Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold247
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: 4737410
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 12 of 29
Found at i:1676890 original size:158 final size:157
Alignment explanation
Indices: 1676412--1676888 Score: 501
Period size: 158 Copynumber: 3.0 Consensus size: 157
1676402 TTTGGAGATA
* * * * * * * *
1676412 AAAACGAGGTTGGAGTATCTCCTTGGAAATAACAAGGTTGGAGTATCCCTGATGGTAAAAAATCG
1 AAAACGGGGTTGGAGTATCCCCTAGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCG
* * * * * *
1676477 ATGTTTTGGAAATAAAACTAAGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCTCG
66 ATGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCTTCGGAAATAACGGGATTAGAGTATCCTCG
* *** * *
1676542 ATTGTGAAAAATTAATGTTTTAAAAAT
131 ATGGTGAAAAATCGGTATTTTAGAAAT
* * * * * * *
1676569 AAAGCTAGAGTTGGAGTATCCCCTAAAAAATAACGGGGTTGGAGTATCTCCGATTATGAAAAATC
1 AAAAC-GGGGTTGGAGTATCCCCTAGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATC
* * * *
1676634 GGTGTTTT-AGAAATAAAAACC-GAGGTTAGAGTATCCCTTCAGAAATAACAGGA-TAGGAGTAT
65 GATGTTTTGA-AAAT-AAAACCAG-GGTTGGAGTATCCCTTCGGAAATAACGGGATTA-GAGTAT
* * *
1676696 CCCCGATGGTGAAAAATCGGTGTTTCAGAAAT
126 CCTCGATGGTGAAAAATCGGTATTTTAGAAAT
* * * * *
1676728 AAAACGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAGAATATCCCCGATTGTGGAAAATCA
1 AAAACGGGGTTGGAGTATCCCCTAGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCG
* * *
1676793 ATGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTCGGAAATAATGGGATTAAAGTATCCTCG
66 ATGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCTTCGGAAATAACGGGATTAGAGTATCCTCG
*
1676858 ATGGTGGAAAATCGGTATTTTAGAAAT
131 ATGGTGAAAAATCGGTATTTTAGAAAT
1676885 AAAA
1 AAAA
1676889 ACATGAATAA
Statistics
Matches: 257, Mismatches: 55, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
157 72 0.28
158 119 0.46
159 66 0.26
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (157 bp):
AAAACGGGGTTGGAGTATCCCCTAGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCG
ATGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCTTCGGAAATAACGGGATTAGAGTATCCTCG
ATGGTGAAAAATCGGTATTTTAGAAAT
Found at i:1679283 original size:20 final size:20
Alignment explanation
Indices: 1679260--1679299 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1679250 TTGATATATT
*
1679260 GAGAAATGTATCGATACATC
1 GAGAAATGTATCAATACATC
1679280 GAGAAATGTATCAATACATC
1 GAGAAATGTATCAATACATC
1679300 TAGGTAAAAC
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:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (20 bp):
GAGAAATGTATCAATACATC
Found at i:1680868 original size:20 final size:21
Alignment explanation
Indices: 1680824--1680877 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1680814 TTCTATAATT
* *
1680824 TGTATCGATATAAACAGTCAA
1 TGTATCGATACATACAGTCAA
*
1680845 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATACAGTCAA
*
1680865 TGTATTGATACAT
1 TGTATCGATACAT
1680878 GCCTAAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATACAGTCAA
Found at i:1680970 original size:20 final size:22
Alignment explanation
Indices: 1680925--1680979 Score: 78
Period size: 20 Copynumber: 2.6 Consensus size: 22
1680915 GGAAAGAAAA
1680925 TGTATCGATACATGTTTACAAT
1 TGTATCGATACATGTTTACAAT
* *
1680947 TGTATCGATATAT-TTTTC-AT
1 TGTATCGATACATGTTTACAAT
1680967 TGTATCGATACAT
1 TGTATCGATACAT
1680980 TATGGGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 14 0.47
21 4 0.13
22 12 0.40
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (22 bp):
TGTATCGATACATGTTTACAAT
Found at i:1682213 original size:8 final size:8
Alignment explanation
Indices: 1682200--1682229 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
1682190 TTGTGCTGTA
1682200 ATCATAAC
1 ATCATAAC
1682208 ATCATAAC
1 ATCATAAC
1682216 ATCAATAAC
1 ATC-ATAAC
1682225 ATCAT
1 ATCAT
1682230 TATTTGCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (8 bp):
ATCATAAC
Found at i:1682404 original size:32 final size:32
Alignment explanation
Indices: 1682334--1682773 Score: 339
Period size: 31 Copynumber: 13.8 Consensus size: 32
1682324 ATACCTTCTT
*
1682334 AAAGTCCACGACTCAGTGGCAATC--TTTTCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTTTTTC
*
1682365 AAAGTCCACGACTCAATGGCATCTTTTTTTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTTTTTC
*
1682397 AAAGTCCACGACTCAATGGCATCTTTTTTTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTTTTTC
* *
1682429 AAAGTCCACGACTCAGTGTCATC-TTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTTTTTC
* **
1682460 AAAGTCCACGACTCAGTGGCA--TTTTGTCCC
1 AAAGTCCACGACTCAGTGGCATCTTTTTTTTC
* * *
1682490 AAAGTCCACGACTTAGTGGTAATC--TCTTTTC
1 AAAGTCCACGACTCAGTGG-CATCTTTTTTTTC
* * **
1682521 AAACTCCACGACTCAGTGGCA-C-TTTGTCCC
1 AAAGTCCACGACTCAGTGGCATCTTTTTTTTC
* * * *
1682551 AAAGTCCATGACTTAGTGGTAATC--TCTTTTC
1 AAAGTCCACGACTCAGTGG-CATCTTTTTTTTC
* *
1682582 AAACTCCACGACTCAGTGGCATC-TTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTTTTTC
*
1682613 AAAGTCCACGACTCTGTGGCA-CATTTTTCTTTTC
1 AAAGTCCACGACTCAGTGGCATC--TTTT-TTTTC
* * * * *
1682647 AAAGCCCACCACTCTGTGGCACCTTTTCTTTTT
1 AAAGTCCACGACTCAGTGGCATCTTTT-TTTTC
* * * *
1682680 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTC
1 AAAGTCCACGACTCAGTGGCATC-TTTT-TTTTC
* * * * *
1682714 AAAGCCCACCACTCTGTGGCACCTTTTCTTTTT
1 AAAGTCCACGACTCAGTGGCATCTTTT-TTTTC
* * * *
1682747 AAAGCCCACAACTCCGTGGCACCTTTT
1 AAAGTCCACGACTCAGTGGCATCTTTT
1682774 CCTTTTAAAG
Statistics
Matches: 342, Mismatches: 51, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
29 1 0.00
30 49 0.14
31 111 0.32
32 60 0.18
33 67 0.20
34 53 0.15
35 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (32 bp):
AAAGTCCACGACTCAGTGGCATCTTTTTTTTC
Found at i:1682523 original size:61 final size:60
Alignment explanation
Indices: 1682334--1682667 Score: 330
Period size: 61 Copynumber: 5.3 Consensus size: 60
1682324 ATACCTTCTT
* * *
1682334 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACGACTCAATGG-CATCTTTTTTTTC
1 AAAGTCCACGACTCAGTGGC-AT-TTTTCTCAAAGTCCACGACTCAGTGGTAATC--TCTTTTC
* * * *
1682397 AAAGTCCACGACTCAATGGCATCTTTTTTTTCAAAGTCCACGACTCAGT-GTCATCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCA---TTTTTCTCAAAGTCCACGACTCAGTGGTAATCTCTT-TTC
* *
1682460 AAAGTCCACGACTCAGTGGCATTTTGTCCCAAAGTCCACGACTTAGTGGTAATCTCTTTTC
1 AAAGTCCACGACTCAGTGGCATTTT-TCTCAAAGTCCACGACTCAGTGGTAATCTCTTTTC
* * * * *
1682521 AAACTCCACGACTCAGTGGCACTTTGTCCCAAAGTCCATGACTTAGTGGTAATCTCTTTTC
1 AAAGTCCACGACTCAGTGGCA-TTTTTCTCAAAGTCCACGACTCAGTGGTAATCTCTTTTC
* * * *
1682582 AAACTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCTGTGGCACATTTTTCTTTTC
1 AAAGTCCACGACTCAGTGGCAT-TTTTC-TCAAAGTCCACGACTCAGTGGTA-A--TCTCTTTTC
* * *
1682647 AAAGCCCACCACTCTGTGGCA
1 AAAGTCCACGACTCAGTGGCA
1682668 CCTTTTCTTT
Statistics
Matches: 235, Mismatches: 23, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
60 5 0.02
61 100 0.43
62 34 0.14
63 44 0.19
64 26 0.11
65 26 0.11
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.32
Consensus pattern (60 bp):
AAAGTCCACGACTCAGTGGCATTTTTCTCAAAGTCCACGACTCAGTGGTAATCTCTTTTC
Found at i:1682590 original size:92 final size:90
Alignment explanation
Indices: 1682334--1682639 Score: 269
Period size: 92 Copynumber: 3.3 Consensus size: 90
1682324 ATACCTTCTT
* * * **
1682334 AAAGTCCACGACTCAGTGGCAATCTTTTCT-CAAAGTCCACGACTCAATGGCATCTTTTTTTTCA
1 AAAGTCCACGACTCAGTGGC-A-CTTTTCTCCAAAGTCCACGACTCAGTGG-A-ATTTTGTCCCA
* * * *
1682398 AAGTCCACGACTCAATGGCATCTTTTTTTTC
62 AACTCCACGACTCAGTGGAATC--TCTTTTC
* * * *
1682429 AAAGTCCACGACTCAGTGTCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTGTCCCAAAG
1 AAAGTCCACGACTCAGTGGCA-CTTTTCTCCAAAGTCCACGACTCAGTGGAATTTTGTCCCAAAC
*
1682494 TCCACGACTTAGTGGTAATCTCTTTTC
65 TCCACGACTCAGTGG-AATCTCTTTTC
* * * *
1682521 AAACTCCACGACTCAGTGGCACTTTGTC-CCAAAGTCCATGACTTAGTGGTAATCTCTT-T-TCA
1 AAAGTCCACGACTCAGTGGCACTTT-TCTCCAAAGTCCACGACTCAGTGG-AAT-T-TTGTCCCA
* *
1682583 AACTCCACGACTCAGTGGCATCTTTTCTTC
62 AACTCCACGACTCAGTGGAATCTCTT-TTC
*
1682613 AAAGTCCACGACTCTGTGGCACATTTT
1 AAAGTCCACGACTCAGTGGCAC-TTTT
1682640 TCTTTTCAAA
Statistics
Matches: 179, Mismatches: 24, Indels: 19
0.81 0.11 0.09
Matches are distributed among these distances:
91 28 0.16
92 71 0.40
93 28 0.16
94 14 0.08
95 38 0.21
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (90 bp):
AAAGTCCACGACTCAGTGGCACTTTTCTCCAAAGTCCACGACTCAGTGGAATTTTGTCCCAAACT
CCACGACTCAGTGGAATCTCTTTTC
Found at i:1682684 original size:33 final size:33
Alignment explanation
Indices: 1682575--1682789 Score: 258
Period size: 33 Copynumber: 6.5 Consensus size: 33
1682565 AGTGGTAATC
* * *
1682575 TCTTTTCAAA-CTCCACGACTCAGTGGCATCTTT
1 TCTTTTCAAAGC-CCACAACTCTGTGGCACCTTT
* * *
1682608 TC--TTCAAAGTCCACGACTCTGTGGCACATTTT
1 TCTTTTCAAAGCCCACAACTCTGTGGCAC-CTTT
*
1682640 TCTTTTCAAAGCCCACCACTCTGTGGCACCTTT
1 TCTTTTCAAAGCCCACAACTCTGTGGCACCTTT
* *
1682673 TCTTTTTAAAGCCCACAACTCCGTGGCACCTTTT
1 TCTTTTCAAAGCCCACAACTCTGTGGCACC-TTT
*
1682707 TCTTTTCAAAGCCCACCACTCTGTGGCACCTTT
1 TCTTTTCAAAGCCCACAACTCTGTGGCACCTTT
* *
1682740 TCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
1 TCTTTTCAAAGCCCACAACTCTGTGGCACCTTT
1682773 TCCTTTT-AAAGCCCACA
1 T-CTTTTCAAAGCCCACA
1682790 CAAGTTGGTG
Statistics
Matches: 160, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
31 21 0.13
32 5 0.03
33 76 0.47
34 58 0.36
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (33 bp):
TCTTTTCAAAGCCCACAACTCTGTGGCACCTTT
Found at i:1682714 original size:67 final size:67
Alignment explanation
Indices: 1682575--1682788 Score: 310
Period size: 67 Copynumber: 3.2 Consensus size: 67
1682565 AGTGGTAATC
* * * * * * * *
1682575 TCTTTTCAAA-CTCCACGACTCAGTGGCATCTTTTC--TTCAAAGTCCACGACTCTGTGGCACAT
1 TCTTTTCAAAGC-CCACCACTCTGTGGCACCTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCT
1682637 TTT
65 TTT
1682640 TCTTTTCAAAGCCCACCACTCTGTGGCACCTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTT
1 TCTTTTCAAAGCCCACCACTCTGTGGCACCTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTT
1682705 TT
66 TT
1682707 TCTTTTCAAAGCCCACCACTCTGTGGCACCTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTT
1 TCTTTTCAAAGCCCACCACTCTGTGGCACCTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTT
1682772 TT
66 TT
*
1682774 CCTTTT-AAAGCCCAC
1 TCTTTTCAAAGCCCAC
1682789 ACAAGTTGGT
Statistics
Matches: 137, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
65 30 0.22
66 10 0.07
67 97 0.71
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (67 bp):
TCTTTTCAAAGCCCACCACTCTGTGGCACCTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTT
TT
Found at i:1682827 original size:32 final size:32
Alignment explanation
Indices: 1682779--1682877 Score: 146
Period size: 33 Copynumber: 3.1 Consensus size: 32
1682769 CTTTTCCTTT
1682779 TAAAGCCCACACAAGTTGGTGGCAACCCTCTC
1 TAAAGCCCACACAAGTTGGTGGCAACCCTCTC
* * *
1682811 TAAAACCCATACAAGTTGGTGGCAACCATTCTC
1 TAAAGCCCACACAAGTTGGTGGCAACC-CTCTC
*
1682844 TAAAGCCCACACAAGTCGGTGGCAACCCT-TC
1 TAAAGCCCACACAAGTTGGTGGCAACCCTCTC
1682875 TAA
1 TAA
1682878 GTCCAATATC
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
31 5 0.08
32 26 0.44
33 28 0.47
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.20
Consensus pattern (32 bp):
TAAAGCCCACACAAGTTGGTGGCAACCCTCTC
Found at i:1682985 original size:43 final size:43
Alignment explanation
Indices: 1682924--1683303 Score: 364
Period size: 43 Copynumber: 8.1 Consensus size: 43
1682914 CCTTCTTCTC
*
1682924 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
1682967 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG---------CACCTT
*
1683019 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG---------CACCTT
*
1683071 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
* *
1683120 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
1683163 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
** * *
1683206 TAAGTCCAATATCTCTAGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
* * *
1683255 TAAGTCCAATGTAGCTGGCCTTGAATTAACACATTGGCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
1683298 TAAGTC
1 TAAGTC
1683304 GCATCTTCAT
Statistics
Matches: 298, Mismatches: 18, Indels: 42
0.83 0.05 0.12
Matches are distributed among these distances:
43 125 0.42
45 1 0.00
47 2 0.01
49 75 0.25
52 95 0.32
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (43 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
