Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008166.1 Hibiscus syriacus cultivar Beakdansim tig00110747_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: 2544747
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 10
Found at i:1263101 original size:16 final size:16
Alignment explanation
Indices: 1263080--1263113 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1263070 ATAAAAGGAG
1263080 GATATGTACATGGTGA
1 GATATGTACATGGTGA
1263096 GATATGTACATGGTGA
1 GATATGTACATGGTGA
1263112 GA
1 GA
1263114 CGTTGAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.29
Consensus pattern (16 bp):
GATATGTACATGGTGA
Found at i:1269645 original size:2 final size:2
Alignment explanation
Indices: 1269605--1269629 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1269595 TATTGTTTGA
1269605 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1269630 GTTTTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1269715 original size:26 final size:27
Alignment explanation
Indices: 1269675--1269751 Score: 72
Period size: 26 Copynumber: 3.0 Consensus size: 27
1269665 TATTTAAATG
* *
1269675 ACATATATATCATATTTTTGAAAATA-T
1 ACATATAAAT-ATATTTTAGAAAATATT
* *
1269702 ACATATAAATATA-TATAGAATATATT
1 ACATATAAATATATTTTAGAAAATATT
*
1269728 ATATATAAATATA-TTTA-AAAATAT
1 ACATATAAATATATTTTAGAAAATAT
1269752 ATAGCTTGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 14 0.33
26 19 0.45
27 9 0.21
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.42
Consensus pattern (27 bp):
ACATATAAATATATTTTAGAAAATATT
Found at i:1269749 original size:12 final size:15
Alignment explanation
Indices: 1269711--1269753 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 15
1269701 TACATATAAA
1269711 TATATATAGAATATAT
1 TATATATA-AATATAT
1269727 TATATATAAATATAT
1 TATATATAAATATAT
1269742 T-TA-A-AAATATAT
1 TATATATAAATATAT
1269754 AGCTTGAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 8 0.30
13 1 0.04
14 2 0.07
15 8 0.30
16 8 0.30
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
TATATATAAATATAT
Found at i:1275347 original size:103 final size:103
Alignment explanation
Indices: 1275168--1275385 Score: 409
Period size: 103 Copynumber: 2.1 Consensus size: 103
1275158 GTAGAGGGTC
* *
1275168 TATGTGGTCCTTCGGGACATATATGCATTCTTTGGAACAGGTGTGAGGTCTGTTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGCATTCTTTGGAACAGGTGTGAGGTATGTTGAGACACATAC
1275233 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
*
1275271 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACAGGTGTGAGGTATGTTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGCATTCTTTGGAACAGGTGTGAGGTATGTTGAGACACATAC
1275336 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
1275374 TATGTGGTCCTT
1 TATGTGGTCCTT
1275386 AGGGACAACT
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCAGGACATATATGCATTCTTTGGAACAGGTGTGAGGTATGTTGAGACACATAC
TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:1275428 original size:23 final size:23
Alignment explanation
Indices: 1275402--1275458 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
1275392 AACTTTATAT
* *
1275402 GGCACTTCGGTGCATTTCTATGC
1 GGCACTTCGGTGCAATTCTACGC
* *
1275425 GGCACTACGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
1275448 GGCACTTCGGT
1 GGCACTTCGGT
1275459 ATATTTATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:1282186 original size:103 final size:103
Alignment explanation
Indices: 1282007--1282224 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
1281997 GTAGAGGGTC
*
1282007 TATGTGGTCCTTCGGGACAAATATGTATTCTTTGGAACATGTGTGAGGTCTGTTGAGACACATAA
1 TATGTGGTCCTTCGGGACAAATATGTATTCTTTGGAACAGGTGTGAGGTCTGTTGAGACACATAA
1282072 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
* * *
1282110 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAATAGGTGTGAGGTCTGTTGAGACACATAC
1 TATGTGGTCCTTCGGGACAAATATGTATTCTTTGGAACAGGTGTGAGGTCTGTTGAGACACATAA
1282175 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
*
1282213 TATGTAGTCCTT
1 TATGTGGTCCTT
1282225 AGAGACAACT
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACAAATATGTATTCTTTGGAACAGGTGTGAGGTCTGTTGAGACACATAA
TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:1282274 original size:23 final size:23
Alignment explanation
Indices: 1282248--1282308 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
1282238 TATGGAACTT
*
1282248 CGGTGCATTTCTATGCGGCACTA
1 CGGTGCATTTCTACGCGGCACTA
* * *
1282271 CGGTGCAATTCTACGTGGCACTT
1 CGGTGCATTTCTACGCGGCACTA
*
1282294 CGGTGCATTTATACG
1 CGGTGCATTTCTACG
1282309 AGCTGTGGTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (23 bp):
CGGTGCATTTCTACGCGGCACTA
Found at i:1295273 original size:15 final size:15
Alignment explanation
Indices: 1295253--1295282 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1295243 AATTACGATT
*
1295253 TTCCATTGAAATATC
1 TTCCATTAAAATATC
1295268 TTCCATTAAAATATC
1 TTCCATTAAAATATC
1295283 CCATTGTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.40
Consensus pattern (15 bp):
TTCCATTAAAATATC
Found at i:1296688 original size:18 final size:18
Alignment explanation
Indices: 1296662--1296705 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
1296652 GTGAAGTATG
*
1296662 AATGGTGTTGTCGTGGAA
1 AATGTTGTTGTCGTGGAA
*
1296680 AATGTTGTTGTCGTGGTA
1 AATGTTGTTGTCGTGGAA
*
1296698 AGTGTTGT
1 AATGTTGT
1296706 AAGGTTAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.05, G:0.36, T:0.41
Consensus pattern (18 bp):
AATGTTGTTGTCGTGGAA
Found at i:1301540 original size:21 final size:21
Alignment explanation
Indices: 1301516--1301555 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1301506 GTTTGCAAAC
1301516 ATTACCCTCAATATCAATATT
1 ATTACCCTCAATATCAATATT
1301537 ATTACCCTCAATATCAATA
1 ATTACCCTCAATATCAATA
1301556 CCAAGGCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTACCCTCAATATCAATATT
Found at i:1324982 original size:54 final size:54
Alignment explanation
Indices: 1324866--1325277 Score: 519
Period size: 54 Copynumber: 7.7 Consensus size: 54
1324856 GTACTATTGG
* * * *
1324866 CACTATGTGTGCAACCCAC-AAATTCTTAATGAGTTTATGAATCACCGTATC-A
1 CACTATGTGTGCAACCCACGGAATTCATAATGAGTTTATGAATGACCATATCGA
* *
1324918 GCACTATGTGTGCAACCCACGGAATTCATAGTGAGTTTATAAATGACCATATCGA
1 -CACTATGTGTGCAACCCACGGAATTCATAATGAGTTTATGAATGACCATATCGA
* * ** *
1324973 CACTCTGTGTGAAACCCACATAATTCATAATGAGTTTATGAATGACCATATCAA
1 CACTATGTGTGCAACCCACGGAATTCATAATGAGTTTATGAATGACCATATCGA
* ** *
1325027 CACTATGTGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACTGTATCAA
1 CACTATGTGTGCAACCCACGGAATTCATAATGAGTTTATGAATGACCATATCGA
* * * * * *
1325081 CACTATGTGTGCAACTCACTGAATTCATAAAGAATTTATGAATGACAATATCGG
1 CACTATGTGTGCAACCCACGGAATTCATAATGAGTTTATGAATGACCATATCGA
* * ** *
1325135 TAGTATGTGTGCAACCCACAAAATTCATAATGAGTTTATGAATGACCATATCGG
1 CACTATGTGTGCAACCCACGGAATTCATAATGAGTTTATGAATGACCATATCGA
*
1325189 CACTATGTGTGCAACCCACGGAATTTATAATGAGTTTATGAATGACCATATCGA
1 CACTATGTGTGCAACCCACGGAATTCATAATGAGTTTATGAATGACCATATCGA
1325243 CACTATG-G-GCACACCCACGGAAATT-ATAATGAGTT
1 CACTATGTGTGCA-ACCCACGG-AATTCATAATGAGTT
1325278 ATAATATTTA
Statistics
Matches: 313, Mismatches: 42, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
52 3 0.01
53 38 0.12
54 271 0.87
55 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (54 bp):
CACTATGTGTGCAACCCACGGAATTCATAATGAGTTTATGAATGACCATATCGA
Found at i:1331861 original size:54 final size:54
Alignment explanation
Indices: 1331776--1332140 Score: 493
Period size: 54 Copynumber: 6.8 Consensus size: 54
1331766 CTATGTGTAC
* * *
1331776 TATCGGCATTATGTGTGCAACCCACAAAATTCATAATGAGTTTATGAATGACCA
1 TATCGGCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACCG
* * * *
1331830 TATCGGCACTATGTGTGCAGCCCACGGAATTCATAATGAGTTTATGAATTACTG
1 TATCGGCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACCG
* * * *
1331884 TATAGGCGCTATTTGTACAACCCACGAAATTCATAATGAGTTTATGAATGACCG
1 TATCGGCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACCG
*
1331938 TATCGGCACTATGTGTGCAACCCAC-AGAATTCATAATGAGTTTATGATTGACCG
1 TATCGGCACTATGTGTGCAACCCACGA-AATTCATAATGAGTTTATGAATGACCG
** * * *
1331992 TATCGGCACTATGTGTGCAACCCGTGGAATTCATAACGAGTTTATGAATGATCG
1 TATCGGCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACCG
* * * *
1332046 TATCGGCACTATGTGTGTAACCCAAGAAATTCATAATAAGTTTATGAATTACCG
1 TATCGGCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACCG
*
1332100 TATCGGCACTAT-TAGTGCAATCCACGAAATT-ATAATGAGTT
1 TATCGGCACTATGT-GTGCAACCCACGAAATTCATAATGAGTT
1332141 GTAATATTTA
Statistics
Matches: 270, Mismatches: 38, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
53 11 0.04
54 259 0.96
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (54 bp):
TATCGGCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACCG
Found at i:1334837 original size:20 final size:21
Alignment explanation
Indices: 1334809--1334854 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
1334799 AAATTCCATA
*
1334809 AAAAGGTCATATTTT-TATTT
1 AAAAGGTCAAATTTTGTATTT
*
1334829 AAAATGTCAAATTTTGGTATTT
1 AAAAGGTCAAATTTT-GTATTT
1334851 AAAA
1 AAAA
1334855 ATAGAGTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
22 9 0.41
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.43
Consensus pattern (21 bp):
AAAAGGTCAAATTTTGTATTT
Found at i:1335212 original size:13 final size:13
Alignment explanation
Indices: 1335194--1335222 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1335184 GACTTAAAAG
1335194 TATAAAAGTATAT
1 TATAAAAGTATAT
1335207 TATAAAAGTATAT
1 TATAAAAGTATAT
1335220 TAT
1 TAT
1335223 GATATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (13 bp):
TATAAAAGTATAT
Found at i:1342381 original size:9 final size:9
Alignment explanation
Indices: 1342367--1342411 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
1342357 TTCTTTTCTA
1342367 TTATTTTTT
1 TTATTTTTT
*
1342376 TTATTTCTT
1 TTATTTTTT
1342385 TTA--TTTT
1 TTATTTTTT
*
1342392 TTATTTTAT
1 TTATTTTTT
1342401 TTATTTTTT
1 TTATTTTTT
1342410 TT
1 TT
1342412 CAAAATTTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 6 0.20
9 24 0.80
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.84
Consensus pattern (9 bp):
TTATTTTTT
Found at i:1342393 original size:16 final size:16
Alignment explanation
Indices: 1342372--1342409 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1342362 TTCTATTATT
1342372 TTTTTTATTTCT-TTTA
1 TTTTTTATTT-TATTTA
1342388 TTTTTTATTTTATTTA
1 TTTTTTATTTTATTTA
1342404 TTTTTT
1 TTTTTT
1342410 TTCAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTATTTTATTTA
Found at i:1342398 original size:21 final size:20
Alignment explanation
Indices: 1342365--1342411 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
1342355 AATTCTTTTC
*
1342365 TATTATTTTTTTTATTTCTTT
1 TATT-TTTTTTTTATTTATTT
1342386 TATTTTTTATTTTATTTATTT
1 TATTTTTT-TTTTATTTATTT
1342407 T-TTTT
1 TATTTT
1342412 CAAAATTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (20 bp):
TATTTTTTTTTTATTTATTT
Found at i:1345230 original size:65 final size:64
Alignment explanation
Indices: 1345073--1345253 Score: 199
Period size: 65 Copynumber: 2.8 Consensus size: 64
1345063 ACCGTTGTAC
* * *
1345073 CCTTAGTGCATCGGTGCACT--AAGAGTGCAACGATGCATCAAGTGCATTCGATGTTTTAAAATA
1 CCTTAGTGCATCGGTGCA-TGGTA-AGTGCATCGATGCATCAAATGCATTCGATGTTTTAAAATA
1345136 T
64 T
** * * * *
1345137 CCAGAGTGCATCGATGCATGGCT-GGTGCATCGATGCATCAAATTCATTTGATGTTTTCATAAA-
1 CCTTAGTGCATCGGTGCATGG-TAAGTGCATCGATGCATCAAATGCATTCGATGTTTT-A-AAAT
