Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 56 of 203
Found at i:18060384 original size:15 final size:15
Alignment explanation
Indices: 18060364--18060394 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18060354 AACGAAAGAG
18060364 AGATTTATTGATGAA
1 AGATTTATTGATGAA
*
18060379 AGATTTTTTGATGAA
1 AGATTTATTGATGAA
18060394 A
1 A
18060395 ATAAAGACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (15 bp):
AGATTTATTGATGAA
Found at i:18062049 original size:778 final size:778
Alignment explanation
Indices: 18060555--18062105 Score: 2561
Period size: 778 Copynumber: 2.0 Consensus size: 778
18060545 TTACAATTAT
*
18060555 GCTTCTTGACGCTGAAGCCAAATTACAAACTACGTTGGTTGATGTGTTTCGCTCTACCAATATAG
1 GCTTCTTGACGCTGAAGCCAAATTACAAACTACGTTGGTTGATGTGTTTAGCTCTACCAATATAG
*
18060620 TTACCACTCAGTCAGTTGACTCTGCTGCTAGTACTCAACCACCACTATATTGTCCAGCCTATGCT
66 TTACCACTCAGTCAGTTGACTCTGCTACTAGTACTCAACCACCACTATATTGTCCAGCCTATGCT
* ** * * *
18060685 TCTGGACATGGTCGTGGATGTGGACACTCATCTAGCTCACGTATTCAATGTCAACTCTGAGGGAA
131 TCTAGACATGGTCGTGGACATGGACACTCATCTAGCTCACGTATTCAATGTCAACTATAAGGAAA
18060750 AATTGGTCATCTTGTGGATCATTGTTATCATCGATTTGACACTACATACAAGAGTACAGCTTATC
196 AATTGGTCATCTTGTGGATCATTGTTATCATCGATTTGACACTACATACAAGAGTACAGCTTATC
* * *
18060815 AGCCTCCTTCACAAGCTAACATGTGCATTTTTGGTAATAGAGTATCCATGCCTTGAATGCCTCTA
261 AGCCTCCTCCACAAGCTAACATGTGCATGTTTGGTAATAGAGTATCCATGCCTTGAATGCCTCCA
* *
18060880 TATAACTCTCATTTACTAGTTTTTTCTCTGGTGTTGAACTCTCAAGATAGTTAGGGTTCCTCATT
326 TATAACTCTCATTTACCAGTTTTTTCTCTGGTGTTGAACTCTCAAGACAGTTAGGGTTCCTCATT
* * *
18060945 TCCACCATCGCAAATTGGTCACACTCATCTCTTACATCTACACAACAAATGCTTGCACCATCATC
391 TCCACCATCGCAAATTAGTCACACTCATCTCCTACATCTACACAACAAATGCCTGCACCATCATC
18061010 CAACTCACAAGCTTATGTTGCCACTCCAGACACTGTAGGAGACAATGCCTAGTATCTCGATTCTA
456 CAACTCACAAGCTTATGTTGCCACTCCAGACACTGTAGGAGACAATGCCTAGTATCTCGATTCTA
* *
18061075 GGGCTACTCATCATCTTACTCATTTTGTTGCTTCAATGAGTGACAACACTCCCTATAATGGTTCA
521 GGGCTACTCATCATCCTACTCATTTTGTTACTTCAATGAGTGACAACACTCCCTATAATGGTTCA
* * *
18061140 GGTATGGTATATGTGGGTAATGGTGCTGGTCTACCTATTATTCGCACTGGTCAATCATTCTTACT
586 AGTATGGTATATGTGGGTAATGGTGCTGGTCTACCTATTATTCGCACTAGTCAATCATCCTTACT
* * * *
18061205 CACTTGTTCTCGTCCACTTTATCTGCGATCTCTTTTATTTGTGCCTAACATCACTAAAAACCTCC
651 CACTTGTTCTCGTCCACTTTATATGCGAACTCTTTTATTTATACCTAACATCACTAAAAACCTCC
* * * *
18061270 TGTTTGTGTCGAAATTTGCGAAGGACAATCAGGTTTTGTTTGAGTTCTTTCCCAACAAACTAC
716 TGTCTGTGTCGAAATTTGCGAAGGACAATCAGGTTCTATTTGAGTTCTATCCCAACAAACTAC
*
18061333 GCTTCTTGACGCTGAAGCCAGATTACAAACTACGTTGGTTGATGTGTTTAGCTCTACCAATATAG
1 GCTTCTTGACGCTGAAGCCAAATTACAAACTACGTTGGTTGATGTGTTTAGCTCTACCAATATAG
*
18061398 TTACCACTCAGTCAGTTGACTCTGCTACTAGTACTCAACCGCCACTATATTGTCTCA-CCTATGC
66 TTACCACTCAGTCAGTTGACTCTGCTACTAGTACTCAACCACCACTATATTGTC-CAGCCTATGC
* *
18061462 TTCTAGACGTGGTCGTGGACATGGACACTCATTTAGCTCACGTATTCAATGTCAACTATAAGGAA
130 TTCTAGACATGGTCGTGGACATGGACACTCATCTAGCTCACGTATTCAATGTCAACTATAAGGAA
*
18061527 AAATTGGTCATCTTGTGGATCATTGTTATCATCGATTTGACACTACATACAAGAGTACAGCTTCT
195 AAATTGGTCATCTTGTGGATCATTGTTATCATCGATTTGACACTACATACAAGAGTACAGCTTAT
* *
18061592 CAGCCTCCTCCATAAGCTAACATGTGCATGTTTGGTAATGGAGTATCCATGCCTTGAATGCCTCC
260 CAGCCTCCTCCACAAGCTAACATGTGCATGTTTGGTAATAGAGTATCCATGCCTTGAATGCCTCC
* *
18061657 ATATAGCTCTCATTTACCAGTTTTTTCTCTGGTGTTGAACTCTCAAGACAGTTGGGGTTCCTCAT
325 ATATAACTCTCATTTACCAGTTTTTTCTCTGGTGTTGAACTCTCAAGACAGTTAGGGTTCCTCAT
** * *
18061722 TTCCACCATCGCAACATTAGTCATGCTCATCTCCTACATCTACATAACAAATGCCTGCACTATCA
390 TTCCACCATCGCAA-ATTAGTCACACTCATCTCCTACATCTACACAACAAATGCCTGCACCATCA
* * * *
18061787 TCCAACTCACAAGCTTATGTTGCCACTCCAGACACTGTAGGAGACCATGTCTGGTTTC-CTGATT
454 TCCAACTCACAAGCTTATGTTGCCACTCCAGACACTGTAGGAGACAATGCCTAGTATCTC-GATT
* * * *
18061851 CT-GAGGTTACTCATCATCCTACTCATTTTGTTACTTCAATGAGTTATAACACTCCTTATAATGG
518 CTAG-GGCTACTCATCATCCTACTCATTTTGTTACTTCAATGAGTGACAACACTCCCTATAATGG
*
18061915 TTCAAGTATGGTATATGTGGGTAATGGTGCTGGTCTACCTATTATTCGCACTAGTCAATTATCCT
582 TTCAAGTATGGTATATGTGGGTAATGGTGCTGGTCTACCTATTATTCGCACTAGTCAATCATCCT
*
18061980 TACTCACTTGTTCTCGTCCACTTTATATG-TAACTCTTTTATTTATACCTAACATCACTAAAAAC
647 TACTCACTTGTTCTCGTCCACTTTATATGCGAACTCTTTTATTTATACCTAACATCACTAAAAAC
*
18062044 CTCCTGTCTGTGTCGAAATTTGCGAAGGACAATCATGTTCTATTTGAGTTCTATCCCAACAA
712 CTCCTGTCTGTGTCGAAATTTGCGAAGGACAATCAGGTTCTATTTGAGTTCTATCCCAACAA
18062106 GTGTCAAGTG
Statistics
Matches: 716, Mismatches: 53, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
778 468 0.65
779 248 0.35
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.34
Consensus pattern (778 bp):
GCTTCTTGACGCTGAAGCCAAATTACAAACTACGTTGGTTGATGTGTTTAGCTCTACCAATATAG
TTACCACTCAGTCAGTTGACTCTGCTACTAGTACTCAACCACCACTATATTGTCCAGCCTATGCT
TCTAGACATGGTCGTGGACATGGACACTCATCTAGCTCACGTATTCAATGTCAACTATAAGGAAA
AATTGGTCATCTTGTGGATCATTGTTATCATCGATTTGACACTACATACAAGAGTACAGCTTATC
AGCCTCCTCCACAAGCTAACATGTGCATGTTTGGTAATAGAGTATCCATGCCTTGAATGCCTCCA
TATAACTCTCATTTACCAGTTTTTTCTCTGGTGTTGAACTCTCAAGACAGTTAGGGTTCCTCATT
TCCACCATCGCAAATTAGTCACACTCATCTCCTACATCTACACAACAAATGCCTGCACCATCATC
CAACTCACAAGCTTATGTTGCCACTCCAGACACTGTAGGAGACAATGCCTAGTATCTCGATTCTA
GGGCTACTCATCATCCTACTCATTTTGTTACTTCAATGAGTGACAACACTCCCTATAATGGTTCA
AGTATGGTATATGTGGGTAATGGTGCTGGTCTACCTATTATTCGCACTAGTCAATCATCCTTACT
CACTTGTTCTCGTCCACTTTATATGCGAACTCTTTTATTTATACCTAACATCACTAAAAACCTCC
TGTCTGTGTCGAAATTTGCGAAGGACAATCAGGTTCTATTTGAGTTCTATCCCAACAAACTAC
Found at i:18065126 original size:16 final size:16
Alignment explanation
Indices: 18065107--18065137 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18065097 CTGTAATAAA
18065107 ATAGAGCTGTAATTGG
1 ATAGAGCTGTAATTGG
*
18065123 ATAGAGTTGTAATTG
1 ATAGAGCTGTAATTG
18065138 AATAAAACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.35
Consensus pattern (16 bp):
ATAGAGCTGTAATTGG
Found at i:18067201 original size:12 final size:11
Alignment explanation
Indices: 18067173--18067202 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
18067163 TTTATTTTTT
18067173 TATTTTTAAAA
1 TATTTTTAAAA
18067184 TATTTTTAAAA
1 TATTTTTAAAA
18067195 TACTTTTT
1 TA-TTTTT
18067203 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:18069790 original size:16 final size:16
Alignment explanation
Indices: 18069748--18069790 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
18069738 AAATAAAAAC
*
18069748 ATATCGAAAATTAAAT
1 ATATCGAAAATTAAAG
*
18069764 ATAAC-ATAAATTAAAG
1 ATATCGA-AAATTAAAG
18069780 ATATCGAAAAT
1 ATATCGAAAAT
18069791 AAAAATAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (16 bp):
ATATCGAAAATTAAAG
Found at i:18069837 original size:110 final size:110
Alignment explanation
Indices: 18069644--18069878 Score: 470
Period size: 110 Copynumber: 2.1 Consensus size: 110
18069634 TTTGAAGACC
18069644 AAAATTAAATATAACATAAATTAAAGATATCGAAAATAAAAATAGTTTAAAAATATATTAAAATA
1 AAAATTAAATATAACATAAATTAAAGATATCGAAAATAAAAATAGTTTAAAAATATATTAAAATA
18069709 TTAAAATAGTTTTAAATGAAACACATCAAAAATAAAAACATATCG
66 TTAAAATAGTTTTAAATGAAACACATCAAAAATAAAAACATATCG
18069754 AAAATTAAATATAACATAAATTAAAGATATCGAAAATAAAAATAGTTTAAAAATATATTAAAATA
1 AAAATTAAATATAACATAAATTAAAGATATCGAAAATAAAAATAGTTTAAAAATATATTAAAATA
18069819 TTAAAATAGTTTTAAATGAAACACATCAAAAATAAAAACATATCG
66 TTAAAATAGTTTTAAATGAAACACATCAAAAATAAAAACATATCG
18069864 AAAATTAAATATAAC
1 AAAATTAAATATAAC
18069879 CAAAATATTC
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 125 1.00
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.28
Consensus pattern (110 bp):
AAAATTAAATATAACATAAATTAAAGATATCGAAAATAAAAATAGTTTAAAAATATATTAAAATA
TTAAAATAGTTTTAAATGAAACACATCAAAAATAAAAACATATCG
Found at i:18076654 original size:23 final size:23
Alignment explanation
Indices: 18076617--18076664 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
18076607 AAAGTTATAT
* **
18076617 AATAACAACATAATAGTGAAAAA
1 AATAACAACAAAATAGAAAAAAA
*
18076640 AATAACAAGAAAATAGAAAAAAA
1 AATAACAACAAAATAGAAAAAAA
18076663 AA
1 AA
18076665 AGATTGCAGC
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:0.73, C:0.06, G:0.08, T:0.12
Consensus pattern (23 bp):
AATAACAACAAAATAGAAAAAAA
Found at i:18078288 original size:23 final size:23
Alignment explanation
Indices: 18078241--18078304 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
18078231 GACAGATTCA
* *
18078241 AATAATT-TTAAATTTTATAAGT
1 AATAATTATTTAATTTTAGAAGT
18078263 AATAATTATTTAATTTT-GAAGAT
1 AATAATTATTTAATTTTAGAAG-T
*
18078286 AATAATTCATTTTATTTTA
1 AATAATT-ATTTAATTTTA
18078305 ATACATACCA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 10 0.29
23 16 0.46
24 9 0.26
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (23 bp):
AATAATTATTTAATTTTAGAAGT
Found at i:18080158 original size:234 final size:233
Alignment explanation
Indices: 18079705--18080127 Score: 601
Period size: 227 Copynumber: 1.8 Consensus size: 233
18079695 TAATTATTAA
* * * *
18079705 CATATATTATTGTTTATTATTATACTGGTTGAAATATGCTCTAAGTCCCTATAGTTTTTGTACAT
1 CATATATTATTGTTTATTATTATACTAGTTGAAATATGCTCCAAGT-CCTATACTTTTCGTACAT
* ** * *
18079770 ATGAAAGGTAGCCATCCTACTATATTATATAATGTTATATCATATCATATAGTATATAATATGTT
65 ATAAAAAATAACCATCCTACTATATTATATAATGTTATATCATATCA-ATAGTACATAATA-GTT
*
18079835 AATAGTTTATATATATGCACCAATGATTAAACATTATAATATTATGTAATATTATATCTTTTATT
128 AATAGTTTATATATATGCACCAATGATTAAACATTATAATATCATGTAATATTATATCTTTTATT
18079900 ATAAATTATAATAATAGTTATATATAATAGTACTAGTACAT
193 ATAAATTATAATAATAGTTATATATAATAGTACTAGTACAT
* *
18079941 CATATATTATTGTTTGTTATTATGCTAGTTGAAATATGCTCCAAGT-CTATACTTTTCGTACACT
1 CATATATTATTGTTTATTATTATACTAGTTGAAATATGCTCCAAGTCCTATACTTTTCGTACA-T
*
18080005 A-AAAAAATAACCCTCCTACTATATTATATAATGTTATATCATATC-ATA-T-CAT-ATA-TTAA
65 ATAAAAAATAACCATCCTACTATATTATATAATGTTATATCATATCAATAGTACATAATAGTTAA
* * * *
18080064 TAGTTTATATATATGCATCAATGATTAAAGATTATAATATCATGTAATACTATAT-TTTTTTTAT
130 TAGTTTATATATATGCACCAATGATTAAACATTATAATATCATGTAATATTATATCTTTTATTAT
18080128 TGTAACATAT
Statistics
Matches: 169, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
226 8 0.05
227 55 0.33
229 3 0.02
230 2 0.01
