Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002012.1 Hibiscus syriacus cultivar Beakdansim tig00004111_pilon, whole genome shotgun sequence
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: 773058
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 3 of 3
Found at i:623119 original size:3 final size:3
Alignment explanation
Indices: 623111--623137 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
623101 CCTTTTAAAA
623111 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
623138 GACAATGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:624611 original size:4 final size:4
Alignment explanation
Indices: 624602--624647 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
624592 ATCGAGAAAA
*
624602 ACAT ACAT ACAT ACAT ACAT AAAT AC-- ACAT ACAT ACAT A-AT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
624647 A
1 A
624648 AAATTTGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 3 0.08
4 32 0.86
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:624633 original size:18 final size:17
Alignment explanation
Indices: 624610--624645 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
624600 AAACATACAT
624610 ACATACATACATAAATAC
1 ACATACATACAT-AATAC
624628 ACATACATACATAATAC
1 ACATACATACATAATAC
624645 A
1 A
624646 TAAAATTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (17 bp):
ACATACATACATAATAC
Found at i:625322 original size:29 final size:30
Alignment explanation
Indices: 625204--625586 Score: 180
Period size: 30 Copynumber: 12.1 Consensus size: 30
625194 ATTTCTCTTA
* *
625204 AAAAATCTTTGAGT-TGGTTCCTTTT-AAAT
1 AAAAATCTTTGAGTAT-GTTTCTTTTGAAAC
* * * *
625233 AAAAATCTTTGAGTTTGTTCCTTTTAAAAA
1 AAAAATCTTTGAGTATGTTTCTTTTGAAAC
*
625263 AAAAATCTTTGAG-ATAGTTTCTTTTAAAAC
1 AAAAATCTTTGAGTAT-GTTTCTTTTGAAAC
625293 AAAAATCTTTGAGTATGTTTC-TTTGAAAC
1 AAAAATCTTTGAGTATGTTTCTTTTGAAAC
* ** *
625322 AAAATTTTATCTATTAAAG-ACAATTTCTCTTG-AA-
1 AAAA----ATCT-TT-GAGTA-TGTTTCTTTTGAAAC
* *
625356 AAAAATCTTTGAGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGTATGTTTCTTTTGAAAC
* *
625386 AAAATTTTGTCTCTCTTGAG-ATAGTTTCTTTTAAAAC
1 AAAA------ATCT-TTGAGTAT-GTTTCTTTTGAAAC
625423 AAAAATCTTTGAGTATGTTTCTTTTGAAAC
1 AAAAATCTTTGAGTATGTTTCTTTTGAAAC
* **
625453 AAAATTTTATCTATTAAAG-ACAATTTCTTTTG--A-
1 AAAA----ATCT-TT-GAGTA-TGTTTCTTTTGAAAC
* *
625486 AAAAATCTTTGAGTTTGTTTCCTTTGAAAC
1 AAAAATCTTTGAGTATGTTTCTTTTGAAAC
* * *
625516 AAAATTTTGTCTCTCTTAAG-ATAGTTTCTTTTAAAAC
1 AAAA------ATCT-TTGAGTAT-GTTTCTTTTGAAAC
625553 AAAAATCTTTGAGTATGTTTCTTTTGAAAC
1 AAAAATCTTTGAGTATGTTTCTTTTGAAAC
625583 AAAA
1 AAAA
625587 TTTTATCTAT
Statistics
Matches: 273, Mismatches: 37, Indels: 87
0.69 0.09 0.22
Matches are distributed among these distances:
27 10 0.04
28 11 0.04
29 44 0.16
30 102 0.37
31 12 0.04
33 8 0.03
34 12 0.04
35 11 0.04
36 22 0.08
37 41 0.15
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (30 bp):
AAAAATCTTTGAGTATGTTTCTTTTGAAAC
Found at i:625433 original size:130 final size:131
Alignment explanation
Indices: 625271--625661 Score: 734
Period size: 130 Copynumber: 3.0 Consensus size: 131
625261 AAAAAAATCT
625271 TTGAGATAGTTTCTTTTAAAACAAAAATCTTTGAGTATGTTTC-TTTGAAACAAAATTTTATCTA
1 TTGAGATAGTTTCTTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTA
*
625335 TTAAAGACAATTTCTCTTGAAAAAAATCTTTGAGTTTGTTT-CTTTGGAAACAAAATTTTGTCTC
66 TTAAAGACAATTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCCTTT-GAAACAAAATTTTGTCTC
625399 TC
130 TC
625401 TTGAGATAGTTTCTTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTA
1 TTGAGATAGTTTCTTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTA
625466 TTAAAGACAATTTCTTTTG-AAAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCT
66 TTAAAGACAATTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCT
625530 C
131 C
*
625531 TTAAGATAGTTTCTTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTA
1 TTGAGATAGTTTCTTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTA
625596 TTAAAGACAATTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCT
66 TTAAAGACAATTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCT
625661 C
131 C
625662 GAGACAACTT
Statistics
Matches: 256, Mismatches: 2, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
130 167 0.65
131 89 0.35
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.44
Consensus pattern (131 bp):
TTGAGATAGTTTCTTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTA
TTAAAGACAATTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCT
C
Found at i:625667 original size:63 final size:64
Alignment explanation
Indices: 625293--625681 Score: 453
Period size: 63 Copynumber: 6.0 Consensus size: 64
625283 CTTTTAAAAC
* *
625293 AAAAATCTTTGAGTATGTTT-CTTTGAAACAAAATTTTATCTATTAAAGACAATTTCTCTTGAA
1 AAAAATCTTTGAGTATGTTTCCTTTGAAACAAAATTTTATCTACTAAAGACAATTTCTTTTGAA
* * * ** * * *
625356 AAAAATCTTTGAGTTTGTTT-CTTTGGAAACAAAATTTTGTCTCTCTTGAGATAGTTTCTTTTAA
1 AAAAATCTTTGAGTATGTTTCCTTT-GAAACAAAATTTTATCT-ACTAAAGACAATTTCTTTT-G
625420 AA
63 AA
* *
625422 CAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTATTAAAGACAATTTCTTTTG-A
1 -AAAAATCTTTGAGTATGTTTCCTTTGAAACAAAATTTTATCTACTAAAGACAATTTCTTTTGAA
* * * * * * *
625486 AAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTCTTAAGATAGTTTCTTTTAAA
1 AAAAATCTTTGAGTATGTTTCCTTTGAAACAAAATTTTATCT-ACTAAAGACAATTTCTTTT-GA
625551 A
64 A
* *
625552 CAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTATTAAAGACAATTTCTTTTGAA
1 -AAAAATCTTTGAGTATGTTTCCTTTGAAACAAAATTTTATCTACTAAAGACAATTTCTTTTGAA
* * ** *
625617 AAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCT-CTCGAGACAACTTCTTTTGAA
1 AAAAATCTTTGAGTATGTTTCCTTTGAAACAAAATTTTATCTACTAAAGACAATTTCTTTTGAA
625680 AA
1 AA
625682 TACCAACCTT
Statistics
Matches: 272, Mismatches: 45, Indels: 18
0.81 0.13 0.05
Matches are distributed among these distances:
63 81 0.30
64 70 0.26
65 14 0.05
66 30 0.11
67 74 0.27
68 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (64 bp):
AAAAATCTTTGAGTATGTTTCCTTTGAAACAAAATTTTATCTACTAAAGACAATTTCTTTTGAA
Found at i:625695 original size:130 final size:130
Alignment explanation
Indices: 625224--625665 Score: 715
Period size: 130 Copynumber: 3.4 Consensus size: 130
625214 GAGTTGGTTC
* * ***
625224 CTTTTAAATAAAAATCTTTGAGTTTG-TTCCTTTTAAA-AAAA--AAATCT-T-TGAGATAGTTT
1 CTTTTGAA-AAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTCTGAGATAGTTT
625283 CTTTTAAAACAAAAATCTTTGAGTATGTTTC-TTTGAAACAAAATTTTATCTATTAAAGACAATT
65 CTTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTATTAAAGACAATT
625347 T
130 T
*
625348 CTCTTGAAAAAAATCTTTGAGTTTGTTT-CTTTGGAAACAAAATTTTGTCTCTCTTGAGATAGTT
1 CTTTTGAAAAAAATCTTTGAGTTTGTTTCCTTT-GAAACAAAATTTTGTCTCTC-TGAGATAGTT
625412 TCTTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTATTAAAGACAAT
64 TCTTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTATTAAAGACAAT
625477 TT
129 TT
*
625479 CTTTTG-AAAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTCTTAAGATAGTTT
1 CTTTTGAAAAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTC-TGAGATAGTTT
625543 CTTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTATTAAAGACAATT
65 CTTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTATTAAAGACAATT
625608 T
130 T
625609 CTTTTGAAAAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTC-GAGA
1 CTTTTGAAAAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTCTGAGA
625666 CAACTTCTTT
Statistics
Matches: 298, Mismatches: 9, Indels: 17
0.92 0.03 0.05
Matches are distributed among these distances:
123 21 0.07
124 11 0.04
125 4 0.01
127 3 0.01
128 1 0.00
129 3 0.01
130 166 0.56
131 89 0.30
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (130 bp):
CTTTTGAAAAAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTCTGAGATAGTTTC
TTTTAAAACAAAAATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTATTAAAGACAATTT
Found at i:626326 original size:3 final size:3
Alignment explanation
Indices: 626318--626367 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
626308 CTTTTTTGTA
**
626318 TAT TAT TAT CGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
626366 TA
1 TA
626368 CATTTACAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:635236 original size:43 final size:44
Alignment explanation
Indices: 635176--635306 Score: 223
Period size: 43 Copynumber: 3.0 Consensus size: 44
635166 TAAAATAAAC
*
635176 TTTAATCTTTAGAGAAATTATCAATTACATTTTAAATAGACTTT
1 TTTAATCTTTAGAGAAATTATCAATTACTTTTTAAATAGACTTT
635220 TTTAATC-TTAGAGAAATTATCAATTACTTTTTAAATAGAC-TT
1 TTTAATCTTTAGAGAAATTATCAATTACTTTTTAAATAGACTTT
*
635262 TTTAATCTTTAGAGAAATTATCAATTACTTTTTAAATTGA-TTT
1 TTTAATCTTTAGAGAAATTATCAATTACTTTTTAAATAGACTTT
635305 TT
1 TT
635307 AGTACAGTAA
Statistics
Matches: 83, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
42 9 0.11
43 67 0.81
44 7 0.08
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.48
Consensus pattern (44 bp):
TTTAATCTTTAGAGAAATTATCAATTACTTTTTAAATAGACTTT
Found at i:640258 original size:28 final size:28
Alignment explanation
Indices: 640227--640283 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
640217 GCCTCCTTTG
640227 TAGCAGCCCCATCCACATTAAACTTCAC
1 TAGCAGCCCCATCCACATTAAACTTCAC
640255 TAGCAGCCCCATCCACATTAAACTTCAC
1 TAGCAGCCCCATCCACATTAAACTTCAC
640283 T
1 T
640284 TGCCTCGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.39, G:0.07, T:0.23
Consensus pattern (28 bp):
TAGCAGCCCCATCCACATTAAACTTCAC
Found at i:642531 original size:39 final size:39
Alignment explanation
Indices: 642487--642561 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
642477 CATAAGTGAA
*
642487 TGGAATAATACTATTGTACATCAATGTCAACCTTTTTTT
1 TGGAATAATACTAGTGTACATCAATGTCAACCTTTTTTT
*
642526 TGGAATAATACTAGTGTACATCAATGTCGACCTTTT
1 TGGAATAATACTAGTGTACATCAATGTCAACCTTTT
642562 ATTCTTATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (39 bp):
TGGAATAATACTAGTGTACATCAATGTCAACCTTTTTTT
Found at i:648890 original size:2 final size:2
Alignment explanation
Indices: 648883--648924 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
648873 TTCAAATTGA
*
648883 AT AT AT AT AT A- AT AT AT AT A- AT AT AT CT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