Found at i:1683339 original size:62 final size:62
Alignment explanation
Indices: 1683242--1683365 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
1683232 CAGCATATTG
*
1683242 GCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATTAACACATTGGCACCTTTAAGTC
1 GCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTC
*
1683304 GCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTC
1 GCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTC
1683366 CAATATAGCT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (62 bp):
GCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTC
Found at i:1683375 original size:43 final size:43
Alignment explanation
Indices: 1683314--1683870 Score: 610
Period size: 43 Copynumber: 12.0 Consensus size: 43
1683304 GCATCTTCAT
* *
1683314 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1683357 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C
* *
1683404 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTAGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
*
1683449 CTTTAAGTCCAATATAGATGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C
* *
1683496 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1683541 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C
* *
1683588 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1683633 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG---------CAC
1683685 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG---------CAC
1683737 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C
* * *
1683784 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
* *
1683829 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACACATTGGCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1683871 TAACCCCAAT
Statistics
Matches: 458, Mismatches: 23, Indels: 66
0.84 0.04 0.12
Matches are distributed among these distances:
43 198 0.43
45 4 0.01
47 4 0.01
49 158 0.34
52 94 0.21
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:1683449 original size:154 final size:154
Alignment explanation
Indices: 1683157--1683457 Score: 521
Period size: 154 Copynumber: 2.0 Consensus size: 154
1683147 AGCACATTGG
**
1683157 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCTCT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCT
* *
1683222 AGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATTAACAC
66 AGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACAC
*
1683287 ATTGGCACCTTTAAGTCGCATCTT
131 ATTAGCACCTTTAAGTCGCATCTT
1683311 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCT
* * * *
1683376 GGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAT
66 AGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACAC
1683441 ATTAGCACCTTTAAGTC
131 ATTAGCACCTTTAAGTC
1683458 CAATATAGAT
Statistics
Matches: 138, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
154 138 1.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (154 bp):
CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCT
AGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACAC
ATTAGCACCTTTAAGTCGCATCTT
Found at i:1683471 original size:92 final size:92
Alignment explanation
Indices: 1683308--1683870 Score: 910
Period size: 92 Copynumber: 6.0 Consensus size: 92
1683298 TAAGTCGCAT
* *
1683308 CTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATA
1 CTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCACCTTTAAGTCCAATATA
1683373 GCTGGCCTTGAATCAGCATATTGGCAC
66 GCTGGCCTTGAATCAGCATATTGGCAC
*
1683400 CTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTAGCACCTTTAAGTCCAATATA
1 CTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCACCTTTAAGTCCAATATA
*
1683465 GATGGCCTTGAATCAGCATATTGGCAC
66 GCTGGCCTTGAATCAGCATATTGGCAC
*
1683492 CTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATA
1 CTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCACCTTTAAGTCCAATATA
1683557 GCTGGCCTTGAATCAGCATATTGGCAC
66 GCTGGCCTTGAATCAGCATATTGGCAC
*
1683584 CTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATA
1 CTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCACCTTTAAGTCCAATATA
1683649 GCTGGCCTTGAATCAGCATATTGGCAC
66 GCTGGCCTTGAATCAGCATATTGGCAC
* * **
1683676 CTTTTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCACCTTT
1 CTTCTT---CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC--A----CA---TTAGCACCTTT
1683741 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
54 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1683780 CTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCACCTTTAAGTCCAATATA
1 CTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCACCTTTAAGTCCAATATA
* *
1683845 GCTGGCCTTGAATCAACACATTGGCA
66 GCTGGCCTTGAATCAGCATATTGGCA
1683871 TAACCCCAAT
Statistics
Matches: 442, Mismatches: 17, Indels: 24
0.92 0.04 0.05
Matches are distributed among these distances:
92 319 0.72
95 34 0.08
97 1 0.00
99 1 0.00
101 34 0.08
104 53 0.12
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (92 bp):
CTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCACCTTTAAGTCCAATATA
GCTGGCCTTGAATCAGCATATTGGCAC
Found at i:1683853 original size:22 final size:21
Alignment explanation
Indices: 1683786--1683853 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 21
1683776 GCACCTTCTT
1683786 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAAT-TAGCTGGC
* *
1683808 CTTGAA-TCAGCACATTAGC--AC
1 CTTTAAGTC--CA-ATTAGCTGGC
1683829 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAAT-TAGCTGGC
1683851 CTT
1 CTT
1683854 GAATCAACAC
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 8 0.23
22 11 0.31
23 6 0.17
24 2 0.06
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (21 bp):
CTTTAAGTCCAATTAGCTGGC
Found at i:1684900 original size:12 final size:10
Alignment explanation
Indices: 1684885--1684943 Score: 82
Period size: 10 Copynumber: 5.5 Consensus size: 10
1684875 AAAAGTGATG
1684885 AAAAAAACAAA
1 AAAAAAAC-AA
1684896 AAAAAACACAA
1 AAAAAA-ACAA
1684907 AAAAAAACAA
1 AAAAAAACAA
1684917 AAAAAAACAA
1 AAAAAAACAA
1684927 AAAAAACACAGA
1 AAAAAA-ACA-A
1684939 AAAAA
1 AAAAA
1684944 GGTGCAAAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
10 20 0.44
11 17 0.38
12 8 0.18
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:1684910 original size:22 final size:21
Alignment explanation
Indices: 1684885--1684943 Score: 91
Period size: 22 Copynumber: 2.8 Consensus size: 21
1684875 AAAAGTGATG
1684885 AAAAAAACAAAAAAAAACACAA
1 AAAAAAACAAAAAAAAACA-AA
1684907 AAAAAAACAAAAAAAAACAAA
1 AAAAAAACAAAAAAAAACAAA
* *
1684928 AAAAACACAGAAAAAA
1 AAAAAAACAAAAAAAA
1684944 GGTGCAAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 16 0.46
22 19 0.54
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (21 bp):
AAAAAAACAAAAAAAAACAAA
Found at i:1684943 original size:1 final size:1
Alignment explanation
Indices: 1684885--1684932 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
1684875 AAAAGTGATG
* * * * *
1684885 AAAAAAACAAAAAAAAACACAAAAAAAAACAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1684933 CACAGAAAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1685214 original size:17 final size:17
Alignment explanation
Indices: 1685181--1685214 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1685171 TGTTCTTTTC
*
1685181 CAAAAAAAGAAACAAAA
1 CAAAAAAAGAAAAAAAA
*
1685198 CAAAAAAGGAAAAAAAA
1 CAAAAAAAGAAAAAAAA
1685215 GAAGAAGAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (17 bp):
CAAAAAAAGAAAAAAAA
Found at i:1686410 original size:93 final size:94
Alignment explanation
Indices: 1686165--1686412 Score: 294
Period size: 93 Copynumber: 2.7 Consensus size: 94
1686155 ATACCTTTTT
*
1686165 AAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCA--TTTTGTC-TCA
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCACCTTTT-TCTTCA
* *
1686227 AAGTCCACGACTTAGTGGCATCCTTTTCTTC
65 AAGTCCACGACTCAATGGCAT-CTTTTCTTC
* * *
1686258 AAAGTCCACGACTCAGTGGCAATCTCTGCTCGAAGTCCATGACTCAGTGGCATCC-TTTTCTTCA
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCA-CCTTTTTCTTCA
*
1686322 AAGTTCACGACTCAATGGCAT-TTTGTC-TC
65 AAGTCCACGACTCAATGGCATCTTT-TCTTC
* * * * *
1686351 AAAGTCCACGACTCAGTGGC-ATTTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTT
1 AAAGTCCACGACTCAGTGGCAATCTCTTC-TCAAAGTCCACGACTCAGTGGCACCTTTTTCTT
1686413 TTTAAAGCCC
Statistics
Matches: 133, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
92 7 0.05
93 98 0.74
94 4 0.03
95 24 0.18
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (94 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCACCTTTTTCTTCAA
AGTCCACGACTCAATGGCATCTTTTCTTC
Found at i:1686423 original size:34 final size:34
Alignment explanation
Indices: 1686382--1687212 Score: 976
Period size: 34 Copynumber: 24.6 Consensus size: 34
1686372 TTTTTTCTTC
1686382 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
1686416 AAAGCCCACAACTCTGTGGCACCTTTTCCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
1686450 AAAGCCCACAACTCCGTGGCACC---TTCCTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1686481 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
1686515 TAAGCCCACAACTCCGTGGCACATTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
** *
1686549 AAAGCCCACAACTTTGTGGCACTTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1686583 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
1686617 AAAGCCCACAACTCCGTGGCACTTTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
* *
1686652 -AAGTCCACAACTCTGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
1686685 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
* *
1686720 -AAGTCTACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
1686753 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
*
1686789 AAAGCCCACAACTCCGTGGCACTCTCTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CT-TTTTCTTTTT
* *
1686825 AAAGCCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* ** * * *
1686859 -AAGTCCATGACTCCGTTGCA---TCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
1686889 AAAGCCCACCACTCCGTGGCACC-TTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* ** * * *
1686922 -AAGTCCATGACCCCGTGGCACCTTGTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
1686955 AAAGCCCATAACTCCGTGGCACTCTTTGTTCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTT-TTCTTTTT
* * * * * *
1686991 -AAGTCCACGACCCCGTGGCATCTTGTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
1687024 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1687057 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
1687091 AAAGCCTACAACTCTGTGGCA--TTTTT-TTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
1687122 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
* * *
1687158 AAAGTCCACAACCCCGTGGCACCTTGTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
1687192 -AAGTCCACGACTCCGTGGCAC
1 AAAGCCCACAACTCCGTGGCAC
1687213 ATTCCTCTCA
Statistics
Matches: 687, Mismatches: 87, Indels: 47
0.84 0.11 0.06
Matches are distributed among these distances:
30 7 0.01
31 67 0.10
32 23 0.03
33 106 0.15
34 342 0.50
35 51 0.07
36 87 0.13
37 4 0.01
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:1687381 original size:65 final size:65
Alignment explanation
Indices: 1687218--1687520 Score: 474
Period size: 65 Copynumber: 4.7 Consensus size: 65
1687208 GGCACATTCC
1687218 TCTCAAAGCCCACACAAGTCGGTGGCAACCCTT-TTCTAAAGCCCACACAAGTCGGTGGCAA-CC
1 TCTCAAAGCCCACACAAGTCGGTGGCAA-CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCC
1687281 T
65 T
*
1687282 TCTTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCATACAAGTCGGTGGCAACC
1 TC-TC-AAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1687347 CT
64 CT
1687349 TCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
1 TCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
* * *
1687414 TCTCAAAGCCCACACAAGTCGGTGGCAACCCTC-TCTAAAGCCCACACAAGTTGGTGGCAACCAT
1 TCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
* *
1687478 TCTCTAAATCTCACACAAGTCGGTGGCAACC--CTTCT-AAGCCCA
1 TCTC-AAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCA
1687521 ATATAGCTGG
Statistics
Matches: 226, Mismatches: 7, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
63 8 0.04
64 38 0.17
65 122 0.54
66 53 0.23
67 5 0.02
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (65 bp):
TCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