231 1 0.01
232 3 0.02
234 53 0.31
235 2 0.01
236 42 0.25
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.44
Consensus pattern (233 bp):
CATATATTATTGTTTATTATTATACTAGTTGAAATATGCTCCAAGTCCTATACTTTTCGTACATA
TAAAAAATAACCATCCTACTATATTATATAATGTTATATCATATCAATAGTACATAATAGTTAAT
AGTTTATATATATGCACCAATGATTAAACATTATAATATCATGTAATATTATATCTTTTATTATA
AATTATAATAATAGTTATATATAATAGTACTAGTACAT
Found at i:18080329 original size:26 final size:26
Alignment explanation
Indices: 18080299--18080349 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
18080289 ATATTATTAT
18080299 ATTATCATTTAAGT-TTAATTTTATAG
1 ATTATCA-TTAAGTATTAATTTTATAG
* *
18080325 ATTATTATTAATTATTAATTTTATA
1 ATTATCATTAAGTATTAATTTTATA
18080350 TATTTATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (26 bp):
ATTATCATTAAGTATTAATTTTATAG
Found at i:18081301 original size:15 final size:16
Alignment explanation
Indices: 18081277--18081312 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
18081267 CACGTGACCT
*
18081277 AAAAATAGAAAAA-AA
1 AAAAAAAGAAAAAGAA
18081292 AAAAAAAGAAAAAGAA
1 AAAAAAAGAAAAAGAA
18081308 AAAAA
1 AAAAA
18081313 GAATGGCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (16 bp):
AAAAAAAGAAAAAGAA
Found at i:18081303 original size:14 final size:14
Alignment explanation
Indices: 18081286--18081315 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18081276 TAAAAATAGA
18081286 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
*
18081300 AAAAAGAAAAAAAG
1 AAAAAAAAAAAAAG
18081314 AA
1 AA
18081316 TGGCATCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:18085205 original size:29 final size:29
Alignment explanation
Indices: 18085173--18085237 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
18085163 ACATAAAAGT
*
18085173 CCTATTTTTTTAAAATTTATCGAAATGGG
1 CCTATTTTTTTAAAATTTACCGAAATGGG
* * ** *
18085202 CCTAGTATTTTATTATTTACCGGAATGGG
1 CCTATTTTTTTAAAATTTACCGAAATGGG
18085231 CC-ATTTT
1 CCTATTTT
18085238 CCCCGAAATC
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (29 bp):
CCTATTTTTTTAAAATTTACCGAAATGGG
Found at i:18086407 original size:23 final size:25
Alignment explanation
Indices: 18086371--18086425 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
18086361 TTTTCCCATT
18086371 TATATTATTATTTT-AAAACTTAAAA
1 TATA-TATTATTTTGAAAACTTAAAA
* *
18086396 -ATATATTTTTTTGAAAATTTAAAA
1 TATATATTATTTTGAAAACTTAAAA
18086420 TATATA
1 TATATA
18086426 AATTAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 8 0.31
24 13 0.50
25 5 0.19
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
TATATATTATTTTGAAAACTTAAAA
Found at i:18086556 original size:35 final size:34
Alignment explanation
Indices: 18086522--18086593 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 34
18086512 TAAATTTTAT
*
18086522 AAATTTATAAATTTTTAATTCTTTTATATATTTATTTA
1 AAATTT-T-AATTTTT-ATTATTTTATATATTTA-TTA
18086560 AAATTTTAATTTTTATTATTTTATATATTATATT
1 AAATTTTAATTTTTATTATTTTATATATT-TATT
18086594 TTTTAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
35 16 0.50
36 9 0.28
37 1 0.03
38 6 0.19
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (34 bp):
AAATTTTAATTTTTATTATTTTATATATTTATTA
Found at i:18086575 original size:27 final size:27
Alignment explanation
Indices: 18086516--18086570 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
18086506 AAGTTATAAA
* *
18086516 TTTTATAAATTTATAAATTTTTAATTC
1 TTTTATATATTTATAAAATTTTAATTC
18086543 TTTTATATATTTATTTAAAATTTTAATT
1 TTTTATATATTTA--TAAAATTTTAATT
18086571 TTTATTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 12 0.50
29 12 0.50
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (27 bp):
TTTTATATATTTATAAAATTTTAATTC
Found at i:18086580 original size:15 final size:15
Alignment explanation
Indices: 18086562--18086603 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
18086552 TTTATTTAAA
*
18086562 ATTTTAATTTTTATT
1 ATTTTAATTTATATT
18086577 ATTTTATATATTATATT
1 ATTTTA-AT-TTATATT
18086594 -TTTTAATTTA
1 ATTTTAATTTA
18086604 GTTTTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 3 0.12
15 8 0.33
16 7 0.29
17 6 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTAATTTATATT
Found at i:18090314 original size:12 final size:12
Alignment explanation
Indices: 18090297--18090321 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18090287 TGCCATCATT
18090297 ATAGTAATAATA
1 ATAGTAATAATA
18090309 ATAGTAATAATA
1 ATAGTAATAATA
18090321 A
1 A
18090322 AAACAGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATAGTAATAATA
Found at i:18094888 original size:34 final size:32
Alignment explanation
Indices: 18094824--18094891 Score: 82
Period size: 34 Copynumber: 2.1 Consensus size: 32
18094814 GTTCTAATTT
* *
18094824 CTTTTTTATTTCTTTAATTTTTCTTTTTTTCC
1 CTTTTTTATTTCTTTAATTTTTCATCTTTTCC
* *
18094856 CTTTCTTTCTTTCTTATATTTTTTCATCTTTTCC
1 CTTT-TTTATTTCTT-TAATTTTTCATCTTTTCC
18094890 CT
1 CT
18094892 CTTAACCCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 4 0.13
33 9 0.30
34 17 0.57
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.71
Consensus pattern (32 bp):
CTTTTTTATTTCTTTAATTTTTCATCTTTTCC
Found at i:18105819 original size:28 final size:26
Alignment explanation
Indices: 18105781--18105835 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
18105771 TTTCTAAAAA
*
18105781 TTTAACCAAATTTATTTATGTTTTATTT
1 TTTAACCAAATTT-GTTAT-TTTTATTT
*
18105809 TTTAACTAAATTTGTTATTTTTATTT
1 TTTAACCAAATTTGTTATTTTTATTT
18105835 T
1 T
18105836 CAATTTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.36
27 4 0.16
28 12 0.48
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (26 bp):
TTTAACCAAATTTGTTATTTTTATTT
Found at i:18105841 original size:13 final size:13
Alignment explanation
Indices: 18105825--18105867 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
18105815 TAAATTTGTT
18105825 ATTTTTATTTTCA
1 ATTTTTATTTTCA
* * *
18105838 ATTTATATATTCT
1 ATTTTTATTTTCA
*
18105851 TTTTTTATTTTCA
1 ATTTTTATTTTCA
18105864 ATTT
1 ATTT
18105868 ATATATATTT
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTTTATTTTCA
Found at i:18105887 original size:26 final size:26
Alignment explanation
Indices: 18105823--18105901 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 26
18105813 ACTAAATTTG
18105823 TTATTTTT--ATTTTCAATTTATATA
1 TTATTTTTGAATTTTCAATTTATATA
* **
18105847 TTCTTTTTTTATTTTCAATTTATATA
1 TTATTTTTGAATTTTCAATTTATATA
* *
18105873 -TATTTTTGAAGTTTTATAATTTATGTA
1 TTATTTTTGAA-TTTT-CAATTTATATA
18105900 TT
1 TT
18105902 TCTTATATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
24 7 0.16
25 7 0.16
26 20 0.45
27 9 0.20
28 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.66
Consensus pattern (26 bp):
TTATTTTTGAATTTTCAATTTATATA
Found at i:18113223 original size:32 final size:32
Alignment explanation
Indices: 18113186--18113249 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
18113176 TTAGATTAAA
18113186 TTTCATATTAAATCTTATTAAATTAATAAAAT
1 TTTCATATTAAATCTTATTAAATTAATAAAAT
18113218 TTTCATATTAAATCTTATTAAATTAATAAAAT
1 TTTCATATTAAATCTTATTAAATTAATAAAAT
18113250 ATTTATCTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (32 bp):
TTTCATATTAAATCTTATTAAATTAATAAAAT
Found at i:18115216 original size:18 final size:18
Alignment explanation
Indices: 18115195--18115232 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
18115185 ATTTGGGTAA
18115195 AACCGAAAAAATTCGGTT
1 AACCGAAAAAATTCGGTT
**
18115213 AACCGACCAAATTCGGTT
1 AACCGAAAAAATTCGGTT
18115231 AA
1 AA
18115233 TCGGTAGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (18 bp):
AACCGAAAAAATTCGGTT
Found at i:18115448 original size:18 final size:18
Alignment explanation
Indices: 18115395--18115448 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
18115385 ATTTACCTAA
* *
18115395 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAATT
*
18115414 ATCCAACCCAACCCAATT
1 ACCCAACCCAACCCAATT
18115432 ACCCAACCCAACCCAAT
1 ACCCAACCCAACCCAAT
18115449 CATAAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 26 0.84
19 5 0.16
ACGTcount: A:0.41, C:0.46, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAATT
Found at i:18119479 original size:27 final size:27
Alignment explanation
Indices: 18119446--18119501 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
18119436 AACTTATAAT
18119446 TGATAGGTTAGTTAGATTGAAAATTGA
1 TGATAGGTTAGTTAGATTGAAAATTGA
* *
18119473 TGATAGGTTAGTTAGATTTAAGATTGA
1 TGATAGGTTAGTTAGATTGAAAATTGA
18119500 TG
1 TG
18119502 TTTGTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.27, T:0.39
Consensus pattern (27 bp):
TGATAGGTTAGTTAGATTGAAAATTGA
Found at i:18122462 original size:52 final size:48
Alignment explanation
Indices: 18122443--18122645 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
18122433 TGACAAGTGG
* *
18122443 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
18122489 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
18122541 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
18122587 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
18122633 AAAGTGATAAGTG
1 AAAGTGATAAGTG
18122646 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:18122497 original size:98 final size:98
Alignment explanation
Indices: 18122377--18122645 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
18122367 TTTGAGTACT
*
18122377 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
18122442 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
18122475 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
18122540 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
18122573 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
18122638 GATAAGTG
65 GAAAAGTG
18122646 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:18122653 original size:37 final size:37
Alignment explanation
Indices: 18122609--18122754 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
18122599 GATAGCTTTA
*
18122609 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