1345200 AT
63 AT
*
1345202 CCTTAGTGCATCGGTGCATGGTAAGTGCATCGATGCATGAAATGCATTCGAT
1 CCTTAGTGCATCGGTGCATGGTAAGTGCATCGATGCATCAAATGCATTCGAT
1345254 ATTCAATTTA
Statistics
Matches: 95, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
63 1 0.01
64 45 0.47
65 46 0.48
66 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (64 bp):
CCTTAGTGCATCGGTGCATGGTAAGTGCATCGATGCATCAAATGCATTCGATGTTTTAAAATAT
Found at i:1349675 original size:36 final size:36
Alignment explanation
Indices: 1349623--1349723 Score: 107
Period size: 36 Copynumber: 2.8 Consensus size: 36
1349613 GATTTGTTTC
* ** *
1349623 CACTACTCTTCCGTGAAGATAT-AATTTTCTTTACTT
1 CACTACTCTTCTGTGAAGAT-TGAATTTGATTGACTT
* *
1349659 CACTACTCTTCTGTGAAGGTTGGATTTGATTGACTT
1 CACTACTCTTCTGTGAAGATTGAATTTGATTGACTT
*
1349695 CAATACTCTTCTGTGAATG-TTGAATTTGA
1 CACTACTCTTCTGTGAA-GATTGAATTTGA
1349724 ATTATTTGAG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
35 1 0.02
36 53 0.96
37 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.43
Consensus pattern (36 bp):
CACTACTCTTCTGTGAAGATTGAATTTGATTGACTT
Found at i:1349987 original size:20 final size:20
Alignment explanation
Indices: 1349959--1350138 Score: 121
Period size: 20 Copynumber: 8.9 Consensus size: 20
1349949 ACCCAGGGGA
* * *
1349959 TTTACAAATTACCTGGAGGT
1 TTTACAAATGACCCGAAGGT
*
1349979 TTTATAAATGACCCGAAGGT
1 TTTACAAATGACCCGAAGGT
* *
1349999 TTTACAAATGACCCTAAGGA
1 TTTACAAATGACCCGAAGGT
* ** * * *
1350019 CTTATCATCTTG-CTCGAAAGA
1 TTTA-CA-AATGACCCGAAGGT
* * ** *
1350040 TTAACAGATGACCTTAAGGA
1 TTTACAAATGACCCGAAGGT
*
1350060 TTTACAAATTACCC-AGAGGT
1 TTTACAAATGACCCGA-AGGT
1350080 TTTACAAATGACCCGAAGGT
1 TTTACAAATGACCCGAAGGT
* *
1350100 TTTACGAATGACCTGAAGGT
1 TTTACAAATGACCCGAAGGT
* *
1350120 TTTATAAATGACCCTAAGG
1 TTTACAAATGACCCGAAGG
1350139 ACTTATCATC
Statistics
Matches: 122, Mismatches: 33, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
19 3 0.02
20 106 0.87
21 11 0.09
22 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (20 bp):
TTTACAAATGACCCGAAGGT
Found at i:1350148 original size:121 final size:121
Alignment explanation
Indices: 1349949--1350184 Score: 355
Period size: 121 Copynumber: 2.0 Consensus size: 121
1349939 CTGACATATG
* * * * *
1349949 ACCCAGGGGATTTACAAATTACCTGGAGGTTTTATAAATGACCCGAAGGTTTTACAAATGACCCT
1 ACCCAGAGGATTTACAAATGACCCGAAGGTTTTACAAATGACCCGAAGGTTTTACAAATGACCCT
* *
1350014 AAGGACTTATCATCTTGCTCGAAAGATTAACAGATGACCTTAAGGATTTACAAATT
66 AAGGACTTATCATCTTGCTCGAAAGACTAACAGATGACCCTAAGGATTTACAAATT
* * * *
1350070 ACCCAGAGGTTTTACAAATGACCCGAAGGTTTTACGAATGACCTGAAGGTTTTATAAATGACCCT
1 ACCCAGAGGATTTACAAATGACCCGAAGGTTTTACAAATGACCCGAAGGTTTTACAAATGACCCT
* *
1350135 AAGGACTTATCATCTTGCTTGAAAGACTGACAGATGACCCTAAGGATTTA
66 AAGGACTTATCATCTTGCTCGAAAGACTAACAGATGACCCTAAGGATTTA
1350185 AACATCATGC
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
121 102 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (121 bp):
ACCCAGAGGATTTACAAATGACCCGAAGGTTTTACAAATGACCCGAAGGTTTTACAAATGACCCT
AAGGACTTATCATCTTGCTCGAAAGACTAACAGATGACCCTAAGGATTTACAAATT
Found at i:1350212 original size:42 final size:42
Alignment explanation
Indices: 1350127--1350226 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
1350117 GGTTTTATAA
* * * *
1350127 ATGACCCTAAGGACTT-ATCATCTTGCTTGAAAGACTGACAG
1 ATGACCCTAAGGATTTAAACATCATGCTCGAAAGACTGACAG
*
1350168 ATGACCCTAAGGATTTAAACATCATGCTCGAAAGACTGATAG
1 ATGACCCTAAGGATTTAAACATCATGCTCGAAAGACTGACAG
* *
1350210 ATGAACCGAAGGATTTA
1 ATGACCCTAAGGATTTA
1350227 CAAATTTGTG
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 15 0.29
42 36 0.71
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (42 bp):
ATGACCCTAAGGATTTAAACATCATGCTCGAAAGACTGACAG
Found at i:1357863 original size:22 final size:22
Alignment explanation
Indices: 1357824--1357925 Score: 115
Period size: 21 Copynumber: 4.8 Consensus size: 22
1357814 ATACGGCAGA
1357824 GGGAATCGATA-CCCCTTGAAG
1 GGGAATCGATACCCCCTTGAAG
1357845 GGGAATCGATACCCCCTTGAA-
1 GGGAATCGATACCCCCTTGAAG
* *
1357866 GGGAACCGATTCCCCCTTTGAAG
1 GGGAATCGATACCCCC-TTGAAG
* *
1357889 GGGAACCGATTACCCCC---CAG
1 GGGAATCGA-TACCCCCTTGAAG
1357909 GGGAATCGATACCCCCT
1 GGGAATCGATACCCCCT
1357926 GAGGGTTCTG
Statistics
Matches: 71, Mismatches: 5, Indels: 11
0.82 0.06 0.13
Matches are distributed among these distances:
19 7 0.10
20 10 0.14
21 25 0.35
22 14 0.20
23 9 0.13
24 6 0.08
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.18
Consensus pattern (22 bp):
GGGAATCGATACCCCCTTGAAG
Found at i:1357913 original size:43 final size:43
Alignment explanation
Indices: 1357823--1357925 Score: 113
Period size: 43 Copynumber: 2.4 Consensus size: 43
1357813 TATACGGCAG
* * *
1357823 AGGGAATCGATA-CCCC-TTGAAGGGGAATCGATACCCCCTTGA
1 AGGGAACCGATACCCCCTTTGAAGGGGAACCGATACCCCC-TCA
*
1357865 AGGGAACCGATTCCCCCTTTGAAGGGGAACCGATTACCCCC-CA
1 AGGGAACCGATACCCCCTTTGAAGGGGAACCGA-TACCCCCTCA
* *
1357908 GGGGAATCGATACCCCCT
1 AGGGAACCGATACCCCCT
1357926 GAGGGTTCTG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 10 0.20
43 20 0.39
44 14 0.27
45 7 0.14
ACGTcount: A:0.26, C:0.31, G:0.25, T:0.17
Consensus pattern (43 bp):
AGGGAACCGATACCCCCTTTGAAGGGGAACCGATACCCCCTCA
Found at i:1357923 original size:19 final size:20
Alignment explanation
Indices: 1357887--1357924 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1357877 CCCCCTTTGA
1357887 AGGGGAACCGATTACCCCCC
1 AGGGGAACCGATTACCCCCC
*
1357907 AGGGGAATCGA-TACCCCC
1 AGGGGAACCGATTACCCCC
1357925 TGAGGGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.26, C:0.37, G:0.26, T:0.11
Consensus pattern (20 bp):
AGGGGAACCGATTACCCCCC
Found at i:1363490 original size:11 final size:11
Alignment explanation
Indices: 1363474--1363498 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1363464 CTTTCACTTC
1363474 TTTATTTCTCA
1 TTTATTTCTCA
1363485 TTTATTTCTCA
1 TTTATTTCTCA
1363496 TTT
1 TTT
1363499 TTTAGTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATTTCTCA
Found at i:1368288 original size:21 final size:23
Alignment explanation
Indices: 1368240--1368290 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
1368230 ATTCCCCTAT
1368240 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTTCCCCTTCAA
*
1368263 AGGGGGAATCGGTT-CCC-TCAA
1 GGGGGGAATCGGTTCCCCTTCAA
1368284 GGGGGGA
1 GGGGGGA
1368291 TCAATTCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 10 0.38
22 3 0.12
23 13 0.50
ACGTcount: A:0.20, C:0.22, G:0.41, T:0.18
Consensus pattern (23 bp):
GGGGGGAATCGGTTCCCCTTCAA
Found at i:1379314 original size:201 final size:201
Alignment explanation
Indices: 1378952--1379460 Score: 632
Period size: 201 Copynumber: 2.5 Consensus size: 201
1378942 TATCCCAGCC
* * * *
1378952 ATTTACAACATAGCTCAAGGAGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTTCGATTCCAT
1 ATTTACAGCATAGCTCAAGGTGAGAAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATTCCA-
* * * *
1379017 TTCAACTT-GA-TGACATATCAACCGCATGGTAGCAGCGAGGAACTACTTTTCGGTTGAAGTTTA
65 TTC-AGTTCGAGGGA-ATATCAACCACATGGTAGCAGCGAGGAACTACTTTCCGGTTGAAGTTTA
* * * * *
1379080 AACCGAGGTCTTTAAGTCAAGAAGAAGACCTGGGTTGGATGTGATTTAGCAATAAGGAACTATAA
128 AACCAAGGTCTTTAAGCCAAGAAGAAAACCTGGGTTGGATGCGATTTAGCAACAAGGAACTATAA
* **
1379145 CTCA-TTCTT
193 CACAGTT-AA
* * * ** *
1379154 ATTTATAGCATAGCTTAAGGTGAGAAGGGATATCCGTCAACAAAAAATTTTGAGTTCGATTCCAT
1 ATTTACAGCATAGCTCAAGGTGAGAAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATTCCAT
** * * *
1379219 TCAGTTCGAGGGTGTATCAACCACATGGTCGCAGCGAGGAACTACTTTCCGGTTGAATTTTAAAG
66 TCAGTTCGAGGGAATATCAACCACATGGTAGCAGCGAGGAACTACTTTCCGGTTGAAGTTTAAAC
* *
1379284 CAAGGTCTTTAAGCCAGGAAGAAAACCTGGGTTGGATGCGATTTAGCAACAAGGAACTATATCAC
131 CAAGGTCTTTAAGCCAAGAAGAAAACCTGGGTTGGATGCGATTTAGCAACAAGGAACTATAACAC
1379349 AGTTAA
196 AGTTAA
*
1379355 ATTTACAGCATAGCTCAAGGT-AGAA-GGACTATCTGTCAACAAAAACCTTCGAGTTTGATTCCA
1 ATTTACAGCATAGCTCAAGGTGAGAAGGGA-TATCTGTCAACAAAAACCTTCGAGTTCGATTCCA
* * * *
1379418 TTCCGCTCGAGGGAATATCAACCACCTGGTAGCAGTGAGGAAC
65 TTCAGTTCGAGGGAATATCAACCACATGGTAGCAGCGAGGAAC
1379461 AGTTTCCCGT
Statistics
Matches: 260, Mismatches: 43, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
199 3 0.01
200 72 0.28
201 128 0.49
202 57 0.22
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (201 bp):
ATTTACAGCATAGCTCAAGGTGAGAAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATTCCAT
TCAGTTCGAGGGAATATCAACCACATGGTAGCAGCGAGGAACTACTTTCCGGTTGAAGTTTAAAC
CAAGGTCTTTAAGCCAAGAAGAAAACCTGGGTTGGATGCGATTTAGCAACAAGGAACTATAACAC
AGTTAA
Found at i:1381030 original size:27 final size:27
Alignment explanation
Indices: 1381000--1381052 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
1380990 CGACATTCTT
1381000 TTTTATTATGTTT-TTTCA-TTTCTTTTA
1 TTTTATTAT-TTTATTT-ATTTTCTTTTA
*
1381027 TTTTTTTATTTTATTTATTTTCTTTT
1 TTTTATTATTTTATTTATTTTCTTTT
1381053 TTAAATTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (27 bp):
TTTTATTATTTTATTTATTTTCTTTTA
Found at i:1381032 original size:17 final size:17
Alignment explanation
Indices: 1381000--1381047 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
1380990 CGACATTCTT
*
1381000 TTTTATTATGTTTTTTCA
1 TTTTATT-TATTTTTTCA
*
1381018 TTTCT-TTTATTTTTTTA
1 TTT-TATTTATTTTTTCA
1381035 TTTTATTTATTTT
1 TTTTATTTATTTT
1381048 CTTTTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 1 0.04
17 19 0.73
18 5 0.19
19 1 0.04
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTATTTATTTTTTCA
Found at i:1381043 original size:9 final size:8
Alignment explanation
Indices: 1380999--1381047 Score: 53
Period size: 9 Copynumber: 5.5 Consensus size: 8
1380989 CCGACATTCT
1380999 TTTTTATTA
1 TTTTT-TTA
1381008 TGTTTTTTCA
1 T-TTTTTT-A
1381018 TTTCTTTTA
1 TTT-TTTTA
1381027 TTTTTTTA
1 TTTTTTTA
1381035 TTTTATTTA
1 TTTT-TTTA
1381044 TTTT
1 TTTT
1381048 CTTTTTTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
8 9 0.25
9 17 0.47
10 10 0.28
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTTTTTA
Found at i:1381061 original size:22 final size:22
Alignment explanation
Indices: 1381017--1381061 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1381007 ATGTTTTTTC
* * *
1381017 ATTTCTTTTATTTTTTTATTTT
1 ATTTATTTTATTTTTTAAATTT
*
1381039 ATTTATTTTCTTTTTTAAATTT
1 ATTTATTTTATTTTTTAAATTT
1381061 A
1 A
1381062 GCTAACTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (22 bp):
ATTTATTTTATTTTTTAAATTT
Found at i:1381094 original size:50 final size:46
Alignment explanation
Indices: 1381029--1381192 Score: 168
Period size: 50 Copynumber: 3.4 Consensus size: 46
1381019 TTCTTTTATT
*
1381029 TTTTTATTTTATTTATTTTCTTTTTTAAATTTAGCTAACTTTTTTTGGG
1 TTTTTATTTTATTTATTTTCTTTTTT-AATTTAGCT-A-TTTTTTAGGG
* * * **
1381078 TTTTTACTTTTTTTTATTTTCCTTTTTAATATTAGCCATTTTTGGGGGG
1 TTTTTA-TTTTATTTATTTTCTTTTTTAAT-TTAGCTATTTTT-TAGGG
**
1381127 CTTTTTTATTTTATTTATTACCTTTTTTAATTTAGCTATTTTTTAGGG
1 --TTTTTATTTTATTTATTTTCTTTTTTAATTTAGCTATTTTTTAGGG
*
1381175 TTTTTATATT-TTTATTTT
1 TTTTTATTTTATTTATTTT
1381193 ATTTCATTCC
Statistics
Matches: 95, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
45 6 0.06
46 9 0.09
48 8 0.08
49 24 0.25
50 42 0.44
51 6 0.06
ACGTcount: A:0.17, C:0.07, G:0.09, T:0.66
Consensus pattern (46 bp):
TTTTTATTTTATTTATTTTCTTTTTTAATTTAGCTATTTTTTAGGG
Found at i:1381166 original size:21 final size:21
Alignment explanation
Indices: 1381127--1381166 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1381117 TTTTGGGGGG