648923 AT
1 AT
648925 TTAAAGTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:649924 original size:23 final size:24
Alignment explanation
Indices: 649898--649955 Score: 64
Period size: 29 Copynumber: 2.2 Consensus size: 24
649888 CACCTAAATT
649898 AATTTA-ATGTCATTGCTTACATC
1 AATTTATATGTCATTGCTTACATC
649921 AATTTAGTTTTGATGTCATTGCTTACATC
1 AATTTA----T-ATGTCATTGCTTACATC
649950 AATTTA
1 AATTTA
649956 GTTAGGTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.21
29 23 0.79
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (24 bp):
AATTTATATGTCATTGCTTACATC
Found at i:654555 original size:29 final size:29
Alignment explanation
Indices: 654521--654579 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
654511 CCTAAATTAA
654521 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
654550 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
654579 T
1 T
654580 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:666481 original size:87 final size:87
Alignment explanation
Indices: 666325--666524 Score: 260
Period size: 87 Copynumber: 2.3 Consensus size: 87
666315 TTTATATAAT
* * * *
666325 GTTTATATAATAAAATAGGTTAATTACTAGAAATATTATAAATCACAATAACATATTAGGTACAA
1 GTTTATATAATAAAATATGTTAATTACTAGAAACATTATAAAGCACAATAACATATTAAGTACAA
* *
666390 CTTATGTAATGTAATAAGTAGC
66 CTTATATAACGTAATAAGTAGC
*
666412 GTTTATAT-ATAAAATATGTTAATTACTAAGAAACATTATTAAGCACAATAACATATTAAGTAGC
1 GTTTATATAATAAAATATGTTAATTACT-AGAAACATTATAAAGCACAATAACATATTAAGTA-C
* * * *
666476 -TCTTATATAACGTAATAGGTGGT
64 AACTTATATAACGTAATAAGTAGC
*
666499 GCTTATATAATAAAATATGTTAATTA
1 GTTTATATAATAAAATATGTTAATTA
666525 TTTAATTTGT
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
86 18 0.18
87 62 0.63
88 18 0.18
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.36
Consensus pattern (87 bp):
GTTTATATAATAAAATATGTTAATTACTAGAAACATTATAAAGCACAATAACATATTAAGTACAA
CTTATATAACGTAATAAGTAGC
Found at i:666950 original size:23 final size:23
Alignment explanation
Indices: 666900--666944 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
666890 AACATATTTT
* *
666900 ATTATATAAGCGCTACTTATTAC
1 ATTATATAAGCGCTACCTAATAC
666923 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
666945 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:667008 original size:87 final size:87
Alignment explanation
Indices: 666869--667028 Score: 268
Period size: 87 Copynumber: 1.8 Consensus size: 87
666859 GTTGAAGTGT
* *
666869 TTGATAATGTTTTCAGTAATTAACATATTTTATTATATAAGCGCTACTTATTACATTATATAAGC
1 TTGATAATGTTTTCAGTAATTAACATATTTTATTATATAAGCACTACCTATTACATTATATAAGC
666934 GCTACCTAATATGTTATTGTGC
66 GCTACCTAATATGTTATTGTGC
* *
666956 TTGATAATG-TTTCTAGTAATTAACCTATTTTATTATATAAGCACTACCTATTATATTATATAAG
1 TTGATAATGTTTTC-AGTAATTAACATATTTTATTATATAAGCACTACCTATTACATTATATAAG
667020 CGCTACCTA
65 CGCTACCTA
667029 TTACATTATA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
86 4 0.06
87 64 0.94
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (87 bp):
TTGATAATGTTTTCAGTAATTAACATATTTTATTATATAAGCACTACCTATTACATTATATAAGC
GCTACCTAATATGTTATTGTGC
Found at i:667012 original size:23 final size:23
Alignment explanation
Indices: 666978--667054 Score: 118
Period size: 23 Copynumber: 3.3 Consensus size: 23
666968 CTAGTAATTA
* *
666978 ACCTATTTTATTATATAAGCACT
1 ACCTATTATATTATATAAGCGCT
667001 ACCTATTATATTATATAAGCGCT
1 ACCTATTATATTATATAAGCGCT
* *
667024 ACCTATTACATTATATAAGTGCT
1 ACCTATTATATTATATAAGCGCT
667047 ACCTATTA
1 ACCTATTA
667055 CATAATATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.40
Consensus pattern (23 bp):
ACCTATTATATTATATAAGCGCT
Found at i:667737 original size:11 final size:11
Alignment explanation
Indices: 667721--667746 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
667711 ATCAAGTAAT
667721 GTCGTATATTA
1 GTCGTATATTA
667732 GTCGTATATTA
1 GTCGTATATTA
667743 GTCG
1 GTCG
667747 CCTTTCCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (11 bp):
GTCGTATATTA
Found at i:671079 original size:17 final size:18
Alignment explanation
Indices: 671057--671095 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
671047 GGTAAGCCTG
*
671057 TAAATTTCTTAA-TTATT
1 TAAATTTCTAAATTTATT
*
671074 TAAATTTGTAAATTTATT
1 TAAATTTCTAAATTTATT
671092 TAAA
1 TAAA
671096 ATTAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
TAAATTTCTAAATTTATT
Found at i:671896 original size:44 final size:41
Alignment explanation
Indices: 671819--671900 Score: 119
Period size: 44 Copynumber: 1.9 Consensus size: 41
671809 GCAACGCGAT
* *
671819 TTTGAAAAATGTGTTGCGATAGTTAAAATGTGTTGCGAGAG
1 TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGAGAG
671860 TTTGAAAAACGTGTTGTTGCGATAGTGAAAAAGTGTTGCGA
1 TTTGAAAAA--TG-TGTTGCGATAGTGAAAAAGTGTTGCGA
671901 TAGTGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 9 0.25
43 2 0.06
44 25 0.69
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.33
Consensus pattern (41 bp):
TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGAGAG
Found at i:671910 original size:19 final size:20
Alignment explanation
Indices: 671821--671911 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 20
671811 AACGCGATTT
671821 TGAAAAATGTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
* *
671841 T-TAAAATGTGTTGCGAGAG
1 TGAAAAATGTGTTGCGATAG
671860 TTTGAAAAACGTGTTGTTGCGATAG
1 --TGAAAAA--TG-TGTTGCGATAG
671885 TGAAAAA-GTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
671904 TGAAAAAT
1 TGAAAAAT
671912 TCAAAATAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
19 34 0.57
20 2 0.03
21 1 0.02
22 4 0.07
23 7 0.12
24 2 0.03
25 10 0.17
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (20 bp):
TGAAAAATGTGTTGCGATAG
Found at i:672331 original size:40 final size:40
Alignment explanation
Indices: 672276--672358 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 40
672266 ATTCTTAAGA
* * * **
672276 AACGAATTTGGAAAATCGTAATGTGAACTTGGACTATCGC
1 AACGAATTTGGAAAATCGCAACGCGAACTCCGACTATCGC
672316 AACGAATTTGGAAAATCGCAACGCGAACTCCGACTATCGC
1 AACGAATTTGGAAAATCGCAACGCGAACTCCGACTATCGC
672356 AAC
1 AAC
672359 TTGAACTTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (40 bp):
AACGAATTTGGAAAATCGCAACGCGAACTCCGACTATCGC
Found at i:672354 original size:21 final size:21
Alignment explanation
Indices: 672300--672513 Score: 174
Period size: 21 Copynumber: 10.6 Consensus size: 21
672290 ATCGTAATGT
672300 GAACTTGGACTATCGCAA--C
1 GAACTTGGACTATCGCAACGC
* **
672319 GAATTTGGAAAATCGCAACGC
1 GAACTTGGACTATCGCAACGC
** **
672340 GAACTCCGACTATCGCAACTT
1 GAACTTGGACTATCGCAACGC
*
672361 GAACTTGGACTATCGCAA--T
1 GAACTTGGACTATCGCAACGC
* **
672380 GAATTTGGAAAATCGCAACGC
1 GAACTTGGACTATCGCAACGC
*
672401 GAACTTCGACTATCGCAA--C
1 GAACTTGGACTATCGCAACGC
* ** *
672420 GAATTTGGAAAATCGCAACGT
1 GAACTTGGACTATCGCAACGC
672441 GAACTTGGACTATCGCAA--C
1 GAACTTGGACTATCGCAACGC
* **
672460 GAATTTGGAAAATCGCAACGC
1 GAACTTGGACTATCGCAACGC
* *
672481 GAACTTCGACTATCGCAACAC
1 GAACTTGGACTATCGCAACGC
*
672502 GAATTTGGACTA
1 GAACTTGGACTA
672514 ACGTAAATTT
Statistics
Matches: 148, Mismatches: 39, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
19 61 0.41
21 87 0.59
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (21 bp):
GAACTTGGACTATCGCAACGC
Found at i:672367 original size:61 final size:61
Alignment explanation
Indices: 672299--672419 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 61
672289 AATCGTAATG
672299 TGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTCCGACTATCGCAACT
1 TGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTCCGACTATCGCAACT
* *
672360 TGAACTTGGACTATCGCAATGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAAC
1 TGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTCCGACTATCGCAAC
672420 GAATTTGGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (61 bp):
TGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTCCGACTATCGCAACT
Found at i:672395 original size:40 final size:40
Alignment explanation
Indices: 672351--672575 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
672341 AACTCCGACT
** *
672351 ATCGCAACTTGAACTTGGACTATCGCAATGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAA
*
672391 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAA
*
672431 ATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAA
*
672471 ATCGCAACGCGAACTTCGACTATCGCAACACGAATTTGG---
1 ATCGCAACGCGAACTTGGACTATCGC-A-ACGAATTTGGAAA
* ** * **
672510 A-C-TAACGTAAATTTGGAAAATCGCAACGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAA
*
672548 ATCGCAACGCGAACTTGAACTATCGCAA
1 ATCGCAACGCGAACTTGGACTATCGCAA
672576 AATCGCGTTG
Statistics
Matches: 156, Mismatches: 22, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
35 10 0.06
36 1 0.01
37 15 0.10
38 2 0.01
39 2 0.01
40 115 0.74
41 1 0.01
42 10 0.06
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (40 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAA
Found at i:672435 original size:80 final size:77
Alignment explanation
Indices: 672351--672575 Score: 312
Period size: 80 Copynumber: 2.9 Consensus size: 77
672341 AACTCCGACT
* *
672351 ATCGCAACTTGAACTTGGACTATCGCAATGAATTTGGAAAATCGCAACGCGAACTTCGACTATCG
1 ATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCG
672416 CAACGAATTTGG
66 CAACGAATTTGG
672428 AAAATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTA
1 ---ATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTA
672493 TCGCAACACGAATTTGG
63 TCGC-A-ACGAATTTGG
* * * **
672510 A-C-TAACGTAAATTTGGAAAATCGCAACGAATTTGGAAAATCGCAACGCGAACTT-GAACTATC
1 ATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCG-ACTATC
672572 GCAA
65 GCAA
672576 AATCGCGTTG
Statistics
Matches: 135, Mismatches: 7, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
75 1 0.01
76 2 0.01
77 55 0.41
78 1 0.01
79 1 0.01
80 64 0.47
81 1 0.01
82 10 0.07
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (77 bp):
ATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCG
CAACGAATTTGG
Found at i:672449 original size:61 final size:61
Alignment explanation
Indices: 672299--672460 Score: 204