18122646 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
18122683 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
18122720 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
18122755 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:18124081 original size:57 final size:54
Alignment explanation
Indices: 18124015--18124160 Score: 203
Period size: 57 Copynumber: 2.7 Consensus size: 54
18124005 ACATGTGATT
*
18124015 ATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGTG
1 ATGTGATTCCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAAGTGAT-T-TGTG
*
18124071 ATTGTGATTCCGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTGTG
1 A-TGTGATTCCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAAGTGATTTGTG
*
18124126 AT-T-A---CGTGTAAGACCATAGTTGGACTATGGCATCG
1 ATGTGATTCCGTGTAAGACCATAGTTGGGCTATGGCATCG
18124161 AGAAAACGAA
Statistics
Matches: 86, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
49 30 0.35
52 1 0.01
53 1 0.01
54 1 0.01
55 5 0.06
56 2 0.02
57 46 0.53
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.32
Consensus pattern (54 bp):
ATGTGATTCCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAAGTGATTTGTG
Found at i:18124136 original size:49 final size:48
Alignment explanation
Indices: 18124067--18124160 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 48
18124057 AAGTGATATG
* *
18124067 TGTGATTGTGATTCCGTGTAAGACCATAGTTGGGCTATGGCATCGGTA
1 TGTGATTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCGGTA
18124115 TGTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 TGTGA-TTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
18124161 AGAAAACGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
48 5 0.12
49 38 0.88
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.34
Consensus pattern (48 bp):
TGTGATTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCGGTA
Found at i:18127371 original size:52 final size:48
Alignment explanation
Indices: 18127352--18127554 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
18127342 TGACAAGTGG
* *
18127352 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
18127398 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
18127450 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
18127496 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
18127542 AAAGTGATAAGTG
1 AAAGTGATAAGTG
18127555 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:18127406 original size:98 final size:98
Alignment explanation
Indices: 18127286--18127554 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
18127276 TTTGAGTACT
*
18127286 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
18127351 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
18127384 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
18127449 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
18127482 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
18127547 GATAAGTG
65 GAAAAGTG
18127555 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:18127562 original size:37 final size:37
Alignment explanation
Indices: 18127518--18127663 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
18127508 GATAGCTTTA
*
18127518 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
18127555 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
18127592 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
18127629 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
18127664 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:18130107 original size:50 final size:50
Alignment explanation
Indices: 18130032--18130130 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
18130022 CTCAAGCTTG
*
18130032 CTTGGAATGCATATTTGTATATGATATGGAGACAGAGGAACAAGAGGTAA
1 CTTGGAATGCATATTTGTATATGATATGGAGACAAAGGAACAAGAGGTAA
* *
18130082 CTTGGAATGCATATTTGTATGTGATATGGAGACAAAGGAATAAGAGGTA
1 CTTGGAATGCATATTTGTATATGATATGGAGACAAAGGAACAAGAGGTA
18130131 TTTTGGTGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.37, C:0.07, G:0.28, T:0.27
Consensus pattern (50 bp):
CTTGGAATGCATATTTGTATATGATATGGAGACAAAGGAACAAGAGGTAA
Found at i:18150455 original size:30 final size:31
Alignment explanation
Indices: 18150387--18150488 Score: 93
Period size: 29 Copynumber: 3.4 Consensus size: 31
18150377 CTCCCAAATA
* ** * *
18150387 TTTTGGAAATTTTCTTTAAGCCCTTAA-TTT
1 TTTTGAAAATTTTAATTAAACCCTCAACTTT
18150417 TTTT-AAAATTTTAATTAAA-CCTCAACTTT
1 TTTTGAAAATTTTAATTAAACCCTCAACTTT
* * * **
18150446 TTTTGAAAATTCTCATTAAACCCTCTAGATT
1 TTTTGAAAATTTTAATTAAACCCTCAACTTT
18150477 TTTTGAAAATTT
1 TTTTGAAAATTT
18150489 AAGTTAGGCC
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
28 5 0.09
29 18 0.31
30 17 0.29
31 18 0.31
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (31 bp):
TTTTGAAAATTTTAATTAAACCCTCAACTTT
Found at i:18156955 original size:44 final size:44
Alignment explanation
Indices: 18156813--18157203 Score: 237
Period size: 44 Copynumber: 8.7 Consensus size: 44
18156803 TTCGCTGCAA
* * *
18156813 CTGCTTCACTGCAACTTCAGGGAGATGAGGTTTATAGCTTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAGCTTTAAT
** * * ** * * * *
18156857 CTGCTCTGCTGTAACTTTAGAAAGATAAGATTTTTA-ATTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAGCTTT-AAT
* * *
18156901 CTGCTTCACTGCAACTTTAGGGAGATAAGGCTTGTAGCTTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAGCTTTAAT
* * * * * * * * *
18156945 TTGTTCCACTGCAACTTTAAGAAAATAAGATTCGCT-GTCTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TAG-CTTTAAT
* * * * *
18156990 TTACTCTACTGCAACTGCAGGGAGATAAGGTTTGTGGCTTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAGCTTTAAT
* * * *
18157034 CTACTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TAGCTTTAAT
* **
18157079 CTGCCCCACTGCAACTTCAAGGGTATAAGATTTGTGGTTTGTAGCTTTAAT
1 CTGCTCCACTGCAACTTC-AGGG----AGA--TAAGGTTTGTAGCTTTAAT
* * * * * * *
18157130 CTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TAGCTTTAAT
* * *
18157175 CTACTCCACTGCAACTTTAGGGAAATAAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAG
18157204 ACTTGCTATG
Statistics
Matches: 262, Mismatches: 71, Indels: 27
0.73 0.20 0.08
Matches are distributed among these distances:
43 3 0.01
44 124 0.47
45 92 0.35
46 5 0.02
50 7 0.03
51 25 0.10
52 6 0.02
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAGCTTTAAT
Found at i:18157014 original size:89 final size:89
Alignment explanation
Indices: 18156819--18157208 Score: 327
Period size: 89 Copynumber: 4.3 Consensus size: 89
18156809 GCAACTGCTT
* * * * ** * * *
18156819 CACTGCAACTTCAGGGAGATGAGGTTTATAGCTTTAATCTGCTCTGCTGTAACTT-TAGAAAGAT
1 CACTGCAACTTCAGGGAGATAAGGCTTGTAGCTTTAATCTGTTCCACTGCAACTTCAAGGAA-AT
** * * *
18156883 AAGATT-TTTAAT-TTCAACCTGCTT
65 AAGATTCGCT-ATCTTCAATCTACTC
* * * *
18156907 CACTGCAACTTTAGGGAGATAAGGCTTGTAGCTTTAATTTGTTCCACTGCAACTTTAAGAAAATA
1 CACTGCAACTTCAGGGAGATAAGGCTTGTAGCTTTAATCTGTTCCACTGCAACTTCAAGGAAATA
* *
18156972 AGATTCGCTGTCTTCAATTTACTC
66 AGATTCGCTATCTTCAATCTACTC
* * * * ** *
18156996 TACTGCAACTGCAGGGAGATAAGGTTTGTGGCTTTAATCTACTCCACTGCAACTTCAAGGAGATA
1 CACTGCAACTTCAGGGAGATAAGGCTTGTAGCTTTAATCTGTTCCACTGCAACTTCAAGGAAATA
* * * *
18157061 AGATTTGCTATCTTTAATCTGCCC
66 AGATTCGCTATCTTCAATCTACTC
** * *
18157085 CACTGCAACTTCAAGGGTATAAGATTTGTGGTTTGTAGCTTTAATCTGTTCCACTGCAACTTCAG
1 CACTGCAACTTC-AGGG----AGA--TAAGGCTTGTAGCTTTAATCTGTTCCACTGCAACTTCAA
*
18157150 GGAAATAAGATTCGCTATCTTCAGTCTACTC
59 GGAAATAAGATTCGCTATCTTCAATCTACTC
* * *
18157181 CACTGCAACTTTAGGGAAATAAGACTTG
1 CACTGCAACTTCAGGGAGATAAGGCTTG
18157209 CTATGGTAGA
Statistics
Matches: 238, Mismatches: 54, Indels: 19
0.77 0.17 0.06
Matches are distributed among these distances:
88 55 0.23
89 101 0.42
90 4 0.02
91 2 0.01
94 3 0.01
95 4 0.02
96 69 0.29
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (89 bp):
CACTGCAACTTCAGGGAGATAAGGCTTGTAGCTTTAATCTGTTCCACTGCAACTTCAAGGAAATA
AGATTCGCTATCTTCAATCTACTC
Found at i:18157091 original size:45 final size:45
Alignment explanation
Indices: 18156813--18157391 Score: 234
Period size: 44 Copynumber: 12.8 Consensus size: 45
18156803 TTCGCTGCAA
* * * * * *
18156813 CTGCTTCACTGCAACTTCAGGGAGATGAGGTTT-ATAGCTTTAAT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTTAAT
** * * * * * *
18156857 CTGCTCTGCTGTAACTT-TAGAAAGATAAGATTT-TTAAT-TTCAAC
1 CTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGCT-ATCTTTAAT
* * * ** *
18156901 CTGCTTCACTGCAACTTTAGGGAGATAAGGCTTG-TAGCTTTAAT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTTAAT
* * * * * * * *
18156945 TTGTTCCACTGCAACTTTAAGAAAATAAGATTCGCTGTCTTCAAT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTTAAT
* * * * * * **
18156990 TTACTCTACTGCAACTGCAGGGAGATAAGGTTTG-TGGCTTTAAT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTTAAT
*
18157034 CTACTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTTAAT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTTAAT
* * *
18157079 CTGCCCCACTGCAACTTCAAGG-GTATAAGATTTGTGGTTTGTAGCTTTAAT
1 CTGCTCCACTGCAACTTCAAGGAG-ATAAGA-TT-T-G---CTATCTTTAAT
* * * * * *
18157130 CTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTTAAT
* * * * * *
18157175 CTACTCCACTGCAACTTTAGGGAAATAAGACTTGCTATGGTAGATTTAAT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTA---T--CTTTAAT
* * * *
18157225 CCGAC-CTACTACAACCTT-AGAGG-TATAAGA-TT-C-ATCGTTTTAAT
1 CTG-CTCCACTGCAA-CTTCA-AGGAGATAAGATTTGCTATC--TTTAAT
* * * *
18157269 CCGCTCCATTGCAACTTC-AGAGAGATAGGATTCGCTATCTTTAAT
1 CTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGCTATCTTTAAT
** ** * * * * *
18157314 CTATTCCACTTTAACTTTAGGGAGATAAGA-TTGGTATCTTCAAC
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTTAAT
* *
18157358 CTGCTCGACTGCAACTTCAAGGAGATAAGGTTTG
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATTTG
18157392 TGACTTCATT
Statistics
Matches: 390, Mismatches: 111, Indels: 67
0.69 0.20 0.12
Matches are distributed among these distances:
42 2 0.01
43 7 0.02
44 170 0.44
45 135 0.35
46 4 0.01
47 5 0.01