Found at i:1687493 original size:97 final size:96
Alignment explanation
Indices: 1687218--1687520 Score: 479
Period size: 97 Copynumber: 3.1 Consensus size: 96
1687208 GGCACATTCC
1687218 TCTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 TCTCAAAGCCCACACAAGTCGGTGGCAACCC--TTCTAAAGCCCACACAAGTCGGTGGCAACCTT
1687283 CTTCTAAAGCCCACACAAGTCGGTGGCAA-CCT
64 CTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
*
1687315 TCTTCTAAAGCCCATACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCT
1 TC-TC-AAAGCCCACACAAGTCGGTGGCAACCCTTCT-AAAGCCCACACAAGTCGGTGGCAACCT
1687380 TCTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
63 TCTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
*
1687414 TCTCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAACCATT
1 TCTCAAAGCCCACACAAGTCGGTGGCAACCCT-TCTAAAGCCCACACAAGTCGGTGGCAACC-TT
* *
1687479 C-TCTAAATCTCACACAAGTCGGTGGCAACCCT
64 CTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
1687511 TCT--AAGCCCA
1 TCTCAAAGCCCA
1687521 ATATAGCTGG
Statistics
Matches: 195, Mismatches: 5, Indels: 14
0.91 0.02 0.07
Matches are distributed among these distances:
95 7 0.04
97 90 0.46
98 67 0.34
99 31 0.16
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (96 bp):
TCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAAGCCCACACAAGTCGGTGGCAACCTTCT
TCTAAAGCCCACACAAGTCGGTGGCAACCCT
Found at i:1687506 original size:33 final size:32
Alignment explanation
Indices: 1687217--1687520 Score: 445
Period size: 33 Copynumber: 9.4 Consensus size: 32
1687207 TGGCACATTC
1687217 CTCTCAAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTCT-AAAGCCCACACAAGTCGGTGGCAA-CCTT
*
1687251 TTCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 CTCTAAAGCCCACACAAGTCGGTGGCAACCTT
1687283 CTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 C-TCTAAAGCCCACACAAGTCGGTGGCAACCTT
*
1687316 CTTCTAAAGCCCATACAAGTCGGTGGCAACCCTT
1 C-TCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1687350 CTC-AAAGCCCACACAAGTCGGTGGCAACCTT
1 CTCTAAAGCCCACACAAGTCGGTGGCAACCTT
1687381 CTTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
1 C-TCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
*
1687415 CTC-AAAGCCCACACAAGTCGGTGGCAACCCT
1 CTCTAAAGCCCACACAAGTCGGTGGCAACCTT
*
1687446 CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
1 CTCTAAAGCCCACACAAGTCGGTGGCAACC-TT
* * *
1687479 CTCTAAATCTCACACAAGTCGGTGGCAACCCT
1 CTCTAAAGCCCACACAAGTCGGTGGCAACCTT
1687511 -TCT-AAGCCCA
1 CTCTAAAGCCCA
1687521 ATATAGCTGG
Statistics
Matches: 250, Mismatches: 13, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
30 5 0.02
31 14 0.06
32 79 0.32
33 139 0.56
34 13 0.05
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.20
Consensus pattern (32 bp):
CTCTAAAGCCCACACAAGTCGGTGGCAACCTT
Found at i:1687571 original size:49 final size:48
Alignment explanation
Indices: 1687513--1688302 Score: 833
Period size: 49 Copynumber: 16.8 Consensus size: 48
1687503 GCAACCCTTC
* *
1687513 TAAGCCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCTT
* * *
1687562 TAATTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTCTT
*
1687605 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCTT
* * *
1687654 TAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTCTT
*
1687697 TAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCTT
* * *
1687746 TAAGTCCAATGTAGCTGGTCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCTT
* * *
1687795 TAAGTCCAATGTAGCTGGTCTTGAATCAGCACATTGGCA----C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTCTT
*
1687838 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCTT
* * *
1687887 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCA----CT-TT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTCTT
* *
1687930 TAAGTCCAATATAGCTGGACTTGAATCAGCACATTGGCACC-T-TC--
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTCTT
1687974 -AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCTT
* *
1688022 TAAGTCCAATATAGCTGGCCTTGAATCAACACATTGGCA----C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTCTT
1688065 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCTT
* *
1688114 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG---C-TC-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTCTT
*
1688157 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-C-TCTT
* * * *
1688209 TAAGTTCAATGTAGTTGGCCTTGAATCAGCACATTGGCATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC----T-TC-TCTT
* * * * *
1688264 TAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1688303 TCTTTATCAC
Statistics
Matches: 639, Mismatches: 53, Indels: 92
0.82 0.07 0.12
Matches are distributed among these distances:
43 266 0.42
44 3 0.00
45 8 0.01
46 4 0.01
47 4 0.01
48 1 0.00
49 271 0.42
50 1 0.00
52 37 0.06
53 2 0.00
55 41 0.06
56 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (48 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTCTT
Found at i:1687622 original size:43 final size:43
Alignment explanation
Indices: 1687559--1688200 Score: 710
Period size: 43 Copynumber: 14.1 Consensus size: 43
1687549 GCACCTTCAT
* *
1687559 CTTTAATTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
1687602 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
1687649 ATCTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
1687694 CTTTAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCA----C
* * *
1687741 ATCTTTAAGTCCAATGTAGCTGGTCTTGAATCAGCATATTGGCATCTTC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
1687790 ATCTTTAAGTCCAATGTAGCTGGTCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
1687835 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
1687882 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
1687927 TTTTAAGTCCAATATAGCTGGACTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
1687970 CTTCAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
1688017 ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAACACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
1688062 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
1688109 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCTC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
1688154 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
1688197 CTTT
1 CTTT
1688201 TCCATCTTTA
Statistics
Matches: 525, Mismatches: 42, Indels: 64
0.83 0.07 0.10
Matches are distributed among these distances:
43 273 0.52
44 1 0.00
45 5 0.01
47 5 0.01
48 1 0.00
49 240 0.46
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1687675 original size:92 final size:92
Alignment explanation
Indices: 1687508--1688253 Score: 996
Period size: 92 Copynumber: 8.1 Consensus size: 92
1687498 CGGTGGCAAC
* * *
1687508 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAATTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1687573 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* *
1687601 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCTAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1687666 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
1687693 CCTTTAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 CCTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
* *
1687757 TAGCTGGTCTTGAATCAGCATATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* * *
1687785 TCTTCATCTTTAAGTCCAATGTAGCTGGTCTTGAATCAGCACATTGGCA----C--CTTTAAGTC
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
* * *
1687844 CAATATCGCTGGCCTTGAATCAGCATATTGGCA
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* * *
1687877 CCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCA----C-T-TTTAAGTC
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
* *
1687936 CAATATAGCTGGACTTGAATCAGCACATTGGCA
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* *
1687969 CCTTCAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
1688034 AGCTGGCCTTGAATCAACACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
1688061 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
1688126 AGCTGGCCTTGAATCAGCACATTGGCT
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
1688153 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAA
*
1688218 TGTAGTTGGCCTTGAATCAGCACATTGGCA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
1688248 TCCTTT
1 -CCTTT
1688254 TTCTCATCTT
Statistics
Matches: 595, Mismatches: 39, Indels: 35
0.89 0.06 0.05
Matches are distributed among these distances:
86 38 0.06
88 1 0.00
90 1 0.00
91 1 0.00
92 462 0.78
93 4 0.01
94 3 0.01
95 41 0.07
96 6 0.01
97 1 0.00
98 37 0.06
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:1688086 original size:22 final size:22
Alignment explanation
Indices: 1688019--1688086 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
1688009 GCACCTTCAT
1688019 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
* * * *
1688041 CTTGAA-T-CAACACA-TTGGCAC
1 CTTTAAGTCCAATATAGCTGG--C
1688062 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
1688084 CTT
1 CTT
1688087 GAATCAGCAT
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
19 3 0.09
20 5 0.15
21 7 0.21
22 10 0.30
23 5 0.15
24 3 0.09
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATATAGCTGGC
Found at i:1688178 original size:22 final size:21
Alignment explanation
Indices: 1688111--1688178 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 21
1688101 GCACCTTCTT
1688111 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAAT-TAGCTGGC
* *
1688133 CTTGAA-TCAGCACATTGGCT--C
1 CTTTAAGTC--CA-ATTAGCTGGC
1688154 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAAT-TAGCTGGC
1688176 CTT
1 CTT
1688179 GAATCAGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 8 0.23
22 11 0.31
23 6 0.17
24 2 0.06
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (21 bp):
CTTTAAGTCCAATTAGCTGGC
Found at i:1688232 original size:52 final size:55
Alignment explanation
Indices: 1688154--1688366 Score: 198
Period size: 52 Copynumber: 3.7 Consensus size: 55
1688144 ACATTGGCTC
*
1688154 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * *
1688206 CTTTAAGTTCAATGTAGTTGGCCTTGAATCAGCACATTGGCATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * *
1688261 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATT-G-A-C---ATC-C-TTT-T--TC-TC
1688326 AT
54 AT
* *
1688328 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTG
1688367 GCACCTTCAT
Statistics
Matches: 128, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
52 37 0.29
53 2 0.02
54 5 0.04
55 34 0.27
56 1 0.01
58 1 0.01
61 3 0.02
62 1 0.01
63 3 0.02
64 1 0.01
66 3 0.02
67 37 0.29
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
Found at i:1688282 original size:55 final size:53
Alignment explanation
Indices: 1688154--1688304 Score: 196
Period size: 55 Copynumber: 2.8 Consensus size: 53
1688144 ACATTGGCTC
* *
1688154 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACA-CCTTTTCCAT
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCATCCTTTTCCAT
* * *
1688206 CTTTAAGTTCAATGTAGTTGGCCTTGAATCAGCACATTGGCATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCATCC-TTTTC-CAT
* * * *
1688261 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATC
1 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCATC
1688305 TTTATCACTT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
52 37 0.44
53 2 0.02
54 5 0.06
55 40 0.48
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCATCCTTTTCCAT
Found at i:1688365 original size:67 final size:68
Alignment explanation
Indices: 1688257--1688383 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
1688247 ATCCTTTTTC
* * *
1688257 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
1688321 TCT
66 TCT
* * * *
1688324 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
1688384 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:1689161 original size:19 final size:19
Alignment explanation
Indices: 1689122--1689205 Score: 108
Period size: 19 Copynumber: 4.7 Consensus size: 19
1689112 TTTCAACGAT
1689122 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
1689142 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1689161 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
1689175 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
1689193 TTGTATCGATACA
1 TTGTATCGATACA
1689206 ATATAAGCTA
Statistics
Matches: 58, Mismatches: 0, Indels: 13
0.82 0.00 0.18