Period size: 61 Copynumber: 2.7 Consensus size: 61
672289 AATCGTAATG
**
672299 TGAACTTGGACTATCGCAAC-GAATTTGGAAAATCGCAACGCGAACTCCGACTATCGCAAC
1 TGAACTTGGAAAATCGCAACTGAATTTGGAAAATCGCAACGCGAACTCCGACTATCGCAAC
** *
672359 TTGAACTTGGACTATCGCAA-TGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAAC
1 -TGAACTTGGAAAATCGCAACTGAATTTGGAAAATCGCAACGCGAACTCCGACTATCGCAAC
* * **
672420 -GAATTTGGAAAATCGCAACGTGAACTTGGACTATCGCAACG
1 TGAACTTGGAAAATCGCAAC-TGAATTTGGAAAATCGCAACG
672461 AATTTGGAAA
Statistics
Matches: 91, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
59 15 0.16
61 76 0.84
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (61 bp):
TGAACTTGGAAAATCGCAACTGAATTTGGAAAATCGCAACGCGAACTCCGACTATCGCAAC
Found at i:672781 original size:24 final size:24
Alignment explanation
Indices: 672734--672781 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
672724 TTATTTTCTC
* **
672734 TATAAATAAATATGTTCGTGAACA
1 TATAAATAAACATGTTCGCAAACA
*
672758 TATAAATAAACGTGTTCGCAAACA
1 TATAAATAAACATGTTCGCAAACA
672782 CTAAACGAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (24 bp):
TATAAATAAACATGTTCGCAAACA
Found at i:674030 original size:21 final size:21
Alignment explanation
Indices: 674006--674099 Score: 72
Period size: 21 Copynumber: 4.5 Consensus size: 21
673996 TAGGGTTTAA
*
674006 GATTTAGAGTTTATGTGATAG
1 GATTTAGAGTTTATGTGTTAG
*
674027 GATTTA-AGGTTTAAAGT-TTA-
1 GATTTAGA-GTTT-ATGTGTTAG
*
674047 GAGTTTAGGGTTTATGTGTTAAG
1 GA-TTTAGAGTTTATGTGTT-AG
*
674070 G-TTTAGGGTTTATGTGTTAG
1 GATTTAGAGTTTATGTGTTAG
*
674090 GGTTTA-AGTT
1 GATTTAGAGTT
674100 ATGCCATGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
20 12 0.20
21 43 0.72
22 4 0.07
23 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (21 bp):
GATTTAGAGTTTATGTGTTAG
Found at i:674038 original size:35 final size:35
Alignment explanation
Indices: 673981--674053 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
673971 TCATAACTAA
*
673981 TTATGTGATAAGGTTTAGGGTTT-AAGATTTAGAGT
1 TTATGTGATAAGGTTTAAGGTTTAAAG-TTTAGAGT
674016 TTATGTGAT-AGGATTTAAGGTTTAAAGTTTAGAGT
1 TTATGTGATAAGG-TTTAAGGTTTAAAGTTTAGAGT
674051 TTA
1 TTA
674054 GGGTTTATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
34 3 0.09
35 29 0.83
36 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (35 bp):
TTATGTGATAAGGTTTAAGGTTTAAAGTTTAGAGT
Found at i:675887 original size:26 final size:26
Alignment explanation
Indices: 675774--675887 Score: 183
Period size: 26 Copynumber: 4.3 Consensus size: 26
675764 CCTAGTATTG
*
675774 GTTTTGGTGTTTGGTTCTCTGTCCCTT
1 GTTTT-GTGTTTGGTGCTCTGTCCCTT
* *
675801 GTTTTTTGCTTGGTGCTCTGTCCCTT
1 GTTTTGTGTTTGGTGCTCTGTCCCTT
*
675827 GTTTTGTGCTTGGTGCTCTGTCCCTT
1 GTTTTGTGTTTGGTGCTCTGTCCCTT
675853 GTTTTGTGTTTGGTGCTCTGTCCCTT
1 GTTTTGTGTTTGGTGCTCTGTCCCTT
675879 GTTTTGTGT
1 GTTTTGTGT
675888 GTCTGCAGGG
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
26 77 0.94
27 5 0.06
ACGTcount: A:0.00, C:0.19, G:0.26, T:0.54
Consensus pattern (26 bp):
GTTTTGTGTTTGGTGCTCTGTCCCTT
Found at i:676280 original size:17 final size:17
Alignment explanation
Indices: 676258--676294 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
676248 ATTCGAGTTT
*
676258 GAGTTCGAGCTTTAATC
1 GAGTTCGAGCTTGAATC
676275 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
676292 GAG
1 GAG
676295 CTTGAATCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (17 bp):
GAGTTCGAGCTTGAATC
Found at i:676293 original size:11 final size:11
Alignment explanation
Indices: 676279--676342 Score: 65
Period size: 11 Copynumber: 5.6 Consensus size: 11
676269 TTAATCGAGT
*
676279 TCGAGCTTGAA
1 TCGAGCTTAAA
*
676290 TCGAGCTTGAA
1 TCGAGCTTAAA
*
676301 TCGAGCTCAAAA
1 TCGAGCT-TAAA
*
676313 TCGAGCTCAAAA
1 TCGAGCT-TAAA
*
676325 TCGAGCTTCAA
1 TCGAGCTTAAA
676336 TCGAGCT
1 TCGAGCT
676343 CTTGAATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
11 27 0.56
12 21 0.44
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (11 bp):
TCGAGCTTAAA
Found at i:676316 original size:12 final size:12
Alignment explanation
Indices: 676299--676343 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
676289 ATCGAGCTTG
676299 AATCGAGCTCAA
1 AATCGAGCTCAA
676311 AATCGAGCTCAA
1 AATCGAGCTCAA
676323 AATCGAGCTTC--
1 AATCGAGC-TCAA
676334 AATCGAGCTC
1 AATCGAGCTC
676344 TTGAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 2 0.06
11 8 0.25
12 20 0.62
13 2 0.06
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.20
Consensus pattern (12 bp):
AATCGAGCTCAA
Found at i:681540 original size:252 final size:252
Alignment explanation
Indices: 681154--681678 Score: 861
Period size: 252 Copynumber: 2.1 Consensus size: 252
681144 GTTGAGAAAA
* ** * *
681154 ATTGTAGAAGAAACTAAGAAAAAGGCTGTTGATGATAGAAAATGTGCTGATTCGGAGATGGCTAA
1 ATTGCAGAAGAAACTAAGAAAAAGGCTGTTGACAAAAGAAAATGTGCCGATTCGGAGATGGCTAA
*
681219 AGCAGAGAAGCAGAGGAAGGTTGCTAAAGAAACTAAGAAGAAGGCCGCTGAAGAAAGAAAACGTG
66 AGCAGAGAAGCAGAGGAAGGTTGCTAAAGAAACTAAGAAGAAGGCCGCTGAAGAAAGAAAACATG
* * * *
681284 CTGATTTAGAGATGGCTGAAGCAGCGGAACAAAGGAAGATTGCTGAAGAAAACGTGAAGAAGGCT
131 CTGATTTAAAGATGGATGAAGCAGCGGAACAAACGAAGATTGCTGAAGAAAACATGAAGAAGGCT
*
681349 GTTGAAGTAAGAAAACAAGCTGAGTTTGAGATGGCTAAGGCAGAGGAGCAAAGGAAG
196 GTTGAAGTAAGAAAACAAGCTGAGCTTGAGATGGCTAAGGCAGAGGAGCAAAGGAAG
*
681406 ATTGCAGAAGAAACTAAGAAAAAGGCTGTTGACAAAAGGAAATGTGCCGATTCGGAGATGGCTAA
1 ATTGCAGAAGAAACTAAGAAAAAGGCTGTTGACAAAAGAAAATGTGCCGATTCGGAGATGGCTAA
* * * *
681471 AGCAGAGAAGCAGGGGAAGGTTGCTAAAGAAACTAAGAAGAAGGCTGTTGAAGAAAGCAAACATG
66 AGCAGAGAAGCAGAGGAAGGTTGCTAAAGAAACTAAGAAGAAGGCCGCTGAAGAAAGAAAACATG
* * *
681536 CTGATTTAAAGATGGATGAAGCAGCGGAGCAAACTAAGATTGCTGAAGAAGACATGAAGAAGGCT
131 CTGATTTAAAGATGGATGAAGCAGCGGAACAAACGAAGATTGCTGAAGAAAACATGAAGAAGGCT
* *
681601 GTTGAAGTAAGAAAACAAGCTGAGCTTGCGATGGCTAAGGCAGAGGAGCAAAGGAGG
196 GTTGAAGTAAGAAAACAAGCTGAGCTTGAGATGGCTAAGGCAGAGGAGCAAAGGAAG
681658 ATTGCAGAAGAAACTAAGAAA
1 ATTGCAGAAGAAACTAAGAAA
681679 GCTGTTGAAG
Statistics
Matches: 252, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
252 252 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.16
Consensus pattern (252 bp):
ATTGCAGAAGAAACTAAGAAAAAGGCTGTTGACAAAAGAAAATGTGCCGATTCGGAGATGGCTAA
AGCAGAGAAGCAGAGGAAGGTTGCTAAAGAAACTAAGAAGAAGGCCGCTGAAGAAAGAAAACATG
CTGATTTAAAGATGGATGAAGCAGCGGAACAAACGAAGATTGCTGAAGAAAACATGAAGAAGGCT
GTTGAAGTAAGAAAACAAGCTGAGCTTGAGATGGCTAAGGCAGAGGAGCAAAGGAAG
Found at i:681558 original size:84 final size:84
Alignment explanation
Indices: 681088--681689 Score: 487
Period size: 84 Copynumber: 7.2 Consensus size: 84
681078 AGAAGAGAAA
* * * * * *** *
681088 AAGAAGGCAGATGAAGAAAGAAAACTTG-TCGATTTAGAAATGGCTAAAGCA-AGGGAGTTGAGA
1 AAGAAGGCTGTTGAAGAAAGAAAACATGCT-GATTTAGAGATGGCTAAAGCAGA-GAAGCAAAGG
*
681151 AAAATTG-TAGAAGAAACTAAG
64 AAGATTGCTA-AAGAAACTAAG
* * * ** ** *
681172 AAAAAGGCTGTTGATGATAGAAAATGTGCTGATTCGGAGATGGCTAAAGCAGAGAAGCAGAGGAA
1 AAGAAGGCTGTTGAAGAAAGAAAACATGCTGATTTAGAGATGGCTAAAGCAGAGAAGCAAAGGAA
*
681237 GGTTGCTAAAGAAACTAAG
66 GATTGCTAAAGAAACTAAG
* * * * *
681256 AAGAAGGCCGCTGAAGAAAGAAAACGTGCTGATTTAGAGATGGCTGAAGCAGCGGAA-CAAAGGA
1 AAGAAGGCTGTTGAAGAAAGAAAACATGCTGATTTAGAGATGGCTAAAGCAG-AGAAGCAAAGGA
*
681320 AGATTGCTGAAGAAAACGT--G
65 AGATTGCTAAAG-AAAC-TAAG
* * * *
681340 AAGAAGGCTGTTGAAGTAAGAAAACAAGCTGAGTTT-GAGATGGCTAAGGCAGAGGAGCAAAGGA
1 AAGAAGGCTGTTGAAGAAAGAAAACATGCTGA-TTTAGAGATGGCTAAAGCAGAGAAGCAAAGGA
681404 AGATTGC-AGAAGAAACTAAG
65 AGATTGCTA-AAGAAACTAAG
* * ** * ** **
681424 AAAAAGGCTGTTGACA-AAAGGAAATGTGCCGATTCGGAGATGGCTAAAGCAGAGAAGCAGGGGA
1 AAGAAGGCTGTTGA-AGAAAGAAAACATGCTGATTTAGAGATGGCTAAAGCAGAGAAGCAAAGGA
*
681488 AGGTTGCTAAAGAAACTAAG
65 AGATTGCTAAAGAAACTAAG
* * * * * * **
681508 AAGAAGGCTGTTGAAGAAAGCAAACATGCTGATTTAAAGATGGATGAAGCAGCGGAGCAAACTAA
1 AAGAAGGCTGTTGAAGAAAGAAAACATGCTGATTTAGAGATGGCTAAAGCAGAGAAGCAAAGGAA
* *
681573 GATTGCTGAAGAAGAC-ATG
66 GATTGCTAAAGAA-ACTAAG
* * * * * *
681592 AAGAAGGCTGTTGAAGTAAGAAAACAAGCTGAGCTT-GCGATGGCTAAGGCAGAGGAGCAAAGGA
1 AAGAAGGCTGTTGAAGAAAGAAAACATGCTGA-TTTAGAGATGGCTAAAGCAGAGAAGCAAAGGA
*
681656 GGATTGC-AGAAGAAACTAAG
65 AGATTGCTA-AAGAAACTAAG
681676 -A-AA-GCTGTTGAAGA
1 AAGAAGGCTGTTGAAGA
681690 GGCCAAAGTA
Statistics
Matches: 412, Mismatches: 87, Indels: 41
0.76 0.16 0.08
Matches are distributed among these distances:
81 10 0.02
82 3 0.01
83 12 0.03
84 366 0.89
85 20 0.05
86 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.16
Consensus pattern (84 bp):
AAGAAGGCTGTTGAAGAAAGAAAACATGCTGATTTAGAGATGGCTAAAGCAGAGAAGCAAAGGAA
GATTGCTAAAGAAACTAAG
Found at i:690508 original size:12 final size:12
Alignment explanation
Indices: 690491--690515 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
690481 TTAAATTATA
690491 TTATTATTATTT
1 TTATTATTATTT
690503 TTATTATTATTT
1 TTATTATTATTT
690515 T
1 T
690516 GATAAGTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:695837 original size:15 final size:16
Alignment explanation
Indices: 695817--695849 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
695807 TTTCTGTCTA
695817 TATACAGAGATTT-TT
1 TATACAGAGATTTATT
695832 TATACAGAGATTTATT
1 TATACAGAGATTTATT
695848 TA
1 TA
695850 CAGTGATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (16 bp):
TATACAGAGATTTATT
Found at i:695857 original size:14 final size:15
Alignment explanation
Indices: 695817--695857 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
695807 TTTCTGTCTA
*
695817 TATACAGAGATTTTT
1 TATACAGAGATTTAT
695832 TATACAGAGATTTAT
1 TATACAGAGATTTAT
*
695847 T-TACAGTGATT
1 TATACAGAGATT
695858 ACTTCCATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (15 bp):
TATACAGAGATTTAT
Found at i:697991 original size:60 final size:60
Alignment explanation
Indices: 697886--698102 Score: 310
Period size: 60 Copynumber: 3.6 Consensus size: 60
697876 TAATGTGATA
** * * *
697886 CTTTGTTGAGTGTATCGATTATTAAATGTTATAAAATA-ACACTTCGACTATAGGGTGTTG
1 CTTTGTTGAGTCCATCGACTATTAAAAGTTACAAAATAGAC-CTTCGACTATAGGGTGTTG
* *
697946 CTTTGTTGAGTCCCTCGACTATTAAAAGTTACAAAACAGACCTTCGACTATAGGGTGTTG
1 CTTTGTTGAGTCCATCGACTATTAAAAGTTACAAAATAGACCTTCGACTATAGGGTGTTG
* * *
698006 CTTTGTTGAGTCCATCGACTATTAAAAGTTACATAATGGTCCTTCGACTATAGGGTGTTG