48 4 0.01
49 2 0.01
50 21 0.05
51 40 0.10
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (45 bp):
CTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTTAAT
Found at i:18157145 original size:96 final size:96
Alignment explanation
Indices: 18156932--18157191 Score: 273
Period size: 96 Copynumber: 2.8 Consensus size: 96
18156922 GAGATAAGGC
* ** * * * * * *
18156932 TTGTAGCTTTAATTTGTTCCACTGCAACTTTAAGAAAATAAGATTCGCTGTCTTCAATTTACTCT
1 TTGTAGCTTTAATCTACTCCACTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAATCTACCCC
* **
18156997 ACTGCAACTGC-AGGG----AGA--TAAGGT
66 ACTGCAACTTCAAGGGTATAAGATTTGTGGT
* * * * *
18157021 TTGTGGCTTTAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTTAATCTGCCCC
1 TTGTAGCTTTAATCTACTCCACTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAATCTACCCC
18157086 ACTGCAACTTCAAGGGTATAAGATTTGTGGT
66 ACTGCAACTTCAAGGGTATAAGATTTGTGGT
** * * *
18157117 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACTCC
1 TTGTAGCTTTAATCTACTCCACTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAATCTACCCC
18157182 ACTGCAACTT
66 ACTGCAACTT
18157192 TAGGGAAATA
Statistics
Matches: 137, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
89 61 0.45
90 4 0.03
94 3 0.02
96 69 0.50
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (96 bp):
TTGTAGCTTTAATCTACTCCACTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAATCTACCCC
ACTGCAACTTCAAGGGTATAAGATTTGTGGT
Found at i:18159464 original size:50 final size:50
Alignment explanation
Indices: 18159407--18159522 Score: 142
Period size: 50 Copynumber: 2.3 Consensus size: 50
18159397 TATCCCAGAT
** * * *
18159407 ATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAAAC
** * *
18159457 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAAAC
*
18159507 ATGGTCCTACATGGGA
1 ATGGTCTTACATGGGA
18159523 TCTCATTCCC
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.26
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAAAC
Found at i:18163164 original size:35 final size:35
Alignment explanation
Indices: 18163109--18163180 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
18163099 ATCAGACACT
*
18163109 ACTACAGGACTGGTTAGATTGTCCCCCGGATTGGA
1 ACTACAGGACTAGTTAGATTGTCCCCCGGATTGGA
* *
18163144 ACTACAGGATTAGTTGGATTGTCCCCCGGATTGGA
1 ACTACAGGACTAGTTAGATTGTCCCCCGGATTGGA
18163179 AC
1 AC
18163181 CCGGGCCTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (35 bp):
ACTACAGGACTAGTTAGATTGTCCCCCGGATTGGA
Found at i:18173977 original size:27 final size:26
Alignment explanation
Indices: 18173929--18173979 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
18173919 TAGAATTAAT
*
18173929 TTGTTATTCATCATTTGCTTTGTATA
1 TTGTTAATCATCATTTGCTTTGTATA
18173955 TTGTTAATCAATCATGTTG-TTTGTA
1 TTGTTAATC-ATCAT-TTGCTTTGTA
18173980 AGAATTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 11 0.50
28 3 0.14
ACGTcount: A:0.22, C:0.10, G:0.14, T:0.55
Consensus pattern (26 bp):
TTGTTAATCATCATTTGCTTTGTATA
Found at i:18174493 original size:15 final size:15
Alignment explanation
Indices: 18174473--18174504 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
18174463 AAAATTTTCT
18174473 TTTCAAAGGATTGTA
1 TTTCAAAGGATTGTA
18174488 TTTCAAAGGATTGTA
1 TTTCAAAGGATTGTA
18174503 TT
1 TT
18174505 CTAAAATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (15 bp):
TTTCAAAGGATTGTA
Found at i:18175798 original size:24 final size:26
Alignment explanation
Indices: 18175743--18175798 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
18175733 AAAATTTATC
*
18175743 ATTTAATATAATAAATAATTTAAAAT
1 ATTTATTATAATAAATAATTTAAAAT
* * *
18175769 AATTATTA-AATAAATCA-TTAAAGT
1 ATTTATTATAATAAATAATTTAAAAT
18175793 ATTTAT
1 ATTTAT
18175799 ATGAATTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 11 0.44
25 8 0.32
26 6 0.24
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTTATTATAATAAATAATTTAAAAT
Found at i:18178999 original size:5 final size:5
Alignment explanation
Indices: 18178989--18179026 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
18178979 CCTTCTCATT
*
18178989 ATAAA ATAAA ATAAA ATAAA GTAAA ATAAA ATAAA ATA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA
18179027 TTTATAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:18182759 original size:37 final size:37
Alignment explanation
Indices: 18182698--18182843 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
18182688 TACGTATGAT
* *
18182698 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
18182733 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
18182770 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
18182807 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
18182844 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:18182860 original size:46 final size:46
Alignment explanation
Indices: 18182807--18183075 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
18182797 TAAGTGTAGC
* **
18182807 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
18182853 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
18182899 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
18182951 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
18182997 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
18183049 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
18183076 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:18182926 original size:52 final size:52
Alignment explanation
Indices: 18182850--18183069 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
18182840 TAGCTAAAGC
* *
18182850 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
18182903 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
18182955 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
18183001 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
18183053 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
18183070 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:18182972 original size:98 final size:98
Alignment explanation
Indices: 18182807--18183075 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
18182797 TAAGTGTAGC
* * *
18182807 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
18182872 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
18182906 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
18182971 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
18183004 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
18183069 GATCAGA
66 GATCAGA
18183076 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:18185264 original size:25 final size:25
Alignment explanation
Indices: 18185225--18185290 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
18185215 TGTAAATAGT
* *
18185225 AAGCTCTTCCGAGCTGAATAAC-AGG
1 AAGCTCATGCGAGCTGAATAACGA-G
*
18185250 AAGGTCATGCGAGCTGAATAACGAG
1 AAGCTCATGCGAGCTGAATAACGAG
18185275 AAGCTCATGCGAGCTG
1 AAGCTCATGCGAGCTG
18185291 TAGTGTGTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
25 35 0.97
26 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (25 bp):
AAGCTCATGCGAGCTGAATAACGAG
Found at i:18187458 original size:3 final size:3
Alignment explanation
Indices: 18187450--18187485 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
18187440 ACTATCGATC
18187450 TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18187486 AGCCATGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18187472 original size:17 final size:17
Alignment explanation
Indices: 18187450--18187482 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18187440 ACTATCGATC
18187450 TTATTATTATTATTATA
1 TTATTATTATTATTATA
18187467 TTATTATTATTATTAT
1 TTATTATTATTATTAT
18187483 TATAGCCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATTATTATTATA
Found at i:18187616 original size:24 final size:24
Alignment explanation
Indices: 18187571--18187616 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
18187561 AATACATATA
* *
18187571 CATTTTCTATACTTTATATACATG
1 CATTTTCTATAATATATATACATG
*
18187595 CATTTTCTATAATATATGTACA
1 CATTTTCTATAATATATATACA
18187617 CGTTTTCTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.48
Consensus pattern (24 bp):
CATTTTCTATAATATATATACATG
Found at i:18188046 original size:5 final size:5
Alignment explanation
Indices: 18188036--18188071 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
18188026 GTTGACTTGT
* *
18188036 TTTTA TTTTA TGTTA CTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
18188072 CCTTTATTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:18200905 original size:34 final size:35
Alignment explanation
Indices: 18200861--18200927 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
18200851 CAGTAAAATA
* *
18200861 TTTTCCGTAAAATGA-TTTCTGGAAAATATTTTAC
1 TTTTCCGTAAAATGACTTACAGGAAAATATTTTAC
*
18200895 TTTTCTGTAAAATGACTTACAGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACAGGAAAATATTTT
18200928 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACAGGAAAATATTTTAC
Found at i:18202666 original size:8 final size:8
Alignment explanation
Indices: 18202653--18202677 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18202643 CCATTACCAG
18202653 GAACAACA
1 GAACAACA
18202661 GAACAACA
1 GAACAACA
18202669 GAACAACA
1 GAACAACA
18202677 G
1 G
18202678 GAACGGCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.24, G:0.16, T:0.00
Consensus pattern (8 bp):
GAACAACA
Found at i:18203514 original size:24 final size:24
Alignment explanation
Indices: 18203478--18203550 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
18203468 TGCAATCGAT
*
18203478 AGGGTGAATAGAGGAGCAGTGGAA
1 AGGGTGAAGAGAGGAGCAGTGGAA
*
18203502 AGGGTGAAGAGAGGAACAGTGGAA
1 AGGGTGAAGAGAGGAGCAGTGGAA
*
18203526 AGGGTGAAGAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCAGTGGAA
18203550 A
1 A
18203551 ATGTCTTACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.38, C:0.04, G:0.47, T:0.11
Consensus pattern (24 bp):
AGGGTGAAGAGAGGAGCAGTGGAA