Matches are distributed among these distances:
13 11 0.19
15 2 0.03
17 2 0.03
19 29 0.50
20 14 0.24
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1689180 original size:13 final size:13
Alignment explanation
Indices: 1689162--1689186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1689152 ACATAAGTGT
1689162 TGTATCGATACAA
1 TGTATCGATACAA
1689175 TGTATCGATACA
1 TGTATCGATACA
1689187 TAAGTTTTGT
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:1689184 original size:32 final size:32
Alignment explanation
Indices: 1689143--1689207 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
1689133 CATAAAGTGT
1689143 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1689175 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1689207 T
1 T
1689208 ATAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1689245 original size:13 final size:13
Alignment explanation
Indices: 1689227--1689251 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1689217 TGCCAAAAAA
1689227 TGTATCGATACAT
1 TGTATCGATACAT
1689240 TGTATCGATACA
1 TGTATCGATACA
1689252 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1691083 original size:218 final size:218
Alignment explanation
Indices: 1690705--1691145 Score: 864
Period size: 218 Copynumber: 2.0 Consensus size: 218
1690695 TTCCTGCTGG
1690705 CAGCAACAATGTTGCATGTTTAAAAATCATTTTAAAATACTAAAAGATTTTTTTGAAATTTTTTA
1 CAGCAACAATGTTGCATGTTTAAAAATCATTTTAAAATACTAAAAGATTTTTTTGAAATTTTTTA
1690770 GTATTTTTCCCTTAAATTGTGTCAAAATATCTTTCCAACGATGTCTTATTTACCCCTGGACCAGT
66 GTATTTTTCCCTTAAATTGTGTCAAAATATCTTTCCAACGATGTCTTATTTACCCCTGGACCAGT
1690835 TCGGATAAGAGAGATATGATTTTTTGAACCCAAGCTGTCCAGAACCCCTGGGTTCAGCCGAATGC
131 TCGGATAAGAGAGATATGATTTTTTGAACCCAAGCTGTCCAGAACCCCTGGGTTCAGCCGAATGC
1690900 ATTCTATTTGGGCCGTTCAGGCC
196 ATTCTATTTGGGCCGTTCAGGCC
*
1690923 CAGCAACACTGTTGCATGTTTAAAAATCATTTTAAAATACTAAAAGATTTTTTTGAAATTTTTTA
1 CAGCAACAATGTTGCATGTTTAAAAATCATTTTAAAATACTAAAAGATTTTTTTGAAATTTTTTA
1690988 GTATTTTTCCCTTAAATTGTGTCAAAATATCTTTCCAACGATGTCTTATTTACCCCTGGACCAGT
66 GTATTTTTCCCTTAAATTGTGTCAAAATATCTTTCCAACGATGTCTTATTTACCCCTGGACCAGT
1691053 TCGGATAAGAGAGATATGATTTTTTGAACCCAAGCTGTCCAGAACCCCTGGGTTCAGCCGAATGC
131 TCGGATAAGAGAGATATGATTTTTTGAACCCAAGCTGTCCAGAACCCCTGGGTTCAGCCGAATGC
*
1691118 ATTCTGTTTGGGCCGTTCAGGCC
196 ATTCTATTTGGGCCGTTCAGGCC
1691141 CAGCA
1 CAGCA
1691146 GACGGTTTTT
Statistics
Matches: 221, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
218 221 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (218 bp):
CAGCAACAATGTTGCATGTTTAAAAATCATTTTAAAATACTAAAAGATTTTTTTGAAATTTTTTA
GTATTTTTCCCTTAAATTGTGTCAAAATATCTTTCCAACGATGTCTTATTTACCCCTGGACCAGT
TCGGATAAGAGAGATATGATTTTTTGAACCCAAGCTGTCCAGAACCCCTGGGTTCAGCCGAATGC
ATTCTATTTGGGCCGTTCAGGCC
Found at i:1691699 original size:24 final size:26
Alignment explanation
Indices: 1691672--1691722 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
1691662 ATCAAAAATT
1691672 TATTCAT-CGA-GGACACTCCAACCC
1 TATTCATCCGAGGGACACTCCAACCC
*
1691696 TATTCCTCCGAGGGGACACTCCAACCC
1 TATTCATCCGA-GGGACACTCCAACCC
1691723 CGTTTTCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 3 0.13
27 14 0.61
ACGTcount: A:0.25, C:0.39, G:0.16, T:0.20
Consensus pattern (26 bp):
TATTCATCCGAGGGACACTCCAACCC
Found at i:1692755 original size:157 final size:157
Alignment explanation
Indices: 1692469--1692788 Score: 541
Period size: 157 Copynumber: 2.0 Consensus size: 157
1692459 CTTCGTAGTG
* *
1692469 ACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCTCTTTAATCAACACATTTC
1 ACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCCTTTAATCAACACACTTC
* * * *
1692534 CCATCATGCCACAGAAATCCCCAATCGCAAGGGATACTAAGTTGAGCGTGCCTTATTTTCCCTAT
66 CCATCATGCCACAGAAATCCCCAATCACAAGGGATACTAAGTCGAGCGTGCCTCATTTGCCCTAT
1692599 CGCCGGGGTCAAGCGCACGTTACGACA
131 CGCCGGGGTCAAGCGCACGTTACGACA
1692626 ACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCCTTTAATCAACACACTTC
1 ACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCCTTTAATCAACACACTTC
* * *
1692691 CCATCATGCCATAGAAATCCCCAATCACGAGGGATATTAAGTCGAGCGTGCCTCATTTGCCCTAT
66 CCATCATGCCACAGAAATCCCCAATCACAAGGGATACTAAGTCGAGCGTGCCTCATTTGCCCTAT
*
1692756 CGCCGGGGTCGAGCGCACGTTACGACA
131 CGCCGGGGTCAAGCGCACGTTACGACA
*
1692783 ATCATT
1 ACCATT
1692789 TTCCTGCTAA
Statistics
Matches: 152, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
157 152 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26
Consensus pattern (157 bp):
ACCATTGAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCCTTTAATCAACACACTTC
CCATCATGCCACAGAAATCCCCAATCACAAGGGATACTAAGTCGAGCGTGCCTCATTTGCCCTAT
CGCCGGGGTCAAGCGCACGTTACGACA
Found at i:1696367 original size:7 final size:7
Alignment explanation
Indices: 1696353--1696388 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
1696343 GCTCGGACAG
1696353 TAAAAAA
1 TAAAAAA
*
1696360 TTAAAAA
1 TAAAAAA
1696367 TAAAAAA
1 TAAAAAA
1696374 TAAAAAAA
1 T-AAAAAA
1696382 TAAAAAA
1 TAAAAAA
1696389 AATCAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAAAAA
Found at i:1696380 original size:15 final size:14
Alignment explanation
Indices: 1696353--1696388 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
1696343 GCTCGGACAG
*
1696353 TAAAAAATTAAAAA
1 TAAAAAATAAAAAA
1696367 TAAAAAATAAAAAAA
1 TAAAAAAT-AAAAAA
1696382 TAAAAAA
1 TAAAAAA
1696389 AATCAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
TAAAAAATAAAAAA
Found at i:1696781 original size:2 final size:2
Alignment explanation
Indices: 1696774--1696798 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1696764 AGTTCTTCCT
1696774 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
1696799 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1696803 original size:2 final size:2
Alignment explanation
Indices: 1696798--1696836 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1696788 TCTCTCTCTC
*
1696798 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1696837 TCCGTCCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1708192 original size:13 final size:13
Alignment explanation
Indices: 1708174--1708198 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1708164 CAAAGATTAG
1708174 TGTATCGATACAA
1 TGTATCGATACAA
1708187 TGTATCGATACA
1 TGTATCGATACA
1708199 TGTGAGTAAT
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:1708280 original size:33 final size:33
Alignment explanation
Indices: 1708238--1708307 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1708228 GGCAGTAGCT
1708238 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
1708271 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
1708304 TACA
1 TACA
1708308 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:1708281 original size:13 final size:13
Alignment explanation
Indices: 1708263--1708287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1708253 CAAAAAAATA
1708263 TGTATCGATACAT
1 TGTATCGATACAT
1708276 TGTATCGATACA
1 TGTATCGATACA
1708288 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1717774 original size:28 final size:28
Alignment explanation
Indices: 1717713--1717794 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1717703 TTTTGGAGAT
*
1717713 AATAACGGGGTTGGAGTGTTCCCTCG--GA
1 AATAACGGGGTTGGAGT-ATCCC-CGATGA
*
1717741 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
* *
1717769 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
1717795 TGTGAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 4 0.09
28 41 0.87
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCGATGA
Found at i:1717933 original size:51 final size:51
Alignment explanation
Indices: 1717777--1717946 Score: 171
Period size: 52 Copynumber: 3.3 Consensus size: 51
1717767 GAAATAACGA
* * * * *
1717777 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGA
1 GGTTGAAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
* * * * * *
1717829 TGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGAAGTATCCCCGATT-ATGAAAAATTGGTATTTTGAAAATAAAATCGG
*** *
1717881 GGTTGAAGTATCCCCGATTATGAAAAATCAATATTTTGAAAATAAAGTCGG
1 GGTTGAAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
1717932 GGTT-AGAGTATCCCC
1 GGTTGA-AGTATCCCC
1717947 TCGAAAATAA
Statistics
Matches: 97, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
50 1 0.01
51 37 0.38
52 49 0.51
53 10 0.10
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.31
Consensus pattern (51 bp):
GGTTGAAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:1717968 original size:28 final size:28
Alignment explanation
Indices: 1717929--1717999 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 28
1717919 AAAATAAAGT
*
1717929 CGGGGTTAGAGTATCCCCTCGA-AAATAA
1 CGGGGTTGGAGTATCCCC-CGATAAATAA
* *
1717957 CGGGGTTGGAGTAT-CCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCCGATAAATAA
1717984 CGGGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1718000 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 3 0.08
27 21 0.55
28 14 0.37
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCGATAAATAA
Found at i:1718049 original size:54 final size:50
Alignment explanation
Indices: 1717988--1718113 Score: 146
Period size: 51 Copynumber: 2.4 Consensus size: 50
1717978 GATTAACGGG
* *
1717988 GTTGGAGTATCCTCGATTGTGAAAATTTGGTGTTTTTTTTG-AAATAAAATCGGA
1 GTTGGAGTATCCTCGATTGTGAAAA-TTAGTG----TCTTGAAAATAAAATCGGA
* *
1718042 GTTGGAGTATCCCCGATTATAGAAAATTAGTGTCTTGAAAATAAAATCGGA
1 GTTGGAGTATCCTCGATTGT-GAAAATTAGTGTCTTGAAAATAAAATCGGA
*
1718093 GTTGGAATATCCTCGATTGTG
1 GTTGGAGTATCCTCGATTGTG
1718114 GAGAATTGAG
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
50 5 0.08
51 30 0.48
54 23 0.37
55 5 0.08
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.36
Consensus pattern (50 bp):
GTTGGAGTATCCTCGATTGTGAAAATTAGTGTCTTGAAAATAAAATCGGA
Found at i:1718082 original size:211 final size:211
Alignment explanation
Indices: 1717718--1718110 Score: 578
Period size: 211 Copynumber: 1.9 Consensus size: 211
1717708 GAGATAATAA
* * * * *
1717718 CGGGGTTGGAGTGTTCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGG
1 CGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGG
1717783 AGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGATGTTGGAGTATCCCCGATT
66 AGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGATGTTGGAGTATCCCCGATT
* * *
1717848 AAAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTT-GAAGTATCCCCGATTATGAAAAATCAA
131 AAAGGAAAATTAGTGTCTTGAAAATAAAACCGGAGTTGGAA-TATCCCCGATTATGAAAAATCAA
1717912 TATTTTGAAAATAAAGT
195 TATTTTGAAAATAAAGT
* *
1717929 CGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGG
1 CGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGG
* * *
1717993 AGTATCCTCGATTGTGAAAATTTGGTGTTTTTTTTGAAATAAAATCGGA-GTTGGAGTATCCCCG
66 AGTATCCTCGATTGTGAAAAATT-G-GTATTTTTGGAAATAAAATC-GATGTTGGAGTATCCCCG
* * *
1718057 ATTATA-GAAAATTAGTGTCTTGAAAATAAAATCGGAGTTGGAATATCCTCGATT
128 ATTAAAGGAAAATTAGTGTCTTGAAAATAAAACCGGAGTTGGAATATCCCCGATT
1718111 GTGGAGAATT
Statistics
Matches: 162, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
210 34 0.21
211 85 0.52
212 41 0.25
213 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (211 bp):
CGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGG
AGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGATGTTGGAGTATCCCCGATT
AAAGGAAAATTAGTGTCTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTATGAAAAATCAAT
ATTTTGAAAATAAAGT
Found at i:1720495 original size:13 final size:13
Alignment explanation
Indices: 1720477--1720502 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1720467 ACAAAGATCT
1720477 ATGTATCGATACA
1 ATGTATCGATACA
1720490 ATGTATCGATACA
1 ATGTATCGATACA
1720503 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:1720514 original size:33 final size:33
Alignment explanation
Indices: 1720456--1720522 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1720446 AAAATTTTCA
*** *
1720456 AATGTATCGATACAAAGATCTATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCAATAC
*
1720489 AATGTATCGATACACAGAAAAATGTATCAATAC
1 AATGTATCGATACAAAGAAAAATGTATCAATAC
1720522 A
1 A
1720523 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCAATAC
Found at i:1720566 original size:19 final size:19
Alignment explanation
Indices: 1720542--1720628 Score: 114
Period size: 19 Copynumber: 4.9 Consensus size: 19
1720532 CAGTAGCTAA
* *
1720542 TTATGTATTGATACAATAC
1 TTATGTATCGATACAAAAC
1720561 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