* **
1381127 CTTTTTTATTTTATTTATTAC
1 CTTTTTTAATTTAGCTATTAC
1381148 CTTTTTTAATTTAGCTATT
1 CTTTTTTAATTTAGCTATT
1381167 TTTTAGGGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.10, G:0.03, T:0.68
Consensus pattern (21 bp):
CTTTTTTAATTTAGCTATTAC
Found at i:1381195 original size:50 final size:47
Alignment explanation
Indices: 1381027--1381191 Score: 140
Period size: 49 Copynumber: 3.3 Consensus size: 47
1381017 ATTTCTTTTA
* * *
1381027 TTTTTTTATTTTATTTATTTTCTTTTTTAAATTTAGCTAACTTTTTTTGGG
1 TTTTTATATTTTATTTA-TTCCTTTTTT-AATTTAGCT-A-TTTTTTAGGG
* **
1381078 TTTTTACT-TTTT-TTTATTTTCC-TTTTTAATATTAGCCATTTTTGGGGGG
1 TTTTTA-TATTTTATTTA--TTCCTTTTTTAAT-TTAGCTATTTTT-TAGGG
1381127 CTTTTT-TATTTTATTTATTACCTTTTTTAATTTAGCTATTTTTTAGGG
1 -TTTTTATATTTTATTTATT-CCTTTTTTAATTTAGCTATTTTTTAGGG
1381175 TTTTTATATTTTTATTT
1 TTTTTATA-TTTTATTT
1381192 TATTTCATTC
Statistics
Matches: 95, Mismatches: 8, Indels: 24
0.75 0.06 0.19
Matches are distributed among these distances:
47 5 0.05
48 13 0.14
49 32 0.34
50 31 0.33
51 13 0.14
52 1 0.01
ACGTcount: A:0.17, C:0.07, G:0.09, T:0.67
Consensus pattern (47 bp):
TTTTTATATTTTATTTATTCCTTTTTTAATTTAGCTATTTTTTAGGG
Found at i:1385270 original size:30 final size:32
Alignment explanation
Indices: 1385207--1385293 Score: 86
Period size: 32 Copynumber: 2.6 Consensus size: 32
1385197 ACAAAAGAAG
* * *
1385207 AACATTTCTAAAAATCTATATAATATATTTTTTACA
1 AACATTT-TCAAAAT-TATAT-ATATA-TTTTAAAA
*
1385243 AACATTTT-AATATTATATATATATTTTAAAA
1 AACATTTTCAAAATTATATATATATTTTAAAA
*
1385274 AATATTTTCAAAATTATATA
1 AACATTTTCAAAATTATATA
1385294 GTTTTCTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
31 13 0.29
32 15 0.33
33 5 0.11
34 4 0.09
35 1 0.02
36 7 0.16
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (32 bp):
AACATTTTCAAAATTATATATATATTTTAAAA
Found at i:1385392 original size:68 final size:70
Alignment explanation
Indices: 1385301--1385538 Score: 247
Period size: 68 Copynumber: 3.4 Consensus size: 70
1385291 ATAGTTTTCT
* *
1385301 AAAATGTTTTAAAAACTATATAATAT-AT-ATTTCAAAAAT-ATTTAAAAACTATATATTTTTAT
1 AAAACGTTTTAAAAACTATATAATATAATGATTTCAAAAATGTTTTAAAAACTATATATTTTTAT
1385363 TTTTA
66 TTTTA
* * * *
1385368 AAAACGTTTTAAAAAATTATATAATATAAATGTTTTC-AAAATGTTTTAAAAACTATAT-TATAT
1 AAAACGTTTT-AAAAACTATATAATAT-AATGATTTCAAAAATGTTTTAAAAACTATATATTTTT
*
1385431 A-TTTTC
64 ATTTTTA
* * *
1385437 AAAATGTTTT-TAAACTATATAATATACATGTTTTCAAAAATGTTTTAAAAACTATATATTATAT
1 AAAACGTTTTAAAAACTATATAATATA-ATGATTTCAAAAATGTTTTAAAAACTATATA-T-T-T
*
1385501 TTATTTTCA
62 TTATTTTTA
*
1385510 CAAACGTTTTAAAAAAACTATATAATATA
1 AAAACGTTTT--AAAAACTATATAATATA
1385539 TAAATGTTTT
Statistics
Matches: 139, Mismatches: 17, Indels: 21
0.79 0.10 0.12
Matches are distributed among these distances:
66 1 0.01
67 30 0.22
68 36 0.26
69 13 0.09
70 12 0.09
71 18 0.13
72 3 0.02
73 11 0.08
76 15 0.11
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (70 bp):
AAAACGTTTTAAAAACTATATAATATAATGATTTCAAAAATGTTTTAAAAACTATATATTTTTAT
TTTTA
Found at i:1385424 original size:104 final size:105
Alignment explanation
Indices: 1385294--1385540 Score: 286
Period size: 104 Copynumber: 2.3 Consensus size: 105
1385284 AAATTATATA
*
1385294 GTTTTCTAAAATGTTTTAAAAACTATATAATATATATTTCAAAAATATTTAAAAACTATAT-ATT
1 GTTTTC-AAAATGTTTTAAAAACTATATAATATATATTTC-AAAATATTTAAAAACTATATAATA
** *
1385358 TTTAT-TTTT-AAAAACGTTTTAAAAAATTATATAATATAAAT
64 TACATGTTTTCAAAAACGTTTT-AAAAACTATATAATATAAAT
* * **
1385399 GTTTTCAAAATGTTTTAAAAACTATATTATATAT-TTTCAAAATGTTTTTAAACTATATAATATA
1 GTTTTCAAAATGTTTTAAAAACTATATAATATATATTTCAAAATATTTAAAAACTATATAATATA
* * **
1385463 CATGTTTTCAAAAATGTTTTAAAAACTATATATTATATTT
66 CATGTTTTCAAAAACGTTTTAAAAACTATATAATATAAAT
* *
1385503 ATTTTCACAAACGTTTTAAAAAAACTATATAATATATA
1 GTTTTCA-AAATGTTTT--AAAAACTATATAATATATA
1385541 AATGTTTTCA
Statistics
Matches: 120, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
102 17 0.14
103 9 0.08
104 53 0.44
105 24 0.20
107 17 0.14
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (105 bp):
GTTTTCAAAATGTTTTAAAAACTATATAATATATATTTCAAAATATTTAAAAACTATATAATATA
CATGTTTTCAAAAACGTTTTAAAAACTATATAATATAAAT
Found at i:1386313 original size:80 final size:80
Alignment explanation
Indices: 1386217--1386975 Score: 827
Period size: 80 Copynumber: 9.2 Consensus size: 80
1386207 TTGAATATAA
** *
1386217 TCGAACTCAAAAGTCTTTAGTAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCT
1 TCGAACTCAAGGGTCTTTGGTAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCT
*
1386282 TGGAGCTGAACGTAG
66 TGGAGCTGAGCGTAG
* * * * * *
1386297 TCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCT
1 TCGAACTCAAGGGTCTTTGGTAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCT
1386362 TGGAGCTGAGCGTAG
66 TGGAGCTGAGCGTAG
* * * * * *
1386377 TCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG
1 TCGAACTCAAGGGTCTTTGGT---AGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTG
* * *
1386442 CCCTTGAAGCTGAGTGTAA
63 -CCTTGGAGCTGAGCGTAG
* * *
1386461 TCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGT
1 TCGAACTCAAGGGTC--T--TTGGTAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGT
* *
1386526 GCCTTCGAAGCTGAACGTAG
62 GCCTT-GGAGCTGAGCGTAG
* * * * * *
1386546 TCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCT
1 TCGAACTCAAGGGTCTTTGGTAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCT
1386611 TGGAGCTGAGCGTAG
66 TGGAGCTGAGCGTAG
* * * * * *
1386626 TCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG
1 TCGAACTCAAGGGTCTTTGGT---AGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTG
* * *
1386691 CCCTTGAAGCTGAGTGTAA
63 -CCTTGGAGCTGAGCGTAG
* * *
1386710 TCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCAAGGGTC--T--TTGGTAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGT
1386775 GCCTTGGAGCTGAGCGTAG
62 GCCTTGGAGCTGAGCGTAG
* * *
1386794 TCGAACTCAAAGGTCTTTTGTTAGCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGT
1 TCGAACTCAAGGGTC-TTTG---GTAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGT
** *
1386859 GCCTTCAAAGCTGAACGTAG
62 GCCTT-GGAGCTGAGCGTAG
* * * * *
1386879 TCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTGCCT
1 TCGAACTCAAGGGTCTTTGGTAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCT
1386944 TGGAGCTGAGCGTAG
66 TGGAGCTGAGCGTAG
1386959 TCGAACTCGAA-GGTCTT
1 TCGAACTC-AAGGGTCTT
1386976 GGTGGGCAGA
Statistics
Matches: 572, Mismatches: 85, Indels: 44
0.82 0.12 0.06
Matches are distributed among these distances:
80 143 0.25
81 94 0.16
83 69 0.12
84 137 0.24
85 119 0.21
86 2 0.00
88 8 0.01
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (80 bp):
TCGAACTCAAGGGTCTTTGGTAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCT
TGGAGCTGAGCGTAG
Found at i:1386577 original size:249 final size:247
Alignment explanation
Indices: 1386152--1386995 Score: 1141
Period size: 249 Copynumber: 3.4 Consensus size: 247
1386142 ACAATTTTAT
* * * * * * *
1386152 TGACAGATAACCCTTCTTGCCTTGAGCTATTCTGTAAGCTTGATTTGCCTCT-AAGTTGAATATA
1 TGACAGATAACCCTTCTAGCCTTGAGCTATGCTGTAA--ATGATATGCCT-TGAAGCTGAGTGTA
* **
1386216 ATCGAACTCAAAAGTCTTTAG-T---AGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATG
63 ATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATG
1386277 TGCCTTGGAGCTGAACGTAGTCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
128 TGCCTTGGAGCTGAACGTAGTCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
1386342 ATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG
193 ATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG
*
1386397 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAATGATATG-CCTTGAAGCTGAGTGTAAT
*
1386462 CGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTG
65 CGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTG
*
1386527 CCTTCGAAGCTGAACGTAGTCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
130 CCTT-GGAGCTGAACGTAGTCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
1386592 TTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG
194 TTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG
*
1386646 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAATGATATG-CCTTGAAGCTGAGTGTAAT
*
1386711 CGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
65 CGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTG
* * * * *
1386776 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTAGCAGATAACCCTTCTTGACTTAAG
130 CCTTGGAGCTGAACGTAGTCGAACTCGAGGGTC-TTTG---GCAGATAGCCCTTCTCGACTTAAG
* * ** * * *
1386841 TTATACTGCAAATGATGTGCCTTCAAAGCTGAACGTAGTCGAACTCGAGGGTCTTT-G
191 CTATTCTGCAAATGATGTGCCTT-GGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG
* * * * * * * * * *
1386898 -G-CAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
1 TGACAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAATGATATGCCTTGAAGCTGAGTGTAATC
* * * *
1386961 GAACTCGAA-GGTC-TTGGTGGGCAGATAGCCCTTCT
66 GAACT-TAAGGGTCTTTAGTTGGCAGATAACCCTTCT
1386996 GGCCTTGAGC
Statistics
Matches: 543, Mismatches: 43, Indels: 23
0.89 0.07 0.04
Matches are distributed among these distances:
243 7 0.01
244 30 0.06
245 35 0.06
248 88 0.16
249 275 0.51
250 36 0.07
251 1 0.00
252 44 0.08
253 27 0.05
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (247 bp):
TGACAGATAACCCTTCTAGCCTTGAGCTATGCTGTAAATGATATGCCTTGAAGCTGAGTGTAATC
GAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGC
CTTGGAGCTGAACGTAGTCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATT
CTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG
Found at i:1386845 original size:333 final size:331
Alignment explanation
Indices: 1386229--1387017 Score: 1154
Period size: 333 Copynumber: 2.4 Consensus size: 331
1386219 GAACTCAAAA
* * * * * *
1386229 GTCTTTAGTAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAACG
1 GTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCG
* * * * * *
1386294 TAGTCGAACTCGAGGGTCTTT-G-GCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATG
66 TAGTCGAACTCGAAGGTCTTTGGTGCAGATAGCCCTTCTAGCCTTGAGCTATGCTGCAAATGATA
* * * *
1386357 TGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGA
131 TGCCTTGAAGCTGAGCGTAATCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAA
* * * * *
1386422 GTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCA
196 GTTATGCTGCAAATGATATGCCCTTGAAGCTGAGCGTAATCGAACTCAAAGGTCTTTAGTTAGCA
*
1386487 GATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAAC
261 GATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCAAAGCTGAACGTAGTCGAAC
1386552 TCGAGG
326 TCGAGG
*
1386558 GTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCG
1 GTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCG
* * * *
1386623 TAGTCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
66 TAGTCGAACTCGAAGGTCTTTGGTG-CAGATAGCCCTTCTAGCCTTGAGCTATGCTGCAAATGAT
* * * * * *
1386688 ATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTCGACT
130 ATG-CCTTGAAGCTGAGCGTAATCGAACTCAAAGGTCTTT-GGTGACAGATAACCCTTCTAGACT
* * * *
1386753 TAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTA
193 TAAGTTATGCTGCAAATGATATGCCCTTGAAGCTGAGCGTAATCGAACTCAAAGGTCTTTAGTTA
1386817 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCAAAGCTGAACGTAGTCG
258 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCAAAGCTGAACGTAGTCG
1386882 AACTCGAGG
323 AACTCGAGG
1386891 GTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCG
1 GTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCG
* *
1386956 TAGTCGAACTCGAAGGTC-TTGGTGGGCAGATAGCCCTTCTGGCCTTGAGCTAAGCTGCAAAT
66 TAGTCGAACTCGAAGGTCTTTGGT--GCAGATAGCCCTTCTAGCCTTGAGCTATGCTGCAAAT
1387018 AGTTTGTTTA
Statistics
Matches: 409, Mismatches: 44, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
329 77 0.19
330 1 0.00
331 1 0.00
332 39 0.10
333 250 0.61
334 41 0.10
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (331 bp):
GTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCG
TAGTCGAACTCGAAGGTCTTTGGTGCAGATAGCCCTTCTAGCCTTGAGCTATGCTGCAAATGATA
TGCCTTGAAGCTGAGCGTAATCGAACTCAAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAA
GTTATGCTGCAAATGATATGCCCTTGAAGCTGAGCGTAATCGAACTCAAAGGTCTTTAGTTAGCA
GATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCAAAGCTGAACGTAGTCGAAC
TCGAGG
Found at i:1393747 original size:37 final size:36
Alignment explanation
Indices: 1393653--1393929 Score: 266
Period size: 37 Copynumber: 7.7 Consensus size: 36
1393643 TTTTCAAAAT
*
1393653 TATAGTTTTCTAAAATGTTTTAAAAACTATATA-ATA
1 TATA-TTTTCAAAAATGTTTTAAAAACTATATATATA
*
1393689 TATA-TTTCAAAAATATTTTAAAAACTATATATTATA
1 TATATTTTCAAAAATGTTTTAAAAACTATATA-TATA
* * * *
1393725 TTTATTTTTAAAAACGTTTTAAAAAATATATATATA
1 TATATTTTCAAAAATGTTTTAAAAACTATATATATA
*
1393761 TAAATGTTTTC-AAAATGTTTTAAAAAC--TATATATA
1 T--ATATTTTCAAAAATGTTTTAAAAACTATATATATA
1393796 TATA-TTTC-AAAATGTTTT--AAACTATATAATATA
1 TATATTTTCAAAAATGTTTTAAAAACTATAT-ATATA
* *
1393829 CATGTTTTCAAAAATGTTTTAAAAACTATATATTATA
1 TATATTTTCAAAAATGTTTTAAAAACTATATA-TATA
* * *
1393866 TTTATTTTCACAAACGTTTTAAAAAACTATATAATATA
1 TATATTTTCAAAAATGTTTT-AAAAACTATAT-ATATA
* * * *
1393904 AATGTTTTCAAATATATTTTATAAAA
1 TATATTTTCAAAAATGTTTTA-AAAA
1393930 TCCATTTGCA
Statistics
Matches: 198, Mismatches: 27, Indels: 30
0.78 0.11 0.12
Matches are distributed among these distances:
30 4 0.02
32 17 0.09
33 9 0.05
34 29 0.15
35 19 0.10
36 16 0.08
37 66 0.33
38 37 0.19
39 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (36 bp):
TATATTTTCAAAAATGTTTTAAAAACTATATATATA
Found at i:1393766 original size:97 final size:96
Alignment explanation
Indices: 1393577--1393776 Score: 219
Period size: 97 Copynumber: 2.1 Consensus size: 96
1393567 GAACATTTTC
* * * * *
1393577 TAAAAATCTATATAATATATTTTTACAAACATTTTAATATTATATATTATATATTTTTAAAAAAT
1 TAAAAATCTATATAATATATTTTCAAAAACATTTTAAAACTATATATTATATATTTTTAAAAAAC
* * * *
1393642 ATTTTCAAAATTATAGTTTTCTAAAATGTTT
66 ATTTTAAAAAATATAGTTATATAAAATGTTT
*
1393673 TAAAAA-CTATATAATATATATTTCAAAAATATTTTAAAAACTATATATTATATTTATTTTT-AA
1 TAAAAATCTATATAATATAT-TTTCAAAAACATTTT-AAAACTATATATTATA--TATTTTTAAA
*
1393736 AAACGTTTTAAAAAATATA--TATATATAAATGTTT
62 AAACATTTTAAAAAATATAGTTATATA-AAATGTTT
*
1393770 TCAAAAT
1 TAAAAAT
1393777 GTTTTAAAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
95 13 0.15
96 22 0.26
97 27 0.31
98 17 0.20
99 7 0.08
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (96 bp):
TAAAAATCTATATAATATATTTTCAAAAACATTTTAAAACTATATATTATATATTTTTAAAAAAC
ATTTTAAAAAATATAGTTATATAAAATGTTT
Found at i:1393859 original size:141 final size:142
Alignment explanation
Indices: 1393659--1393929 Score: 417
Period size: 141 Copynumber: 1.9 Consensus size: 142
1393649 AAATTATAGT
1393659 TTTCTAAAATGTTTTAAAAACTATATAATATATATTTCAAAAATATTTTAAAAACTATATATTAT
1 TTTCTAAAATGTTTT-AAAACTATATAATATATATTTCAAAAATATTTTAAAAACTATATATTAT
* *
1393724 ATTTATTTTTAAAAACGTTTTAAAAAA-TATATATATATAAATGTTTTCAAA-ATGTTTTA-AAA
65 ATTTATTTTCAAAAACGTTTTAAAAAACTATATA-ATATAAATGTTTTCAAATATATTTTATAAA
1393786 ACTATATATATATA
129 ACTATATATATATA
* *
1393800 TTTC-AAAATGTTTT-AAACTATATAATATACATGTTTTCAAAAATGTTTTAAAAACTATATATT
1 TTTCTAAAATGTTTTAAAACTATATAATAT--AT-ATTTCAAAAATATTTTAAAAACTATATATT
*
1393863 ATATTTATTTTCACAAACGTTTTAAAAAACTATATAATATAAATGTTTTCAAATATATTTTATAA
63 ATATTTATTTTCAAAAACGTTTTAAAAAACTATATAATATAAATGTTTTCAAATATATTTTATAA
1393928 AA
128 AA
1393930 TCCATTTGCA
Statistics
Matches: 119, Mismatches: 5, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
138 14 0.12
140 12 0.10
141 76 0.64
142 13 0.11
143 4 0.03
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.44
Consensus pattern (142 bp):
TTTCTAAAATGTTTTAAAACTATATAATATATATTTCAAAAATATTTTAAAAACTATATATTATA
TTTATTTTCAAAAACGTTTTAAAAAACTATATAATATAAATGTTTTCAAATATATTTTATAAAAC
TATATATATATA
Found at i:1395778 original size:37 final size:37
Alignment explanation
Indices: 1395728--1395810 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 37
1395718 ATAGGGCGGA
* *
1395728 ACAAACGCCATTAATAAAGTTTGAGAAGATAAAAAAG
1 ACAAACGCCATTAACAAAGTTTGAGAAGACAAAAAAG
1395765 ACAAACGCCATTAACAAAGTTTGAGAAGACAAAAAAG
1 ACAAACGCCATTAACAAAGTTTGAGAAGACAAAAAAG
*
1395802 ATAAACGCC
1 ACAAACGCC
1395811 TGACCTAACA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.16
Consensus pattern (37 bp):
ACAAACGCCATTAACAAAGTTTGAGAAGACAAAAAAG
Found at i:1396308 original size:29 final size:29
Alignment explanation
Indices: 1396262--1396337 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
1396252 CGCCATAGGA
* ***
1396262 CGCCATGCAATCCAGGCGACCTTGGAGGT
1 CGCCATGCAATCCGGGCGACCTCCAAGGT
1396291 CGCCATGCAATCCGGGCGACCTCCAAGGT
1 CGCCATGCAATCCGGGCGACCTCCAAGGT
1396320 CGCCATGGC-ATCCGGGCG
1 CGCCAT-GCAATCCGGGCG
1396338 CCCTGTGTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 40 0.95
30 2 0.05
ACGTcount: A:0.18, C:0.36, G:0.32, T:0.14
Consensus pattern (29 bp):
CGCCATGCAATCCGGGCGACCTCCAAGGT
Found at i:1396454 original size:45 final size:45
Alignment explanation
Indices: 1396404--1396493 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
1396394 TGGGGGAGGG
1396404 GATGCATGTTGTGCATGGGACGTGGGAACTGTGCATGGCCATGCA
1 GATGCATGTTGTGCATGGGACGTGGGAACTGTGCATGGCCATGCA
1396449 GATGCATGTTGTGCATGGGACGTGGGAACTGTGCATGGCCATGCA
1 GATGCATGTTGTGCATGGGACGTGGGAACTGTGCATGGCCATGCA
1396494 CGTCGAACGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.20, C:0.18, G:0.38, T:0.24
Consensus pattern (45 bp):
GATGCATGTTGTGCATGGGACGTGGGAACTGTGCATGGCCATGCA
Found at i:1396998 original size:21 final size:21
Alignment explanation
Indices: 1396973--1397016 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1396963 AATCTAGTTA
1396973 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
1396994 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
1397015 AT
1 AT
1397017 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:1397041 original size:27 final size:28
Alignment explanation
Indices: 1396993--1397045 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
1396983 TAGTATAAAT
*
1396993 TATTAGTTTGTTAGTTTAAGTTATATTA
1 TATTAGTTTATTAGTTTAAGTTATATTA
1397021 TATTAG-TTATTAGTTTAAGTTATAT
1 TATTAGTTTATTAGTTTAAGTTATAT
1397046 ATTATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (28 bp):
TATTAGTTTATTAGTTTAAGTTATATTA
Found at i:1397088 original size:46 final size:41
Alignment explanation
Indices: 1397015--1397121 Score: 126
Period size: 46 Copynumber: 2.5 Consensus size: 41
1397005 AGTTTAAGTT
1397015 ATATTATATTAG-TTATTAGTTTAAGTTATATATTATATATAAAAA
1 ATATTA-ATTAGTTTATTAGTTTAAGTTAT-TA--A-ATATAAAAA
*
1397060 ATAGTTAATTAGTTTCTTAGTTTAAGTTATTAAATATAAAAA
1 ATA-TTAATTAGTTTATTAGTTTAAGTTATTAAATATAAAAA
* *
1397102 ATATTAATTAATTTGTTAGT
1 ATATTAATTAGTTTATTAGT
1397122 GTCTTTAAAC
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
41 15 0.26
42 12 0.21
43 1 0.02
45 10 0.18
46 19 0.33
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (41 bp):
ATATTAATTAGTTTATTAGTTTAAGTTATTAAATATAAAAA
Found at i:1397121 original size:41 final size:45
Alignment explanation
Indices: 1397030--1397121 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 45
1397020 ATATTAGTTA
*
1397030 TTAGTTTAAGTTATATATTATATATAAAAAATAGTTAATTAGTTTC
1 TTAGTTTAAGTTATATA-TATATATAAAAAATAGTTAATTAATTTC
*
1397076 TTAGTTTAAGTTAT-TA-A-ATATAAAAAATA-TTAATTAATTTG
1 TTAGTTTAAGTTATATATATATATAAAAAATAGTTAATTAATTTC
1397117 TTAGT
1 TTAGT
1397122 GTCTTTAAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
41 15 0.34
42 12 0.27
43 1 0.02
45 2 0.05
46 14 0.32
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.48
Consensus pattern (45 bp):
TTAGTTTAAGTTATATATATATATAAAAAATAGTTAATTAATTTC
Found at i:1397565 original size:17 final size:16
Alignment explanation
Indices: 1397531--1397588 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
1397521 GATAATTTCC
1397531 GTTTAAAAAATATTGT
1 GTTTAAAAAATATTGT
*
1397547 GTTTAAAAATATTTAGTGTT
1 GTTTAAAAA-A--TATTG-T
* *
1397567 GTTTTAAAAATATTTT
1 GTTTAAAAAATATTGT
1397583 GTTTAA
1 GTTTAA
1397589 TTTAAATTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 15 0.45
17 4 0.12
19 5 0.15
20 9 0.27
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (16 bp):
GTTTAAAAAATATTGT
Found at i:1397592 original size:20 final size:21
Alignment explanation
Indices: 1397548--1397594 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1397538 AAATATTGTG
**
1397548 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
1397569 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
1397589 TTTAAA
1 TTTAAA
1397595 TTGTATGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:1400760 original size:11 final size:11
Alignment explanation
Indices: 1400725--1401013 Score: 86
Period size: 11 Copynumber: 23.9 Consensus size: 11
1400715 ATTTCTATGT
* *
1400725 ATTTATTAATC
1 ATTTAATAATG
*
1400736 ATTATAAAAATG
1 ATT-TAATAATG
1400748 ATTTAATAATG
1 ATTTAATAATG
1400759 ATTT-A-AAT-
1 ATTTAATAATG
1400767 ATTTAATGATTTGATG
1 ATTTAAT-A----ATG
*
1400783 ATTTAGTAATG
1 ATTTAATAATG
*
1400794 ATTGATAATAATC
1 ATT--TAATAATG
*
1400807 ATTATAGTAATG
1 ATT-TAATAATG
*
1400819 ATTGATAATAATC
1 ATT--TAATAATG
1400832 ATTATAATAATG
1 ATT-TAATAATG
*
1400844 ATTTAGTAATAATC
1 A-TT--TAATAATG
*
1400858 ATTATAAAAATG
1 ATT-TAATAATG
1400870 ATTTAATAATG
1 ATTTAATAATG
1400881 ATTT-A-AAT-
1 ATTTAATAATG
1400889 ATTTAATGATTGATG
1 ATTTAAT-A---ATG
*
1400904 ATTTAGTAATG
1 ATTTAATAATG
*
1400915 ATTTGATAATAATC
1 A-TT--TAATAATG
*
1400929 ATTATAATAACG
1 ATT-TAATAATG
*
1400941 ATTTTATAATAATT
1 A--TT-TAATAATG
* * *
1400955 ATTTAGTTATT
1 ATTTAATAATG
* *
1400966 ATTTAGTAATT
1 ATTTAATAATG
1400977 ATTTATAATAATG
1 A-TT-TAATAATG
1400990 ATTTAATACTAATG
1 ATTT-A-A-TAATG
1401004 ATTTAATAAT
1 ATTTAATAAT
1401014 TATTACTAAT
Statistics
Matches: 217, Mismatches: 30, Indels: 62
0.70 0.10 0.20
Matches are distributed among these distances:
8 8 0.04
9 8 0.04
10 2 0.01
11 59 0.27
12 54 0.25
13 34 0.16
14 37 0.17
15 9 0.04
16 6 0.03
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (11 bp):
ATTTAATAATG
Found at i:1400860 original size:26 final size:25
Alignment explanation
Indices: 1400789--1400953 Score: 144
Period size: 25 Copynumber: 6.7 Consensus size: 25
1400779 GATGATTTAG
*
1400789 TAATGATTGATAATAATCATTATAG
1 TAATGATTGATAATAATCATTATAA
1400814 TAATGATTGATAATAATCATTATAA
1 TAATGATTGATAATAATCATTATAA
*
1400839 TAATGATTTAGTAATAATCATTATAA
1 TAATGATTGA-TAATAATCATTATAA
* *
1400865 AAATGATT--TAATAATGATT-TAAA
1 TAATGATTGATAATAATCATTAT-AA
* * * * * *
1400888 TATTTAATGAT--TGATGATT-TAG
1 TAATGATTGATAATAATCATTATAA
1400910 TAATGATTTGATAATAATCATTATAA
1 TAATGA-TTGATAATAATCATTATAA
* *
1400936 TAACGATTTTATAATAAT
1 TAATGA-TTGATAATAAT
1400954 TATTTAGTTA
Statistics
Matches: 114, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
22 6 0.05
23 28 0.25
25 40 0.35
26 40 0.35
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (25 bp):
TAATGATTGATAATAATCATTATAA
Found at i:1400928 original size:122 final size:122