Found at i:18206805 original size:124 final size:126
Alignment explanation
Indices: 18206480--18206831 Score: 564
Period size: 126 Copynumber: 2.8 Consensus size: 126
18206470 TAATTTCGAG
* ** **
18206480 TTGATGTTTCTGATAAAATAGTATAAAATAACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
18206545 AAATCGCGGTCTCGTGGACGCGCTTTTGCTACAGTAGGGCACGGAAGAAATAATTATTTTT
66 AAATCGCGGCCTCGTGGACGCGCTTTTGCTACAGTAGGGCACGGAAGAAATAATTATTTTT
*
18206606 TTGACGTTTCTGAGCAAATAGTATAATATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * *
18206671 AAATCACGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAA-T-TTTTT
66 AAATCGCGGCCTCGTGGACGCGCTTTTGCTACAGTAGGGCACGGAAGAAATAATTATTTTT
*
18206730 TTGACTTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
18206795 AAATCGCGGCCTCTTGGACGCACTTTTGCTACAGTAG
66 AAATCGCGGCCTCGTGGACGCGCTTTTGCTACAGTAG
18206832 CATGTTTGGG
Statistics
Matches: 210, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
124 102 0.49
125 1 0.00
126 107 0.51
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (126 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGGCCTCGTGGACGCGCTTTTGCTACAGTAGGGCACGGAAGAAATAATTATTTTT
Found at i:18208760 original size:29 final size:29
Alignment explanation
Indices: 18208680--18208916 Score: 390
Period size: 29 Copynumber: 8.2 Consensus size: 29
18208670 ATGACTGGGA
18208680 TTTTAATCAAATTAGGTTA-GGTTAGGGT
1 TTTTAATCAAATTAGGTTAGGGTTAGGGT
*
18208708 TTTTATTCAAATTAGGTTA-GGTTAGGGT
1 TTTTAATCAAATTAGGTTAGGGTTAGGGT
* *
18208736 TTTTAATTAAATTACGTTAGGGTTAGGGT
1 TTTTAATCAAATTAGGTTAGGGTTAGGGT
*
18208765 TTTTAATCAAATTAGGTTAAGGTTAGGGT
1 TTTTAATCAAATTAGGTTAGGGTTAGGGT
18208794 TTTTAATCAAATTAGGTTAGGGTTAGGGT
1 TTTTAATCAAATTAGGTTAGGGTTAGGGT
*
18208823 TTTTAATCAAATTAAGTTAGGGTTAGGGT
1 TTTTAATCAAATTAGGTTAGGGTTAGGGT
*
18208852 TTTTAATCAAATTAGGTTAGGGTTGGGGT
1 TTTTAATCAAATTAGGTTAGGGTTAGGGT
18208881 TTTTAATCAAATTAGGTTAGGAG-TAGGGT
1 TTTTAATCAAATTAGGTTAGG-GTTAGGGT
18208910 TTTTAAT
1 TTTTAAT
18208917 TACATCAAAT
Statistics
Matches: 195, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
28 43 0.22
29 151 0.77
30 1 0.01
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.43
Consensus pattern (29 bp):
TTTTAATCAAATTAGGTTAGGGTTAGGGT
Found at i:18208986 original size:25 final size:25
Alignment explanation
Indices: 18208952--18209023 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
18208942 CGAAAAAATT
18208952 TCTATTTTATTACATCAAATAAACA
1 TCTATTTTATTACATCAAATAAACA
* *
18208977 TCTATTTTATTACATAAAATAAACT
1 TCTATTTTATTACATCAAATAAACA
*
18209002 TCTATTTTATTACATCGAATAA
1 TCTATTTTATTACATCAAATAA
18209024 TATCAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.42, C:0.14, G:0.01, T:0.43
Consensus pattern (25 bp):
TCTATTTTATTACATCAAATAAACA
Found at i:18211420 original size:51 final size:51
Alignment explanation
Indices: 18211303--18211426 Score: 198
Period size: 51 Copynumber: 2.5 Consensus size: 51
18211293 TTATTTTAAA
* *
18211303 GAAGGAAATTTG-GAGCAAATTGACATTAAATATGGATTTGAGAGAATTTTG
1 GAAGGAAA-TTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTG
*
18211354 GAAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGGGAGAATTTTG
1 GAAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTG
18211405 GAAGGAAATTGAGAGG-AATTGA
1 GAAGGAAATTGAGAGGAAATTGA
18211427 GAGGAAATAT
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
50 9 0.13
51 60 0.87
ACGTcount: A:0.41, C:0.02, G:0.29, T:0.28
Consensus pattern (51 bp):
GAAGGAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTG
Found at i:18211441 original size:12 final size:11
Alignment explanation
Indices: 18211407--18211441 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
18211397 GAATTTTGGA
18211407 AGGAAATTGAG
1 AGGAAATTGAG
18211418 AGG-AATTGAG
1 AGGAAATTGAG
18211428 AGGAAATATGAG
1 AGGAAAT-TGAG
18211440 AG
1 AG
18211442 AGGATTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.37, T:0.17
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:18214904 original size:12 final size:12
Alignment explanation
Indices: 18214884--18214923 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
18214874 ATCATCATTT
* *
18214884 TTTACTATTTTA
1 TTTAATATTTCA
18214896 TTTAATATTTCA
1 TTTAATATTTCA
18214908 TTTAATATTTCA
1 TTTAATATTTCA
18214920 TTTA
1 TTTA
18214924 TTTATTTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTAATATTTCA
Found at i:18214939 original size:21 final size:21
Alignment explanation
Indices: 18214901--18214940 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
18214891 TTTTATTTAA
18214901 TATTTCATTTAATATTTCATT
1 TATTTCATTTAATATTTCATT
*
18214922 TATTT-ATTTACTACTTTCA
1 TATTTCATTTAATA-TTTCA
18214941 ATTTTAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTCATTTAATATTTCATT
Found at i:18216501 original size:16 final size:16
Alignment explanation
Indices: 18216476--18216509 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18216466 TGTGTTTTGC
* *
18216476 TTTGATTGCATGGCAT
1 TTTGACTGCATAGCAT
18216492 TTTGACTGCATAGCAT
1 TTTGACTGCATAGCAT
18216508 TT
1 TT
18216510 CATTCTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (16 bp):
TTTGACTGCATAGCAT
Found at i:18226065 original size:45 final size:45
Alignment explanation
Indices: 18226016--18226166 Score: 230
Period size: 45 Copynumber: 3.4 Consensus size: 45
18226006 TAGGTTGAAA
* ** *
18226016 ATAGCAGATCTTATATTCCTGTATTGGCAGTAAAGTAGATCGAAG
1 ATAGCAGATCTTGTATTCCTGTATTGGCAGCGAAGTAGATCAAAG
*
18226061 ATAGCAGATCTTGTTTTCCTGTATTGGCAGCGAAGTAGATCAAAG
1 ATAGCAGATCTTGTATTCCTGTATTGGCAGCGAAGTAGATCAAAG
* * *
18226106 ATAACAGATTTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAG
1 ATAGCAGATCTTGTATTCCTGTATTGGCAGCGAAGTAGATCAAAG
18226151 ATAGCAGATCTTGTAT
1 ATAGCAGATCTTGTAT
18226167 GTAATAACCA
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 95 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (45 bp):
ATAGCAGATCTTGTATTCCTGTATTGGCAGCGAAGTAGATCAAAG
Found at i:18228954 original size:45 final size:45
Alignment explanation
Indices: 18228890--18229188 Score: 287
Period size: 45 Copynumber: 6.7 Consensus size: 45
18228880 GGTTTCGACA
* *
18228890 TTGTCTTCCGGCATTGGCAGCGAAGTAGATTGAAGATAGCAGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAGCAGATC
* **
18228935 TTGTCTTCCTGTATCGGCAGCGAAGTAGATTGAATTTAGCAGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAGCAGATC
** * *
18228980 TTGTCTTTTTGTATTGGCAGCAAAGTAGATCGAA-ATTAGCAGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGA-TAGCAGATC
* * *
18229025 TTGTCTTTCTGTATTGGCAGCAAAGTAGATTGAAGATAGCAGATT
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAGCAGATC
* * * * *
18229070 TTATCTTCCTGTATTGGCAGCGAAGTAGATCGACGACACCAG-TC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAGCAGATC
* * ** ** * * * *
18229114 TTGCCTCCCTGGGTTTACAGCGGAGCAGACTGAAGATAGCAGATT
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAGCAGATC
* * * * *
18229159 TTGCCTTACTGTACTGACAGCGAAGCAGAT
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGAT
18229189 CAAAGACACC
Statistics
Matches: 206, Mismatches: 45, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
44 29 0.14
45 176 0.85
46 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (45 bp):
TTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAGCAGATC
Found at i:18229237 original size:89 final size:89
Alignment explanation
Indices: 18229050--18229237 Score: 189
Period size: 89 Copynumber: 2.1 Consensus size: 89
18229040 GGCAGCAAAG
* * * * * * * *
18229050 TAGATTGAAGATAGCAGATTTTATCTTCCTGTATTGGCAGCGAAGTAGATCGACGACACCAGTCT
1 TAGATTGAAGATAGCAGATTTTACCTTACTGTACTGACAGCGAAGCAGATCAAAGACACCAATCT
** *
18229115 TGCCTCCCTGGGTTTACAGCGGAG
66 CACCTCCCTGGGTTTACAGCGGAA
* * *
18229139 CAGACTGAAGATAGCAGATTTTGCCTTACTGTACTGACAGCGAAGCAGATCAAAGACACCAATCT
1 TAGATTGAAGATAGCAGATTTTACCTTACTGTACTGACAGCGAAGCAGATCAAAGACACCAATCT
** * * *
18229204 CATTTCCTTGGCG-TTGCAGTGGAA
66 CACCTCCCTGG-GTTTACAGCGGAA
18229228 TAGATTGAAG
1 TAGATTGAAG
18229238 CTGAGGGCAT
Statistics
Matches: 77, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
89 76 0.99
90 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (89 bp):
TAGATTGAAGATAGCAGATTTTACCTTACTGTACTGACAGCGAAGCAGATCAAAGACACCAATCT
CACCTCCCTGGGTTTACAGCGGAA
Found at i:18229267 original size:51 final size:49
Alignment explanation
Indices: 18229199--18229335 Score: 154
Period size: 46 Copynumber: 2.8 Consensus size: 49
18229189 CAAAGACACC
* * * *
18229199 AATCTCATTTCCTTGGCGTTGCAGTGGAATAGATTGAAGCTGAGGGCATCG
1 AATCTCATTTCCATGGCGTT-CAGT-GAATAGATTAAAGCTAAGGGCAGCG
* *
18229250 AATCTCATTACCATGGCG-TC-GT-AGTAGATTAAAGCTAAGGGCAGCG
1 AATCTCATTTCCATGGCGTTCAGTGAATAGATTAAAGCTAAGGGCAGCG
*
18229296 AATCTCATTTCTATGGCGTTACAGTGAAATAGATTAAAGC
1 AATCTCATTTCCATGGCGTT-CAGTG-AATAGATTAAAGC
18229336 CAAATGGAGC
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
46 36 0.50
47 1 0.01
48 3 0.04
49 3 0.04
50 1 0.01
51 28 0.39
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (49 bp):
AATCTCATTTCCATGGCGTTCAGTGAATAGATTAAAGCTAAGGGCAGCG
Found at i:18231073 original size:12 final size:12
Alignment explanation
Indices: 18231053--18231092 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
18231043 TTCATCATTT
*
18231053 TTTACTATTTTA
1 TTTAATATTTTA
*
18231065 TTTAATATTTCA
1 TTTAATATTTTA
18231077 TTTAATATTTTA
1 TTTAATATTTTA
18231089 TTTA
1 TTTA
18231093 TTTATTTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTAATATTTTA
Found at i:18234576 original size:23 final size:22
Alignment explanation
Indices: 18234533--18234576 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
18234523 TTCTAAGTCG
18234533 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
18234556 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
18234577 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:18234685 original size:44 final size:45
Alignment explanation
Indices: 18234622--18234708 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
18234612 ACAAATACTC
* * *