1720580 TTATGTATCGATAC---A-
1 TTATGTATCGATACAAAAC
1720595 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
1720612 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1720629 TTGTTGAATT
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
13 11 0.18
14 1 0.02
16 2 0.03
18 1 0.02
19 45 0.75
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:1720601 original size:13 final size:13
Alignment explanation
Indices: 1720583--1720607 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1720573 ACAAAACTTA
1720583 TGTATCGATACAT
1 TGTATCGATACAT
1720596 TGTATCGATACA
1 TGTATCGATACA
1720608 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1720605 original size:32 final size:32
Alignment explanation
Indices: 1720564--1720626 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
1720554 ACAATACTTA
1720564 TGTATCGATACAAAACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1720596 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1720627 AATTGTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1721532 original size:55 final size:54
Alignment explanation
Indices: 1721413--1722082 Score: 827
Period size: 55 Copynumber: 12.0 Consensus size: 54
1721403 ATAAAGTGTA
* * * * * *
1721413 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCAGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACT-TGTGTGGGCTTTAAAAGGTG
* * *
1721469 TCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTA
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* * *
1721524 TCCTGCTCTTTGAGGACTAGAAAATGCCACTAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* *
1721579 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* * *
1721634 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* *
1721689 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* *
1721744 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* *
1721799 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* *
1721854 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCAG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGG-TG
* *
1721914 TCCCGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG----GTG
* * *
1721972 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT----AAAAGGTG
* * *
1722030 TCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1722083 AAAAGGCATC
Statistics
Matches: 547, Mismatches: 46, Indels: 43
0.86 0.07 0.07
Matches are distributed among these distances:
54 34 0.06
55 327 0.60
56 39 0.07
58 66 0.12
59 31 0.06
60 45 0.08
62 5 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
Found at i:1721599 original size:26 final size:26
Alignment explanation
Indices: 1721570--1721714 Score: 73
Period size: 26 Copynumber: 5.3 Consensus size: 26
1721560 GTGTGGGCTT
1721570 TGAAAGGTGTCCTGCTCTTTGGGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
1721596 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
* *
1721623 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
* ** * * *
1721651 TGGAAA-ATG-CCACCAACTTGGGTGGGC
1 T-GAAAGGTGTCCTGC-TCTTTGG-GGAC
1721678 TTTGAAAGGTGTCCTGCTCTTTGGGGAC
1 --TGAAAGGTGTCCTGCTCTTTGGGGAC
1721706 TGAAAGGTG
1 TGAAAGGTG
1721715 CCACCAACTT
Statistics
Matches: 83, Mismatches: 22, Indels: 28
0.62 0.17 0.21
Matches are distributed among these distances:
25 6 0.07
26 27 0.33
27 10 0.12
28 18 0.22
29 16 0.19
30 6 0.07
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:1721821 original size:27 final size:27
Alignment explanation
Indices: 1721681--1721821 Score: 65
Period size: 28 Copynumber: 5.1 Consensus size: 27
1721671 GGTGGGCTTT
*
1721681 GAAAGGTGTCCTGCTCTTTGGGGACT-
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
** * * * *
1721707 GAAAGGTG-CCACCAACTTGTGTGGGCTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGACTG
*
1721735 TAAGAGGTGTCCTGCTCTTTGAGGACTG
1 GAA-AGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
1721763 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
1721791 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
1721818 GAAA
1 GAAA
1721822 ATGCCACCAA
Statistics
Matches: 78, Mismatches: 27, Indels: 19
0.63 0.22 0.15
Matches are distributed among these distances:
25 6 0.08
26 16 0.21
27 17 0.22
28 20 0.26
29 13 0.17
30 6 0.08
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:1723105 original size:24 final size:22
Alignment explanation
Indices: 1723078--1723142 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 22
1723068 AAGTAGGTTC
1723078 TTTTTTTTTCTCTCTTTTTCTTTG
1 TTTTTTTTT-TCT-TTTTTCTTTG
* *
1723102 TTTTGTTTTTTTGTTTTTTTTTTG
1 -TTT-TTTTTTTCTTTTTTCTTTG
1723126 TTTTTTTTTTCTTTTTT
1 TTTTTTTTTTCTTTTTT
1723143 GAAGAGAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
24 9 0.25
25 5 0.14
26 6 0.17
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.86
Consensus pattern (22 bp):
TTTTTTTTTTCTTTTTTCTTTG
Found at i:1723114 original size:13 final size:12
Alignment explanation
Indices: 1723078--1723135 Score: 64
Period size: 12 Copynumber: 4.8 Consensus size: 12
1723068 AAGTAGGTTC
* *
1723078 TTTTTTTTTCTC
1 TTTTTTTTTTTG
* *
1723090 TCTTTTTCTTTG
1 TTTTTTTTTTTG
1723102 TTTTGTTTTTTTG
1 TTTT-TTTTTTTG
1723115 -TTTTTTTTTTG
1 TTTTTTTTTTTG
1723126 TTTTTTTTTT
1 TTTTTTTTTT
1723136 CTTTTTTGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
11 8 0.21
12 23 0.61
13 7 0.18
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:1723123 original size:11 final size:11
Alignment explanation
Indices: 1723078--1723142 Score: 67
Period size: 11 Copynumber: 5.5 Consensus size: 11
1723068 AAGTAGGTTC
*
1723078 TTTTTTTTTCTC
1 TTTTTTTTT-TG
*
1723090 TCTTTTTCTTTG
1 T-TTTTTTTTTG
1723102 TTTTGTTTTTTTG
1 -TTT-TTTTTTTG
1723115 TTTTTTTTTTG
1 TTTTTTTTTTG
*
1723126 TTTTTTTTTTC
1 TTTTTTTTTTG
1723137 TTTTTT
1 TTTTTT
1723143 GAAGAGAAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
11 24 0.52
12 7 0.15
13 15 0.33
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:1723124 original size:19 final size:18
Alignment explanation
Indices: 1723092--1723143 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 18
1723082 TTTTTCTCTC
1723092 TTTTTCTTTGTTTTGTTTTT
1 TTTTTC-TT-TTTTGTTTTT
*
1723112 TTGTTTTTTTTTTGTTTTT
1 TT-TTTCTTTTTTGTTTTT
1723131 TTTTTCTTTTTTG
1 TTTTTCTTTTTTG
1723144 AAGAGAAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 10 0.34
19 12 0.41
20 4 0.14
21 3 0.10
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.87
Consensus pattern (18 bp):
TTTTTCTTTTTTGTTTTT
Found at i:1723140 original size:10 final size:10
Alignment explanation
Indices: 1723075--1723142 Score: 61
Period size: 10 Copynumber: 6.9 Consensus size: 10
1723065 CTTAAGTAGG
1723075 TTCTTTTTTT
1 TTCTTTTTTT
* *
1723085 TTCTCTCTTT
1 TTCTTTTTTT
1723095 TTCTTTGTTTT
1 TTCTTT-TTTT
*
1723106 GTT-TTTTTGT
1 -TTCTTTTTTT
1723116 TT-TTTTTTT
1 TTCTTTTTTT
*
1723125 GT-TTTTTTT
1 TTCTTTTTTT
1723134 TTCTTTTTT
1 TTCTTTTTT
1723143 GAAGAGAAGG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
9 17 0.36
10 22 0.47
11 6 0.13
12 2 0.04
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:1735594 original size:28 final size:28
Alignment explanation
Indices: 1735533--1735614 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1735523 TTTTGGAGAT
*
1735533 AATAACGGGGTTGGAGTGTTCCCTCG--GA
1 AATAACGGGGTTGGAGT-ATCCC-CGATGA
*
1735561 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
* *
1735589 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
1735615 TGTGAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 4 0.09
28 41 0.87
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCGATGA
Found at i:1735755 original size:51 final size:50
Alignment explanation
Indices: 1735597--1735766 Score: 196
Period size: 52 Copynumber: 3.3 Consensus size: 50
1735587 GAAATAACGA
* *
1735597 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAATCG
* * * * *
1735648 GTGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 G-GTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAATC-G
*** *
1735701 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATC-G
1735752 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1735767 TCAGAAATAA
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
51 38 0.38
52 49 0.49
53 12 0.12
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCG
Found at i:1735812 original size:27 final size:28
Alignment explanation
Indices: 1735751--1735821 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 28
1735741 AATAAAGTCA
*
1735751 GGGTTGGAGTATCCCCTCAGAAATAACG
1 GGGTTGGAGTATCCCCTAAGAAATAACG
*
1735779 GGGTTGGAGTATCCCC-AATG-ATTAACG
1 GGGTTGGAGTATCCCCTAA-GAAATAACG
1735806 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
1735822 GATTGTGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCTAAGAAATAACG
Found at i:1735867 original size:55 final size:51
Alignment explanation
Indices: 1735808--1735941 Score: 153
Period size: 51 Copynumber: 2.5 Consensus size: 51
1735798 GATTAACGGG
* * *
1735808 GTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAATTTAGTG----TCTTGAAAATAAAATCGGA
* *
1735863 GTTGGAGTATCCGCGATTATAGAAAA-TTAGTGTCTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAATTTAGTGTCTTGAAAATAAAATCGGA
*
1735914 GTTGGAATATCCCCGATTGTGAAGAATT
1 GTTGGAGTATCCCCGATTGTGAA-AATT
1735942 GAGAAACTCA
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
50 3 0.04
51 36 0.53
52 1 0.01
55 23 0.34
56 5 0.07
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAATTTAGTGTCTTGAAAATAAAATCGGA
Found at i:1738315 original size:33 final size:33
Alignment explanation
Indices: 1738277--1738343 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1738267 AAAATTTTCA
***
1738277 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1738310 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1738343 A
1 A
1738344 TTTCCTTGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1738316 original size:13 final size:13
Alignment explanation
Indices: 1738298--1738323 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1738288 ACAAAGATCC
1738298 ATGTATCGATACA
1 ATGTATCGATACA
1738311 ATGTATCGATACA
1 ATGTATCGATACA
1738324 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:1738403 original size:13 final size:13
Alignment explanation
Indices: 1738385--1738409 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1738375 ACAATACTTA
1738385 TGTATCGATACAT
1 TGTATCGATACAT
1738398 TGTATCGATACA
1 TGTATCGATACA
1738410 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1738409 original size:32 final size:32
Alignment explanation
Indices: 1738366--1738428 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1738356 TAGCTAATTA
*
1738366 TGTATCAATACAATACTTATGTATCGATACAT
1 TGTATCAATACAAAACTTATGTATCGATACAT
*
1738398 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCAATACAAAACTTATGTATCGATACA
1738429 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (32 bp):
TGTATCAATACAAAACTTATGTATCGATACAT
Found at i:1738422 original size:19 final size:19
Alignment explanation
Indices: 1738363--1738430 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
1738353 TAGTAGCTAA
* *
1738363 TTATGTATCAATACAATAC
1 TTATGTATCGATACAAAAC
1738382 TTATGTATCGATAC---A-
1 TTATGTATCGATACAAAAC
1738397 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
1738414 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1738431 TTGTTGAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 1 0.02
19 27 0.64
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:1742313 original size:20 final size:20
Alignment explanation
Indices: 1742288--1742341 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
1742278 ATTTTTCATA
1742288 ATGTATCGATACATTGAAAG
1 ATGTATCGATACATTGAAAG
1742308 ATGTATCGATACATTGAAAG
1 ATGTATCGATACATTGAAAG
*
1742328 ATGTATTGATACAT
1 ATGTATCGATACAT
1742342 CTGGAAAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAG
Found at i:1744852 original size:13 final size:13
Alignment explanation
Indices: 1744834--1744861 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1744824 ACATTATGCT
1744834 TTGTATCGATACA
1 TTGTATCGATACA
1744847 TTGTATCGATACA
1 TTGTATCGATACA
1744860 TT
1 TT
1744862 CACTATTGTA
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:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1744948 original size:33 final size:32
Alignment explanation