1 CTTTGTTGAGTCCATCGACTATTAAAAGTTACAAAATAGACCTTCGACTATAGGGTGTTG
**
698066 CTTTGTTGAGTCCCCCGACTATTAAAAGTTACAAAAT
1 CTTTGTTGAGTCCATCGACTATTAAAAGTTACAAAAT
698103 GGTAAATCGA
Statistics
Matches: 141, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
60 139 0.99
61 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (60 bp):
CTTTGTTGAGTCCATCGACTATTAAAAGTTACAAAATAGACCTTCGACTATAGGGTGTTG
Found at i:698027 original size:31 final size:31
Alignment explanation
Indices: 697989--698087 Score: 78
Period size: 31 Copynumber: 3.3 Consensus size: 31
697979 AAACAGACCT
697989 TCGACTATAGGGTGTTGCTTTGTTGAGTCCA
1 TCGACTATAGGGTGTTGCTTTGTTGAGTCCA
*** * * ** *
698020 TCGACTATTA-AAAGTTAC-ATAATG-GTCCT
1 TCGACTA-TAGGGTGTTGCTTTGTTGAGTCCA
*
698049 TCGACTATAGGGTGTTGCTTTGTTGAGTCCC
1 TCGACTATAGGGTGTTGCTTTGTTGAGTCCA
*
698080 CCGACTAT
1 TCGACTAT
698088 TAAAAGTTAC
Statistics
Matches: 47, Mismatches: 17, Indels: 8
0.65 0.24 0.11
Matches are distributed among these distances:
28 2 0.04
29 15 0.32
30 6 0.13
31 22 0.47
32 2 0.04
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (31 bp):
TCGACTATAGGGTGTTGCTTTGTTGAGTCCA
Found at i:698297 original size:60 final size:60
Alignment explanation
Indices: 698229--698361 Score: 187
Period size: 60 Copynumber: 2.2 Consensus size: 60
698219 TCGAGTGACC
** * *
698229 ATTTTGTAACTTTTAGTAGTCGAGAGACTCAACAAAGTAACACCGTATAGTTAAAGGACT
1 ATTTTGTAACTTTTAACAGTCGAGAGACTCAACAAAGTAACACCCTATAGTCAAAGGACT
* * *
698289 ATTTTGTAACTTTTAACAGTCGAGAGACTCAACAAAGTATCACCCTATAGTCGAGGGACT
1 ATTTTGTAACTTTTAACAGTCGAGAGACTCAACAAAGTAACACCCTATAGTCAAAGGACT
698349 ATTTGTGT-ACTTT
1 ATTT-TGTAACTTT
698362 ACCCAATAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
60 62 0.95
61 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (60 bp):
ATTTTGTAACTTTTAACAGTCGAGAGACTCAACAAAGTAACACCCTATAGTCAAAGGACT
Found at i:699808 original size:25 final size:25
Alignment explanation
Indices: 699771--699830 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
699761 AAGTTTAAAG
* *
699771 TTAAACTCAACTCGAAATAAAAAAT
1 TTAAGCTCAACTCGAAATAAAAAAA
* **
699796 TTAAGCTCGACTCGAGCTAAAAAAA
1 TTAAGCTCAACTCGAAATAAAAAAA
*
699821 TAAAGCTCAA
1 TTAAGCTCAA
699831 AACATTCACA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.50, C:0.18, G:0.10, T:0.22
Consensus pattern (25 bp):
TTAAGCTCAACTCGAAATAAAAAAA
Found at i:703980 original size:27 final size:27
Alignment explanation
Indices: 703918--703981 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
703908 ATGGAAATGC
* *
703918 GAGATAAGATGGACAGGGATAGAGAAA
1 GAGATAGGAGGGACAGGGATAGAGAAA
** * *
703945 GAGGCAGGAGGGATAGGGATGGAGAAA
1 GAGATAGGAGGGACAGGGATAGAGAAA
703972 GAGATAGGAG
1 GAGATAGGAG
703982 TAGGCATAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.42, C:0.03, G:0.45, T:0.09
Consensus pattern (27 bp):
GAGATAGGAGGGACAGGGATAGAGAAA
Found at i:707243 original size:3 final size:3
Alignment explanation
Indices: 707235--707266 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
707225 CAAATACTGT
707235 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
707267 GGAAAGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:711511 original size:312 final size:309
Alignment explanation
Indices: 710910--711530 Score: 1215
Period size: 312 Copynumber: 2.0 Consensus size: 309
710900 TTGATTTTTT
710910 TTTCATACTATGTCTTTTATTAACTTTTTTTTTCTCTTCTTCTTTTAAATTTTTAATAAAATTTT
1 TTTCATACTATGTCTTTTATTAACTTTTTTTTTCTCTTCTTCTTTTAAATTTTTAATAAAATTTT
710975 TTATCTTTGTGACACGTTTTTCTCTACTCTTGTGGAAGTTCCTTACGACATTTAATAAGTTATTC
66 TTATCTTTGTGACACGTTTTTCTCTACTCTTGTGGAAGTTCCTTACGACATTTAATAAGTTATTC
711040 ACATACCTTTATAGTTATTTGATGCTCACACAAAGACACTCACAATATTTGTTTTCTGACTGGTT
131 ACATACCTTTATAGTTATTTGATGCTCACACAAAGACACTCACAATATTTGTTTTCTGACTGGTT
711105 TATGCTGGTCATGTATAATGACCTCCAATGGTGGAGCAATAAATTTTAAATTACGGTGTCATAGA
196 TATGCTGGTCATGTATAATGACCTCCAATGGTGGAGCAATAAATTTTAAATTACGGTGTCATAGA
711170 TTAAAAAATTAAAACATCCAATATAATCATATAATTAGCGCATACATTA
261 TTAAAAAATTAAAACATCCAATATAATCATATAATTAGCGCATACATTA
711219 TTTCATACTATGTCTTTTATTAACTTTTTTTTTCTCTTCTTCTTTTAAATTTTTAATAAAATTTT
1 TTTCATACTATGTCTTTTATTAACTTTTTTTTTCTCTTCTTCTTTTAAATTTTTAATAAAATTTT
711284 TTATCTTTGTGACACGTTTTTCTCTACTCTTGTGGGAAGTTCCTTACGACATTTAATAAGTTATT
66 TTATCTTTGTGACACGTTTTTCTCTACTCTTGT-GGAAGTTCCTTACGACATTTAATAAGTTATT
711349 CACATACCTTTATAGTTATTTTGATGCTCACACAAAGACACTCACAATATTTGTTTTCTGACTGG
130 CACATACCTTTATAGTTA-TTTGATGCTCACACAAAGACACTCACAATATTTGTTTTCTGACTGG
711414 TTTATTGCTGGTCATGTATAATGACCTCCAATGGTGGAGCAATAAATTTTAAATTACGGTGTCAT
194 TTTA-TGCTGGTCATGTATAATGACCTCCAATGGTGGAGCAATAAATTTTAAATTACGGTGTCAT
711479 AGATTAAAAAATTAAAACATCCAATATAATCATATAATTAGCGCATACATTA
258 AGATTAAAAAATTAAAACATCCAATATAATCATATAATTAGCGCATACATTA
711531 ATACTCAATA
Statistics
Matches: 309, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
309 98 0.32
310 49 0.16
311 50 0.16
312 112 0.36
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (309 bp):
TTTCATACTATGTCTTTTATTAACTTTTTTTTTCTCTTCTTCTTTTAAATTTTTAATAAAATTTT
TTATCTTTGTGACACGTTTTTCTCTACTCTTGTGGAAGTTCCTTACGACATTTAATAAGTTATTC
ACATACCTTTATAGTTATTTGATGCTCACACAAAGACACTCACAATATTTGTTTTCTGACTGGTT
TATGCTGGTCATGTATAATGACCTCCAATGGTGGAGCAATAAATTTTAAATTACGGTGTCATAGA
TTAAAAAATTAAAACATCCAATATAATCATATAATTAGCGCATACATTA
Found at i:714834 original size:15 final size:14
Alignment explanation
Indices: 714797--714832 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
714787 AATATTTAAA
714797 ATATAAATTTTATG
1 ATATAAATTTTATG
*
714811 ATTTCAAATTTTATG
1 ATAT-AAATTTTATG
714826 ATATAAA
1 ATATAAA
714833 ATCAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (14 bp):
ATATAAATTTTATG
Found at i:717087 original size:42 final size:42
Alignment explanation
Indices: 717028--717147 Score: 231
Period size: 42 Copynumber: 2.9 Consensus size: 42
717018 TTTCCCCGAA
*
717028 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
717070 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
717112 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
717148 TGTAATTCAT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:717355 original size:30 final size:30
Alignment explanation
Indices: 717321--717392 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
717311 TTCATAAAAA
717321 TATTAATTATTAAAATATT-TAAAATATATT
1 TATTAA-TATTAAAATATTATAAAATATATT
* *
717351 TATTAATATTATAATATTATATAATATTATAT
1 TATTAATATTAAAATATTATAAAATA-TAT-T
717383 T-TTAATATTA
1 TATTAATATTA
717393 TATTATTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
29 11 0.30
30 12 0.32
31 12 0.32
32 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
TATTAATATTAAAATATTATAAAATATATT
Found at i:717388 original size:13 final size:13
Alignment explanation
Indices: 717351--717433 Score: 55
Period size: 14 Copynumber: 6.2 Consensus size: 13
717341 AAAATATATT
*
717351 TATTAATATTATAA
1 TATT-ATATTTTAA
717365 TATTATA---TAA
1 TATTATATTTTAA
717375 TATTATATTTTAA
1 TATTATATTTTAA
*
717388 TATTATATTATTTA
1 TATTATATT-TTAA
* *
717402 TTTTAATAATATATAA
1 TATT-AT-AT-TTTAA
717418 TATATATATTTTAA
1 TAT-TATATTTTAA
717432 TA
1 TA
717434 ATAATAATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
10 10 0.18
13 15 0.27
14 16 0.29
15 4 0.07
16 8 0.15
17 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTATATTTTAA
Found at i:717415 original size:25 final size:25
Alignment explanation
Indices: 717338--717462 Score: 112
Period size: 23 Copynumber: 5.4 Consensus size: 25
717328 TATTAAAATA
*
717338 TTTAA-AATATAT-TTATTA-ATAT
1 TTTAATAATATATAATATTATATAT
* *
717360 TATAATATTATATAATA-T-TATA-
1 TTTAATAATATATAATATTATATAT
*
717382 TTT--TAATAT-T-ATATTATTTAT
1 TTTAATAATATATAATATTATATAT
717403 TTTAATAATATATAATA-TATATAT
1 TTTAATAATATATAATATTATATAT
717427 TTTAATAATA-ATAATATATATATAT
1 TTTAATAATATATAATAT-TATATAT
*
717452 TTCAATAATAT
1 TTTAATAATAT
717463 TTTAGTAAAG
Statistics
Matches: 82, Mismatches: 8, Indels: 22
0.73 0.07 0.20
Matches are distributed among these distances:
18 3 0.04
19 2 0.02
20 8 0.10
21 3 0.04
22 6 0.07
23 22 0.27
24 19 0.23
25 19 0.23
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (25 bp):
TTTAATAATATATAATATTATATAT
Found at i:717444 original size:23 final size:24
Alignment explanation
Indices: 717356--717462 Score: 127
Period size: 23 Copynumber: 4.6 Consensus size: 24
717346 ATATTTATTA
* *
717356 ATATTATAATATTATATAATAT-T
1 ATATTTTAATAATATATAATATAT
717379 ATATTTTAAT-AT-TAT-AT-TAT
1 ATATTTTAATAATATATAATATAT
*
717399 TTATTTTAATAATATATAATATAT
1 ATATTTTAATAATATATAATATAT
717423 ATATTTTAATAATA-ATAATATAT
1 ATATTTTAATAATATATAATATAT
717446 ATATATTTCAATAATAT
1 ATAT-TTT-AATAATAT
717463 TTTAGTAAAG
Statistics
Matches: 72, Mismatches: 4, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
19 1 0.01
20 12 0.17
21 5 0.07
22 4 0.06
23 24 0.33
24 19 0.26
25 7 0.10
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (24 bp):
ATATTTTAATAATATATAATATAT
Found at i:717706 original size:20 final size:20
Alignment explanation
Indices: 717628--717697 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
717618 TTTCCAGATG
717628 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
717648 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
* *
717668 TTTTACAAAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
717688 TTTTCCAGAA
1 TTTTCCAGAA
717698 TTCAAATTCC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:717716 original size:15 final size:15
Alignment explanation
Indices: 717680--717761 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
717670 TTACAAAAAT
**
717680 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
717695 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
717709 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
717724 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
*
717739 GTAATTCAAATTACA
1 GTAATTCAAATTCCA
717754 GTAATTCA
1 GTAATTCA
717762 TTTTCTGGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
14 12 0.20
15 47 0.80
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.38
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:717732 original size:30 final size:30
Alignment explanation