18234622 GGTGGATTCAGCACATAGC-ACCACCTTATTAATCAATGATGTCT
1 GGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCT
18234666 GGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGT
1 GGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGT
18234709 TCAGTTCACA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 17 0.44
45 22 0.56
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (45 bp):
GGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCT
Found at i:18235772 original size:65 final size:65
Alignment explanation
Indices: 18235668--18235798 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
18235658 TCCACCAACT
18235668 TAACCAATGGTCTAATTACCATATAAAGACCTCCAATTTAAAATTTCATAACAATTGGACACCTC
1 TAACCAATGGTCTAATTACCATATAAAGACCTCCAATTTAAAATTTCATAACAATTGGACACCTC
18235733 TAACCAATGGTCTAATTACCATATAAAGACCTCCAATTTAAAATTTCATAACAATTGGACACCTC
1 TAACCAATGGTCTAATTACCATATAAAGACCTCCAATTTAAAATTTCATAACAATTGGACACCTC
18235798 T
1 T
18235799 CACATATAGA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.30
Consensus pattern (65 bp):
TAACCAATGGTCTAATTACCATATAAAGACCTCCAATTTAAAATTTCATAACAATTGGACACCTC
Found at i:18240979 original size:46 final size:46
Alignment explanation
Indices: 18240914--18241098 Score: 334
Period size: 46 Copynumber: 4.0 Consensus size: 46
18240904 TGGCAAAGTG
*
18240914 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTG
1 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
18240960 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
1 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
*
18241006 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTA
1 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
* *
18241052 TGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGTTA
1 TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
18241098 T
1 T
18241099 AGCAATGTGA
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 135 1.00
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (46 bp):
TGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTA
Found at i:18247422 original size:19 final size:21
Alignment explanation
Indices: 18247384--18247426 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
18247374 CAAACTTTTC
18247384 GATTTGTTATAGAATCTTCTG
1 GATTTGTTATAGAATCTTCTG
*
18247405 GATTT-TTA-AGAATTTTCTG
1 GATTTGTTATAGAATCTTCTG
18247424 GAT
1 GAT
18247427 CATTTTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.62
20 3 0.14
21 5 0.24
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.49
Consensus pattern (21 bp):
GATTTGTTATAGAATCTTCTG
Found at i:18253727 original size:11 final size:11
Alignment explanation
Indices: 18253713--18253750 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
18253703 TAAATATTAA
18253713 ATAAAAATAAT
1 ATAAAAATAAT
18253724 ATAAAAAT-AT
1 ATAAAAATAAT
18253734 ATTAAAAATAAT
1 A-TAAAAATAAT
18253746 ATAAA
1 ATAAA
18253751 TGGGCTTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.12
11 19 0.76
12 3 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
ATAAAAATAAT
Found at i:18253750 original size:33 final size:30
Alignment explanation
Indices: 18253688--18253750 Score: 74
Period size: 33 Copynumber: 2.0 Consensus size: 30
18253678 TAAACAATTT
*
18253688 AATAAATAAAATTATTAAATATTAAATAAA
1 AATAAATAAAATTATTAAATAATAAATAAA
18253718 AATAATATAAAAATATATTAAA-AATAATATAAA
1 AATAA-AT-AAAAT-TATTAAATAATAA-ATAAA
18253751 TGGGCTTGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 5 0.18
31 2 0.07
32 9 0.32
33 12 0.43
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (30 bp):
AATAAATAAAATTATTAAATAATAAATAAA
Found at i:18269809 original size:11 final size:11
Alignment explanation
Indices: 18269793--18269819 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
18269783 ATCCCCGTAA
18269793 CGTGCTGATAT
1 CGTGCTGATAT
18269804 CGTGCTGATAT
1 CGTGCTGATAT
18269815 CGTGC
1 CGTGC
18269820 CACCCCTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.22, G:0.30, T:0.33
Consensus pattern (11 bp):
CGTGCTGATAT
Found at i:18273281 original size:17 final size:16
Alignment explanation
Indices: 18273259--18273296 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
18273249 GCTGAATGCA
18273259 TATTTTAATCTAGATTT
1 TATTTTAATCTAGA-TT
*
18273276 TATTTTAGTCTAGATT
1 TATTTTAATCTAGATT
18273292 TATTT
1 TATTT
18273297 ATTCATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (16 bp):
TATTTTAATCTAGATT
Found at i:18276670 original size:7 final size:7
Alignment explanation
Indices: 18276658--18276685 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
18276648 AGGGATAGAG
18276658 GTAGCTC
1 GTAGCTC
18276665 GTAGCTC
1 GTAGCTC
18276672 GTAGCTC
1 GTAGCTC
18276679 GTAGCTC
1 GTAGCTC
18276686 TTTGGGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (7 bp):
GTAGCTC
Found at i:18276969 original size:28 final size:28
Alignment explanation
Indices: 18276929--18276988 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
18276919 ATTGGGACAC
18276929 GGCTCTGCGTGTAGTCCGGTAATTGAAA
1 GGCTCTGCGTGTAGTCCGGTAATTGAAA
*
18276957 GGCTTTGCGTGTAGTCCGGTAATTGAAA
1 GGCTCTGCGTGTAGTCCGGTAATTGAAA
18276985 GGCT
1 GGCT
18276989 GCTTGTTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (28 bp):
GGCTCTGCGTGTAGTCCGGTAATTGAAA
Found at i:18279080 original size:18 final size:18
Alignment explanation
Indices: 18279041--18279081 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
18279031 AAATTTGAAA
*
18279041 AAAAATATTAAAAATTCT
1 AAAAATATTAAAAAATCT
18279059 AAAAATA-TAAAAAATCT
1 AAAAATATTAAAAAATCT
*
18279076 GAAAAT
1 AAAAAT
18279082 TCATTCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAAATATTAAAAAATCT
Found at i:18281083 original size:9 final size:9
Alignment explanation
Indices: 18281069--18281131 Score: 58
Period size: 9 Copynumber: 6.7 Consensus size: 9
18281059 AGATACAATA
18281069 ATTTTTAAT
1 ATTTTTAAT
*
18281078 ATTTTTTAAA
1 A-TTTTTAAT
18281088 ATTTTTAAT
1 ATTTTTAAT
18281097 AATTTTT-AT
1 -ATTTTTAAT
18281106 AATCTTTTAGA-
1 -AT-TTTTA-AT
18281117 ATTTTTAAT
1 ATTTTTAAT
18281126 ATTTTT
1 ATTTTT
18281132 TTATAATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
8 1 0.02
9 24 0.52
10 20 0.43
12 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:18281083 original size:10 final size:10
Alignment explanation
Indices: 18281065--18281173 Score: 77
Period size: 10 Copynumber: 11.0 Consensus size: 10
18281055 TTCAAGATAC
*
18281065 AATAATTTTT
1 AATATTTTTT
18281075 AATATTTTTT
1 AATATTTTTT
*
18281085 AA-AATTTTT
1 AATATTTTTT
*
18281094 AATAATTTTT
1 AATATTTTTT
*
18281104 -ATAATCTTTT
1 AAT-ATTTTTT
18281114 AGA-A-TTTTT
1 A-ATATTTTTT
18281123 AATATTTTTT
1 AATATTTTTT
*
18281133 TATAATTTTTT
1 AAT-ATTTTTT
18281144 ACA-ATTTTTT
1 A-ATATTTTTT
*
18281154 AAAATATTTTT
1 AATAT-TTTTT
18281165 AAT-TTTTTT
1 AATATTTTTT
18281174 TTCATATGAT
Statistics
Matches: 81, Mismatches: 8, Indels: 21
0.74 0.07 0.19
Matches are distributed among these distances:
8 1 0.01
9 22 0.27
10 42 0.52
11 14 0.17
12 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (10 bp):
AATATTTTTT
Found at i:18281100 original size:29 final size:30
Alignment explanation
Indices: 18281065--18281167 Score: 120
Period size: 29 Copynumber: 3.4 Consensus size: 30
18281055 TTCAAGATAC
18281065 AATAATTTTTAAT-ATTTTTTAAAATTTTT
1 AATAATTTTTAATAATTTTTTAAAATTTTT
* *
18281094 AATAATTTTT-ATAATCTTTTAGAATTTTT
1 AATAATTTTTAATAATTTTTTAAAATTTTT
* * *
18281123 AATATTTTTTTATAATTTTTTACAATTTTTT
1 AATAATTTTTAATAATTTTTTA-AAATTTTT
*
18281154 AAAATATTTTTAAT
1 AATA-ATTTTTAAT
18281168 TTTTTTTTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 2 0.03
29 33 0.54
30 10 0.16
31 9 0.15
32 7 0.11
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (30 bp):
AATAATTTTTAATAATTTTTTAAAATTTTT
Found at i:18281173 original size:20 final size:19
Alignment explanation
Indices: 18281070--18281172 Score: 86
Period size: 19 Copynumber: 5.3 Consensus size: 19
18281060 GATACAATAA
* *
18281070 TTTTTAATATTTTTTAAAA
1 TTTTTAAAATTTTTTAAAT
18281089 TTTTTAATAA-TTTTTATAAT
1 TTTTTAA-AATTTTTTA-AAT
* *
18281109 CTTTTAGAA-TTTTTAATATT
1 TTTTTAAAATTTTTTAA-A-T
*
18281129 TTTTTATAATTTTTTACAAT
1 TTTTTAAAATTTTTTA-AAT
18281149 TTTTTAAAATATTTTT-AAT
1 TTTTTAAAAT-TTTTTAAAT
18281168 TTTTT
1 TTTTT
18281173 TTTCATATGA
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
18 1 0.01
19 30 0.43
20 26 0.37
21 12 0.17
22 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (19 bp):
TTTTTAAAATTTTTTAAAT
Found at i:18281559 original size:18 final size:16
Alignment explanation
Indices: 18281536--18281574 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
18281526 TGAATGAATT
18281536 ATTAAAAATGATAAAAAA
1 ATTAAAAAT-A-AAAAAA
*
18281554 ATTAAAAATAGAAAAA
1 ATTAAAAATAAAAAAA
18281570 ATTAA
1 ATTAA
18281575 TTTAACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 1 0.05
18 9 0.45
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (16 bp):
ATTAAAAATAAAAAAA
Found at i:18286999 original size:29 final size:29
Alignment explanation
Indices: 18286965--18287021 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
18286955 TAAATTTATA
* * *
18286965 AATAACTTAGATAAACATCTATTTGAAAT
1 AATAACGTAGATAAACACCTAATTGAAAT
18286994 AATAACGTAGATAAACACCTAATTGAAA
1 AATAACGTAGATAAACACCTAATTGAAA
18287022 ATTGTCTTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (29 bp):
AATAACGTAGATAAACACCTAATTGAAAT
Found at i:18288160 original size:22 final size:22
Alignment explanation
Indices: 18288135--18288226 Score: 116
Period size: 22 Copynumber: 4.2 Consensus size: 22
18288125 AAATTCAATA
18288135 TCAATTTCCTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
*
18288157 TCAA-TTCCTTTCAAAATTTCTC
1 TCAATTTCC-TTCAAAAATTCTC
* *
18288179 TCAATTCCCTTCAAAATTTC-C
1 TCAATTTCCTTCAAAAATTCTC
*
18288200 TTCAATTTCCTTCCAAAATTCTC
1 -TCAATTTCCTTCAAAAATTCTC
18288223 TCAA
1 TCAA
18288227 ACTCTCAAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
21 5 0.08
22 52 0.85
23 4 0.07