Indices: 1744911--1744973 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
1744901 TACCATTGTT
1744911 TGTATCGATACATG-GCACATTGTATCGATATAA
1 TGTATCGATACATGAG-A-ATTGTATCGATATAA
1744944 TGTATCGATACATGAAGAATTGTATCGATA
1 TGTATCGATACATG-AGAATTGTATCGATA
1744974 CATTGTCCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATATAA
Found at i:1750315 original size:22 final size:23
Alignment explanation
Indices: 1750272--1750316 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1750262 TATTATTATT
* **
1750272 TTTTTTATTTTAGTTTTTTATCA
1 TTTTTTATTTGAGTTTAATATCA
1750295 TTTTTTATTTGAG-TTAATATCA
1 TTTTTTATTTGAGTTTAATATCA
1750317 CTTAACTCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (23 bp):
TTTTTTATTTGAGTTTAATATCA
Found at i:1754796 original size:2 final size:2
Alignment explanation
Indices: 1754789--1754832 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1754779 GTAAATTTAT
1754789 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1754831 TA
1 TA
1754833 CACGGTGAGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1758208 original size:20 final size:21
Alignment explanation
Indices: 1758183--1758240 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
1758173 TTTTAATTAC
1758183 ATGTATCGATACATT-GAACA
1 ATGTATCGATACATTAGAACA
* * *
1758203 ATGTATCAATACATCTAGGTAGA
1 ATGTATCGATACAT-TA-GAACA
1758226 ATGTATCGATACATT
1 ATGTATCGATACATT
1758241 TGGGTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 13 0.42
21 1 0.03
22 1 0.03
23 16 0.52
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTAGAACA
Found at i:1760552 original size:16 final size:16
Alignment explanation
Indices: 1760528--1760564 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1760518 TGAAATATAC
*
1760528 ATATTTTGCTTATGGT
1 ATATATTGCTTATGGT
*
1760544 ATATATTGCTTATGTT
1 ATATATTGCTTATGGT
1760560 ATATA
1 ATATA
1760565 CTATAGTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.54
Consensus pattern (16 bp):
ATATATTGCTTATGGT
Found at i:1761987 original size:72 final size:72
Alignment explanation
Indices: 1761813--1762071 Score: 346
Period size: 72 Copynumber: 3.7 Consensus size: 72
1761803 ATTCATGTAA
* * * * * * *
1761813 TTTTTTAAAACATAGAAAGCGAAGTAATCGCTTTAAACAATGCAAGAAGTAG-CTTAGTATTCCT
1 TTTTTTTATACATAGAGAGCAAAGTAATCGCTTTAAACAATGCAAGAAGTAGATTTAATATTCAT
*
1761877 -GAT-TT
66 ATATATT
* * * *
1761882 TTTTTTTATACATAGAGAGCGAGGTAATCGCTTTAAACAATGCAAAAAGCAGATTTAATATTCAT
1 TTTTTTTATACATAGAGAGCAAAGTAATCGCTTTAAACAATGCAAGAAGTAGATTTAATATTCAT
1761947 ATATATT
66 ATATATT
*
1761954 TTTTTTTATACATAGAGAGCAAAGTAATTGCTTTAAACAATGCAAGAAGTAGATTTAATATTCAT
1 TTTTTTTATACATAGAGAGCAAAGTAATCGCTTTAAACAATGCAAGAAGTAGATTTAATATTCAT
*
1762019 ATTTA-T
66 ATATATT
* *
1762025 TTTTTTGATACATAGAGAGCAAAGTAATTGCTTTAAACAATGCAAGA
1 TTTTTTTATACATAGAGAGCAAAGTAATCGCTTTAAACAATGCAAGA
1762072 TCTAGGCTTA
Statistics
Matches: 170, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
69 46 0.27
70 9 0.05
71 49 0.29
72 66 0.39
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.36
Consensus pattern (72 bp):
TTTTTTTATACATAGAGAGCAAAGTAATCGCTTTAAACAATGCAAGAAGTAGATTTAATATTCAT
ATATATT
Found at i:1762028 original size:141 final size:143
Alignment explanation
Indices: 1761813--1762069 Score: 385
Period size: 141 Copynumber: 1.8 Consensus size: 143
1761803 ATTCATGTAA
* * *
1761813 TTTTTTAAAACATAGAAAGCGAAGTAATCGCTTTAAACAATGCAAGAAGTAGCTTAGTATTCCTG
1 TTTTTTAAAACATAGAAAGCAAAGTAATCGCTTTAAACAATGCAAGAAGTAGCTTAATATTCATG
* *
1761878 ATTT-TTTTTTT-ATACATAGAGAGCGAGGTAATCGCTTTAAACAATGCAAAAAGCAGATTTAAT
66 ATTTATTTTTTTGATACATAGAGAGCAAAGTAATCGCTTTAAACAATGCAAAAAGCAGATTTAAT
1761941 ATTCATATATATT
131 ATTCATATATATT
* * * * *
1761954 TTTTTTTATACATAGAGAGCAAAGTAATTGCTTTAAACAATGCAAGAAGTAGATTTAATATTCAT
1 TTTTTTAAAACATAGAAAGCAAAGTAATCGCTTTAAACAATGCAAGAAGTAG-CTTAATATTCAT
*
1762019 -ATTTATTTTTTTGATACATAGAGAGCAAAGTAATTGCTTTAAACAATGCAA
65 GATTTATTTTTTTGATACATAGAGAGCAAAGTAATCGCTTTAAACAATGCAA
1762070 GATCTAGGCT
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
141 51 0.50
142 16 0.16
143 35 0.34
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (143 bp):
TTTTTTAAAACATAGAAAGCAAAGTAATCGCTTTAAACAATGCAAGAAGTAGCTTAATATTCATG
ATTTATTTTTTTGATACATAGAGAGCAAAGTAATCGCTTTAAACAATGCAAAAAGCAGATTTAAT
ATTCATATATATT
Found at i:1762366 original size:27 final size:27
Alignment explanation
Indices: 1762336--1762404 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
1762326 TATGGTTATA
1762336 TTTAAAATATTATAT-ATTTATATAAAT
1 TTTAAAATATTATATAATTTATAT-AAT
* *
1762363 TTTAACATATT-TATGAATTTATATTAT
1 TTTAAAATATTATAT-AATTTATATAAT
* *
1762390 TTTTATATATTATAT
1 TTTAAAATATTATAT
1762405 CTTATTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.09
27 21 0.60
28 11 0.31
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (27 bp):
TTTAAAATATTATATAATTTATATAAT
Found at i:1765028 original size:15 final size:15
Alignment explanation
Indices: 1765008--1765038 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1764998 AATAAGATTG
*
1765008 ATAAAATATTTATTA
1 ATAAAATATGTATTA
1765023 ATAAAATATGTATTA
1 ATAAAATATGTATTA
1765038 A
1 A
1765039 CATATAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAAAATATGTATTA
Found at i:1765655 original size:25 final size:25
Alignment explanation
Indices: 1765621--1765668 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
1765611 TTTTAAAAAT
1765621 AAATTAATAAAA-TAAAAGAAATTA
1 AAATTAATAAAATTAAAAGAAATTA
*
1765645 AAATTGAATAAAATTAAAATAAAT
1 AAATT-AATAAAATTAAAAGAAAT
1765669 ATTACTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 7 0.33
26 9 0.43
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (25 bp):
AAATTAATAAAATTAAAAGAAATTA
Found at i:1765743 original size:13 final size:14
Alignment explanation
Indices: 1765716--1765767 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
1765706 AATAAGATAA
*
1765716 ATATTTATCAAAAAT
1 ATATTTAT-TAAAAT
1765731 ATATTTATT-AAAT
1 ATATTTATTAAAAT
*
1765744 ATATTAAATTAAAAT
1 ATATT-TATTAAAAT
*
1765759 TTATTTATT
1 ATATTTATT
1765768 TTTAAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 9 0.29
14 6 0.19
15 16 0.52
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATTTATTAAAAT
Found at i:1766958 original size:25 final size:25
Alignment explanation
Indices: 1766911--1766959 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1766901 ATACATAAAA
* *
1766911 ATTAAAAAGATTGATATTTTTTTTC
1 ATTAAAAAGATGGATATTATTTTTC
1766936 ATTAAAAA-ATGGATAATTATTTTT
1 ATTAAAAAGATGGAT-ATTATTTTT
1766960 TCAAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (25 bp):
ATTAAAAAGATGGATATTATTTTTC
Found at i:1770666 original size:19 final size:19
Alignment explanation
Indices: 1770642--1770732 Score: 80
Period size: 19 Copynumber: 4.7 Consensus size: 19
1770632 ATATAAATTT
1770642 TTAAAAATTTAAATTTAAA
1 TTAAAAATTTAAATTTAAA
*
1770661 TTAAAAATTTAAAAGATTAAAA
1 TTAAAAATTT--AA-ATTTAAA
* *
1770683 TGTATAAAATTT--TTTTATA
1 T-TA-AAAATTTAAATTTAAA
*
1770702 -TAAAAATTTGAATTTAAA
1 TTAAAAATTTAAATTTAAA
1770720 TTAAAAATTTAAA
1 TTAAAAATTTAAA
1770733 AATTTAAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
16 7 0.12
17 2 0.04
18 5 0.09
19 25 0.44
21 2 0.04
22 7 0.12
23 2 0.04
24 7 0.12
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TTAAAAATTTAAATTTAAA
Found at i:1770704 original size:67 final size:64
Alignment explanation
Indices: 1770596--1770783 Score: 196
Period size: 59 Copynumber: 3.0 Consensus size: 64
1770586 ATAAAAAGAA
* * *
1770596 AAAAATTTAAAATACTAAAACGTATAGAATTTTTTTATATAAATTTTTAAAAATTTAAATTTAAA
1 AAAAATTTAAAA-ATTAAAATGTATA-AAATTTTTTATATAAA-TTTTAAAAATTTAAATTTAAA
1770661 TT
63 TT
*
1770663 AAAAATTTAAAAGATTAAAATGTATAAAATTTTTT-TAT--A---TAAAAATTTGAATTTAAATT
1 AAAAATTTAAAA-ATTAAAATGTATAAAATTTTTTATATAAATTTTAAAAATTTAAATTTAAATT
* * * *
1770722 AAAAATTTAAAAATTTAAAATATAT-TAATTTTTTAAAAAAATTTT-AAAA-TTAAATTTAAATT
1 AAAAATTTAAAAA-TTAAAATGTATAAAATTTTTTATATAAATTTTAAAAATTTAAATTTAAATT
1770784 TTATATAAAA
Statistics
Matches: 104, Mismatches: 10, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
58 9 0.09
59 42 0.40
61 1 0.01
62 12 0.12
63 5 0.05
64 1 0.01
65 3 0.03
66 8 0.08
67 23 0.22
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (64 bp):
AAAAATTTAAAAATTAAAATGTATAAAATTTTTTATATAAATTTTAAAAATTTAAATTTAAATT
Found at i:1772483 original size:2 final size:2
Alignment explanation
Indices: 1772467--1772501 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1772457 TTCATACCCT
1772467 TA TA -A TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1772502 TGTGAGGCGG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1773218 original size:16 final size:16
Alignment explanation
Indices: 1773197--1773235 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1773187 CACTGTATCT
* *
1773197 TTTTAAATTTAAATTA
1 TTTTAAATTCAAATCA
1773213 TTTTAAATTCAAATCA
1 TTTTAAATTCAAATCA
1773229 TTTTAAA
1 TTTTAAA
1773236 ATTGAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTTAAATTCAAATCA
Found at i:1773985 original size:16 final size:16
Alignment explanation
Indices: 1773966--1774049 Score: 55
Period size: 16 Copynumber: 5.2 Consensus size: 16
1773956 TAGGTTCAAG
*
1773966 TTATTTCAGGTTTGAC
1 TTATTTCAGGTTTGAA
* * * *
1773982 TTATTTTA-GATTCAG
1 TTATTTCAGGTTTGAA
*
1773997 TCTATTTCAGGTTTAAA
1 T-TATTTCAGGTTTGAA
1774014 TTATTTC-GAGTTTGAA
1 TTATTTCAG-GTTTGAA
**
1774030 TTATTTTTGAGTTTGAA
1 TTATTTCAG-GTTTGAA
1774047 TTA
1 TTA
1774050 ATCAATTTTG
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
15 6 0.11
16 31 0.57
17 17 0.31
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.52
Consensus pattern (16 bp):
TTATTTCAGGTTTGAA
Found at i:1774043 original size:17 final size:16
Alignment explanation
Indices: 1774007--1774049 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
1773997 TCTATTTCAG
*
1774007 GTTTAAATTATTTCGA
1 GTTTGAATTATTTCGA
*
1774023 GTTTGAATTATTTTTGA
1 GTTTGAATTA-TTTCGA
1774040 GTTTGAATTA
1 GTTTGAATTA
1774050 ATCAATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.53
Consensus pattern (16 bp):
GTTTGAATTATTTCGA
Found at i:1775390 original size:13 final size:13
Alignment explanation
Indices: 1775372--1775396 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1775362 TATTTTTTAA
1775372 ATATTTATATTTG
1 ATATTTATATTTG
1775385 ATATTTATATTT
1 ATATTTATATTT
1775397 AACGTTATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
ATATTTATATTTG
Found at i:1782773 original size:32 final size:35
Alignment explanation
Indices: 1782719--1782782 Score: 107
Period size: 32 Copynumber: 1.9 Consensus size: 35
1782709 CCTTACAACC
1782719 CTATCTTTTACAAAGGCTAAGATAGAACCTCTACA
1 CTATCTTTTACAAAGGCTAAGATAGAACCTCTACA
1782754 CTATC-TTT-CAAA-GCTAAGATAGAACCTCT
1 CTATCTTTTACAAAGGCTAAGATAGAACCTCT
1782783 CAATCACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 17 0.59
33 4 0.14
34 3 0.10
35 5 0.17
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (35 bp):
CTATCTTTTACAAAGGCTAAGATAGAACCTCTACA
Found at i:1783439 original size:13 final size:13
Alignment explanation
Indices: 1783421--1783445 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1783411 CTTCCAGTTT
1783421 ATGTATCGATACA
1 ATGTATCGATACA
1783434 ATGTATCGATAC
1 ATGTATCGATAC
1783446 TAAGCAAAAT
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):
ATGTATCGATACA
Found at i:1785457 original size:14 final size:15
Alignment explanation
Indices: 1785421--1785459 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
1785411 TGTTTAAAAT
1785421 AAATCACATTCTTAG
1 AAATCACATTCTTAG
**
1785436 TGATCACATTCTTA-
1 AAATCACATTCTTAG
1785450 AAATCACATT
1 AAATCACATT
1785460 TTATTAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (15 bp):
AAATCACATTCTTAG
Found at i:1786856 original size:19 final size:18
Alignment explanation
Indices: 1786832--1786891 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 18
1786822 ATCGATACAA
1786832 TGTATCGATGCATAAGTGT
1 TGTATCGATGCATAAGT-T
*
1786851 TGTATCGAT--ACAA---
1 TGTATCGATGCATAAGTT
1786864 TGTATCGATGCATAAGTTT
1 TGTATCGATGCATAAG-TT
1786883 TGTATCGAT
1 TGTATCGAT
1786892 ACAATGTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
13 9 0.27
15 3 0.09
17 3 0.09
19 18 0.55
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (18 bp):
TGTATCGATGCATAAGTT
Found at i:1786859 original size:32 final size:32
Alignment explanation
Indices: 1786818--1786902 Score: 161
Period size: 32 Copynumber: 2.7 Consensus size: 32