Alignment explanation
Indices: 1400731--1400997 Score: 407
Period size: 122 Copynumber: 2.2 Consensus size: 122
1400721 ATGTATTTAT
1400731 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
* *
1400796 TGATAATAATCATTATAGTAATGA-TTGATAATAATCATTATAATAATGATTTAGTAA
66 TGATAATAATCATTATAATAACGATTTGATAATAATCATT-TAATAATGATTTAGTAA
1400853 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGA-TTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGA-
* * * * *
1400917 TTGATAATAATCATTATAATAACGATTTTATAATAATTATTTAGTTATTATTTAGTAA
65 TTGATAATAATCATTATAATAACGATTTGATAATAATCATTTAATAATGATTTAGTAA
* *
1400975 TTAT--TTATAATAATGATTTAATA
1 TAATCATTATAAAAATGATTTAATA
1400998 CTAATGATTT
Statistics
Matches: 134, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
120 18 0.13
121 18 0.13
122 85 0.63
123 13 0.10
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (122 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TGATAATAATCATTATAATAACGATTTGATAATAATCATTTAATAATGATTTAGTAA
Found at i:1400982 original size:35 final size:37
Alignment explanation
Indices: 1400943--1401029 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 37
1400933 TAATAACGAT
* * *
1400943 TTTATAATAATTATTTAGT-T-ATTATTTAGTAATTA
1 TTTATAATAATTATTTAATATAATGATTTAATAATTA
*
1400978 TTTATAATAATGATTTAATACTAATGATTTAATAATTA
1 TTTATAATAATTATTTAATA-TAATGATTTAATAATTA
1401016 -TTACTAATAATTAT
1 TTTA-TAATAATTAT
1401030 AGAATACTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
35 17 0.40
37 4 0.09
38 22 0.51
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (37 bp):
TTTATAATAATTATTTAATATAATGATTTAATAATTA
Found at i:1401036 original size:38 final size:38
Alignment explanation
Indices: 1400966--1401039 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
1400956 TTTAGTTATT
* **
1400966 ATTTAGTAATTATTTATAATAATGATTTAATACTAATG
1 ATTTAATAATTATTTATAATAATGATAGAATACTAATG
*
1401004 ATTTAATAATTA-TTACTAATAATTATAGAATACTAA
1 ATTTAATAATTATTTA-TAATAATGATAGAATACTAA
1401040 CAAATGAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.10
38 28 0.90
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (38 bp):
ATTTAATAATTATTTATAATAATGATAGAATACTAATG
Found at i:1401155 original size:17 final size:17
Alignment explanation
Indices: 1401130--1401162 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1401120 ACTAAATATT
*
1401130 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
1401147 TAATGATTTGATACTA
1 TAATGATTTGATACTA
1401163 AAAATCATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:1402092 original size:23 final size:23
Alignment explanation
Indices: 1402066--1402113 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1402056 TAAAATTACA
*
1402066 AAAACAATAAAATTTATTTAAAT
1 AAAACAATAAAATTAATTTAAAT
* * *
1402089 AAAATAATATAGTTAATTTAAAT
1 AAAACAATAAAATTAATTTAAAT
1402112 AA
1 AA
1402114 TAATTAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
AAAACAATAAAATTAATTTAAAT
Found at i:1403345 original size:16 final size:16
Alignment explanation
Indices: 1403312--1403358 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1403302 ACACTAAACT
*
1403312 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
1403327 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
1403343 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
1403359 ACTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:1403462 original size:34 final size:33
Alignment explanation
Indices: 1403399--1403462 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
1403389 CTAAACCCTT
*
1403399 AAACAACTAATAAAATATTCTTTTATATAACTA
1 AAACAACTAATAAAATATTCTTTCATATAACTA
*
1403432 AAACTAACTAATAAACTATT-TTTCATTATAA
1 AAAC-AACTAATAAAATATTCTTTCA-TATAA
1403463 TATACTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 8 0.30
34 19 0.70
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (33 bp):
AAACAACTAATAAAATATTCTTTCATATAACTA
Found at i:1403612 original size:45 final size:48
Alignment explanation
Indices: 1403513--1403612 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 48
1403503 TCAACAAACA
*
1403513 AATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTT
1 AATATAACTTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTT
* *
1403561 TATATAAC-TAACTA-TTAAC-AAAACAAACTAATT-AATTATTTTTT
1 AATATAACTTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTT
1403605 AACTATAA
1 AA-TATAA
1403613 ACTATCAAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
44 11 0.23
45 18 0.38
46 5 0.11
47 6 0.13
48 7 0.15
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (48 bp):
AATATAACTTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTT
Found at i:1403836 original size:20 final size:21
Alignment explanation
Indices: 1403813--1403852 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1403803 TCTTCTTACT
1403813 TTCCTTTCT-CCTTTCTTTCC
1 TTCCTTTCTCCCTTTCTTTCC
1403833 TTCCTTTCTCCCTTTCTTTC
1 TTCCTTTCTCCCTTTCTTTC
1403853 TTTCTCGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (21 bp):
TTCCTTTCTCCCTTTCTTTCC
Found at i:1403911 original size:27 final size:23
Alignment explanation
Indices: 1403862--1403907 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1403852 CTTTCTCGGC
1403862 TGCAATCTCTTCTCCCTTTCTTT
1 TGCAATCTCTTCTCCCTTTCTTT
1403885 TGCAATCTCTTCTCCCTTTCTTT
1 TGCAATCTCTTCTCCCTTTCTTT
1403908 CTTTCTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.35, G:0.04, T:0.52
Consensus pattern (23 bp):
TGCAATCTCTTCTCCCTTTCTTT
Found at i:1404053 original size:27 final size:27
Alignment explanation
Indices: 1404018--1404070 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
1404008 GTACCAATAA
1404018 TCAAATGGTTCACATGCATGCATTGGC
1 TCAAATGGTTCACATGCATGCATTGGC
1404045 TCAAATGGTTCACATGCATGCATTGG
1 TCAAATGGTTCACATGCATGCATTGG
1404071 GAGCTGTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (27 bp):
TCAAATGGTTCACATGCATGCATTGGC
Found at i:1404177 original size:29 final size:29
Alignment explanation
Indices: 1404145--1404253 Score: 157
Period size: 29 Copynumber: 3.8 Consensus size: 29
1404135 ATGGGAATGG
*
1404145 CGCCGGGACCACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
*
1404174 CGCCGGGACTACATGGTGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
*
1404203 CGCCAGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
* *
1404232 CGCCTAGG-CTGCATGGCGACCT
1 CGCC-GGGACTACATGGCGACCT
1404254 CTCTATTCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
29 71 0.96
30 3 0.04
ACGTcount: A:0.23, C:0.32, G:0.30, T:0.15
Consensus pattern (29 bp):
CGCCGGGACTACATGGCGACCTACAAGGT
Found at i:1404334 original size:70 final size:70
Alignment explanation
Indices: 1404252--1404394 Score: 286
Period size: 70 Copynumber: 2.0 Consensus size: 70
1404242 GCATGGCGAC
1404252 CTCTCTATTCCTGCATGCTCCCCATTGGCTCGTATGGCTCGTATATGGCTCGTTGCATGCTCCCC
1 CTCTCTATTCCTGCATGCTCCCCATTGGCTCGTATGGCTCGTATATGGCTCGTTGCATGCTCCCC
1404317 ATTGG
66 ATTGG
1404322 CTCTCTATTCCTGCATGCTCCCCATTGGCTCGTATGGCTCGTATATGGCTCGTTGCATGCTCCCC
1 CTCTCTATTCCTGCATGCTCCCCATTGGCTCGTATGGCTCGTATATGGCTCGTTGCATGCTCCCC
1404387 ATTGG
66 ATTGG
1404392 CTC
1 CTC
1404395 GTATGGCTCG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.11, C:0.34, G:0.21, T:0.34
Consensus pattern (70 bp):
CTCTCTATTCCTGCATGCTCCCCATTGGCTCGTATGGCTCGTATATGGCTCGTTGCATGCTCCCC
ATTGG
Found at i:1404368 original size:11 final size:11
Alignment explanation
Indices: 1404354--1404418 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 11
1404344 CATTGGCTCG
1404354 TATGGCTCGTA
1 TATGGCTCGTA
1404365 TATGGCTCGT-
1 TATGGCTCGTA
**
1404375 TGCAT-GCTCCCCA
1 T--ATGGCT-CGTA
1404388 T-TGGCTCG--
1 TATGGCTCGTA
1404396 TATGGCTCGTA
1 TATGGCTCGTA
1404407 TATGGCTCGTA
1 TATGGCTCGTA
1404418 T
1 T
1404419 GTCACCCACC
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
8 1 0.02
9 7 0.16
10 3 0.07
11 28 0.65
12 3 0.07
13 1 0.02
ACGTcount: A:0.14, C:0.25, G:0.26, T:0.35
Consensus pattern (11 bp):
TATGGCTCGTA
Found at i:1404392 original size:42 final size:42
Alignment explanation
Indices: 1404333--1404416 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
1404323 TCTCTATTCC
1404333 TGCATGCTCCCCATTGGCTCGTATGGCTCGTATATGGCTCGT
1 TGCATGCTCCCCATTGGCTCGTATGGCTCGTATATGGCTCGT
1404375 TGCATGCTCCCCATTGGCTCGTATGGCTCGTATATGGCTCGT
1 TGCATGCTCCCCATTGGCTCGTATGGCTCGTATATGGCTCGT
1404417 ATGTCACCCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.12, C:0.29, G:0.26, T:0.33
Consensus pattern (42 bp):
TGCATGCTCCCCATTGGCTCGTATGGCTCGTATATGGCTCGT
Found at i:1410134 original size:18 final size:19
Alignment explanation
Indices: 1410088--1410134 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
1410078 ATATGGGGAA
*
1410088 TATCGATACTCTACCATGGG
1 TATCGATACTC-ACCATGAG
**
1410108 TATAAATACTC-CCATGAG
1 TATCGATACTCACCATGAG
1410126 TATCGATAC
1 TATCGATAC
1410135 CAATTTTGTA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 13 0.59
20 9 0.41
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (19 bp):
TATCGATACTCACCATGAG
Found at i:1415709 original size:20 final size:20
Alignment explanation
Indices: 1415665--1415712 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
1415655 TCAAGCCTCT
1415665 GGTATGGATACTCAATATTC
1 GGTATGGATACTCAATATTC
* *
1415685 AGTATGGATAC-CAAGTTTTC
1 GGTATGGATACTCAA-TATTC
1415705 GGTATGGA
1 GGTATGGA
1415713 GACGAGTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (20 bp):
GGTATGGATACTCAATATTC
Found at i:1421270 original size:59 final size:59
Alignment explanation
Indices: 1421197--1421318 Score: 163
Period size: 59 Copynumber: 2.1 Consensus size: 59
1421187 CTGTTCTGAG
* * * **
1421197 TATGACAGATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAATCCCGAA
1 TATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAATCCCGAA
* ** *
1421256 TATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTTAGTGTATTCCCGAA
1 TATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAATCCCGAA
1421315 TATG
1 TATG
1421319 CAGCCTGCTG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (59 bp):
TATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAATCCCGAA
Found at i:1421719 original size:122 final size:122
Alignment explanation
Indices: 1421502--1421756 Score: 465
Period size: 122 Copynumber: 2.1 Consensus size: 122
1421492 ACCAATGCAT
1421502 TATAATTTCATACTCTGACATATCAATGTCATGTCAGTTTCTAAAAATATGATATAATATCATGC
1 TATAATTTCATACTCTGACATATCAATGTCATGTCAGTTTCTAAAAATATGATATAATATCATGC
* * *
1421567 TGATAAAACAAGGTCGACTTATCACAAGTCTTCCTTATGCTGTATAAAACATCCATG
66 AGATAAAACAAGGTCGACTTATCACAAGTCTTCCTGATGATGTATAAAACATCCATG
*
1421624 TATAATTTCATACTCTGACATATCAATGTCATTTCAGTTTCTAAAAATATGATATAATATCATGC
1 TATAATTTCATACTCTGACATATCAATGTCATGTCAGTTTCTAAAAATATGATATAATATCATGC
*
1421689 AGATAAAACAAGGTCGACTTATCGCAAGTCTTCCTGATGATGTATAAAACATCCATG
66 AGATAAAACAAGGTCGACTTATCACAAGTCTTCCTGATGATGTATAAAACATCCATG
1421746 TATAATTTCAT
1 TATAATTTCAT
1421757 GCATGTATTG
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
122 128 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.35
Consensus pattern (122 bp):
TATAATTTCATACTCTGACATATCAATGTCATGTCAGTTTCTAAAAATATGATATAATATCATGC
AGATAAAACAAGGTCGACTTATCACAAGTCTTCCTGATGATGTATAAAACATCCATG
Found at i:1422175 original size:29 final size:29
Alignment explanation
Indices: 1422132--1422195 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
1422122 AATCCCTCTA
* * *
1422132 TTTTCCAAAATTTACGAATTGATCTCCAAC