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (22 bp):
TCAATTTCCTTCAAAAATTCTC
Found at i:18288269 original size:22 final size:22
Alignment explanation
Indices: 18288228--18288269 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18288218 TTCTCTCAAA
* *
18288228 CTCTCAAATTCTTTCCAAAATC
1 CTCTCAAATTCCTTCAAAAATC
*
18288250 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCAAAAA
18288270 ATCTCCAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (22 bp):
CTCTCAAATTCCTTCAAAAATC
Found at i:18288356 original size:29 final size:30
Alignment explanation
Indices: 18288307--18288375 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
18288297 TTCCATTAAA
*
18288307 TTTAATTTTTTTAAGAAAATTTTAAATTTT
1 TTTAATTTTTTTAAGAAAATTTTAAAATTT
* *
18288337 TTTATTTTTTTTAA-ATAATTTTAAAA-TT
1 TTTAATTTTTTTAAGAAAATTTTAAAATTT
*
18288365 TTTAATATTTT
1 TTTAATTTTTT
18288376 CAACAATGGC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 11 0.32
29 10 0.29
30 13 0.38
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (30 bp):
TTTAATTTTTTTAAGAAAATTTTAAAATTT
Found at i:18288495 original size:14 final size:15
Alignment explanation
Indices: 18288466--18288499 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18288456 AAATTTTAAA
18288466 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
18288481 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
18288495 TTTTA
1 TTTTA
18288500 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:18289399 original size:384 final size:384
Alignment explanation
Indices: 18288690--18289456 Score: 1516
Period size: 384 Copynumber: 2.0 Consensus size: 384
18288680 TCGAGAGGTG
18288690 GAGACCTGAGACGCACACATTTCATCTTCCATGTGGAGAGTGCACTATCACTCTAGAAGATGTCC
1 GAGACCTGAGACGCACACATTTCATCTTCCATGTGGAGAGTGCACTATCACTCTAGAAGATGTCC
*
18288755 ATCTGCATTTGGGATTGCCGGTGGATGGGCACCCAGTGACCGGGTCTGCCCAATCTAGCAATTGG
66 ATCTGCATTTCGGATTGCCGGTGGATGGGCACCCAGTGACCGGGTCTGCCCAATCTAGCAATTGG
18288820 GAGGCGGTGTGCTACGAGCTTTTGGGCGCCGTTCCGGATAAAATGGATGGAGGTAAGGTGGAGAT
131 GAGGCGGTGTGCTACGAGCTTTTGGGCGCCGTTCCGGATAAAATGGATGGAGGTAAGGTGGAGAT
18288885 GGGCTGGTTACGTGCCACCTTCCCCGGTCTGAATGAAAATTCAACCGAGATTGAAAGAATCCGAT
196 GGGCTGGTTACGTGCCACCTTCCCCGGTCTGAATGAAAATTCAACCGAGATTGAAAGAATCCGAT
18288950 ATGCTCGATCATACATTCTTCAAATAATTGGAGGCTATCTCATGGCCGACACATCACGGAGCCGT
261 ATGCTCGATCATACATTCTTCAAATAATTGGAGGCTATCTCATGGCCGACACATCACGGAGCCGT
18289015 GTACATCTAAGGTGGCTGCTAAAACTCGTTGATTTTAGAACAGCCGGTGAATTTAGTTT
326 GTACATCTAAGGTGGCTGCTAAAACTCGTTGATTTTAGAACAGCCGGTGAATTTAGTTT
18289074 GAGACCTGAGACGCACACATTTCATCTTCCATGTGGAGAGTGCACTATCACTCTAGAAGATGTCC
1 GAGACCTGAGACGCACACATTTCATCTTCCATGTGGAGAGTGCACTATCACTCTAGAAGATGTCC
18289139 ATCTGCATTTCGGATTGCCGGTGGATGGGCACCCAGTGACCGGGTCTGCCCAATCTAGCAATTGG
66 ATCTGCATTTCGGATTGCCGGTGGATGGGCACCCAGTGACCGGGTCTGCCCAATCTAGCAATTGG
18289204 GAGGCGGTGTGCTACGAGCTTTTGGGCGCCGTTCCGGATAAAATGGATGGAGGTAAGGTGGAGAT
131 GAGGCGGTGTGCTACGAGCTTTTGGGCGCCGTTCCGGATAAAATGGATGGAGGTAAGGTGGAGAT
18289269 GGGCTGGTTACGTGCCACCTTCCCCGGTCTGAATGAAAATTCAACCGAGATTGAAAGAATCCGAT
196 GGGCTGGTTACGTGCCACCTTCCCCGGTCTGAATGAAAATTCAACCGAGATTGAAAGAATCCGAT
18289334 ATGCTCGATCATACATTCTTCAAATAATTGGAGGCTATCTCATGGCCGACACATCACGGAGCCGT
261 ATGCTCGATCATACATTCTTCAAATAATTGGAGGCTATCTCATGGCCGACACATCACGGAGCCGT
*
18289399 GTACATCTAAGGTGGCTGCTAAAACTCGTTGATTTTAGAGCAGCCGGTGAATTTAGTT
326 GTACATCTAAGGTGGCTGCTAAAACTCGTTGATTTTAGAACAGCCGGTGAATTTAGTT
18289457 GGGGGTCTGC
Statistics
Matches: 381, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
384 381 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (384 bp):
GAGACCTGAGACGCACACATTTCATCTTCCATGTGGAGAGTGCACTATCACTCTAGAAGATGTCC
ATCTGCATTTCGGATTGCCGGTGGATGGGCACCCAGTGACCGGGTCTGCCCAATCTAGCAATTGG
GAGGCGGTGTGCTACGAGCTTTTGGGCGCCGTTCCGGATAAAATGGATGGAGGTAAGGTGGAGAT
GGGCTGGTTACGTGCCACCTTCCCCGGTCTGAATGAAAATTCAACCGAGATTGAAAGAATCCGAT
ATGCTCGATCATACATTCTTCAAATAATTGGAGGCTATCTCATGGCCGACACATCACGGAGCCGT
GTACATCTAAGGTGGCTGCTAAAACTCGTTGATTTTAGAACAGCCGGTGAATTTAGTTT
Found at i:18291066 original size:23 final size:23
Alignment explanation
Indices: 18291040--18291250 Score: 244
Period size: 23 Copynumber: 8.7 Consensus size: 23
18291030 AACCCTAACA
18291040 CTAACCTAATTTAATTAAAAACC
1 CTAACCTAATTTAATTAAAAACC
18291063 CTAACCTAACTTAATTAAATTAAAAACC
1 CTAACCTAA--T--TT-AATTAAAAACC
*
18291091 CTAACATAATTTAATTAAAAACC
1 CTAACCTAATTTAATTAAAAACC
*
18291114 CTAACCCT-ACTTAATTAAAAACCCTAACC
1 CTAA-CCTAATTTAATT--AAA----AACC
18291143 CTAACCTAATTTAATTAAAAACC
1 CTAACCTAATTTAATTAAAAACC
18291166 CTAACCTAATTTAATTAAAAACC
1 CTAACCTAATTTAATTAAAAACC
* *
18291189 CTAACATAACTTAATTAAAAACC
1 CTAACCTAATTTAATTAAAAACC
* *
18291212 CTAACATAACTTAATTAAAAACC
1 CTAACCTAATTTAATTAAAAACC
*
18291235 CTAAGCTAATTTAATT
1 CTAACCTAATTTAATT
18291251 TAATTAAAAA
Statistics
Matches: 166, Mismatches: 9, Indels: 26
0.83 0.04 0.13
Matches are distributed among these distances:
23 115 0.69
24 4 0.02
25 4 0.02
26 1 0.01
27 5 0.03
28 22 0.13
29 15 0.09
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.29
Consensus pattern (23 bp):
CTAACCTAATTTAATTAAAAACC
Found at i:18291072 original size:28 final size:28
Alignment explanation
Indices: 18291019--18291405 Score: 385
Period size: 29 Copynumber: 14.5 Consensus size: 28
18291009 TTTTGACATT
*
18291019 ATTTGATTAAAAACCCTAACACTAACCTA
1 ATTTAATTAAAAACCCTAAC-CTAACCTA
*
18291048 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
18291076 ATTAAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACCTA
18291099 ATTTAATTAAAAACCCTAA-C---CCT-
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
18291122 ACTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACCTA
18291151 ATTTAATTAAAAA--C---CCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
18291174 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
18291197 ACTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* * **
18291220 ACTTAATTAAAAACCCTAAGCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
18291248 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACCTA
* *
18291277 ATTTAATTGAAATCCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
18291305 ATTTAATTAAAAACCCCAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACCTA
* *
18291334 TTTTACA-TGAAAACCCTAACCCTAACCTA
1 ATTTA-ATTAAAAACCCTAA-CCTAACCTA
* *
18291363 TTTTAATTAAAATCCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACCTA
18291392 ATTTAATTAAAAAC
1 ATTTAATTAAAAAC
18291406 TCTTACCCTG
Statistics
Matches: 313, Mismatches: 23, Indels: 44
0.82 0.06 0.12
Matches are distributed among these distances:
23 104 0.33
24 2 0.01
25 4 0.01
26 1 0.00
27 3 0.01
28 74 0.24
29 124 0.40
30 1 0.00
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTAACCTAACCTA
Found at i:18291307 original size:126 final size:123
Alignment explanation
Indices: 18291040--18291300 Score: 373
Period size: 126 Copynumber: 2.1 Consensus size: 123
18291030 AACCCTAACA
* *
18291040 CTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAATTAAAAACCCTAACATAATTTAA
1 CTAACCTAATTTAATTAAAAACCCTAACATAAC---ATTAAATTAAAAACCCTAACATAACTTAA
18291105 TTAAAAACCCTAACCCTACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACC
63 TTAAAAACCCTAACCCTACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACC
18291166 CTAACCTAATTTAATTAAAAACCCTAACATAAC-TT-AATTAAAAACCCTAACATAACTTAATTA
1 CTAACCTAATTTAATTAAAAACCCTAACATAACATTAAATTAAAAACCCTAACATAACTTAATTA
** * * *
18291229 AAAACCCTAAGCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTGAAATCC
66 AAAACCCTAA-C---CCT-ACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACC
18291292 CTAACCTAA
1 CTAACCTAA
18291301 CCTAATTTAA
Statistics
Matches: 123, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
121 37 0.30
122 3 0.02
125 1 0.01
126 82 0.67
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (123 bp):
CTAACCTAATTTAATTAAAAACCCTAACATAACATTAAATTAAAAACCCTAACATAACTTAATTA
AAAACCCTAACCCTACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACC
Found at i:18291384 original size:58 final size:58
Alignment explanation
Indices: 18291019--18291460 Score: 324
Period size: 57 Copynumber: 8.1 Consensus size: 58
18291009 TTTTGACATT
* * * * *
18291019 ATTTGATTAAAAACCCTAACACTAACCTAATTTAATTAAAAACCCTAA-CCTAACTTA
1 ATTTAATTGAAAACCCTAACCCTAACCTATTTTAATTAAAAACCCTAACCCTAACCTA
* * *
18291076 ATTAAATT--AAA----AACCCTAACATAATTTAATTAAAAACCCTAACCCT-A-C--
1 ATTTAATTGAAAACCCTAACCCTAACCTATTTTAATTAAAAACCCTAACCCTAACCTA
* *
18291124 --TTAATTAAAAACCCTAACCCTAACCTAATTTAATT--AAA----AACCCTAACCTA
1 ATTTAATTGAAAACCCTAACCCTAACCTATTTTAATTAAAAACCCTAACCCTAACCTA
* *
18291174 ATTTAATTAAAAACCCTAA-CATAA-C----TTAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTGAAAACCCTAACCCTAACCTATTTTAATTAAAAACCCTAACCCTAACCTA
* * * ** *
18291220 ACTTAATTAAAAACCCTAA-GCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTGAAAACCCTAACCCTAACCTATTTTAATTAAAAACCCTAACCCTAACCTA
* * *
18291277 ATTTAATTGAAATCCCTAA-CCTAACCTAATTTAATTAAAAACCCCAACCCTAACCTA
1 ATTTAATTGAAAACCCTAACCCTAACCTATTTTAATTAAAAACCCTAACCCTAACCTA
* *
18291334 TTTTACA-TGAAAACCCTAACCCTAACCTATTTTAATTAAAATCCCTAACCCTAACCTA
1 ATTTA-ATTGAAAACCCTAACCCTAACCTATTTTAATTAAAAACCCTAACCCTAACCTA
* * * * * * *
18291392 ATTTAATTAAAAACTCTTACCCTGATTTATC-ATTTTATTTGAAATCCCTAACCCTAACCTA
1 ATTTAATTGAAAACCCTAACCCT-A---ACCTATTTTAATTAAAAACCCTAACCCTAACCTA
18291453 ATTTAATT
1 ATTTAATT
18291461 AATGTAAAAA
Statistics
Matches: 317, Mismatches: 31, Indels: 70
0.76 0.07 0.17
Matches are distributed among these distances:
46 40 0.13
47 1 0.00
48 8 0.03
50 5 0.02
51 51 0.16
52 41 0.13
53 1 0.00
55 4 0.01
57 74 0.23
58 53 0.17
59 1 0.00
61 36 0.11
62 2 0.01
ACGTcount: A:0.44, C:0.24, G:0.01, T:0.31
Consensus pattern (58 bp):
ATTTAATTGAAAACCCTAACCCTAACCTATTTTAATTAAAAACCCTAACCCTAACCTA
Found at i:18291413 original size:29 final size:28
Alignment explanation
Indices: 18291019--18291462 Score: 300
Period size: 29 Copynumber: 16.4 Consensus size: 28
18291009 TTTTGACATT
* *