1786808 TTTCAACAAT
1786818 TTGTATCGATACAATGTATCGATGCATAAGTG
1 TTGTATCGATACAATGTATCGATGCATAAGTG
*
1786850 TTGTATCGATACAATGTATCGATGCATAAGTT
1 TTGTATCGATACAATGTATCGATGCATAAGTG
1786882 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
1786903 CTACGAAGCT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATGCATAAGTG
Found at i:1786965 original size:13 final size:13
Alignment explanation
Indices: 1786947--1786974 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1786937 ATTACTAAAA
1786947 TGTATCGATACAT
1 TGTATCGATACAT
1786960 TGTATCGATACAT
1 TGTATCGATACAT
1786973 TG
1 TG
1786975 ATCTTTTGTA
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:1794015 original size:12 final size:12
Alignment explanation
Indices: 1793997--1794029 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
1793987 AAAAGTAAAC
1793997 ACAAAAAAACAAA
1 ACAAAAAAA-AAA
1794010 ACAAAAAAAAAA
1 ACAAAAAAAAAA
1794022 ACAAAAAA
1 ACAAAAAA
1794030 GTGGAAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (12 bp):
ACAAAAAAAAAA
Found at i:1794051 original size:21 final size:21
Alignment explanation
Indices: 1794025--1794071 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
1794015 AAAAAAAACA
1794025 AAAAAGTGGAA-AAGCAAAA-TC
1 AAAAAG-GGAACAA-CAAAAGTC
1794046 AAAAAGGGAACAACAAAAGTC
1 AAAAAGGGAACAACAAAAGTC
1794067 AAAAA
1 AAAAA
1794072 ACAAAGACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.66, C:0.11, G:0.17, T:0.06
Consensus pattern (21 bp):
AAAAAGGGAACAACAAAAGTC
Found at i:1795415 original size:31 final size:30
Alignment explanation
Indices: 1795319--1795430 Score: 172
Period size: 30 Copynumber: 3.7 Consensus size: 30
1795309 ATACCTTCTT
1795319 AAAGTCCACGACTCAGTGGCATTTTGTCCC
1 AAAGTCCACGACTCAGTGGCATTTTGTCCC
* *
1795349 AAAGCCCATGACTCAGTGGCATTTTGTCCC
1 AAAGTCCACGACTCAGTGGCATTTTGTCCC
1795379 AAAGTCCACGACTCAGTGGCATATTT-TCTCC
1 AAAGTCCACGACTCAGTGGCAT-TTTGTC-CC
*
1795410 AAAGTCCACAACTCAGTGGCA
1 AAAGTCCACGACTCAGTGGCA
1795431 ATCTCTTTTC
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
30 50 0.67
31 25 0.33
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCCC
Found at i:1795444 original size:31 final size:30
Alignment explanation
Indices: 1795319--1795553 Score: 101
Period size: 31 Copynumber: 7.7 Consensus size: 30
1795309 ATACCTTCTT
* *
1795319 AAAGTCCACGACTCAGTGGC-ATT-TTGTCCC
1 AAAGTCCACAACTCAGTGGCAATTCTT-T-TC
* ** *
1795349 AAAGCCCATGACTCAGTGGC-ATT-TTGTCCC
1 AAAGTCCACAACTCAGTGGCAATTCTT-T-TC
* *
1795379 AAAGTCCACGACTCAGTGGCATATT-TTCTCC
1 AAAGTCCACAACTCAGTGGCA-ATTCTT-TTC
1795410 AAAGTCCACAACTCAGTGGCAATCTCTTTTC
1 AAAGTCCACAACTCAGTGGCAAT-TCTTTTC
* ** * * *
1795441 AAAGTCAATGACTTAATGGC-ATCTTTTCTTC
1 AAAGTCCACAACTCAGTGGCAAT-TCTT-TTC
* * * *
1795472 AAAGCCCACAACTCCGTGACACCTTTTTCTTTTC
1 AAAGTCCACAACTCAGTGGCA----ATTCTTTTC
* *
1795506 AAAGCCCACAACTCCGTGGC-A-TCTTTT-
1 AAAGTCCACAACTCAGTGGCAATTCTTTTC
*
1795533 AAAGTCCACAACTCCGTGGCA
1 AAAGTCCACAACTCAGTGGCA
1795554 CCTTGTTCCT
Statistics
Matches: 168, Mismatches: 26, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
27 19 0.11
28 6 0.04
30 54 0.32
31 55 0.33
32 8 0.05
34 22 0.13
35 3 0.02
36 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (30 bp):
AAAGTCCACAACTCAGTGGCAATTCTTTTC
Found at i:1795509 original size:34 final size:33
Alignment explanation
Indices: 1795464--1795819 Score: 255
Period size: 34 Copynumber: 11.1 Consensus size: 33
1795454 TAATGGCATC
* * *
1795464 TTTTC-TTCAAAGCCCACAACTCCGTGACACCT
1 TTTTCTTTTAAAGTCCACAACTCCGTGGCACCT
*
1795496 TTTTCTTTTCAAAGCCCACAACTCCGTGGCA---
1 TTTTCTTTT-AAAGTCCACAACTCCGTGGCACCT
1795527 ---TCTTTTAAAGTCCACAACTCCGTGGCACCT
1 TTTTCTTTTAAAGTCCACAACTCCGTGGCACCT
* * *
1795557 TGTTCCTTTT-AAGTCCACAACTCCGTGGTATCT
1 T-TTTCTTTTAAAGTCCACAACTCCGTGGCACCT
* * * * *
1795590 TTTTCCTTTAAAGCCCATAACTCCATGGCACTTT
1 TTTTCTTTTAAAGTCCACAACTCCGTGGCAC-CT
* * *
1795624 TTTTCTTTTTAAAGTCAACAATTTCGTGGCATCCCT
1 TTTTC-TTTTAAAGTCCACAACTCCGTGGCA--CCT
* * * * *
1795660 TTTTCCTGT-AAGTCCATAACTCAGTGGCATCT
1 TTTTCTTTTAAAGTCCACAACTCCGTGGCACCT
* *
1795692 CTTTTC---T-AAGTCCACGACTCCGTGGCACTT
1 -TTTTCTTTTAAAGTCCACAACTCCGTGGCACCT
*
1795722 TTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCT
1 TTTTC-TTTTAAAGTCCACAACTCCGTGGCAC-CT
* *
1795757 TTTTCCTTTTTAAGTTCACAACTCCGTGGCACC-
1 TTTT-CTTTTAAAGTCCACAACTCCGTGGCACCT
*
1795790 ----CTTTT-AAGTCCACAACTCCGTGGCATCT
1 TTTTCTTTTAAAGTCCACAACTCCGTGGCACCT
1795818 TT
1 TT
1795820 CTCCTTTTCA
Statistics
Matches: 256, Mismatches: 43, Indels: 52
0.73 0.12 0.15
Matches are distributed among these distances:
27 40 0.16
28 11 0.04
29 5 0.02
30 19 0.07
32 13 0.05
33 46 0.18
34 66 0.26
35 48 0.19
36 7 0.03
37 1 0.00
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.36
Consensus pattern (33 bp):
TTTTCTTTTAAAGTCCACAACTCCGTGGCACCT
Found at i:1795541 original size:27 final size:28
Alignment explanation
Indices: 1795499--1795553 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
1795489 GACACCTTTT
1795499 TCTTTTCAAAGCCCACAACTCCGTGGCA
1 TCTTTTCAAAGCCCACAACTCCGTGGCA
*
1795527 TCTTTT-AAAGTCCACAACTCCGTGGCA
1 TCTTTTCAAAGCCCACAACTCCGTGGCA
1795554 CCTTGTTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (28 bp):
TCTTTTCAAAGCCCACAACTCCGTGGCA
Found at i:1795573 original size:33 final size:33
Alignment explanation
Indices: 1795528--1795827 Score: 235
Period size: 33 Copynumber: 9.2 Consensus size: 33
1795518 TCCGTGGCAT
*
1795528 CTTTTAAAGTCCACAACTCCGTGGCACCTTGTTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCTTTTTC
* *
1795562 CTTTTAAGTCCACAACTCCGTGGTATCTTTTTC
1 CTTTTAAGTCCACAACTCCGTGGCACCTTTTTC
* * * * *
1795595 CTTTAAAGCCCATAACTCCATGGCACTTTTTTTC
1 CTTTTAAGTCCACAACTCCGTGGCAC-CTTTTTC
* * * *
1795629 TTTTTAAAGTCAACAATTTCGTGGCATCCCTTTTTC
1 CTTTT-AAGTCCACAACTCCGTGGCA--CCTTTTTC
* * * *
1795665 C-TGTAAGTCCATAACTCAGTGGCATCTCTTTT-
1 CTTTTAAGTCCACAACTCCGTGGCACCT-TTTTC
* *
1795697 C---TAAGTCCACGACTCCGTGGCACTTTTTTC
1 CTTTTAAGTCCACAACTCCGTGGCACCTTTTTC
* *
1795727 TTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 CTTTT-AAGTCCACAACTCCGTGGCAC-CTTTTTC
*
1795762 CTTTTTAAGTTCACAACTCCGTGGCA-C-----C
1 C-TTTTAAGTCCACAACTCCGTGGCACCTTTTTC
* *
1795790 CTTTTAAGTCCACAACTCCGTGGCATCTTTCTC
1 CTTTTAAGTCCACAACTCCGTGGCACCTTTTTC
1795823 CTTTT
1 CTTTT
1795828 CAAAAGCCCA
Statistics
Matches: 208, Mismatches: 40, Indels: 37
0.73 0.14 0.13
Matches are distributed among these distances:
27 23 0.11
28 3 0.01
29 4 0.02
30 19 0.09
32 3 0.01
33 57 0.27
34 48 0.23
35 40 0.19
36 10 0.05
37 1 0.00
ACGTcount: A:0.20, C:0.29, G:0.13, T:0.38
Consensus pattern (33 bp):
CTTTTAAGTCCACAACTCCGTGGCACCTTTTTC
Found at i:1795697 original size:69 final size:66
Alignment explanation
Indices: 1795532--1795787 Score: 188
Period size: 64 Copynumber: 3.8 Consensus size: 66
1795522 TGGCATCTTT
* * * * *
1795532 TAAAGTCCACAACTCCGTGGCAC-CTTGTTCCTTTTAAGTCCACAACTCCGTGGTATCTTTTTCC
1 TAAAGTCCATAACTCAGTGGCACTCTT-TTCTTTTTAAGTCAACAACTCCGTGGCATCTTTTTCC
*
1795596 TT
65 TG
* * * *
1795598 TAAAGCCCATAACTCCA-TGGCACTTTTTTTCTTTTTAAAGTCAACAATTTCGTGGCATCCCTTT
1 TAAAGTCCATAACT-CAGTGGCAC-TCTTTTCTTTTT-AAGTCAACAACTCCGTGGCAT--CTTT
1795662 TTCCTG
61 TTCCTG
* *
1795668 T-AAGTCCATAACTCAGTGGCA-TC---TCTTTTCTAAGTCCACGACTCCGTGGCA-CTTTTTTC
1 TAAAGTCCATAACTCAGTGGCACTCTTTTCTTTT-TAAGTCAACAACTCCGTGGCATC-TTTTTC
* *
1795727 TTTT
64 -CTG
* * *
1795731 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTTAAGTTC-ACAACTCCGTGGCA
1 TAAAGTCCATAACTCAGTGGCACTC-TTTT-CTTTTTAAG-TCAACAACTCCGTGGCA
1795788 CCCTTTTAAG
Statistics
Matches: 150, Mismatches: 22, Indels: 33
0.73 0.11 0.16
Matches are distributed among these distances:
61 1 0.01
62 6 0.04
63 2 0.01
64 39 0.26
65 3 0.02
66 18 0.12
67 9 0.06
68 21 0.14
69 34 0.23
70 17 0.11
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (66 bp):
TAAAGTCCATAACTCAGTGGCACTCTTTTCTTTTTAAGTCAACAACTCCGTGGCATCTTTTTCCT
G
Found at i:1795704 original size:30 final size:29
Alignment explanation
Indices: 1795668--1795819 Score: 85
Period size: 27 Copynumber: 4.9 Consensus size: 29
1795658 CTTTTTCCTG
*
1795668 TAAGTCCATAACTCAGTGGCATCTCTTTTC
1 TAAGTCCACAACTCAGTGGCA-CTCTTTTC
* * *
1795698 TAAGTCCACGACTCCGTGGCACTTTTTTC
1 TAAGTCCACAACTCAGTGGCACTCTTTTC
* *
1795727 TTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 ----T-AAGTCCACAACTCAGTGGCACTC-TTTT-C
* * *
1795763 TTTTTAAGTTCACAACTCCGTGGCAC-CCTTT-
1 ----TAAGTCCACAACTCAGTGGCACTCTTTTC
*
1795794 TAAGTCCACAACTCCGTGGCA-TCTTT
1 TAAGTCCACAACTCAGTGGCACTCTTT
1795820 CTCCTTTTCA
Statistics
Matches: 102, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
27 23 0.23
29 7 0.07
30 18 0.18
33 4 0.04
34 21 0.21
35 23 0.23
36 6 0.06
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (29 bp):
TAAGTCCACAACTCAGTGGCACTCTTTTC
Found at i:1795725 original size:99 final size:96
Alignment explanation
Indices: 1795529--1795819 Score: 266
Period size: 98 Copynumber: 2.9 Consensus size: 96
1795519 CCGTGGCATC
* * * *
1795529 TTTTAAAGTCC-ACAACTCCGTGGCA-CCTTGTTCCTTTTAAGTCCACAACTCCGTGGTATCTTT
1 TTTTAAAG-CCAACAACTCCGTGGCACCCTTTTTCCTTGTAAGTCCACAACTCAGTGGCA-C---
* * * *
1795592 TTCCTTTAAAGCCCATAACTCCATGGCACTTTTTTTCT
61 --CCTTTTAAGTCCACAACTCCGTGGCACTTTTTTTCT
* * * * *
1795630 TTTTAAAGTCAACAATTTCGTGGCATCCCTTTTTCC-TGTAAGTCCATAACTCAGTGGCATCTCT
1 TTTTAAAGCCAACAACTCCGTGGCA-CCCTTTTTCCTTGTAAGTCCACAACTCAGTGGCA-C-CC
*
1795694 TTTCTAAGTCCACGACTCCGTGGCAC-TTTTTTCT
63 TTT-TAAGTCCACAACTCCGTGGCACTTTTTTTCT
* * * * *
1795728 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTTAAGTTCACAACTCCGTGGCACCCTT
1 TTTTAAAGCCAACAACTCCGTGGCACCCTTTTTCC-TTGTAAGTCCACAACTCAGTGGCACCCTT
1795793 TTAAGTCCACAACTCCGTGGCATCTTT
65 TTAAGTCCACAACTCCGTGGCA-CTTT
1795820 CTCCTTTTCA
Statistics
Matches: 157, Mismatches: 25, Indels: 19
0.78 0.12 0.09
Matches are distributed among these distances:
96 20 0.13
97 14 0.09
98 37 0.24
99 36 0.23
100 1 0.01
101 20 0.13
102 21 0.13
103 8 0.05
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (96 bp):
TTTTAAAGCCAACAACTCCGTGGCACCCTTTTTCCTTGTAAGTCCACAACTCAGTGGCACCCTTT
TAAGTCCACAACTCCGTGGCACTTTTTTTCT
Found at i:1796010 original size:49 final size:49
Alignment explanation
Indices: 1795887--1797588 Score: 1703
Period size: 49 Copynumber: 34.8 Consensus size: 49
1795877 GGCATTTTCT
* *
1795887 TTTAAGCCCAATATCGCT-GCTCTTGAATCAGCATATTGGCGCCTTTGTCAAC
1 TTTAAGTCCAATATCGCTGGC-CTTGAATCAGCATATTGGCACCTTTGT---C
*
1795939 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* * *
1795988 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* * *
1796031 TTTAAGTCTAATATCGCTGGCCTTGAATCAGAATATTGACACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* * * *
1796080 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTAGCA-C-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* *
1796123 TTTAAGTCCAATATCGCTGGCCTTAAATTAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* * *
1796172 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* * * *
1796215 TTTAAGTCCAATATCGTTGGCTTTGAATCAGCATATTGGCGCATTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TC
* * **
1796267 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAAT-
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TGTC
* **
1796316 TTGAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TC
* *
1796368 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1796411 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* * * *
1796460 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGTA-C-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
*
1796503 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* *
1796552 ATCTTGAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-----C
1 -T-TT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1796598 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* *
1796647 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-C-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
*
1796690 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TC
* * * *
1796742 TTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCAG-C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TGTC
* * *
1796791 TTGAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TC
* * * **
1796843 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* *
1796892 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TC
* * * **