Indices: 717680--717761 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
717670 TTACAAAAAT
717680 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
717709 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
** *
717739 GTAATTCAAATTACAGTAATTCA
1 GTAATTCATTTTCCAGTAATTCA
717762 TTTTCTGGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 16 0.33
30 33 0.67
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.38
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:717756 original size:45 final size:44
Alignment explanation
Indices: 717680--717766 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 44
717670 TTACAAAAAT
** *
717680 GTAATTCATTTTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
1 GTAATTCAAATTCCAGAATTCAAATTACAGTAATTCATTTTCCA
717724 GTAATTCAAATTCCAGTAATTCAAATTACAGTAATTCATTTTC
1 GTAATTCAAATTCCAG-AATTCAAATTACAGTAATTCATTTTC
717767 TGGAAAACCA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 14 0.36
45 25 0.64
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.40
Consensus pattern (44 bp):
GTAATTCAAATTCCAGAATTCAAATTACAGTAATTCATTTTCCA
Found at i:718602 original size:12 final size:10
Alignment explanation
Indices: 718579--718614 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
718569 ATTTTATCAT
718579 TAAAATAATC
1 TAAAATAATC
718589 TAAAATTGAATC
1 TAAAA-T-AATC
718601 TAAAATAATC
1 TAAAATAATC
718611 TAAA
1 TAAA
718615 GAGTTCAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 13 0.54
11 2 0.08
12 9 0.38
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (10 bp):
TAAAATAATC
Found at i:723289 original size:13 final size:13
Alignment explanation
Indices: 723271--723297 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
723261 CATAGTTGAA
723271 CAGTCTTCATATG
1 CAGTCTTCATATG
723284 CAGTCTTCATATG
1 CAGTCTTCATATG
723297 C
1 C
723298 GTGTCTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:725680 original size:23 final size:23
Alignment explanation
Indices: 725647--725690 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
725637 AAGTCGAGGG
725647 TCTACGCGGTCCTTCGGGACAAT
1 TCTACGCGGTCCTTCGGGACAAT
*
725670 TCTACGTGGTCCTTCGGGACA
1 TCTACGCGGTCCTTCGGGACA
725691 TATATGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (23 bp):
TCTACGCGGTCCTTCGGGACAAT
Found at i:725822 original size:18 final size:18
Alignment explanation
Indices: 725799--725851 Score: 90
Period size: 18 Copynumber: 2.9 Consensus size: 18
725789 TATGTGATAT
725799 GTGGTCCTTC-GGGACATA
1 GTGGTCC-TCAGGGACATA
725817 GTGGTCCTCAGGGACATA
1 GTGGTCCTCAGGGACATA
725835 GTGGTCCTCAGGGACAT
1 GTGGTCCTCAGGGACAT
725852 TTCTACGCGG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 2 0.06
18 32 0.94
ACGTcount: A:0.19, C:0.23, G:0.34, T:0.25
Consensus pattern (18 bp):
GTGGTCCTCAGGGACATA
Found at i:734897 original size:36 final size:36
Alignment explanation
Indices: 734857--734925 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
734847 GATTTCTATT
*
734857 TTGGTTTGTAATGGCTGAGTGTTTATTTTGAGTTTA
1 TTGGTTTGTAATGGCTGAATGTTTATTTTGAGTTTA
734893 TTGGTTTGTAATGGCTGAATGTTTATTTTGAGT
1 TTGGTTTGTAATGGCTGAATGTTTATTTTGAGT
734926 CTACCCTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.17, C:0.03, G:0.28, T:0.52
Consensus pattern (36 bp):
TTGGTTTGTAATGGCTGAATGTTTATTTTGAGTTTA
Found at i:737392 original size:21 final size:21
Alignment explanation
Indices: 737331--737393 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
737321 TTAAAATAAT
*
737331 AATAATTTTAATA-TTTT-AA
1 AATAAATTTAATATTTTTAAA
* * * *
737350 AGTAAAATTCAATATGTATAAA
1 AAT-AAATTTAATATTTTTAAA
737372 AATAAATTTAATATTTTTAAA
1 AATAAATTTAATATTTTTAAA
737393 A
1 A
737394 TGAAATTGAA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
19 2 0.06
20 8 0.25
21 18 0.56
22 4 0.12
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (21 bp):
AATAAATTTAATATTTTTAAA
Found at i:737399 original size:21 final size:20
Alignment explanation
Indices: 737331--737400 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
737321 TTAAAATAAT
*
737331 AATAATTTTAATA-TTTTAA
1 AATAAATTTAATATTTTTAA
* * * *
737350 AGTAAAATTCAATATGTATAAA
1 AAT-AAATTTAATAT-TTTTAA
737372 AATAAATTTAATATTTTTAA
1 AATAAATTTAATATTTTTAA
737392 AATGAAATT
1 AAT-AAATT
737401 GAAATTAGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 2 0.05
20 15 0.39
21 15 0.39
22 6 0.16
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (20 bp):
AATAAATTTAATATTTTTAA
Found at i:752814 original size:8 final size:8
Alignment explanation
Indices: 752801--752862 Score: 60
Period size: 7 Copynumber: 8.1 Consensus size: 8
752791 TTTAAAATTT
752801 AAATATAA
1 AAATATAA
752809 AAATATAA
1 AAATATAA
**
752817 AAATATTTT
1 AAATA-TAA
752826 AAA-ATAA
1 AAATATAA
752833 AAA-ATAA
1 AAATATAA
*
752840 AAATATTA
1 AAATATAA
752848 AAA-ATAA
1 AAATATAA
752855 AAAT-TAA
1 AAATATAA
752862 A
1 A
752863 TTACTAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
7 21 0.47
8 20 0.44
9 4 0.09
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
AAATATAA
Found at i:752839 original size:23 final size:22
Alignment explanation
Indices: 752797--752862 Score: 87
Period size: 22 Copynumber: 2.9 Consensus size: 22
752787 ATGTTTTAAA
752797 ATTTAAATATAAAAATATAAAAAT
1 ATTTAAA-ATAAAAA-ATAAAAAT
752821 ATTTTAAAATAAAAAATAAAAAT
1 A-TTTAAAATAAAAAATAAAAAT
* *
752844 ATTAAAAATAAAAATTAAA
1 ATTTAAAATAAAAAATAAA
752863 TTACTAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.41
23 9 0.23
24 8 0.21
25 6 0.15
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
ATTTAAAATAAAAAATAAAAAT
Found at i:752843 original size:31 final size:33
Alignment explanation
Indices: 752783--752853 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
752773 AAAAATAAAA
* * *
752783 AAAAATGTTTTAAAATTTAAATATAAAAATA-T
1 AAAAATATTTTAAAATTAAAAAATAAAAATATT
752815 AAAAATATTTTAAAA-TAAAAAATAAAAATATT
1 AAAAATATTTTAAAATTAAAAAATAAAAATATT
752847 AAAAATA
1 AAAAATA
752854 AAAATTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 13 0.37
32 22 0.63
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (33 bp):
AAAAATATTTTAAAATTAAAAAATAAAAATATT
Found at i:752870 original size:21 final size:22
Alignment explanation
Indices: 752827--752872 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
752817 AAATATTTTA
*
752827 AAATAAAAAATAAAAATATTAA
1 AAATAAAAAATAAAAATACTAA
* *
752849 AAAT-AAAAATTAAATTACTAA
1 AAATAAAAAATAAAAATACTAA
752870 AAA
1 AAA
752873 GTAAGTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAAAAATAAAAATACTAA
Found at i:753242 original size:22 final size:22
Alignment explanation
Indices: 753224--753265 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
753214 TACTTTTAGC
753224 ATTTTTAAT-ATATATTTTTAA
1 ATTTTTAATGATATATTTTTAA
*
753245 ATTTTTAATGATTTATTTTTA
1 ATTTTTAATGATATATTTTTA
753266 TTTTTAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
ATTTTTAATGATATATTTTTAA
Found at i:753297 original size:21 final size:21
Alignment explanation
Indices: 753256--753298 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
753246 TTTTTAATGA
* *
753256 TTTATTTTTATTTTTAGTATT
1 TTTATTTTTATTTTGAATATT
753277 TTTATATTTT-TTTTGAATATT
1 TTTAT-TTTTATTTTGAATATT
753298 T
1 T
753299 GAGTAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTATTTTTATTTTGAATATT
Found at i:757660 original size:267 final size:264
Alignment explanation
Indices: 756918--758369 Score: 1647
Period size: 266 Copynumber: 5.5 Consensus size: 264
756908 TTGGGAGCAG
* * **
756918 GTGGGGACGGT-CACCTTTAAAAGTTTTAAATTATTATATATTTCAGATATTTTTTTTATTTT-T
1 GTGGGGACGGTCCACC--TAAAAATTTCAAATTCCTATATATTTCAGATATTTTTTTTATTTTCT
* ** * *
756981 ATTGAAAATACGTTTTCGTCCAACTAAAATTTTATAAATTTTCTCTAACTTAAAATTTTATAAAT
64 ATTGAAAATAAGTTTTCGTCCCCCTAAAATTTTATAAATTATCTCTTACTTAAAATTTTATAAAT
* ** * * *
757046 CCATCATTCTTAACATAAAATCTTACGTCGGTCCCCGATTGAGGCAATGTAGAATCTAACAACAG
129 TCATCATTCTTAACATAAAATCTTGTGTCTGTCCCTGATTGAGGCAAGGTAGAATCTAACAACAG
* * * * *
757111 AATGATCCACATGATGATCTTTCATTTACTCAAGTATATTGAAGGCGGGGCATGGATAAACCTAG
194 AATGATCCACATGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGGGCAGGGATAGACCTAG
757176 GGGCAA
259 GGGCAA
* * * *
757182 GTGGGGACAGT-CACCCTAAAAGTTTCAAATTCCTATATATTTCAG----TTATATT-TTTT-TA
1 GTGGGGACGGTCCA-CCTAAAAATTTCAAATTCCTATATATTTCAGATATTTTTTTTATTTTCTA
* ** * *
757240 TTGAAAATAAGTTTTAGTCCTACTAAAATTTTATAAA-T-TCTCTCACTTAAATTTTTATAAATT
65 TTGAAAATAAGTTTTCGTCCCCCTAAAATTTTATAAATTATCTCTTACTTAAAATTTTATAAATT
* * * *
757303 CATCATTCTTAAAAT-AAATCATGTGTCTGTCCCCGATTGAGGTAAGGTAGAATCTAACAACAGA
130 CATCATTCTTAACATAAAATCTTGTGTCTGTCCCTGATTGAGGCAAGGTAGAATCTAACAACAGA
* *
757367 ATGATCCACATGATGATCTTTCATTTGCTCAACTATATTGAAGGCATGGCAGGGATAGATCTAGG
195 ATGATCCACATGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGGGCAGGGATAGACCTAGG
757432 GGC-A
260 GGCAA
*
757436 GTTGGGGACGGTCCTACCTAAAAATTTCAAATTCCTATATATGTCAGATATTTTTTTTGTATTTT
1 G-TGGGGACGGTCC-ACCTAAAAATTTCAAATTCCTATATATTTCAGATA-TTTTTTT-TATTTT
* * **
757501 CTATTGAAAATAAGTGTTCTTCCCCCTAAAATTTTATAAATTATCTCTTACTTAAGGTTTTATAA
62 CTATTGAAAATAAGTTTTCGTCCCCCTAAAATTTTATAAATTATCTCTTACTTAAAATTTTATAA
* * ** *
757566 ATTCATAATTCTTAACATAAAATCTTGCGTCCCTCCCTGATTAAGGCAAGGTAGAATCTAACAAC
127 ATTCATCATTCTTAACATAAAATCTTGTGTCTGTCCCTGATTGAGGCAAGGTAGAATCTAACAAC
* * * * * * * * *
757631 AAAATGATCCACATAATGATATTTCATTTGCTAAACTATATTGAAAGCATGGTAGGTACAGACCT
192 AGAATGATCCACATGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGGGCAGGGATAGACC-
757696 TAGGGGCAA
256 TAGGGGCAA
* * * *
757705 GTGGGGATGGTCC-CTCTAAAAATTTAAAATTCCTATATATTTTAGATATTTTTGTTGTATTTTT
1 GTGGGGACGGTCCAC-CTAAAAATTTCAAATTCCTATATATTTCAGATATTTTT-TT-TATTTTC
* * ** * * *
757769 TATTGAAAATAATTTTTTG-CCATCTAAAATTTTATAAATTCTCTCTTGCTTAAAATTTAATAAA
63 TATTGAAAATAAGTTTTCGTCCCCCTAAAATTTTATAAATTATCTCTTACTTAAAATTTTATAAA
* * * * *
757833 TTTATCATTATTAACATAAAAT-TCTGTGTATGTCCCCT-ATTGAGGCAAGATAAAATCTAACAA
128 TTCATCATTCTTAACATAAAATCT-TGTGTCTGT-CCCTGATTGAGGCAAGGTAGAATCTAACAA
* * * * * *
757896 TAGAATGATTCACGTGATAATCTTTCATTTGCTCAACTATATTGAAGGTAGGGCAGGGATGGACC
191 CAGAATGATCCACATGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGGGCAGGGATAGACC
757961 TAGAGGGCAA
256 TAG-GGGCAA
* * * *
757971 GTGGGGAAGGTCACTTCCTAAAAATTTCAAATTCCTATGTAGTTCAGATATTTTTTTTTGTATTT
1 GTGGGGACGGTC-C-ACCTAAAAATTTCAAATTCCTATATATTTCAGATA--TTTTTTT-TATTT
* * *
758036 TCCATTGAAAATAAGTTTTCGTCCCCCTAAAAGTTTATAAATTCTCTCTTACTTAAAATTTTATA
61 TCTATTGAAAATAAGTTTTCGTCCCCCTAAAATTTTATAAATTATCTCTTACTTAAAATTTTATA
* * *
758101 AATTCATCATTCTTAACATAAAATATTGTGTTTGTCCCTGATTGAGG-AATGGTGGAATCTAACA
126 AATTCATCATTCTTAACATAAAATCTTGTGTCTGTCCCTGATTGAGGCAA-GGTAGAATCTAACA
* * * * * *
758165 ATAG-ATGATCCATATGATGATCTTTCATTTGCTTAACTATATTGAAGGCAGGGCAAGAATGGAC
190 ACAGAATGATCCACATGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGGGCAGGGATAGAC
*
758229 CTAGTGGGCAT
255 CTAG-GGGCAA
* * *
758240 GTGGGGACGGTCCCCCCTAAAAGTTTTAAATTCC--TATATTTCA-ATATTTTTTTTATTTTCTA
1 GTGGGGACGGT-CCACCTAAAAATTTCAAATTCCTATATATTTCAGATATTTTTTTTATTTTCTA
* * *
758302 TTGAAAATAAGTTTTCATCACCCT-AAATTTTATAAATTATCTCTTACTT-AAATTTTTTAAATT
65 TTGAAAATAAGTTTTCGTCCCCCTAAAATTTTATAAATTATCTCTTACTTAAAATTTTATAAATT
758365 CATCA
130 CATCA
758370 AGTTGAAAAC
Statistics
Matches: 1016, Mismatches: 140, Indels: 68
0.83 0.11 0.06
Matches are distributed among these distances:
254 2 0.00
255 113 0.11
256 66 0.06
257 2 0.00
258 40 0.04
259 5 0.00
260 18 0.02
261 27 0.03
262 31 0.03
263 37 0.04
264 46 0.05
265 10 0.01
266 199 0.20
267 153 0.15
268 64 0.06
269 106 0.10
270 96 0.09
271 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (264 bp):
GTGGGGACGGTCCACCTAAAAATTTCAAATTCCTATATATTTCAGATATTTTTTTTATTTTCTAT
TGAAAATAAGTTTTCGTCCCCCTAAAATTTTATAAATTATCTCTTACTTAAAATTTTATAAATTC
ATCATTCTTAACATAAAATCTTGTGTCTGTCCCTGATTGAGGCAAGGTAGAATCTAACAACAGAA
TGATCCACATGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGGGCAGGGATAGACCTAGGG
GCAA
Found at i:758123 original size:30 final size:26
Alignment explanation
Indices: 758063--758124 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 26
758053 TTCGTCCCCC
* *
758063 TAAAAGTTTATAAATTCTCTCTTACT
1 TAAAATTTTATAAATTCTCTCTTACA
758089 TAAAATTTTATAAATTCATCATTCTTAACA
1 TAAAATTTTATAAATTC-TC--TCTT-ACA
758119 TAAAAT
1 TAAAAT
758125 ATTGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 16 0.53
27 2 0.07
29 4 0.13
30 8 0.27
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.44
Consensus pattern (26 bp):
TAAAATTTTATAAATTCTCTCTTACA
Found at i:760685 original size:529 final size:518
Alignment explanation
Indices: 759380--760921 Score: 1796
Period size: 529 Copynumber: 3.0 Consensus size: 518
759370 TAACTCAACA
* * *
759380 CATCATTCTTAACATAAAATCCTACGTCCATCCCCGATTAAGGCAAGGTAGAATCTAACAACATA
1 CATCATTCTTAACATAAAATCCTTCGTCCGTCCCCGATTAAGGCAAGGTAGAATCTAACAACAGA
* * *
759445 ATGGTCCACGTGATGGTCTTTCATTTGCTCAACTATATTAAAGGCATGGCAGTGATGAACCTAGG
66 ATGATCCACGTGATGATCTTTCATTTGCTCAACTATATTAAA-G-AAGGCAG-GATGAACCTAGG
* *
759510 GGGCAGGTGGGGA-AAGTCTCCCCCTAAAAGTTTCAAATTCTTATATATTTC-A-GTTTTTTTGT
128 GGGCAGGTGGGGACAA---TACCCCTAAAAGTTTCAAATTCTTATATATTTCAATATTTTTTTGT
* * *
759572 ATTTTCTATTAAAAATGAGTGTTCGTCCCCCTAAAATTTTATAAATTCTCTCTTACTTAAAGTTT
190 ATTTTCTATTAAAAATAAGTTTTCGTCCCCCTAAAATTTTATAAATTCTCTCTTACTTAAAATTT
* * *
759637 TATAAATTCACCATTCTTAACATAAAATCTTACACCCGT-CCC------G-A-TT-G-ATC-AAC
255 TATAAATTCATCATTCTTAACATAAAATCATACATCCGTCCCCGATTAGGCAGTTAGAATCTAAC
* *
759690 AACAGAATGATCAACATGATGATCTTTCATTTGCT-AACCTATATTGAAGGCAAGACAGGGATGG
320 AACAGAAT-ATCCACATGATGATCTTTCATTTGCTCAACC-ATATTGAAGGC-AGA-TGGGAT-G
* * * *
759754 ACCTAGGGGCATGTGAGGACGATCCCCCTAAAAGTTTCAATTTCTTATATATTTCAGATATTTTT
380 ACCTAGGGGCAGGTGGGGACGAT-CCCCTAAAAGTTTAAATTCCTTATATATTTCAGATATTTTT
* * * *
759819 -TTGTATTTTCTATTGAAAATAAGTTTTCATCCCCTAAGATTTTATAAATTCTCTCTTACGTAAT
444 GTTGTATTTTTTATTGAAAATAAGTTTTCA-CCCCTAAAATTTTATAAATTCTCTATTACGTAAA
*
759883 TTTTTTAAATT
508 TTTTATAAATT
* * * ** *
759894 CATTATT-TCTAACATAAAAT-CTTGCGTTCGTTCCCGATCGAGGCAAGATAGAATCTAACAACA
1 CATCATTCT-TAACATAAAATCCTT-CGTCCGTCCCCGATTAAGGCAAGGTAGAATCTAACAACA
* * * * *
759957 GAATGATCTACATGATGATATTTCATTTGCTCAACTATATTTAAGGCAGGGCAGGGATGAACCTA
64 GAATGATCCACGTGATGATCTTTCATTTGCTCAACTATA-TTAAAG-AAGGCA-GGATGAACCTA
* * *
760022 GGGGGCAGGTGGGGACAATCACTCCCT-AAAGTTTTAAATT-TCTATATGTTTCAAGTTTTTTTT
126 GGGGGCAGGTGGGGACAAT-AC-CCCTAAAAGTTTCAAATTCT-TATATATTTCAA--TATTTTT
* * * *
760085 TTGTATTTTCTATTAAAAAAAAGTTTTCGT-CCCCT-AAGTTTTATAAATTCTCTATAACTTAAA
186 TTGTATTTTCTATTAAAAATAAGTTTTCGTCCCCCTAAAATTTTATAAATTCTCTCTTACTTAAA
*
760148 ATTTTATAAATTCATTATTCTTAACATAAAATCATACATCCGTCCCCGATTGAGGCAGTGTAGAA
251 ATTTTATAAATTCATCATTCTTAACATAAAATCATACATCCGTCCCCGATT-AGGCAGT-TAGAA
* * * *
760213 TCTAACAACAGAATATCCACGTGATGGTCTTTCATTTGCTCAACCATATTGAAGGCGGGTGGGGA
314 TCTAACAACAGAATATCCACATGATGATCTTTCATTTGCTCAACCATATTGAAGGCAGAT-GGGA
* *
760278 TAGACCTATGGGCAGGTGGGGACAATCACTCCTAAAAGTTTAAATTCCTATATATATTTCAGATA
378 T-GACCTAGGGGCAGGTGGGGACGATC-C-CCTAAAAGTTTAAATTCCT-TATATATTTCAGATA
* *
760343 TTTTTGTTGTATTTTTTATTGAAAATAAATTTTTC-CCCCTAAAATTTTATAAATTCTCTATTGC
439 TTTTTGTTGTATTTTTTATTGAAAAT-AAGTTTTCACCCCTAAAATTTTATAAATTCTCTATTAC
*
760407 TTAAAATTTTATAAATT
503 GT-AAATTTTATAAATT
* *
760424 TATCATTCTTAACATAAAATCCTTCGTCCGTCCCCGATTAAGGCAAGGTAGAATCTAACAATAGA
1 CATCATTCTTAACATAAAATCCTTCGTCCGTCCCCGATTAAGGCAAGGTAGAATCTAACAACAGA
* * *
760489 ATGATCCACGTGATGATCTTTTATTTGCTCAACTATATTGAAAGAAGCGCATGGATGGATCTA-G
66 ATGATCCACGTGATGATCTTTCATTTGCTCAACTATATT-AAAGAAG-GCA-GGATGAACCTAGG
* * * *
760553 GGGCATGTAGGGACAATACCCTTAAAAGTTTCAAATTCTTATATATTTCATATATTTTTGTTGTG
128 GGGCAGGTGGGGACAATACCCCTAAAAGTTTCAAATTCTTATATATTTCA-ATATTTTT-TTGTA
* * * *
760618 TTTTTTAATT-AAAATAAGTTTTC-TCCCCCTAAAACTTTATAAATTCTGTCTTGCTTAAAATTT
191 TTTTCT-ATTAAAAATAAGTTTTCGTCCCCCTAAAATTTTATAAATTCTCTCTTACTTAAAATTT
* *** *
760681 TATAAATTCATCATTCTTAAAATAAAATCATGTGTCCGTCCCCGATTAAGGCAAGATAGAATCTA
255 TATAAATTCATCATTCTTAACATAAAATCATACATCCGTCCCCGATT-AGGC-AGTTAGAATCTA
* *
760746 GCAACAGAATTAT-CACATGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGAT--GACTGA
318 ACAACAGAA-TATCCACATGATGATCTTTCATTTGCTCAACCATATTGAAGGCAGATGGGA-TGA
* *
760808 CCTAGGGGCAGGTGGGGATGGTCCCCTAAAAGTTTCAAATTCC-TATATATTTCAGATATTTTTG
381 CCTAGGGGCAGGTGGGGACGATCCCCTAAAAGTTT-AAATTCCTTATATATTTCAGATATTTTTG
*
760872 TTGTATTTTTTATTGAAAATAAGTTTTCGCCCCTAAAATTTTATAAATTC
445 TTGTATTTTTTATTGAAAATAAGTTTTCACCCCTAAAATTTTATAAATTC
760922 ACGTGATGAT
Statistics
Matches: 876, Mismatches: 102, Indels: 91
0.82 0.10 0.09
Matches are distributed among these distances:
512 2 0.00
513 25 0.03
514 120 0.14
515 70 0.08
516 8 0.01
517 32 0.04
522 7 0.01
523 63 0.07
524 12 0.01
525 9 0.01
526 25 0.03
527 39 0.04
528 104 0.12
529 214 0.24
530 135 0.15
531 11 0.01
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (518 bp):
CATCATTCTTAACATAAAATCCTTCGTCCGTCCCCGATTAAGGCAAGGTAGAATCTAACAACAGA
ATGATCCACGTGATGATCTTTCATTTGCTCAACTATATTAAAGAAGGCAGGATGAACCTAGGGGG
CAGGTGGGGACAATACCCCTAAAAGTTTCAAATTCTTATATATTTCAATATTTTTTTGTATTTTC
TATTAAAAATAAGTTTTCGTCCCCCTAAAATTTTATAAATTCTCTCTTACTTAAAATTTTATAAA
TTCATCATTCTTAACATAAAATCATACATCCGTCCCCGATTAGGCAGTTAGAATCTAACAACAGA
ATATCCACATGATGATCTTTCATTTGCTCAACCATATTGAAGGCAGATGGGATGACCTAGGGGCA
GGTGGGGACGATCCCCTAAAAGTTTAAATTCCTTATATATTTCAGATATTTTTGTTGTATTTTTT
ATTGAAAATAAGTTTTCACCCCTAAAATTTTATAAATTCTCTATTACGTAAATTTTATAAATT
Found at i:760687 original size:265 final size:263
Alignment explanation
Indices: 759687--760921 Score: 1388
Period size: 265 Copynumber: 4.7 Consensus size: 263
759677 CCGATTGATC
* *
759687 AACAACAGAATGATCAACATGATGATCTTTCATTTGCT-AACCTATATTG-AAG-GCAAGACAGG
1 AACAACAGAATGATCCACATGATGATCTTTCATTTGCTCAA-CTATATTGAAAGAGC--G-CATG
* * * * *
759749 GATGGACCTAGGGGCATGTGAGGACGATCCCCCTAAAAGTTTCAATTTCTTATATATTTCAGATA
62 GATGGACCTAGGGGCAGGTGGGGACAATACCCCTAAAAGTTTCAAATTCTTATATATTTCAGATA
* * *
759814 TTTTT-TTGTATTTTCTATTGAAAATAAGTTTTCATCCCCTAAGATTTTATAAATTCTCTCTTAC
127 TTTTTGTTGTATTTTTTATTGAAAATAAGTTTTC-TCCCCTAAAATTTTATAAATTCTCTATTAC
* * * * * * **
759878 GT-AATTTTTTTAAATTCATTATT-TCTAACATAAAATC-TTGCGTTCGTTCCCGATCGAGGCAA
191 TTAAAATTTTATAAATTCATCATTCT-TAACATAAAATCATT-CGTCCGTCCCCGATTAAGGCAA
759940 GATAGAATCT
254 GATAGAATCT
* * * * * *
759950 AACAACAGAATGATCTACATGATGATATTTCATTTGCTCAACTATATTTAAGGCAGGGCAGGGAT
1 AACAACAGAATGATCCACATGATGATCTTTCATTTGCTCAACTATATTGAAAG-AGCGCATGGAT
* * *
760015 GAACCTAGGGGGCAGGTGGGGACAATCACTCCCT-AAAGTTTTAAATT-TCTATATGTTTCA-AG
65 GGACCTA-GGGGCAGGTGGGGACAAT-AC-CCCTAAAAGTTTCAAATTCT-TATATATTTCAGA-
* * * * * * *
760077 TTTTTTTTTTGTATTTTCTATTAAAAAAAAGTTTTCGTCCCCT-AAGTTTTATAAATTCTCTATA
125 TATTTTTGTTGTATTTTTTATTGAAAATAAGTTTTC-TCCCCTAAAATTTTATAAATTCTCTATT
* * * *
760141 ACTTAAAATTTTATAAATTCATTATTCTTAACATAAAATCATACATCCGTCCCCGATTGAGGC-A
189 ACTTAAAATTTTATAAATTCATCATTCTTAACATAAAATCATTCGTCCGTCCCCGATTAAGGCAA
*
760205 GTGTAGAATCT
254 G-ATAGAATCT
* * * **
760216 AACAACAGAAT-ATCCACGTGATGGTCTTTCATTTGCTCAACCATATTG-AAG-GCGGGTGGGGA
1 AACAACAGAATGATCCACATGATGATCTTTCATTTGCTCAACTATATTGAAAGAGCGCAT--GGA
* * *
760278 TAGACCTATGGGCAGGTGGGGACAATCACTCCTAAAAGTTT-AAATTCCTATATATATTTCAGAT
64 TGGACCTAGGGGCAGGTGGGGACAAT-ACCCCTAAAAGTTTCAAATT-CT-TATATATTTCAGAT
* *
760342 ATTTTTGTTGTATTTTTTATTGAAAATAAATTTT-TCCCCCTAAAATTTTATAAATTCTCTATTG
126 ATTTTTGTTGTATTTTTTATTGAAAATAAGTTTTCT-CCCCTAAAATTTTATAAATTCTCTATTA
* *
760406 CTTAAAATTTTATAAATTTATCATTCTTAACATAAAATCCTTCGTCCGTCCCCGATTAAGGCAAG
190 CTTAAAATTTTATAAATTCATCATTCTTAACATAAAATCATTCGTCCGTCCCCGATTAAGGCAAG
*
760471 GTAGAATCT
255 ATAGAATCT
* * *
760480 AACAATAGAATGATCCACGTGATGATCTTTTATTTGCTCAACTATATTGAAAGAAGCGCATGGAT
1 AACAACAGAATGATCCACATGATGATCTTTCATTTGCTCAACTATATTGAAAG-AGCGCATGGAT
* * * * *
760545 GGATCTAGGGGCATGTAGGGACAATACCCTTAAAAGTTTCAAATTCTTATATATTTCATATATTT
65 GGACCTAGGGGCAGGTGGGGACAATACCCCTAAAAGTTTCAAATTCTTATATATTTCAGATATTT
* * * * *
760610 TTGTTGTGTTTTTTAATT-AAAATAAGTTTTCTCCCCCTAAAACTTTATAAATTCTGTCTTGCTT
130 TTGTTGTATTTTTT-ATTGAAAATAAGTTTTCT-CCCCTAAAATTTTATAAATTCTCTATTACTT
*
760674 AAAATTTTATAAATTCATCATTCTTAAAATAAAATCATGT-GTCCGTCCCCGATTAAGGCAAGAT
193 AAAATTTTATAAATTCATCATTCTTAACATAAAATCAT-TCGTCCGTCCCCGATTAAGGCAAGAT
760738 AGAATCT
257 AGAATCT
* *
760745 AGCAACAGAATTAT-CACATGATGATCTTTCATTTGCTCAACTATATTG-AAG-GCAG-AT-GAC