1 TTTT-CAAAACTTACGAAATGATCCCCAAC
*
1422162 TTTTCAAAACTTACGAAATGATCCCCAAT
1 TTTTCAAAACTTACGAAATGATCCCCAAC
1422191 TTTTC
1 TTTTC
1422196 TAAGGCTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (29 bp):
TTTTCAAAACTTACGAAATGATCCCCAAC
Found at i:1423543 original size:81 final size:81
Alignment explanation
Indices: 1423450--1423927 Score: 570
Period size: 81 Copynumber: 5.9 Consensus size: 81
1423440 AGTCCATTAT
* * * * *
1423450 TCTTTTACTCAATGGTATTTAACCGTTCATCTAACTAGAATACTTGATACCTTTCTTCCAAATGC
1 TCTTTTACTCAATGGTATTTAACCATTCATCTAACTGGCATACTTGACACCTTTCTACCAAATGC
* *
1423515 ACAATTAGGCCATTTA
66 ACAGTTAGGCCATTCA
*
1423531 TCTTTTATTCAATGGTATTTAACCATTCATCTAACTGGCATACTTGACACCTTTCTACCAAATGC
1 TCTTTTACTCAATGGTATTTAACCATTCATCTAACTGGCATACTTGACACCTTTCTACCAAATGC
1423596 ACAGTTA-G--ATTCA
66 ACAGTTAGGCCATTCA
* * * * * ** *
1423609 TCTTTTACTCAATGTTATTTAATCGTTCATCTAGCTGTCATACTTGATGCCTTTATACCAAATGC
1 TCTTTTACTCAATGGTATTTAACCATTCATCTAACTGGCATACTTGACACCTTTCTACCAAATGC
* *
1423674 ACAGTTATGTCATTCA
66 ACAGTTAGGCCATTCA
* * * * * *
1423690 TCTTGTACTCAACT-ATATTTAATCGTTCATGTAA-TAGGCATACTTGACACCTTTCTGCCAAAT
1 TCTTTTACTCAA-TGGTATTTAACCATTCATCTAACT-GGCATACTTGACACCTTTCTACCAAAT
*
1423753 GCACAGCTAGGCCATTCA
64 GCACAGTTAGGCCATTCA
* * * * *
1423771 TCTTTTACTTAATGGTATTTAACCATTCATCTAATTGGCATACTTGACTCCTTTCTTCTAAATGC
1 TCTTTTACTCAATGGTATTTAACCATTCATCTAACTGGCATACTTGACACCTTTCTACCAAATGC
** *
1423836 ACAACTATGCCATTCA
66 ACAGTTAGGCCATTCA
* * *
1423852 TCTTTTACTCAATGGTATTTAACTATTCATCTAACTGGCATACATGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAATGGTATTTAACCATTCATCTAACTGGCATACTTGACACCTTTCTACCAAATGC
*
1423917 ACAGCTAGGCC
66 ACAGTTAGGCC
1423928 TCAAAGGCAC
Statistics
Matches: 341, Mismatches: 49, Indels: 14
0.84 0.12 0.03
Matches are distributed among these distances:
78 67 0.20
79 1 0.00
80 3 0.01
81 268 0.79
82 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.37
Consensus pattern (81 bp):
TCTTTTACTCAATGGTATTTAACCATTCATCTAACTGGCATACTTGACACCTTTCTACCAAATGC
ACAGTTAGGCCATTCA
Found at i:1423968 original size:68 final size:68
Alignment explanation
Indices: 1423877--1424064 Score: 270
Period size: 68 Copynumber: 2.8 Consensus size: 68
1423867 TATTTAACTA
* * * *
1423877 TTCATCTAACTGGCATACA-TGACACCTTTCTGCCAAATGCACAGCTAGGCCTCAAAGGCACTTA
1 TTCATCTAACTGGCATA-ATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAAGCACTTA
1423941 GCCT
65 GCCT
* **
1423945 TTCATCTAACTGGCATAATTGACATATTTCTGTCAAATGCACAGTTAGGAATCAAAAGCACTTAG
1 TTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAAGCACTTAG
*
1424010 CTT
66 CCT
* *
1424013 TTCATCTAACTGGCATAATTGACACATTTCTGTCAAATACACATTTAGGCCT
1 TTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCT
1424065 ATTAATCTTT
Statistics
Matches: 106, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
67 1 0.01
68 105 0.99
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (68 bp):
TTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAAGCACTTAG
CCT
Found at i:1424864 original size:19 final size:19
Alignment explanation
Indices: 1424835--1424886 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
1424825 CTGTGATCAA
1424835 ATGGTATCGATACCATCCTT
1 ATGG-ATCGATACCATCCTT
1424855 ATGGATCGATACCATCCTT
1 ATGGATCGATACCATCCTT
1424874 ATGGATCGATACC
1 ATGGATCGATACC
1424887 CCCTCTTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 28 0.88
20 4 0.12
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (19 bp):
ATGGATCGATACCATCCTT
Found at i:1429109 original size:81 final size:81
Alignment explanation
Indices: 1428993--1429635 Score: 813
Period size: 81 Copynumber: 7.9 Consensus size: 81
1428983 ATTCCTTTAT
* * * * * * * * *
1428993 TCTTTTACCCAAAGGTACTTATCCTTTCATCTAACTTGCATATTTGACACTTTTCTGTCAAATAC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATACTTGACACCTTTCTGCCAAATAC
*
1429058 ACAGCTAGTCCATT-A
66 ACAGCTAGGCCATTCA
** * * * *
1429073 TTCTTTTACTCAGGGGTATTTAATCATTCATCTAACTGTCATACTTGACACCTTTCTGCCAAATG
1 -TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATACTTGACACCTTTCTGCCAAATA
*
1429138 CATAGCTAGGCCATTCA
65 CACAGCTAGGCCATTCA
* * *
1429155 TCTTTTACTCAACGGTATTTAAACGTTCATCTAACTGGCATACTTGACACCTTTTTGCCAAATTC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATACTTGACACCTTTCTGCCAAATAC
*
1429220 AGAGCTAGGCCATTCA
66 ACAGCTAGGCCATTCA
* *
1429236 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATACTTGACACCTTTCTTCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATACTTGACACCTTTCTGCCAAATAC
** *
1429301 ACAATTAGGTCATTCA
66 ACAGCTAGGCCATTCA
* * *
1429317 TCTTTTACTCAACGATATTTAACCCTTCATCTAACTGGCATACTTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATACTTGACACCTTTCTGCCAAATAC
** * * *
1429382 ACAATTATGCAATTTA
66 ACAGCTAGGCCATTCA
* * * *
1429398 TCTTGTACTCAACGATATTTAACCGTTCATCTAACTGGCATACTTGACATCTTTCTGCCAAATAT
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATACTTGACACCTTTCTGCCAAATAC
1429463 ACAGCTAGGCCATTCA
66 ACAGCTAGGCCATTCA
* * * * * * *
1429479 TCTTGTACTAAATGGTATTTAACTGTTCATCTAACTAGCATAATTGACACCTTTATGCCAAATAC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATACTTGACACCTTTCTGCCAAATAC
* *
1429544 ACAACTAGGACATTCA
66 ACAGCTAGGCCATTCA
* *
1429560 TCTTTTACTCAACGGTATTTAACCTTTCATCTAAATGGCATACTTGACACCTTTCTGCCAAATGA
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATACTTGACACCTTTCTGCCAAAT-A
1429625 -ACAGCTAGGCC
65 CACAGCTAGGCC
1429636 TCAAAGGCAC
Statistics
Matches: 490, Mismatches: 70, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
81 488 1.00
82 2 0.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATACTTGACACCTTTCTGCCAAATAC
ACAGCTAGGCCATTCA
Found at i:1429676 original size:68 final size:68
Alignment explanation
Indices: 1429582--1429909 Score: 458
Period size: 68 Copynumber: 4.8 Consensus size: 68
1429572 CGGTATTTAA
* * * * * *
1429582 CCTTTCATCTAAATGGCATACTTGACACCTTTCTGCCAAATGAACAGCTAGGCCTCAAAGGCACA
1 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
1429647 TAG
66 TAG
* * *
1429650 GCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCACAGTTAGGTCTCAAAGGCACT
1 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
1429715 TAG
66 TAG
* * * * * * * *
1429718 CCTTTTATCTAATTGGTATAATTGACACCTTTCTATCAAATGCACATTTAGGCCTCAACGGTACG
1 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
1429783 TAG
66 TAG
*
1429786 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAATGGCACT
1 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
1429851 TAG
66 TAG
* * *
1429854 CCTTTCATCTAACTGGAATAGTTGACACATTTCTGTCAAAATGCACAGTTAGGCCT
1 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC-AAATGCACAGTTAGGCCT
1429910 ATTAATCTTT
Statistics
Matches: 230, Mismatches: 29, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
68 212 0.92
69 18 0.08
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (68 bp):
CCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
TAG
Found at i:1430764 original size:18 final size:19
Alignment explanation
Indices: 1430741--1430787 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 19
1430731 GATACCTCTT
1430741 GGTATCGA-CACTTAAATC
1 GGTATCGACCACTTAAATC
1430759 GGTATCGATACCACTTAAATC
1 GGTATCG--ACCACTTAAATC
1430780 GGTATCGA
1 GGTATCGA
1430788 TACTACTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 7 0.27
19 1 0.04
20 1 0.04
21 17 0.65
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (19 bp):
GGTATCGACCACTTAAATC
Found at i:1430775 original size:21 final size:21
Alignment explanation
Indices: 1430749--1430790 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1430739 TTGGTATCGA
1430749 CACTTAAATCGGTATCGATAC
1 CACTTAAATCGGTATCGATAC
1430770 CACTTAAATCGGTATCGATAC
1 CACTTAAATCGGTATCGATAC
1430791 TACTCTACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (21 bp):
CACTTAAATCGGTATCGATAC
Found at i:1433731 original size:19 final size:19
Alignment explanation
Indices: 1433707--1433751 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
1433697 TGGATTGAAT
1433707 GGTCAACTTGAAGTGTTAA
1 GGTCAACTTGAAGTGTTAA
1433726 GGTCAACTTGAAGTGTTAA
1 GGTCAACTTGAAGTGTTAA
1433745 GGTCAAC
1 GGTCAAC
1433752 ATTTAAGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (19 bp):
GGTCAACTTGAAGTGTTAA
Found at i:1434884 original size:25 final size:25
Alignment explanation
Indices: 1434834--1434884 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
1434824 CTGGTTATTG
* *
1434834 TATATGATGTTATCATGAATATTTA
1 TATATGATGTTATCACGAATAGTTA
1434859 TATATGATGTGTATCACGAA-AGTTA
1 TATATGATGT-TATCACGAATAGTTA
1434884 T
1 T
1434885 TTCGGGTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (25 bp):
TATATGATGTTATCACGAATAGTTA
Found at i:1435161 original size:70 final size:70
Alignment explanation
Indices: 1435021--1435161 Score: 183
Period size: 70 Copynumber: 2.0 Consensus size: 70
1435011 ACATCAGGCT
** * * * * *
1435021 TCATATTTGGTTTAGCACTATAGTGTATATAAATGACACTTAGTGTAGGTGGTGGGCACGATCTT
1 TCATATTCAGTTTAGCACTATAGTGTATATAAAGGACACTTAGTGCAGATAGTGGGCACGACCTT
1435086 ATGTG
66 ATGTG
* * *
1435091 TCATATTCAGTTTAGCACTATAGTGTATATAAAGGACACTTAGTGCATATAGTTGGCATGACCTT
1 TCATATTCAGTTTAGCACTATAGTGTATATAAAGGACACTTAGTGCAGATAGTGGGCACGACCTT
*
1435156 TTGTG
66 ATGTG
1435161 T
1 T
1435162 ATTAACACAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.38
Consensus pattern (70 bp):
TCATATTCAGTTTAGCACTATAGTGTATATAAAGGACACTTAGTGCAGATAGTGGGCACGACCTT
ATGTG
Found at i:1446381 original size:59 final size:59
Alignment explanation
Indices: 1446266--1446386 Score: 143
Period size: 59 Copynumber: 2.1 Consensus size: 59
1446256 CAATCCCGAG
* * * * *
1446266 TATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAGTCCTGAA
1 TATGACACATAAGGTCGTGCCCACCATATATACTAGATATCATTAAGTACAGTCCTGAA
* * * ** *
1446325 TATGACACATAAGGTTGTGCCCACGATATATACTAGATATCATTTAGTGTATTCCTGAA
1 TATGACACATAAGGTCGTGCCCACCATATATACTAGATATCATTAAGTACAGTCCTGAA
1446384 TAT
1 TAT
1446387 CCAGCTTGTT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (59 bp):
TATGACACATAAGGTCGTGCCCACCATATATACTAGATATCATTAAGTACAGTCCTGAA
Found at i:1451504 original size:20 final size:20
Alignment explanation
Indices: 1451479--1451623 Score: 101
Period size: 20 Copynumber: 7.5 Consensus size: 20
1451469 GAATGAGGTA
1451479 GTATCGATACCATAGTAAGG
1 GTATCGATACCATAGTAAGG
*
1451499 GTATCGATACCATGGTAAGG
1 GTATCGATACCATAGTAAGG
1451519 GTATCGATA-C-TAGGTAA--
1 GTATCGATACCATA-GTAAGG
* * ***
1451536 -CATCGA-ACC-TAATTTTG
1 GTATCGATACCATAGTAAGG
1451553 GTATCGATACCATA-TAAGG
1 GTATCGATACCATAGTAAGG
*
1451572 GTATC-AGTACCATAGTATAGTA
1 GTATCGA-TACCATAGTA-AG-G
* *
1451594 GTATTGATACCATGGTAAGG
1 GTATCGATACCATAGTAAGG
*
1451614 GTATCTATAC
1 GTATCGATAC
1451624 TGGACCGCAT
Statistics
Matches: 97, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
15 2 0.02
16 8 0.08
18 7 0.07
19 22 0.23
20 40 0.41
21 4 0.04
22 13 0.13
23 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (20 bp):
GTATCGATACCATAGTAAGG
Found at i:1452098 original size:59 final size:59
Alignment explanation
Indices: 1452019--1452422 Score: 605
Period size: 59 Copynumber: 6.9 Consensus size: 59
1452009 GATTACCAGA
1452019 AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATAT
* ** *
1452078 AGGGCACTTCGTTTAATAACATAAGAAGGAATTCATACTAAGTGTATGAATTTCCATAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATAT
* *
1452137 AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATAATAAGTGTATGAATTTCCGTAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATAT
* * * * *
1452196 AGGGCACTTCATGTGCTAACATAAGAAGGAATTCATAATAATTGTATGAATTTCCCTAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATAT
*
1452255 AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACAAAGTGTATGAATTTCCATAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATAT
* * * *
1452314 AGGGCGCTTCGTGCGCTAACATGATAAGGAATTCATACTAAGTGTATGAA-CTCCATAT
1 AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATAT
* * * * *
1452372 TGGGCACTTTGTGTGCTAAAATGATATGGAATTCATACTAAGT-TATGAATT
1 AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATT
1452423 CCCGTATGGG
Statistics
Matches: 312, Mismatches: 32, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
57 6 0.02
58 44 0.14
59 262 0.84
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (59 bp):
AGGGCACTTCGTGTGCTAACATGAGAAGGAATTCATACTAAGTGTATGAATTTCCATAT
Found at i:1457122 original size:37 final size:37
Alignment explanation
Indices: 1457072--1457150 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
1457062 TTTAACATGT
1457072 AAGACTGTACGAGAAGTTAAGAACCTTTCCCTAGGTC
1 AAGACTGTACGAGAAGTTAAGAACCTTTCCCTAGGTC
*
1457109 AAGACTGTACGAGAAGTTAAGAACTTTTCCCTAGGTC
1 AAGACTGTACGAGAAGTTAAGAACCTTTCCCTAGGTC
1457146 AAGAC
1 AAGAC
1457151 ACTTTGTCAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (37 bp):
AAGACTGTACGAGAAGTTAAGAACCTTTCCCTAGGTC
Found at i:1458728 original size:16 final size:17
Alignment explanation
Indices: 1458701--1458732 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1458691 TGAATAAAGC
1458701 GGTGATTGACTTTTTTT
1 GGTGATTGACTTTTTTT
1458718 GGTGA-TGACTTTTTT
1 GGTGATTGACTTTTTT
1458733 CGACTTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.12, C:0.06, G:0.25, T:0.56
Consensus pattern (17 bp):
GGTGATTGACTTTTTTT
Found at i:1480636 original size:21 final size:20
Alignment explanation
Indices: 1480612--1480650 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1480602 TATCAAGGTC
*
1480612 TTTGTTGAAGCCATCAAATCT
1 TTTGTCGAAGCCAT-AAATCT
*
1480633 TTTGTCGAGGCCATAAAT
1 TTTGTCGAAGCCATAAAT
1480651 TCCTATAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (20 bp):
TTTGTCGAAGCCATAAATCT
Found at i:1487613 original size:23 final size:24
Alignment explanation
Indices: 1487556--1487615 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
1487546 GTAGTAGTAG
*
1487556 CAATAATAATAATAATAATAAATT
1 CAATAATAATATTAATAATAAATT
*
1487580 CAA-ACTAATATTAATAATAAA-T
1 CAATAATAATATTAATAATAAATT
1487602 -AATAATATATATTA
1 CAATAATA-ATATTA
1487616 TATAGTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.06
22 4 0.13
23 22 0.71
24 3 0.10
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (24 bp):
CAATAATAATATTAATAATAAATT
Found at i:1488787 original size:18 final size:18
Alignment explanation
Indices: 1488753--1488787 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1488743 CGATTATTTA
*
1488753 TTTAATTATTTTATTTTG
1 TTTAATTATTATATTTTG
*
1488771 TTTAATTATTATCTTTT
1 TTTAATTATTATATTTT
1488788 ATAGAAACCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTAATTATTATATTTTG
Found at i:1488840 original size:5 final size:5
Alignment explanation
Indices: 1488832--1488893 Score: 52
Period size: 5 Copynumber: 11.4 Consensus size: 5
1488822 TATTAAATTA
* *
1488832 TTATT TTATT TTATT TTATCTT TTATT TTATT ATATT ATACCTT TTATT
1 TTATT TTATT TTATT TTA--TT TTATT TTATT TTATT TTA--TT TTATT
*
1488881 TTGTCT TTATT TT
1 TTAT-T TTATT TT
1488894 TTTCTTTCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
5 35 0.73
6 4 0.08
7 9 0.19
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (5 bp):
TTATT
Found at i:1488860 original size:22 final size:22
Alignment explanation
Indices: 1488832--1488893 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
1488822 TATTAAATTA
*
1488832 TTATTTTATTTTATTTTATCTT
1 TTATTTTATTTTATTTTACCTT
* *
1488854 TTATTTTATTATATTATACCTT
1 TTATTTTATTTTATTTTACCTT
*
1488876 TTATTTTGTCTTTATTTT
1 TTATTTTAT-TTTATTTT
1488894 TTTCTTTCCT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 27 0.82
23 6 0.18
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (22 bp):
TTATTTTATTTTATTTTACCTT
Found at i:1488979 original size:32 final size:30
Alignment explanation
Indices: 1488930--1488988 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
1488920 TTTAACATTT
1488930 CTTTTTTATTTTGTTTTATCTTTATTTTCCCA
1 CTTTTTTATTTTGTTTTAT-TTT-TTTTCCCA
*
1488962 CTTTTTTCTATTT-TTTTATTTTTTTTC
1 CTTTTTTAT-TTTGTTTTATTTTTTTTC
1488989 TCTTTTAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 5 0.20
31 3 0.12
32 14 0.56
33 3 0.12
ACGTcount: A:0.10, C:0.14, G:0.02, T:0.75
Consensus pattern (30 bp):
CTTTTTTATTTTGTTTTATTTTTTTTCCCA
Found at i:1490721 original size:22 final size:22
Alignment explanation
Indices: 1490696--1490738 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1490686 AATTGCATAA
1490696 ATATAAACATAAGAAT-GAAATT
1 ATATAAA-ATAAGAATAGAAATT
* *
1490718 ATATGAAATAATAATAGAAAT
1 ATATAAAATAAGAATAGAAAT
1490739 GATGGAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (22 bp):
ATATAAAATAAGAATAGAAATT
Found at i:1496804 original size:2 final size:2
Alignment explanation
Indices: 1496797--1496827 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
1496787 GTAATGACTA
1496797 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
1496828 GTTTGTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1504218 original size:117 final size:117
Alignment explanation
Indices: 1504001--1504222 Score: 286
Period size: 117 Copynumber: 1.9 Consensus size: 117
1503991 ATAGCTAAAA
* * ** * *
1504001 ATGATATTCTTTTGAAAGTTAAAATAGATTTTGAAAATCAAAATGAAATGTTGAAAAAGGGGTTA
1 ATGATATTCTTCTAAAAAATAAAATAGATTTTGAAAATCAAAATGAAATATTGAAAAAGGAGTTA
* *
1504066 GAGCTTTCAAAAATGAAAAATGAAAACTTTTAAAAAGAAATTTTTGAATTAT
66 GAACTTTCAAAAATGAAAAATGAAAACTTTGAAAAAGAAATTTTTGAATTAT
* * * *
1504118 ATGATATTCTTCTAAAAAATAAAATAGATTTTGAGAATCAAAATGAAATATTGAAGAAGTATTTA
1 ATGATATTCTTCTAAAAAATAAAATAGATTTTGAAAATCAAAATGAAATATTGAAAAAGGAGTTA
* *
1504183 GAACTTTCAAAAAT-AAAATTTG-AAAGTATTGAAAAAGAAA
66 GAACTTTCAAAAATGAAAA-ATGAAAACT-TTGAAAAAGAAA
1504223 ATTTCGATTT
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
116 8 0.09
117 81 0.91
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.32
Consensus pattern (117 bp):
ATGATATTCTTCTAAAAAATAAAATAGATTTTGAAAATCAAAATGAAATATTGAAAAAGGAGTTA
GAACTTTCAAAAATGAAAAATGAAAACTTTGAAAAAGAAATTTTTGAATTAT
Found at i:1508461 original size:17 final size:17
Alignment explanation
Indices: 1508434--1508466 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
1508424 TCAAAATAAA
1508434 AAAATTATTTT-ATTTT
1 AAAATTATTTTGATTTT
1508450 AAAATTATTTTTGATTT
1 AAAATTA-TTTTGATTT
1508467 AATTATGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
AAAATTATTTTGATTTT
Found at i:1516154 original size:3 final size:3
Alignment explanation
Indices: 1516146--1516170 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1516136 AATGTTAAAG
1516146 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
1516171 CATTATTAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1518389 original size:83 final size:84
Alignment explanation
Indices: 1517754--1518612 Score: 981
Period size: 84 Copynumber: 10.2 Consensus size: 84
1517744 GGCTGAATTG
* * * * * * * *
1517754 AATCGAACTCGAAGGTCTTGTGTTGACATATAACCCTTATCGCATTGAGTTATACTGCAAATTCG
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTACAAA-T-G
*
1517819 AAGTGCCTTTGAGCTGAGTGT
64 ATGTGCCTTTGAGCTGAGTGT
* * *
1517840 AATCGAACTCGAAGGTCTTTTATTGGCAGATAGCCCTTTTCGCCTTGAGCTATGCTACAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTACAAATGAT
** *
1517905 GCACCTTTGAGCTGAGTAT
66 GTGCCTTTGAGCTGAGTGT
* * * * **
1517924 AATCGAACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTAG
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTACAAA-T-G
1517988 ATGTGCCTTTGAGCTGAGTGT
64 ATGTGCCTTTGAGCTGAGTGT
* * * * *
1518009 AATCGAACT-GAAAGGCCTTTTGTTGGTAAATAACCCTTCTCGCCTTGAGCCATACTACAAATGA
1 AATCGAACTCG-AAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTACAAATGA
* *
1518073 TATGCCTTTGAGCTAAGTGT
65 TGTGCCTTTGAGCTGAGTGT
* * * *
1518093 AATCGAACTTGAAGATCTTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTATGCTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTACAAATGAT
*
1518158 GTGCCTTTGAGTTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* * *
1518177 AATCGAACTCGAAGGTCTTTTGTTGGCATATAACCCTTCTCGCTTTGAGCTATACTACAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTACAAATGAT
* ** * *
1518242 GCGCCTTTGATTTAACTGT
66 GTGCCTTTGAGCTGAGTGT
* * * * * ** * * * * * * * * *
1518261 AATCAAAATCAAAGTTC-TTGGTTAACAGACAAGCCTTATCACCTTGAGTTCTGCTATATATAAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTACAAATGAT
1518325 GTGCCTTTGAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* * * *
1518344 AATTGAACTCGAAGGTCTTTT-TTGGCAGATAGCCCTTCTAGCCTTGAGCTATGCTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTACAAATGAT
*
1518408 GTGCCCTTGAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* * *
1518427 AATCGAACTCGAAGGTCTTTTATTGGCAGATAACCCTTCTCGCCATGAGCTATGCTATAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTACAAATGAT
* *
1518492 ATGCCTTTGAGTTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
* * * * **
1518511 AATCGAACTCGAAGGT-ATTAGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTACAAATGAT
1518575 GTGCCTTTGAGCTGAGTGT
66 GTGCCTTTGAGCTGAGTGT
1518594 AATCGAACTCGAAGGTCTT
1 AATCGAACTCGAAGGTCTT
1518613 GAGTTATACT
Statistics
Matches: 640, Mismatches: 125, Indels: 18
0.82 0.16 0.02
Matches are distributed among these distances:
83 233 0.36
84 287 0.45
85 36 0.06
86 84 0.13
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (84 bp):
AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTATGCTACAAATGAT
GTGCCTTTGAGCTGAGTGT
Found at i:1518402 original size:250 final size:251
Alignment explanation
Indices: 1517754--1518612 Score: 1049
Period size: 250 Copynumber: 3.4 Consensus size: 251
1517744 GGCTGAATTG
* * * * * * * **
1517754 AATCGAACTCGAAGGTCTTGTGTTGACATATAACCCTTATCGCATTGAGTTATACTGCAAATTCG
1 AATCGAACTCAAAGGTCTT-AGTTGACAGATAACCCTTCTCGCCTTGAGTTCTGCTATAAA-T-G
* *
1517819 AAGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAGCCCTTTTCGCC
63 ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAGCCCTTCTCGCC
* ** * *
1517884 TTGAGCTATGCTACAAATGATGCACCTTTGAGCTGAGTATAATCGAACTCGAAGGTC-TTGGTTG
128 TTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTG
* * * * *
1517948 ACAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTAGATGTGCCTTTGAGCTGAGTGT
193 GCAGATAACCCTTCTCGCCTTGAGCTATGCTATAAA-T-GATGTGCCTTTGAGTTGAGTGT
* * * ** * * * *
1518009 AATCGAACTGAAAGGCCTTTTGTTGGTAAATAACCCTTCTCGCCTTGAG-CCATACTACAAATGA
1 AATCGAACTCAAAGGTC-TTAGTTGACAGATAACCCTTCTCGCCTTGAGTTC-TGCTATAAATGA
* * * * *
1518073 TATGCCTTTGAGCTAAGTGTAATCGAACTTGAAGATCTTTTGTTGGCAGATAGCCCTTCTCGCCT
64 TGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAGCCCTTCTCGCCT
*
1518138 TGAGCTATGCTGCAAATGATGTGCCTTTGAGTTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGG
129 TGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGG
* * * * * * * *
1518203 CATATAACCCTTCTCGCTTTGAGCTATACTACAAATGATGCGCCTTTGATTTAACTGT
194 CAGATAACCCTTCTCGCCTTGAGCTATGCTATAAATGATGTGCCTTTGAGTTGAGTGT
* * * * * * * * * * *
1518261 AATCAAAATCAAAGTTCTTGGTTAACAGACAAGCCTTATCACCTTGAGTTCTGCTATATATAATG
1 AATCGAACTCAAAGGTCTTAGTTGACAGATAACCCTTCTCGCCTTGAGTTCTGCTATAAATGATG