1796944 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGTACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1796993 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* * ***
1797042 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* *
1797091 TTTAAGTCCAATATGGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TC
* * * * **
1797143 TTTAAGTCCAATGTCGCTAGCCTTGAATTAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* * * *
1797192 TTTAAATCTAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TC
* * * **
1797244 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGACACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* * ** ** *
1797293 TTTAAGTCCAGTATCGCTGGCCTTGAATCAGCACATTAACACCTTCATT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* *
1797342 TTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TC
* * * **
1797394 TTTAAGTCCAATGTCGATGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* * * **
1797443 TTTAAGTCTAGTATCGCTGGCCTTGAATCAGTATATTGGTGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TC
** * * * ** *
1797495 TTTAAAACCCAATGTCGCTGGCCTTGAATCAGCACATTGGTATTTTTCTC
1 TTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
* * * * *
1797545 ATCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGGCA
1 -T-TT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1797589 TCATTTTTCT
Statistics
Matches: 1369, Mismatches: 201, Indels: 160
0.79 0.12 0.09
Matches are distributed among these distances:
43 260 0.19
44 8 0.01
45 1 0.00
46 1 0.00
48 6 0.00
49 608 0.44
50 4 0.00
51 6 0.00
52 439 0.32
53 36 0.03
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (49 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
Found at i:1796367 original size:101 final size:98
Alignment explanation
Indices: 1795938--1797588 Score: 2042
Period size: 101 Copynumber: 17.0 Consensus size: 98
1795928 CCTTTGTCAA
* *
1795938 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTG---TCTTTAAGACCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAAT
1796000 GTCGCTGGCCTTGAATCAGCACATTGGCA-C--
66 GTCGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * *
1796030 CTTTAAGTCTAATATCGCTGGCCTTGAATCAGAATATTGACACCTTTG---TCTTTAAGACCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAAT
*
1796092 GTCGCTGGCCTTGAATCAGCACATTAGCA-C--
66 GTCGCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
1796122 CTTTAAGTCCAATATCGCTGGCCTTAAATTAGCATATTGGCACCTTTG---TCTTTAAGACCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAAT
1796184 GTCGCTGGCCTTGAATCAGCACATTGGCA-C--
66 GTCGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * *
1796214 CTTTAAGTCCAATATCGTTGGCTTTGAATCAGCATATTGGCGCATTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAAT
1796279 GTCGCTGGCCTTGAATCAGCACATTGGCACCTT
66 GTCGCTGGCCTTGAATCAGCACATTGGCACCTT
**
1796312 CAATTTGAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAGTCC
1 C--TTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCC
1796377 AATGTCGCTGGCCTTGAATCAGCACATTGGCA-C--
63 AATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
*
1796410 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TCTTTAAGACCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAAT
*
1796472 GTCGCTGGCCTTGAATCAGCACATTGGTA-C--
66 GTCGCTGGCCTTGAATCAGCACATTGGCACCTT
* *
1796502 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTGAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAAT
1796567 GTCGCTGGCCTTGAATCAGCACATTGGCA-C--
66 GTCGCTGGCCTTGAATCAGCACATTGGCACCTT
*
1796597 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TCTTTAAGACCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAAT
*
1796659 GTCGCTGGCCTTGAATCAGCATATTGGCA-C--
66 GTCGCTGGCCTTGAATCAGCACATTGGCACCTT
*
1796689 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAAT
*
1796754 GTTGCTGGCCTTGAATCAGCACATTGGCACCTT
66 GTCGCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
1796787 CAGCTTGAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCGCCTTTGTCATCTTTAAGTCC
1 ---CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCC
*
1796852 AATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTCAT
63 AATGTCGCTGGCCTTGAATCAGCACATTGGCACC-T--T
* *
1796891 CTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCGCCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAAT
*
1796956 GTCGCTGGCCTTGAATCAGCACATTGGTACCTTCAT
66 GTCGCTGGCCTTGAATCAGCACATTGGCACC-T--T
1796992 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TCTTTAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAAT
1797054 GTCGCTGGCCTTGAATCAGCACATTGGCACCTT
66 GTCGCTGGCCTTGAATCAGCACATTGGCACCTT
* *
1797087 CACCTTTAAGTCCAATATGGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCC
1 ---CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCC
* *
1797152 AATGTCGCTAGCCTTGAATTAGCACATTGGCACCTTCAT
63 AATGTCGCTGGCCTTGAATCAGCACATTGGCACC-T--T
* * * *
1797191 CTTTAAATCTAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAAT
*
1797256 GTCGCTGGCCTTGAATCAGCACATTGACACCTTCAT
66 GTCGCTGGCCTTGAATCAGCACATTGGCACC-T--T
* * ** * *
1797292 CTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCACATTAACACC--T-TCATTTTTAAATCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAAT
* * *
1797354 ATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
66 GTCGCTGGCCTTGAATCAGCACATTGGCACC----T--T
* * * * *
1797393 CTTTAAGTCCAATGTCGATGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCTAGT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAAT
* * * **
1797455 ATCGCTGGCCTTGAATCAGTATATTGGTGCCTTTGTCAT
66 GTCGCTGGCCTTGAATCAGCACATTGGCACC----T--T
** * * * ** * * *
1797494 CTTTAAAACCCAATGTCGCTGGCCTTGAATCAGCACATTGGTATTTTTCTCATCTTCAAGTCTAA
1 CTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAA
* *
1797559 TGTCGCTGACCGTGAATCAGCACATTGGCA
65 TGTCGCTGGCCTTGAATCAGCACATTGGCA
1797589 TCATTTTTCT
Statistics
Matches: 1417, Mismatches: 102, Indels: 67
0.89 0.06 0.04
Matches are distributed among these distances:
92 392 0.28
95 213 0.15
96 5 0.00
97 1 0.00
98 134 0.09
99 1 0.00
100 4 0.00
101 591 0.42
102 36 0.03
104 3 0.00
105 37 0.03
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (98 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAAT
GTCGCTGGCCTTGAATCAGCACATTGGCACCTT
Found at i:1796725 original size:22 final size:22
Alignment explanation
Indices: 1796660--1796725 Score: 52
Period size: 22 Copynumber: 3.0 Consensus size: 22
1796650 AAGACCAATG
1796660 TCGCTGGCCTTGAATCAGCATA
1 TCGCTGGCCTTGAATCAGCATA
*
1796682 T---TGGCACCTTTAAGTC--CAATA
1 TCGCTGG--CCTTGAA-TCAGC-ATA
1796703 TCGCTGGCCTTGAATCAGCATA
1 TCGCTGGCCTTGAATCAGCATA
1796725 T
1 T
1796726 TGGCGCCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 18
0.62 0.04 0.34
Matches are distributed among these distances:
19 3 0.09
20 1 0.03
21 12 0.36
22 13 0.39
23 1 0.03
24 3 0.09
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (22 bp):
TCGCTGGCCTTGAATCAGCATA
Found at i:1797010 original size:150 final size:150
Alignment explanation
Indices: 1796502--1797588 Score: 1280
Period size: 150 Copynumber: 7.3 Consensus size: 150
1796492 ACATTGGTAC
* * * *
1796502 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTGAAGTCCAAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAAT
* *
1796567 GTCGCTGGCCTTGAATCAGCACATT-G-G----CACCTTTAAGTCCAATATCGCTGGCCTTGAAT
63 ATCGCTGGCCTTGAATCAGCACATTGGCGCCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAAT
1796626 CAGCATATTGGCACCTTTG---T
128 CAGCATATTGGCACCTTTGTCAT
* *
1796646 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
* * *
1796705 GCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTTGCTGGCCTTGAAT
66 GCTGGCCTTGAATCAGCACATTGGCGCC--T-TCATCTTTAAGTCCAATATCGCTGGCCTTGAAT
* *
1796770 CAGCACATTGGCACC--T-TCAG
128 CAGCATATTGGCACCTTTGTCAT
* * * * *
1796790 CTTGAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAAT
*
1796855 GTCGCTGGCCTTGAATCAGCACATTGGCGCCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAAT
63 ATCGCTGGCCTTGAATCAGCACATTGGCGCCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAAT
* *
1796920 CAACATATTGGCGCCTTTGTCAT
128 CAGCATATTGGCACCTTTGTCAT
*
1796943 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGTACCTTCATCTTTAAGTCCAATATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
* * ** *
1797008 GCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGTCCAATGTCGCTGGCCTTGAATCAG
66 GCTGGCCTTGAATCAGCACATTGGCGCCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
* *
1797073 CACATTGGCACC--T-TCAC
131 CATATTGGCACCTTTGTCAT
* * * *
1797090 CTTTAAGTCCAATATGGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAAT
* * * * * * *
1797155 GTCGCTAGCCTTGAATTAGCACATTGGCACCTTCATCTTTAAATCTAATATCGTTGGCCTTGAAT
63 ATCGCTGGCCTTGAATCAGCACATTGGCGCCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAAT
*
1797220 CAGCATATTGGCGCCTTTGTCAT
128 CAGCATATTGGCACCTTTGTCAT
* *
1797243 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGACACCTTCATCTTTAAGTCCAGTATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
** * * *
1797308 GCTGGCCTTGAATCAGCACATTAACACCTTCATTTTTAAATCCAATATCGCTGGCCTTGAATCAG
66 GCTGGCCTTGAATCAGCACATTGGCGCCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
*
1797373 CATATTGGCGCCTTTGTCAT
131 CATATTGGCACCTTTGTCAT
* * *
1797393 CTTTAAGTCCAATGTCGATGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAGTATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
* * * ** *
1797458 GCTGGCCTTGAATCAGTATATTGGTGCCTTTGTCATCTTTAAAACCCAATGTCGCTGGCCTTGAA
66 GCTGGCCTTGAATCAGCACATTGGCGCC--T-TCATCTTT-AAGTCCAATATCGCTGGCCTTGAA
* * ** *
1797523 TCAGCACATTGGTATTTTTCTCAT
127 TCAGCATATTGGCACCTTTGTCAT
* * * *
1797547 CTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGGCA
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1797589 TCATTTTTCT
Statistics
Matches: 814, Mismatches: 95, Indels: 58
0.84 0.10 0.06
Matches are distributed among these distances:
135 35 0.04
136 1 0.00
137 2 0.00
142 1 0.00
144 119 0.15
147 42 0.05
148 1 0.00
149 1 0.00
150 396 0.49
151 4 0.00
152 3 0.00
153 132 0.16
154 77 0.09
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (150 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
GCTGGCCTTGAATCAGCACATTGGCGCCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
CATATTGGCACCTTTGTCAT
Found at i:1798139 original size:80 final size:80
Alignment explanation
Indices: 1797983--1798142 Score: 230
Period size: 80 Copynumber: 2.0 Consensus size: 80
1797973 GAGGGGCAGC
*
1797983 TGTAGACACCTCATTTTGTCCGGGCCAATTTTCGACAATTTGAAGCCTAGCTAGTAGGTGGAGGA
1 TGTAGACACCTCATTTTGTCCGGGCCAATTTTCGACAATTTGAAGCCTAGCTAGTAGGTGGAAGA
*
1798048 GTGGACATATGTGGG
66 GTCGACATATGTGGG
* * * * * *
1798063 TGTAGACACTTCATTTTGTCTGGGCCAATTTTCGATAATTTGAGGTCTAGCTAGTAGGTGGAATA
1 TGTAGACACCTCATTTTGTCCGGGCCAATTTTCGACAATTTGAAGCCTAGCTAGTAGGTGGAAGA
* *
1798128 TTCGACGTATGTGGG
66 GTCGACATATGTGGG
1798143 GATGAATTCG
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (80 bp):
TGTAGACACCTCATTTTGTCCGGGCCAATTTTCGACAATTTGAAGCCTAGCTAGTAGGTGGAAGA
GTCGACATATGTGGG
Found at i:1798421 original size:32 final size:33
Alignment explanation
Indices: 1798366--1798431 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
1798356 TTCAATGATT
*
1798366 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTACCGATACATAAAGTGTTGTATCGATACAA
* *
1798399 TGTACCGATATAT-AAGTTTTGTATCGATACAA
1 TGTACCGATACATAAAGTGTTGTATCGATACAA
1798431 T
1 T
1798432 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTACCGATACATAAAGTGTTGTATCGATACAA
Found at i:1798561 original size:52 final size:52
Alignment explanation
Indices: 1798505--1798629 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
1798495 CACTGATCTT
* * *
1798505 TGTATCGATACATGCAGGCAAATTTGCTCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
*
1798557 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
*
1798609 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1798630 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1801926 original size:32 final size:32
Alignment explanation
Indices: 1801885--1801969 Score: 143
Period size: 32 Copynumber: 2.7 Consensus size: 32
1801875 TTTCAATAAT
* *
1801885 TTGTATCGATATAATGTATCGATGCATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
1801917 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
1801949 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
1801970 CTACGAAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Done.