1 AACAACAGAATGATCCACATGATGATCTTTCATTTGCTCAACTATATTGAAAGAGC-GCATGGA-
*** *
760805 T-GACCTAGGGGCAGGTGGGGATGGT-CCCCTAAAAGTTTCAAATTCCTATATATTTCAGATATT
64 TGGACCTAGGGGCAGGTGGGGACAATACCCCTAAAAGTTTCAAATTCTTATATATTTCAGATATT
*
760868 TTTGTTGTATTTTTTATTGAAAATAAGTTTTCGCCCCTAAAATTTTATAAATTC
129 TTTGTTGTATTTTTTATTGAAAATAAGTTTTCTCCCCTAAAATTTTATAAATTC
760922 ACGTGATGAT
Statistics
Matches: 836, Mismatches: 102, Indels: 73
0.83 0.10 0.07
Matches are distributed among these distances:
258 23 0.03
259 62 0.07
260 20 0.02
261 5 0.01
262 12 0.01
263 91 0.11
264 240 0.29
265 241 0.29
266 136 0.16
267 2 0.00
268 4 0.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (263 bp):
AACAACAGAATGATCCACATGATGATCTTTCATTTGCTCAACTATATTGAAAGAGCGCATGGATG
GACCTAGGGGCAGGTGGGGACAATACCCCTAAAAGTTTCAAATTCTTATATATTTCAGATATTTT
TGTTGTATTTTTTATTGAAAATAAGTTTTCTCCCCTAAAATTTTATAAATTCTCTATTACTTAAA
ATTTTATAAATTCATCATTCTTAACATAAAATCATTCGTCCGTCCCCGATTAAGGCAAGATAGAA
TCT
Found at i:761030 original size:162 final size:161
Alignment explanation
Indices: 760758--761082 Score: 485
Period size: 162 Copynumber: 2.0 Consensus size: 161
760748 AACAGAATTA
* *
760758 TCACATGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGATGACTGACCTAGGGGCAGGTGG
1 TCACATGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGATGACTAACCTAGGGGCAGATGG
* * *
760823 GGATGGTCCCCTAAAAGTTTCAAATTCCTATATATTTCAGATATTTTTGTTGTATTTTTTATTGA
66 GAACGGTCCCCTAAAAGTTTCAAATTCCTATATATTTCAGATA-TTTT-TTGTATTATTTATTGA
760888 AAATAAGTTTTCG-CCCCTAAAATTTTATAAAT
129 AAATAAGTTTTCGTCCCCTAAAATTTTATAAAT
* * * * * *
760920 TCACGTGATGATCTTTCATTTGTTTAACTATATTGAAGG-TG-TGATTAATCTAGGGGCAGATGG
1 TCACATGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGATGACTAACCTAGGGGCAGATGG
*
760983 GAACGGTCCCCACTAAAAGTTTCAAATTCCTATATATTTGAGATATTTTTTGTATTATTTATTGA
66 GAACGGT-CCC-CTAAAAGTTTCAAATTCCTATATATTTCAGATATTTTTTGTATTATTTATTGA
761048 AAATAAGTTTTCGTCCCCTAAAATTTTATAAAT
129 AAATAAGTTTTCGTCCCCTAAAATTTTATAAAT
761081 TC
1 TC
761083 TCTCTTACGT
Statistics
Matches: 148, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
160 51 0.34
161 29 0.20
162 68 0.46
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (161 bp):
TCACATGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGATGACTAACCTAGGGGCAGATGG
GAACGGTCCCCTAAAAGTTTCAAATTCCTATATATTTCAGATATTTTTTGTATTATTTATTGAAA
ATAAGTTTTCGTCCCCTAAAATTTTATAAAT
Found at i:761436 original size:266 final size:266
Alignment explanation
Indices: 760972--762401 Score: 1715
Period size: 263 Copynumber: 5.4 Consensus size: 266
760962 GATTAATCTA
* * * *
760972 GGGGCAGATGGGAACGGTC-CCCACTAAAAGTTTCAAATTCCTATATATTTGAGATA-TTTT-TT
1 GGGGCAGGTGGGGACAGTCACCC-CTAAAAGTTTCAAATTCCTATATATTTCAGATATTTTTGTT
* * *
761034 GTATTATTTATTGAAAATAAGTTTTCGTCCCCTAAAATTTTATAAATTCTCTCTTACGTAAAATT
65 GTATT-TTTATTGAAAATAAGTTTTCGCCCCCTAAAATTTTATAAATTCTCTCTTGCTTAAAATT
*** * * * *
761099 TTATAAATTCATCATTCTTAACATAAAATCCTATGTCCGTTCTCGATTAAGGCGAGGTAGAATCA
129 TTATAAATTCATCATTCTTAACATAAAATCCTGCATCCGTCCCCGATTAAGGCAAGGTAGAATCT
* * * * *
761164 AACAACAAAATGATCCACATGATGATATTTCATTTTCTCAACTATATTGAAAGCAGGGCAGGGAT
194 AACAACAGAATGATCCACGTGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGGGCAGGGAT
761229 GGACCTA-
259 GGACCTAG
*** * * ** * * *
761236 TATGCAGGTAGGAACAAAC-CCCCTAAAAGTTTCAAATTCCTATATATGTCAAATATTTTTTTTG
1 GGGGCAGGTGGGGACAGTCACCCCTAAAAGTTTCAAATTCCTATATATTTCAGATATTTTTGTTG
* ** *
761300 TATTTTCTATTGAAAATAAGTTTTCGTCCCCCTAAGA-TTTATAAATTCTCTCTAACTTAAATTT
66 TATTTT-TATTGAAAATAAGTTTTCG-CCCCCTAAAATTTTATAAATTCTCTCTTGCTTAAA-AT
* * * * * * * *
761364 TTTATAAATTCATTATTCTTAACATAAAATCTTACATCCTTCCCAGATTGAGGCAATGTAGAATT
128 TTTATAAATTCATCATTCTTAACATAAAATCCTGCATCCGTCCCCGATTAAGGCAAGGTAGAATC
* * *
761429 TAACAACAGAATGCTCCACGTGATGATATTTCATTTGCTCAACCATATTGAAGGCAGGGCAGGGA
193 TAACAACAGAATGATCCACGTGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGGGCAGGGA
** *
761494 TAAATCTA-
258 TGGACCTAG
** * * *
761502 GGGGCAGGTGGGGGTAGTCACCCCTAAAAGTTTTAACTTCTTATATATTTCAGATATTTTTGTTG
1 GGGGCAGGTGGGGACAGTCACCCCTAAAAGTTTCAAATTCCTATATATTTCAGATATTTTTGTTG
* * *
761567 TATTTTTTATTGAAAATGAGTTTTTGCCCCCTAAAATTTTATAAATTCTCTTTTGCTTAAAATTT
66 TA-TTTTTATTGAAAATAAGTTTTCGCCCCCTAAAATTTTATAAATTCTCTCTTGCTTAAAATTT
* * * *
761632 TATAAATTTATCATTCTTAACATAAAATCTTGTATTCGTCCCCGATTAAGGCAAGGTAGAATCTA
130 TATAAATTCATCATTCTTAACATAAAATCCTGCATCCGTCCCCGATTAAGGCAAGGTAGAATCTA
* * * *
761697 ACAATAGAATGATCCACGTGATGATCTTTCATTTGCTCAAGTATATTGAAGGC-GGGCGGGGATA
195 ACAACAGAATGATCCACGTGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGGGCAGGGATG
761761 GACCTA-
260 GACCTAG
** * *
761767 GGGATAAGTGGGGACAGTCACCCCTAAAAGTTT-AAATTGCTATATATTTCAGATATTTTTGTTG
1 GGGGCAGGTGGGGACAGTCACCCCTAAAAGTTTCAAATTCCTATATATTTCAGATATTTTTGTTG
* ** * * *
761831 TATTTTTATTGATAATAAGTTTTTACCTCCTAAAATTTTATAAATTCTCTTTTGCTTAAATTTTT
66 TATTTTTATTGAAAATAAGTTTTCGCCCCCTAAAATTTTATAAATTCTCTCTTGCTTAAAATTTT
*
761896 ATAAATTCATCATTCTTAACATAAAATCCTGCATCCGTCCCCGATTGAGGCAAGGTAGAATCTAA
131 ATAAATTCATCATTCTTAACATAAAATCCTGCATCCGTCCCCGATTAAGGCAAGGTAGAATCTAA
* * * * * *
761961 CAATAGAATGACCCACGTGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGCGTATGAATGG
196 CAACAGAATGATCCACGTGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGGGCAGGGATGG
*
762026 ATCTAG
261 ACCTAG
* * * * **
762032 GGGGTAGGTTGGGACAATCACCCTTAAAAGTTTCAAATTCCTATATATTTCATTTATTTTTGTTG
1 GGGGCAGGTGGGGACAGTCACCCCTAAAAGTTTCAAATTCCTATATATTTCAGATATTTTTGTTG
* *
762097 TATTTTTAATGAAAATAAGTTTT-GCCCTCTAAAATTTTATAAA-T-TCTCTTGCTTAAAATTTT
66 TATTTTTATTGAAAATAAGTTTTCGCCCCCTAAAATTTTATAAATTCTCTCTTGCTTAAAATTTT
* * * * * *
762159 ATAAATTCATCATTCTTAAAATAAAATCATGCGTCCATCCCCGATTAAGGTAAGGTAGAATCTAG
131 ATAAATTCATCATTCTTAACATAAAATCCTGCATCCGTCCCCGATTAAGGCAAGGTAGAATCTAA
* * * * * * * *
762224 CAACATAATTAT-CACATGATGATCTTTCATTTACTCAACTATATTGAAGGCATGGTAAGGACGG
196 CAACAGAATGATCCACGTGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGGGCAGGGATGG
762288 ACCTAG
261 ACCTAG
* *
762294 GGGGCAGGTGGAGACGGTC-CACCCTAAAAGTTTCAAATTCCTATATATTTCAGATATATTTT-T
1 GGGGCAGGTGGGGACAGTCAC-CCCTAAAAGTTTCAAATTCCTATATATTTCAGATAT-TTTTGT
762357 TGTATTTTTTATTGAAAATAAGTTTTCG-CCCCTAAAATTTTATAA
64 TGTA-TTTTTATTGAAAATAAGTTTTCGCCCCCTAAAATTTTATAA
762402 TTTCACTTGA
Statistics
Matches: 1002, Mismatches: 149, Indels: 31
0.85 0.13 0.03
Matches are distributed among these distances:
261 1 0.00
262 102 0.10
263 320 0.32
264 62 0.06
265 135 0.13
266 299 0.30
267 79 0.08
268 4 0.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (266 bp):
GGGGCAGGTGGGGACAGTCACCCCTAAAAGTTTCAAATTCCTATATATTTCAGATATTTTTGTTG
TATTTTTATTGAAAATAAGTTTTCGCCCCCTAAAATTTTATAAATTCTCTCTTGCTTAAAATTTT
ATAAATTCATCATTCTTAACATAAAATCCTGCATCCGTCCCCGATTAAGGCAAGGTAGAATCTAA
CAACAGAATGATCCACGTGATGATCTTTCATTTGCTCAACTATATTGAAGGCAGGGCAGGGATGG
ACCTAG
Found at i:762368 original size:529 final size:525
Alignment explanation
Indices: 760966--762401 Score: 1764
Period size: 529 Copynumber: 2.7 Consensus size: 525
760956 AGGTGTGATT
* * ** *
760966 AATCTAGGGGCAGATGGGAACGGTC-CCCACTAAAAGTTTCAAATTCCTATATATTTGAGATA-T
1 AATCTAGGGGCAGGTGGGGACAATCACCC-CTAAAAGTTTCAAATTCCTATATATTTCAGATATT
* *
761029 TTT-TTGTATTATTTATTGAAAATAAGTTTTCGTCCCCTAAAATTTTATAAATTCTCTCTTACGT
65 TTTGTTGTATT-TTTATTGAAAATAAGTTTT-G-CCCCTAAAATTTTATAAA-T-TCTCTTGCTT
* * * * *
761093 AAAATTTTATAAATTCATCATTCTTAACATAAAATCCTATGTCCGTTCTCGATTAAGGCGAGGTA
125 AAAATTTTATAAATTCATCATTCTTAACATAAAATCATGTGTCCGTCCCCGATTAAGGCAAGGTA
* * * *
761158 GAATCAAACAACAAAATGATCCACATGATGATATTTCATTTTCTCAACTATATTGAAAGCAGGGC
190 GAATCTAACAACAAAATGATCCACATGATGATCTTTCATTTACTCAACTATATTGAAGGCAGGGC
*** ** *
761223 AGGGATGGACCTATATGCAGGTAGGA-ACAAACC-CCCTAAAAGTTTCAAATTCCTATATATGTC
255 AGGGATGGACCTAGGGGCAGGT-GGAGACAGTCCACCCTAAAAGTTTCAAATTCCTATATATTTC
* * *
761286 AAATATTTTTTTTGTATTTTCTATTGAAAATAAGTTTTCGTCCCCCTAAGA-TTTATAAATTCTC
319 AGATA-TTTTTTTGTATTTTTTATTGAAAATAAGTTTT--T-CCCCTAAAATTTTATAAATTCTC
* * *
761350 TCTAACTTAAATTTTTTATAAATTCATTATTCTTAACATAAAATCTTACATCCTTCCCAGATTGA
380 TCTAACTTAAATTTTTTATAAATTCATCATTCTTAACATAAAATCCTACATCCGTCCCAGATTGA
* *
761415 GGCAATGTAGAATTTAACAACAGAATGCTCCACGTGATGATATTTCATTTGCTCAACCATATTGA
445 GGCAAGGTAGAATCTAACAACAGAATGCTCCACGTGATGATATTTCATTTGCTCAACCATATTGA
* *
761480 AGGCAGGGCAGGGATA
510 AGGCAGCGCAGGAATA
** * * * *
761496 AATCTAGGGGCAGGTGGGGGTAGTCACCCCTAAAAGTTTTAACTTCTTATATATTTCAGATATTT
1 AATCTAGGGGCAGGTGGGGACAATCACCCCTAAAAGTTTCAAATTCCTATATATTTCAGATATTT
*
761561 TTGTTGTATTTTTTATTGAAAATGAGTTTTTGCCCCCTAAAATTTTATAAATTCTCTTTTGCTTA
66 TTGTTGTA-TTTTTATTGAAAATAAG-TTTTG-CCCCTAAAATTTTATAAATTCTC--TTGCTTA
* * * *
761626 AAATTTTATAAATTTATCATTCTTAACATAAAATCTTGTATTCGTCCCCGATTAAGGCAAGGTAG
126 AAATTTTATAAATTCATCATTCTTAACATAAAATCATGTGTCCGTCCCCGATTAAGGCAAGGTAG
* * * * * *
761691 AATCTAACAATAGAATGATCCACGTGATGATCTTTCATTTGCTCAAGTATATTGAAGGC-GGGCG
191 AATCTAACAACAAAATGATCCACATGATGATCTTTCATTTACTCAACTATATTGAAGGCAGGGCA
* ** * * *
761755 GGGATAGACCTAGGGATAAGTGGGGACAGT-CACCCCTAAAAGTTT-AAATTGCTATATATTTCA
256 GGGATGGACCTAGGGGCAGGTGGAGACAGTCCA-CCCTAAAAGTTTCAAATTCCTATATATTTCA
* *
761818 GATATTTTTGTTGTA-TTTTTATTGATAATAAGTTTTTACCTCCTAAAATTTTATAAATTCTCTT
320 GATATTTTT-TTGTATTTTTTATTGAAAATAAGTTTTT-CC-CCTAAAATTTTATAAATTCTCTC
** * *
761882 TTGCTTAAA-TTTTTATAAATTCATCATTCTTAACATAAAATCCTGCATCCGTCCCCGATTGAGG
382 TAACTTAAATTTTTTATAAATTCATCATTCTTAACATAAAATCCTACATCCGTCCCAGATTGAGG
* * *
761946 CAAGGTAGAATCTAACAATAGAATGAC-CCACGTGATGATCTTTCATTTGCTCAACTATATTGAA
447 CAAGGTAGAATCTAACAACAGAATG-CTCCACGTGATGATATTTCATTTGCTCAACCATATTGAA
* * *
762010 GGCAGCGTATGAATG
511 GGCAGCGCAGGAATA
* * * * **
762025 GATCTAGGGGGTAGGTTGGGACAATCACCCTTAAAAGTTTCAAATTCCTATATATTTCATTTATT
1 AATCTA-GGGGCAGGTGGGGACAATCACCCCTAAAAGTTTCAAATTCCTATATATTTCAGATATT
*
762090 TTTGTTGTATTTTTAATGAAAATAAGTTTTGCCCTCTAAAATTTTATAAATTCTCTTGCTTAAAA
65 TTTGTTGTATTTTTATTGAAAATAAGTTTTGCCC-CTAAAATTTTATAAATTCTCTTGCTTAAAA
* * * *
762155 TTTTATAAATTCATCATTCTTAAAATAAAATCATGCGTCCATCCCCGATTAAGGTAAGGTAGAAT
129 TTTTATAAATTCATCATTCTTAACATAAAATCATGTGTCCGTCCCCGATTAAGGCAAGGTAGAAT
* * * * * *
762220 CTAGCAACATAATTAT-CACATGATGATCTTTCATTTACTCAACTATATTGAAGGCATGGTAAGG
