATATTGG
1 CAAGGCCAACGACATTGG
572748 GCTTGTGCCA
Statistics
Matches: 183, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
49 77 0.42
50 8 0.04
51 6 0.03
52 89 0.49
53 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (48 bp):
CAAGGCCAACGACATTGGACTTAGGATGAAAGTGCCAATATGATGATT
Found at i:572618 original size:101 final size:88
Alignment explanation
Indices: 572559--573109 Score: 667
Period size: 87 Copynumber: 6.0 Consensus size: 88
572549 TAAGGATGAA
* * *
572559 AGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGAAAGCGCCAATATGC
1 AGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGC
* *
572624 TGATTCAAGGCCAGCGATATTGGATTAAAAGATGA
62 TGATTCAAGGCCAGCGATATTGG-------GCT-T
* * *
572659 AGGTGCCAATGTGCTGATTCAAGGCCAGGGACATTGGACTTAAAGATGACGAAGGTACCAATATG
1 A-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATG
* *
572724 CTGATTTAAGGCCAACGATATTGGGCTT
61 CTGATTCAAGGCCAGCGATATTGGGCTT
*
572752 -GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGAT
1 AGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGAT
572816 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
572839 A-TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGAT
1 AGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGAT
*
572903 TCAAGGCCAGCAATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * *
572926 A-TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAAGTGTCAATATGCTGAT
1 AGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGAT
572990 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * * * *
573013 AAAGACAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGACAAGGTGTCAAT
1 -------A-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAAT
*
573078 ATGCTAATTCAAGGCCAGCGATATTGGGCTT
58 ATGCTGATTCAAGGCCAGCGATATTGGGCTT
573109 A
1 A
573110 AAGGTGCCAC
Statistics
Matches: 411, Mismatches: 29, Indels: 33
0.87 0.06 0.07
Matches are distributed among these distances:
87 206 0.50
88 3 0.01
89 2 0.00
90 2 0.00
91 36 0.09
94 3 0.01
96 79 0.19
100 1 0.00
101 79 0.19
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (88 bp):
AGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGGCTT
Found at i:572774 original size:39 final size:39
Alignment explanation
Indices: 572716--572960 Score: 193
Period size: 39 Copynumber: 5.8 Consensus size: 39
572706 GACGAAGGTA
* * *
572716 CCAATATGCTGATTTAAGGCCAACGATATTGGGCTTGTG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTGTG
* * *
572755 CCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT---------GTG
* *
572803 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTGTG
* *
572842 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT---------GTG
* * *
572890 CCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTATG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTGTG
* *
572929 CCAATGTGCTGATTCAAGGCCAACGACATTGG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGG
572961 TCTTAAAGAC
Statistics
Matches: 164, Mismatches: 24, Indels: 36
0.73 0.11 0.16
Matches are distributed among these distances:
39 95 0.58
48 69 0.42
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (39 bp):
CCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTGTG
Found at i:572828 original size:48 final size:48
Alignment explanation
Indices: 572752--573112 Score: 443
Period size: 48 Copynumber: 7.9 Consensus size: 48
572742 TATTGGGCTT
* * * *
572752 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGACAAG
572800 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------A-
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGACAAG
* * *
572840 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGACAAG
*
572887 GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTT-------A-
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGACAAG
* * * * *
572927 -TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGACAAG
*
572974 GTGTCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGACAAG
*
573022 GTGTCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGACAAG
* *
573070 GTGTCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAG
573113 GTGCCACGGA
Statistics
Matches: 272, Mismatches: 23, Indels: 36
0.82 0.07 0.11
Matches are distributed among these distances:
39 68 0.25
41 2 0.01
46 2 0.01
48 200 0.74
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGACAAG
Found at i:573153 original size:75 final size:75
Alignment explanation
Indices: 573061--573293 Score: 412
Period size: 75 Copynumber: 3.1 Consensus size: 75
573051 TATTGGGCTT
* * *
573061 AAAGACAAGGTGTCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTAAAGGTGCCACGGAGTT
1 AAAGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGGTGCCACGGAGTT
573126 GTGGACTTAA
66 GTGGACTTAA
* *
573136 AAAGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTTAAAAGTGCCACGGAGTT
1 AAAGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGGTGCCACGGAGTT
573201 GTGGACTTAA
66 GTGGACTTAA
*
573211 AAAGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGGTGCCACAGAGTT
1 AAAGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGGTGCCACGGAGTT
573276 GTGGACTTAA
66 GTGGACTTAA
573286 AAAGAAAA
1 AAAGAAAA
573294 AGATGCCACG
Statistics
Matches: 150, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 150 1.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.22
Consensus pattern (75 bp):
AAAGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGGTGCCACGGAGTT
GTGGACTTAA
Found at i:573331 original size:29 final size:30
Alignment explanation
Indices: 573289--573351 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
573279 GACTTAAAAA
*
573289 GAAAAAGATGCCACGGACTTGTGGGC-TTT
1 GAAAAAGATGCCACGGACTTATGGGCTTTT
*
573318 GAAAAAGATGCCACTGACTTATGGGCTTTT
1 GAAAAAGATGCCACGGACTTATGGGCTTTT
573348 GAAA
1 GAAA
573352 GGTAAGGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (30 bp):
GAAAAAGATGCCACGGACTTATGGGCTTTT
Found at i:578590 original size:13 final size:13
Alignment explanation
Indices: 578572--578599 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
578562 CATTACTCAA
578572 TGTATCGATACAT
1 TGTATCGATACAT
578585 TGTATCGATACAT
1 TGTATCGATACAT
578598 TG
1 TG
578600 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Done.