* *
1518326 TGCCTTTGAGCTGAGTGTAATTGAACTCGAAGGTCTTTT-TTGGCAGATAGCCCTTCTAGCCTTG
66 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAGCCCTTCTCGCCTTG
* *
1518390 AGCTATGCTGCAAATGATGTGCCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCA
131 AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCA
* *
1518455 GATAACCCTTCTCGCCATGAGCTATGCTATAAATGATATGCCTTTGAGTTGAGTGT
196 GATAACCCTTCTCGCCTTGAGCTATGCTATAAATGATGTGCCTTTGAGTTGAGTGT
* * * *
1518511 AATCGAACTCGAAGGTATTAGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATGATG
1 AATCGAACTCAAAGGTCTTAGTTGACAGATAACCCTTCTCGCCTTGAGTTCTGCTATAAATGATG
1518576 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTT
66 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTT
1518613 GAGTTATACT
Statistics
Matches: 509, Mismatches: 91, Indels: 13
0.83 0.15 0.02
Matches are distributed among these distances:
250 218 0.43
251 66 0.13
252 30 0.06
253 112 0.22
254 35 0.07
255 46 0.09
256 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (251 bp):
AATCGAACTCAAAGGTCTTAGTTGACAGATAACCCTTCTCGCCTTGAGTTCTGCTATAAATGATG
TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAGCCCTTCTCGCCTTG
AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCA
GATAACCCTTCTCGCCTTGAGCTATGCTATAAATGATGTGCCTTTGAGTTGAGTGT
Found at i:1520079 original size:153 final size:152
Alignment explanation
Indices: 1519796--1520189 Score: 445
Period size: 153 Copynumber: 2.6 Consensus size: 152
1519786 TTTTTAAAAC
* *
1519796 ATATTTTAAAAAACATAGTAATCCCTCCAACCG-ACAAGTCCAAATATGTAGCTTCCCC-TGAAC
1 ATATTTT-AAAAACATAGTAATCCCTCCAACCGAACACGTCCAAATATGTAGGTTCCCCAT-AAC
* * * * **
1519859 CATACACCTACCGTCAAGTCCAGTAAGGCCCTAAGCACAAAGCCGAGGAGCCCGCATGTATGTTT
64 CATACACCCACCGTCAAGTCCAGTAAGGCCCTAAGCACAAAGCCGAGAAGCCCGAAAGTATACTT
* *
1519924 CCTCCAACAATGCCGCCAAATAAA
129 CCTCCAACAATACCCCCAAATAAA
*
1519948 ATATTTTAAAAACCATAGTAATTCCC-CCAACCGAACACGTCCAAATGTGTAGGTTCCCCATAAC
1 ATATTTTAAAAA-CATAGTAA-TCCCTCCAACCGAACACGTCCAAATATGTAGGTTCCCCATAAC
* * * * ** * * *
1520012 CATACACCCACTGTCACGTCCATTAAGGCCCTGAGCTGAAAGTCGATAAGCCTGAAAGTATACTT
64 CATACACCCACCGTCAAGTCCAGTAAGGCCCTAAGCACAAAGCCGAGAAGCCCGAAAGTATACTT
1520077 CCTCCAACAATACCCCCAAATAAA
129 CCTCCAACAATACCCCCAAATAAA
* * ** ** * * * *
1520101 ACATTTTAAAAA-AAAAAAATCCCTTTAATCGAACACGTCCAAATATGTAGGTTACCCAAAACCG
1 ATATTTTAAAAACATAGTAATCCCTCCAACCGAACACGTCCAAATATGTAGGTTCCCCATAACCA
*
1520165 TACACCCACCGTCAAGTCTAGTAAG
66 TACACCCACCGTCAAGTCCAGTAAG
1520190 AACCACACAC
Statistics
Matches: 202, Mismatches: 35, Indels: 11
0.81 0.14 0.04
Matches are distributed among these distances:
150 4 0.02
151 63 0.31
152 22 0.11
153 112 0.55
154 1 0.00
ACGTcount: A:0.37, C:0.29, G:0.13, T:0.22
Consensus pattern (152 bp):
ATATTTTAAAAACATAGTAATCCCTCCAACCGAACACGTCCAAATATGTAGGTTCCCCATAACCA
TACACCCACCGTCAAGTCCAGTAAGGCCCTAAGCACAAAGCCGAGAAGCCCGAAAGTATACTTCC
TCCAACAATACCCCCAAATAAA
Found at i:1521108 original size:153 final size:154
Alignment explanation
Indices: 1520770--1521197 Score: 504
Period size: 153 Copynumber: 2.8 Consensus size: 154
1520760 CAACAGACAA
* *
1520770 GTCCAAATGTGTAGGTTCCCCATAACCATACACCCACCATCAAGTCCAGTAAGGCCCTGAGCACA
1 GTCCAAATGTGTAGGTTCCCCAGAACCATACACCCACCGTCAAGTCCAGTAAGGCCCTGAGCACA
* * ** * *
1520835 AAGTCGAGGAGCCTTCATGTATGA-TTCCTTCAAAAATGCCCCCCAAATAAAATAATTTAAAAAC
66 AAGTCGAGGAGCCTTCAAGTAT-ACTTCCTCCAAAAATAACCCCCAAATAAAACATTTTAAAAAC
* * * *
1520899 TATTGTAATTCCCCCAACCGAACAC
130 CATTATAAATCCCCCAACCAAACAC
* * * * **
1520924 GTCCAAATATGTAGGTTCCCCAGAACTATACACCTACCGTCACGTCCAGTAAGGCCCTGAGCTGA
1 GTCCAAATGTGTAGGTTCCCCAGAACCATACACCCACCGTCAAGTCCAGTAAGGCCCTGAGCACA
* * * * *
1520989 AAGTCGAGAAGCCTTCAAGTATACTTCCTCCGAGAAT-ACTCCCAAATAAAACATTTTTAAAACC
66 AAGTCGAGGAGCCTTCAAGTATACTTCCTCCAAAAATAACCCCCAAATAAAACATTTTAAAAACC
*
1521053 A-TATAAATCTCTCCAACCAAACAC
131 ATTATAAATC-CCCCAACCAAACAC
* * *
1521077 GTCCAAATGTGTAGGTTCCCTAGAACCATACACCCACCGTCAAGTCCA-AAGAGGCCCTAAGCAC
1 GTCCAAATGTGTAGGTTCCCCAGAACCATACACCCACCGTCAAGTCCAGTA-AGGCCCTGAGCAC
* * * * *
1521141 AAAGCCGAGGAGCATGCAAGTATTCTTCCTCCAACAATAACCCCCCAAATAAAACAT
65 AAAGTCGAGGAGCCTTCAAGTATACTTCCTCCAAAAATAA-CCCCCAAATAAAACAT
1521198 GCTCCGTCCG
Statistics
Matches: 229, Mismatches: 40, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
152 7 0.03
153 119 0.52
154 88 0.38
155 15 0.07
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.21
Consensus pattern (154 bp):
GTCCAAATGTGTAGGTTCCCCAGAACCATACACCCACCGTCAAGTCCAGTAAGGCCCTGAGCACA
AAGTCGAGGAGCCTTCAAGTATACTTCCTCCAAAAATAACCCCCAAATAAAACATTTTAAAAACC
ATTATAAATCCCCCAACCAAACAC
Found at i:1523465 original size:23 final size:23
Alignment explanation
Indices: 1523435--1523478 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1523425 TTAACTTTTT
*
1523435 GGTCAAAGTCAACGATTTGACTC
1 GGTCAAAGTCAACGAGTTGACTC
1523458 GGTCAAAGTCAACGAGTTGAC
1 GGTCAAAGTCAACGAGTTGAC
1523479 CCAGTGAGTT
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:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (23 bp):
GGTCAAAGTCAACGAGTTGACTC
Found at i:1523520 original size:15 final size:14
Alignment explanation
Indices: 1523470--1523523 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
1523460 TCAAAGTCAA
*
1523470 CGAGTTGACCCAG-
1 CGAGTTGACTCAGC
*
1523483 TGAGTTGACTCAGC
1 CGAGTTGACTCAGC
1523497 CGAGTTGACTCAGC
1 CGAGTTGACTCAGC
*
1523511 GCGGGTTGACTCA
1 -CGAGTTGACTCA
1523524 ATCATGTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
13 11 0.31
14 13 0.37
15 11 0.31
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.22
Consensus pattern (14 bp):
CGAGTTGACTCAGC
Found at i:1531985 original size:22 final size:22
Alignment explanation
Indices: 1531939--1531988 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
1531929 TATATAACGG
* *
1531939 AAGTGCCTTAGCACTAATACTA
1 AAGTGCCTTAGCAATAATACAA
* *
1531961 AAGTGCCTTAGCAATAGTAGAA
1 AAGTGCCTTAGCAATAATACAA
1531983 AAGTGC
1 AAGTGC
1531989 ATTCAGACTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (22 bp):
AAGTGCCTTAGCAATAATACAA
Found at i:1538188 original size:22 final size:22
Alignment explanation
Indices: 1538163--1538209 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
1538153 TCAAATTTTT
*
1538163 TTTCTTGGTTAGGAAATAAAAA
1 TTTCTTGGCTAGGAAATAAAAA
*
1538185 TTTCTTGGCTAGGTAATAAAAA
1 TTTCTTGGCTAGGAAATAAAAA
1538207 TTT
1 TTT
1538210 GCTTTCATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.40
Consensus pattern (22 bp):
TTTCTTGGCTAGGAAATAAAAA
Found at i:1554918 original size:14 final size:13
Alignment explanation
Indices: 1554899--1554928 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
1554889 TTATGAAGAG
1554899 TTATAATGGGATAT
1 TTATAATGGGA-AT
1554913 TTATAATGGGAAT
1 TTATAATGGGAAT
1554926 TTA
1 TTA
1554929 CAGGATTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (13 bp):
TTATAATGGGAAT
Found at i:1562154 original size:17 final size:17
Alignment explanation
Indices: 1562141--1562178 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1562131 CTTTGATTAG
1562141 TGAACTAGTTTGATGAA
1 TGAACTAGTTTGATGAA
* *
1562158 TGAACTAGTTTAATAAA
1 TGAACTAGTTTGATGAA
1562175 TGAA
1 TGAA
1562179 GTAACTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.34
Consensus pattern (17 bp):
TGAACTAGTTTGATGAA
Found at i:1562192 original size:18 final size:18
Alignment explanation
Indices: 1562166--1562200 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1562156 AATGAACTAG
1562166 TTTAATAAATGAAGTAAC
1 TTTAATAAATGAAGTAAC
*
1562184 TTTATTAAATGAAGTAA
1 TTTAATAAATGAAGTAA
1562201 ACGTATGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (18 bp):
TTTAATAAATGAAGTAAC
Found at i:1563943 original size:18 final size:19
Alignment explanation
Indices: 1563901--1563950 Score: 75
Period size: 18 Copynumber: 2.6 Consensus size: 19
1563891 CCCCTATAGG
1563901 GAGTATCGATACTCTACCCT
1 GAGTATCGATACTC-ACCCT
*
1563921 AAGTATCGATACTC-CCCT
1 GAGTATCGATACTCACCCT
1563939 GAGTATCGATAC
1 GAGTATCGATAC
1563951 CAAAATCAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 15 0.54
20 13 0.46
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (19 bp):
GAGTATCGATACTCACCCT
Found at i:1566171 original size:112 final size:112
Alignment explanation
Indices: 1565974--1566178 Score: 322
Period size: 112 Copynumber: 1.8 Consensus size: 112
1565964 AATTTATAAG
**
1565974 ACATCAATCATTTTAGTAATAGAAACTCTTGTGAGTTCTCACTCATTCATCTTAGTTGTTTTGTG
1 ACATCAATCATTTTAGTAATAGAAACTCTTGTGAGTTCTCACTCATTCATCTTAGTCCTTTTGTG
*
1566039 ACTCCATCGACTTATCAAGTATTTTTACATGTGGCGTAAATCCCAAT
66 ACTCCATCAACTTATCAAGTATTTTTACATGTGGCGTAAATCCCAAT
* * * * *
1566086 ACATCAAT-TTTTTGAGTAATAGATATTCTTGTGAGTTTTCACTCATTTATCTTAGTCCTTTTGT
1 ACATCAATCATTTT-AGTAATAGAAACTCTTGTGAGTTCTCACTCATTCATCTTAGTCCTTTTGT
1566150 GACTCCATCAACTTATCAAGTATTTTTAC
65 GACTCCATCAACTTATCAAGTATTTTTAC
1566179 TTGTTGGTCA
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
111 4 0.05
112 80 0.95
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (112 bp):
ACATCAATCATTTTAGTAATAGAAACTCTTGTGAGTTCTCACTCATTCATCTTAGTCCTTTTGTG
ACTCCATCAACTTATCAAGTATTTTTACATGTGGCGTAAATCCCAAT
Found at i:1569113 original size:22 final size:23
Alignment explanation
Indices: 1569081--1569123 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1569071 CAACAACATC
*
1569081 ATAATATCCATCCATCTTCATTA
1 ATAATATCCATCCATCATCATTA
*
1569104 ATAAT-TCCATCTATCATCAT
1 ATAATATCCATCCATCATCAT
1569124 CATCTGCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.40
Consensus pattern (23 bp):
ATAATATCCATCCATCATCATTA
Found at i:1585414 original size:17 final size:17
Alignment explanation
Indices: 1585392--1585444 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
1585382 TTCATGCAAT
1585392 TAGTTCATTAATCAAAC
1 TAGTTCATTAATCAAAC
* * *
1585409 TAGTTCAATCATTAAAC
1 TAGTTCATTAATCAAAC
1585426 TAGTTCATTAATCAAAC
1 TAGTTCATTAATCAAAC
1585443 TA
1 TA
1585445 ACTCTTAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTTCATTAATCAAAC
Found at i:1588216 original size:17 final size:17
Alignment explanation
Indices: 1588180--1588232 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
1588170 AAGAATGCTC
1588180 TTCATTCAA-TAAAGCTAG
1 TTCATT-AATTAAA-CTAG
1588198 TTC-TCTAATTAAACTAG
1 TTCAT-TAATTAAACTAG
*
1588215 TTCATTCATTAAACTAG
1 TTCATTAATTAAACTAG
1588232 T
1 T
1588233 ATAATAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 22 0.71
18 9 0.29
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.40
Consensus pattern (17 bp):
TTCATTAATTAAACTAG
Found at i:1588242 original size:17 final size:17
Alignment explanation
Indices: 1588189--1588244 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
1588179 CTTCATTCAA
**
1588189 TAAAGCTAGTTCTCTAAT
1 TAAA-CTAGTTCAATAAT
* *
1588207 TAAACTAGTTCATTCAT
1 TAAACTAGTTCAATAAT
1588224 TAAACTAGTAT-AATAAT
1 TAAACTAGT-TCAATAAT
1588241 TAAA
1 TAAA
1588245 TTTGTTTCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
17 27 0.84
18 5 0.16
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (17 bp):
TAAACTAGTTCAATAAT
Found at i:1588976 original size:22 final size:22
Alignment explanation
Indices: 1588948--1588989 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1588938 CTTTTGAAAG
*
1588948 AAATTAAGGCTAAATTCATCAT
1 AAATTAAGGCCAAATTCATCAT
*
1588970 AAATTAAGTCCAAATTCATC
1 AAATTAAGGCCAAATTCATC
1588990 CGAAGAACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (22 bp):
AAATTAAGGCCAAATTCATCAT
Done.