194 CTAACAACAAAATGATCCACATGATGATCTTTCATTTACTCAACTATATTGAAGGCAGGGCAGGG
* *
762284 ACGGACCTAGGGGGCAGGTGGAGACGGTCCACCCTAAAAGTTTCAAATTCCTATATATTTCAGAT
259 ATGGACCTA-GGGGCAGGTGGAGACAGTCCACCCTAAAAGTTTCAAATTCCTATATATTTCAGAT
*
762349 ATATTTTTTGTATTTTTTATTGAAAATAAGTTTTCGCCCCTAAAATTTTATAA
323 AT-TTTTTTGTATTTTTTATTGAAAATAAGTTTT-TCCCCTAAAATTTTATAA
762402 TTTCACTTGA
Statistics
Matches: 775, Mismatches: 108, Indels: 48
0.83 0.12 0.05
Matches are distributed among these distances:
525 36 0.05
526 90 0.12
527 28 0.04
528 72 0.09
529 169 0.22
530 158 0.20
531 53 0.07
532 163 0.21
533 6 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (525 bp):
AATCTAGGGGCAGGTGGGGACAATCACCCCTAAAAGTTTCAAATTCCTATATATTTCAGATATTT
TTGTTGTATTTTTATTGAAAATAAGTTTTGCCCCTAAAATTTTATAAATTCTCTTGCTTAAAATT
TTATAAATTCATCATTCTTAACATAAAATCATGTGTCCGTCCCCGATTAAGGCAAGGTAGAATCT
AACAACAAAATGATCCACATGATGATCTTTCATTTACTCAACTATATTGAAGGCAGGGCAGGGAT
GGACCTAGGGGCAGGTGGAGACAGTCCACCCTAAAAGTTTCAAATTCCTATATATTTCAGATATT
TTTTTGTATTTTTTATTGAAAATAAGTTTTTCCCCTAAAATTTTATAAATTCTCTCTAACTTAAA
TTTTTTATAAATTCATCATTCTTAACATAAAATCCTACATCCGTCCCAGATTGAGGCAAGGTAGA
ATCTAACAACAGAATGCTCCACGTGATGATATTTCATTTGCTCAACCATATTGAAGGCAGCGCAG
GAATA
Found at i:762586 original size:954 final size:957
Alignment explanation
Indices: 761490--763359 Score: 2377
Period size: 954 Copynumber: 2.0 Consensus size: 957
761480 AGGCAGGGCA
*** * * *
761490 GGGATAAATCTAGGGGCAGGTGGGGGTAGTCACCCCTAAAAGTTTTAACTTCTTATATATTTCAG
1 GGGATAAATCTAGGGGCAGGTGGGAACAGTCACCCCTAAAAGTTTCAAATTCCTATATATTTCAG
* * * * * *
761555 ATATTTTTGTTGTATTTTTTATTGAAAATGAGTTTTTGCCCCCTAAAATTTTATAAATTCTCTTT
66 ATATTTTTGTTGTATTATATATTGAAAATAAGTTTTCGCCCCCTAAAATTTTATAAATTATCTCT
* * * * *
761620 TGCTTAAAATTTTATAAATTTATCATTCTTAACATAAAA-TCTTGTATTCGTCCCCGATTAAGGC
131 TACTTAAAATTTTATAAATTCATCATTCTTAACATAAAATTC-TGCATCCGTCCCCAATTAAGG-
* * * * *
761684 A-AGGTAGAATCTAACAATAGAATGATCCACGTGATGATCTTTCATTTGCTCAAGTATATTGAAG
194 AGAGGTAGAATCAAACAACAGAATGATCCACATGATGATCTTTCATTTGCTCAACTACATTGAAG
* * *
761748 G-CGGGCGGGGATAGACCTA-GGGATAAGTGGGGAC-AGTCA-CCCCTAAAAGTTT-AAATTGCT
259 GAAGGGCAGGGAT-GACCTAGGGGATAAGTGGGGACGA-TCACCCCCTAAAAGTTTCAAATTCCT
* * * **
761808 ATATATTTCAGATATTTTTGTTGTATTTT-TATTGATAATAAGTTTTTA-CCTCCTAAAATTTTA
322 ATATATTTC--A-A-TTTT-TTGTATTTTCTATTGAAAATAAGTTTTCATCC-CCAAAAAAATTA
* * * * * * *
761871 TAAATTCTCTTTTGCTTAAATTTTTATAAATTCATCATTCT-TAACATAAAATCCTGCATCCGTC
381 GAAATTATC--ATACTTAAAATTTTATAAATCCATCATT-TGTAACATAAAATCCTGCATCCATC
* * * * *
761935 CCCGATTGAGGCAAGGTAGAATCTAACAATAGAATGACCCACGTGATGATCTTTCATTTGCTCAA
443 CCCGATTGAGGCAAGGTAAAATCCAACAACAGAATGACCCACATGATGATATTTCATTTGCTCAA
* ** * * * *
762000 CTATATTGAAGG-CAGCGTA-TGAATGGATCTAGGGGGTAGGTTGGGACAATCA-CCCTTAAAAG
508 CTATATTGAAGGTCAACACAGTG-ATGAACCTAGGGGGCAGGTGGGGACAAT-ATCCCTTAAAAG
* ** *
762062 TTTCAAATTCCTATATA-TTTCATTTATTTTTGTTGTATTTT-TAATGAAAATAAGTTTTGC-CC
571 TTTCAAATTACTATATATTTTCAGATATTTTT-TTGTATTTTCTAATAAAAATAAGTTTT-CACC
* *
762124 TCTAAAATTTTATAAA-T-TCTCTTGCTTAA-AATTTTATAAATTCATCATTCTTAAAATAAAAT
634 CCTAAAATTTTATAAATTCTCTCTTACTTAATAATTTTATAAATTCATCATTCTTAAAATAAAAT
* * * * * *
762186 CATGCGTCCATCCCCGATTAAGGTAAGGTAGAATCTAGCAACATAATTAT-CACATGATGATCTT
699 CATGCGTCCATCCCCGATCAAGGCAAGGTAGAATCGAACAACAAAATGATCCACATGATGATCTT
* * * * *
762250 TCATTTACTCAACTATATTGAAGGCATGGTAAGGACGGACCTAGGGGGCAGGTGGAGACGGTCCA
764 TCATTTACTCAACTATATTGAAGGCAGGGCAAGGACGAACCTAGGGGGCAGGTGGAGACGATCAA
**
762315 -CCCTAAAAGTTTCAAATTCCTATATATTTCAGATATATTTTTT-GTATTTTTTATTGAAAATAA
829 TCCCTAAAAGTTTC-AATTCCTATATATTTC--ATATATTTTTTCGTATTTTCCATTGAAAATAA
762378 GTTTTCG-CCCCTAAAATTTTATAATTTCACTTGATGATCTTTCATTTGTTCAACTATATTGAAG
891 GTTTTCGTCCCCTAAAATTTTATAATTTCACTTGATGATCTTTCATTTGTTCAACTATATTGAAG
762442 GT
956 GT
* * *
762444 GGGATGAATCTAGGGGTAGGTGGGAACGGTC-CCCACTAAAAGTTTCAAATTCCTATATATTTCA
1 GGGATAAATCTAGGGGCAGGTGGGAACAGTCACCC-CTAAAAGTTTCAAATTCCTATATATTTCA
* *
762508 GATATTTTT-TTGTATTATATATTGAAAGTAAGTTTTCGTCCCCTTAAAATTTTATAAATTATCT
65 GATATTTTTGTTGTATTATATATTGAAAATAAGTTTTCG-CCCCCTAAAATTTTATAAATTATCT
* * *
762572 CTTACTTAAAATTTTATAAATTCATCATTCTTAACATAAAATTCTGCGTCCGTTCCCAATTGAGG
129 CTTACTTAAAATTTTATAAATTCATCATTCTTAACATAAAATTCTGCATCCGTCCCCAATTAAGG
762637 AGAGGTAGAATCAAACAACAGAATGATCCACATGATGATCTTTCATTTGCTCAACTACATTGAAG
194 AGAGGTAGAATCAAACAACAGAATGATCCACATGATGATCTTTCATTTGCTCAACTACATTGAAG
*
762702 GAAGGGCAGGGATGACCTAGGGGATAGGTGGGGACGATCACCCCCTAAAAGTTTCAAATTCCTAT
259 GAAGGGCAGGGATGACCTAGGGGATAAGTGGGGACGATCACCCCCTAAAAGTTTCAAATTCCTAT
762767 ATATTTCAATTTTTTGTATTTTCTATTGAAAATAAGTTTTCATCCCCAAAAAAATTAGAAATTAT
324 ATATTTCAATTTTTTGTATTTTCTATTGAAAATAAGTTTTCATCCCCAAAAAAATTAGAAATTAT
* * * * *
762832 CATACTTAAAATTTTATAAATCCATCATTTGTTACATAAAATCCTGCGTCCATTCTCGATTGGGG
389 CATACTTAAAATTTTATAAATCCATCATTTGTAACATAAAATCCTGCATCCATCCCCGATTGAGG
* *
762897 CAAGGTAAAATCCAACAACAGAATGATCCACATGATGATATTTCATTTGCTCAACTATGTTGAAG
454 CAAGGTAAAATCCAACAACAGAATGACCCACATGATGATATTTCATTTGCTCAACTATATTGAAG
* * * *
762962 GTTAATACAGTGATGAACCTAGGGGGCAGGTGGGGACGATATCCCTTAAAAGTTTCAAATTATTA
519 GTCAACACAGTGATGAACCTAGGGGGCAGGTGGGGACAATATCCCTTAAAAGTTTCAAATTACTA
*
763027 TATATTTTCAGATATTTTTTTGTATTTTCTATTAAAAATAAGTTTTCATCCCCTAAAATTTTATA
584 TATATTTTCAGATATTTTTTTGTATTTTCTAATAAAAATAAGTTTTCA-CCCCTAAAATTTTATA
** * * * * * *
763092 AATTCTCTCTTACTTAATTTTTTTTTAAATTCATCATTCTTAACATAAAATCTTGTGTTCTTCCC
648 AATTCTCTCTTACTTAATAATTTTATAAATTCATCATTCTTAAAATAAAATCATGCGTCCATCCC
* * *
763157 CGATCGAGGCAATGTAGAATCGAACAACAAAATGATCCACATGATGATCTTTCATTTGCTCAACT
713 CGATCAAGGCAAGGTAGAATCGAACAACAAAATGATCCACATGATGATCTTTCATTTACTCAACT
** * *
763222 ATATTGAAGGCAGGGCATTGATGAACCTAGGGGGCAGGTGGGGACGATCAATCCCTAAAAGTTTC
778 ATATTGAAGGCAGGGCAAGGACGAACCTAGGGGGCAGGTGGAGACGATCAATCCCTAAAAGTTTC
** ** *
763287 AATTTTTATATATTTCATATATTTTTTCGTATTTTCCATTGAAAATAAGTTTTCGTTTCCTCAAA
843 AATTCCTATATATTTCATATATTTTTTCGTATTTTCCATTGAAAATAAGTTTTCGTCCCCTAAAA
763352 TTTTATAA
908 TTTTATAA
763360 ATTATCTTTT
Statistics
Matches: 781, Mismatches: 109, Indels: 48
0.83 0.12 0.05
Matches are distributed among these distances:
950 1 0.00
951 112 0.14
952 69 0.09
953 94 0.12
954 221 0.28
955 30 0.04
956 36 0.05
957 108 0.14
958 97 0.12
959 13 0.02
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (957 bp):
GGGATAAATCTAGGGGCAGGTGGGAACAGTCACCCCTAAAAGTTTCAAATTCCTATATATTTCAG
ATATTTTTGTTGTATTATATATTGAAAATAAGTTTTCGCCCCCTAAAATTTTATAAATTATCTCT
TACTTAAAATTTTATAAATTCATCATTCTTAACATAAAATTCTGCATCCGTCCCCAATTAAGGAG
AGGTAGAATCAAACAACAGAATGATCCACATGATGATCTTTCATTTGCTCAACTACATTGAAGGA
AGGGCAGGGATGACCTAGGGGATAAGTGGGGACGATCACCCCCTAAAAGTTTCAAATTCCTATAT
ATTTCAATTTTTTGTATTTTCTATTGAAAATAAGTTTTCATCCCCAAAAAAATTAGAAATTATCA
TACTTAAAATTTTATAAATCCATCATTTGTAACATAAAATCCTGCATCCATCCCCGATTGAGGCA
AGGTAAAATCCAACAACAGAATGACCCACATGATGATATTTCATTTGCTCAACTATATTGAAGGT
CAACACAGTGATGAACCTAGGGGGCAGGTGGGGACAATATCCCTTAAAAGTTTCAAATTACTATA
TATTTTCAGATATTTTTTTGTATTTTCTAATAAAAATAAGTTTTCACCCCTAAAATTTTATAAAT
TCTCTCTTACTTAATAATTTTATAAATTCATCATTCTTAAAATAAAATCATGCGTCCATCCCCGA
TCAAGGCAAGGTAGAATCGAACAACAAAATGATCCACATGATGATCTTTCATTTACTCAACTATA
TTGAAGGCAGGGCAAGGACGAACCTAGGGGGCAGGTGGAGACGATCAATCCCTAAAAGTTTCAAT
TCCTATATATTTCATATATTTTTTCGTATTTTCCATTGAAAATAAGTTTTCGTCCCCTAAAATTT
TATAATTTCACTTGATGATCTTTCATTTGTTCAACTATATTGAAGGT
Found at i:762612 original size:30 final size:26
Alignment explanation
Indices: 762552--762614 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 26
762542 TTCGTCCCCT
*
762552 TAAAATTTTATAAATTATCTCTTACT
1 TAAAATTTTATAAATTATCTCTTACA
762578 TAAAATTTTATAAATTCATCATTCTTAACA
1 TAAAATTTTATAAATT-ATC--TCTT-ACA
762608 TAAAATT
1 TAAAATT
762615 CTGCGTCCGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 16 0.50
27 3 0.09
29 4 0.12
30 9 0.28
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (26 bp):
TAAAATTTTATAAATTATCTCTTACA
Found at i:763378 original size:26 final size:26
Alignment explanation
Indices: 763349--763414 Score: 132
Period size: 26 Copynumber: 2.5 Consensus size: 26
763339 TCGTTTCCTC
763349 AAATTTTATAAATTATCTTTTACTTA
1 AAATTTTATAAATTATCTTTTACTTA
763375 AAATTTTATAAATTATCTTTTACTTA
1 AAATTTTATAAATTATCTTTTACTTA
763401 AAATTTTATAAATT
1 AAATTTTATAAATT
763415 CACCATTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (26 bp):
AAATTTTATAAATTATCTTTTACTTA
Found at i:763676 original size:26 final size:25
Alignment explanation
Indices: 763647--763695 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
763637 CTCCCTACAA
763647 TTTTATAAATT-ATCTATTACTTAAAG
1 TTTTATAAATTCATC-ATT-CTTAAAG
763673 TTTTATAAATTCATCATTCTTAA
1 TTTTATAAATTCATCATTCTTAA
763696 TATAAAATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 5 0.23
26 14 0.64
27 3 0.14
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (25 bp):
TTTTATAAATTCATCATTCTTAAAG
Found at i:764003 original size:43 final size:43
Alignment explanation
Indices: 763950--764045 Score: 165
Period size: 43 Copynumber: 2.2 Consensus size: 43
763940 TAAATTCATT
* * *
763950 ATTCTTAACATAAAATATTATGTATCTCTCGATAGAGTGAGTC
1 ATTCTCAACATAAAATATTATGTATCTCCCGATAGAGGGAGTC
763993 ATTCTCAACATAAAATATTATGTATCTCCCGATAGAGGGAGTC
1 ATTCTCAACATAAAATATTATGTATCTCCCGATAGAGGGAGTC
764036 ATTCTCAACA
1 ATTCTCAACA
764046 AATTGCATGC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (43 bp):
ATTCTCAACATAAAATATTATGTATCTCCCGATAGAGGGAGTC
Found at i:764623 original size:19 final size:21
Alignment explanation
Indices: 764570--764623 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 21
764560 ATCTGAAACT
764570 TTATTTAATTATATTAAATATCAC
1 TTATTT-ATTAT-TTAAATA-CAC
764594 TTATTTA-TATTTAAATA-AC
1 TTATTTATTATTTAAATACAC
764613 TT-TTTATTATT
1 TTATTTATTATT
764624 GATTTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.14
19 8 0.28
21 7 0.24
22 3 0.10
23 1 0.03
24 6 0.21
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (21 bp):
TTATTTATTATTTAAATACAC
Found at i:765911 original size:2 final size:2
Alignment explanation
Indices: 765904--765935 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
765894 TGCTAGTAAT
765904 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
765936 ATAGTAGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.