18291019 ATTTGATTAAAAACCCTAACACTAACCTA
1 ATTTAATTAAAAA-CCTAACCCTAACCTA
*
18291048 ATTTAATTAAAAACCCTAA-CCTAACTTA
1 ATTTAATTAAAAA-CCTAACCCTAACCTA
* *
18291076 ATTAAATT--AAA---AACCCTAACATA
1 ATTTAATTAAAAACCTAACCCTAACCTA
18291099 ATTTAATTAAAAACCCTAACCCT-A-C--
1 ATTTAATTAAAAA-CCTAACCCTAACCTA
18291124 --TTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAA-CCTAACCCTAACCTA
18291151 ATTTAATT--AAA---AACCCTAACCTA
1 ATTTAATTAAAAACCTAACCCTAACCTA
*
18291174 ATTTAATT-AAAA---A-CCCTAACATA
1 ATTTAATTAAAAACCTAACCCTAACCTA
*
18291197 ACTTAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTAAAAA-CCTAACCCTAACCTA
* * **
18291220 ACTTAATTAAAAACCCTAA-GCTAATTTA
1 ATTTAATTAAAAA-CCTAACCCTAACCTA
18291248 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAA-CCTAACCCTAACCTA
**
18291277 ATTTAATTGAAATCCCTAA-CCTAACCTA
1 ATTTAATT-AAAAACCTAACCCTAACCTA
*
18291305 ATTTAATTAAAAACCCCAACCCTAACCTA
1 ATTTAATTAAAAA-CCTAACCCTAACCTA
* * *
18291334 TTTTACATGAAAACCCTAACCCTAACCTA
1 ATTTA-ATTAAAAACCTAACCCTAACCTA
* *
18291363 TTTTAATTAAAATCCCTAACCCTAACCTA
1 ATTTAATTAAAA-ACCTAACCCTAACCTA
* * **
18291392 ATTTAATTAAAAACTCTTACCCTGATTTA
1 ATTTAATTAAAAAC-CTAACCCTAACCTA
* **
18291421 TCATTTTATTTGAAATCCCTAACCCTAACCTA
1 --A-TTTAATT-AAAAACCTAACCCTAACCTA
18291453 ATTTAATTAA
1 ATTTAATTAA
18291463 TGTAAAAACC
Statistics
Matches: 342, Mismatches: 37, Indels: 73
0.76 0.08 0.16
Matches are distributed among these distances:
22 2 0.01
23 93 0.27
24 10 0.03
25 5 0.01
26 4 0.01
27 7 0.02
28 66 0.19
29 124 0.36
30 10 0.03
31 1 0.00
32 16 0.05
33 4 0.01
ACGTcount: A:0.44, C:0.24, G:0.01, T:0.31
Consensus pattern (28 bp):
ATTTAATTAAAAACCTAACCCTAACCTA
Found at i:18294126 original size:124 final size:123
Alignment explanation
Indices: 18293907--18294133 Score: 303
Period size: 124 Copynumber: 1.8 Consensus size: 123
18293897 CTACGAGGGC
* *** * **
18293907 GCGATTTGACACTATTTGCTCAGAAACGTCAAAATTTTTTTTTCCTACATGACCAACTGTAGTGA
1 GCGATTTGACACTATTTGCTCAAAAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCAA
* *
18293972 AATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCCGGTATCA
66 AATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCATATAGCATCCCGGTATCA
* * *
18294030 GCGATTTTATACTATTTGCTCAAAAAACGTCAAAAAAAATTATTTCTTACATGACC-ACTGTAGC
1 GCGATTTGACACTATTTGCTC-AAAAACGTC-AAAAAAATTATTTCCTACATGACCAACTGTAGC
* *
18294094 AAAATTGCGTCCACGAGGCCACTATTTCACAATTTCTTCT
64 AAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCT
18294134 TAAATAGTAT
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
123 19 0.22
124 50 0.57
125 19 0.22
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (123 bp):
GCGATTTGACACTATTTGCTCAAAAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCAA
AATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCATATAGCATCCCGGTATCA
Found at i:18294157 original size:124 final size:123
Alignment explanation
Indices: 18293907--18294170 Score: 296
Period size: 124 Copynumber: 2.1 Consensus size: 123
18293897 CTACGAGGGC
* *** * **
18293907 GCGATTTGACACTATTTGCTCAGAAACGTCAAAATTTTTTTTTCCTACATGACCAACTGTAGTGA
1 GCGATTTGACACTATTTGCTCAAAAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCAA
* * * **
18293972 AATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCCGGTATCA
66 AATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCCGGTAGAA
* * *
18294030 GCGATTTTATACTATTTGCTCAAAAAACGTCAAAAAAAATTATTTCTTACATGACC-ACTGTAGC
1 GCGATTTGACACTATTTGCTC-AAAAACGTC-AAAAAAATTATTTCCTACATGACCAACTGTAGC
* * * * **
18294094 AAAATTGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGTATCTTGGTAGAA
64 AAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCCGGTAGAA
**
18294154 GCGATTTCCCACTATTT
1 GCGATTTGACACTATTT
18294171 AACCAAATAC
Statistics
Matches: 115, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
123 19 0.17
124 77 0.67
125 19 0.17
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (123 bp):
GCGATTTGACACTATTTGCTCAAAAACGTCAAAAAAATTATTTCCTACATGACCAACTGTAGCAA
AATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCCGGTAGAA
Found at i:18301751 original size:22 final size:22
Alignment explanation
Indices: 18301726--18301802 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
18301716 CCAAAATATT
18301726 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
**** ** * *
18301748 ATCTCCTAATAAAACCAAAATATT
1 ATCTCCT-A-AACTTTAGCATCTA
18301772 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
18301794 ATCTCCTAA
1 ATCTCCTAA
18301803 TTAAAAGAAA
Statistics
Matches: 37, Mismatches: 16, Indels: 4
0.65 0.28 0.07
Matches are distributed among these distances:
22 22 0.59
23 2 0.05
24 13 0.35
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.34
Consensus pattern (22 bp):
ATCTCCTAAACTTTAGCATCTA
Found at i:18301765 original size:46 final size:47
Alignment explanation
Indices: 18301713--18301808 Score: 185
Period size: 46 Copynumber: 2.1 Consensus size: 47
18301703 ACAAAGATAG
18301713 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAA-TA
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTA
18301759 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTA
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTA
18301806 AAA
1 AAA
18301809 GAAAATAGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 44 0.90
47 5 0.10
ACGTcount: A:0.43, C:0.23, G:0.02, T:0.32
Consensus pattern (47 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTA
Found at i:18303179 original size:50 final size:52
Alignment explanation
Indices: 18303125--18303230 Score: 130
Period size: 50 Copynumber: 2.1 Consensus size: 52
18303115 AGGCTCCCCC
* *
18303125 ATGTGTCTGGGAGTAGGG-CTATTATTACCACT-TTCGATAAG-TTTCTCTT-T
1 ATGTGTCTGGGAGCAGGGCCT-TTATTACCA-TATTCGATAAGCTTTCCCTTAT
* *
18303175 ATGTGTCTTGGAGCAGGGCCTTTATTACCATATTCTATAAGCTTTCCCTTAT
1 ATGTGTCTGGGAGCAGGGCCTTTATTACCATATTCGATAAGCTTTCCCTTAT
18303227 ATGT
1 ATGT
18303231 CTAGGAGCAG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
49 1 0.02
50 33 0.69
51 9 0.19
52 5 0.10
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (52 bp):
ATGTGTCTGGGAGCAGGGCCTTTATTACCATATTCGATAAGCTTTCCCTTAT
Found at i:18303232 original size:50 final size:50
Alignment explanation
Indices: 18303128--18303268 Score: 126
Period size: 50 Copynumber: 2.8 Consensus size: 50
18303118 CTCCCCCATG
* * * * *
18303128 TGTCTGGGAGTAGGG-CTATTATTACCACTTTCGATAAG-TTTCTCTTTATG
1 TGTCTAGGAGCAGGGCCT-TTATTACCA-TTTCTATAAGCTTTCTCCTTATA
*
18303178 TGTCTTGGAGCAGGGCCTTTATTACCATATTCTATAAGCTTTC-CCTTATA
1 TGTCTAGGAGCAGGGCCTTTATTACCAT-TTCTATAAGCTTTCTCCTTATA
* * * * *
18303228 TGTCTAGGAGCAGGACCATTGTTACCACCTTCTGTAAGCTT
1 TGTCTAGGAGCAGGGCCTTTATTACCA-TTTCTATAAGCTT
18303269 CCGACCATGC
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
49 1 0.01
50 69 0.91
51 6 0.08
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (50 bp):
TGTCTAGGAGCAGGGCCTTTATTACCATTTCTATAAGCTTTCTCCTTATA
Found at i:18303286 original size:50 final size:50
Alignment explanation
Indices: 18303196--18303521 Score: 208
Period size: 50 Copynumber: 6.5 Consensus size: 50
18303186 AGCAGGGCCT
** * ** ** * * *
18303196 TTATTACCATATTCTATAAGCTTTCCCTTATATGTCTAGGAGCAGGACCA
1 TTATTACCACCTTCTATAAGCTTCCCCCCATGCGTTTAGGAGCAAGATCA
* * ** * *
18303246 TTGTTACCACCTTCTGTAAGCTTCCGACCATGCGTTTAGGAG-TAGAGTCT
1 TTATTACCACCTTCTATAAGCTTCCCCCCATGCGTTTAGGAGCAAGA-TCA
* * * *
18303296 TTATTACTACCTTCTATAAGCCTCCCTCCATGCGTTTGGGAGCAAGATCA
1 TTATTACCACCTTCTATAAGCTTCCCCCCATGCGTTTAGGAGCAAGATCA
* ** * * * * * * *
18303346 TTATTACTAAATTCCATAAGCCTCCTCCCATGTGTCTAGGAGTAAGACCA
1 TTATTACCACCTTCTATAAGCTTCCCCCCATGCGTTTAGGAGCAAGATCA
* * * * * * *
18303396 TTATTACCACTTTTTGTGAGCATCCCCCCATGCGTTTGGGAGCATGA-CA
1 TTATTACCACCTTCTATAAGCTTCCCCCCATGCGTTTAGGAGCAAGATCA
* * ** * *
18303445 TCTATTACAATCTTCCGTAAGTCTT-CTCCCATGCGTTTAGGAGCAAAATCA
1 T-TATTACCACCTTCTATAAG-CTTCCCCCCATGCGTTTAGGAGCAAGATCA
18303496 TTATTACCACCTTCTATAAGCCTTCC
1 TTATTACCACCTTCTATAAG-CTTCC
18303522 TTGTGCATTT
Statistics
Matches: 205, Mismatches: 65, Indels: 11
0.73 0.23 0.04
Matches are distributed among these distances:
49 5 0.02
50 191 0.93
51 9 0.04
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (50 bp):
TTATTACCACCTTCTATAAGCTTCCCCCCATGCGTTTAGGAGCAAGATCA
Found at i:18303377 original size:100 final size:98
Alignment explanation
Indices: 18303273--18303575 Score: 277
Period size: 100 Copynumber: 3.0 Consensus size: 98
18303263 AAGCTTCCGA
* *
18303273 CCATGCGTTTAGGAGTAGAGTCTTTATTACTACCTTCTATAAGCCTCCCTCCATGCGTTTGGGAG
1 CCATGCGTTTAGGAGTA-AGTCATTATTACCACCTTCTATAAGCCTCCCTCCATGCGTTTGGGAG
18303338 CAAGATCATTATTACTAAATTCCATAAGCCTCCTC
65 CAAGATCATTATTAC-AAATTCCATAAGCCTCCTC
* * * * * * * * *
18303373 CCATGTGTCTAGGAGTAAGACCATTATTACCACTTTTTGTGAGCATCCCCCCATGCGTTTGGGAG
1 CCATGCGTTTAGGAGTAAG-TCATTATTACCACCTTCTATAAGCCTCCCTCCATGCGTTTGGGAG
* * * * *
18303438 CATGA-CATCTATTACAATCTTCCGTAAGTCTTCTC
65 CAAGATCAT-TATTACAA-ATTCCATAAGCCTCCTC
* * * ** *
18303473 CCATGCGTTTAGGAGCAAAATCATTATTACCACCTTCTATAAGCCTTCCT-TGTGCATTTGGGAG
1 CCATGCGTTTAGGAG-TAAGTCATTATTACCACCTTCTATAAGCCTCCCTCCATGCGTTTGGGAG
* * * * * *
18303537 TAGGGTCATTATTACCATATTCCATATGCCTCCTT
65 CAAGATCATTATTA-CAAATTCCATAAGCCTCCTC
18303572 CCAT
1 CCAT
18303576 TCATCTGGGA
Statistics
Matches: 156, Mismatches: 41, Indels: 13
0.74 0.20 0.06
Matches are distributed among these distances:
99 40 0.26
100 114 0.73
101 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.34
Consensus pattern (98 bp):
CCATGCGTTTAGGAGTAAGTCATTATTACCACCTTCTATAAGCCTCCCTCCATGCGTTTGGGAGC
AAGATCATTATTACAAATTCCATAAGCCTCCTC
Found at i:18305739 original size:17 final size:16
Alignment explanation
Indices: 18305713--18305756 Score: 72
Period size: 17 Copynumber: 2.8 Consensus size: 16
18305703 TAAAAATTAC
18305713 TTTT-AAAAATTTAAA
1 TTTTAAAAAATTTAAA
18305728 TTATTAAAAAATTTAAA
1 TT-TTAAAAAATTTAAA
18305745 TTTTAAAAAATT
1 TTTTAAAAAATT
18305757 AATTAAATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.07
16 12 0.44
17 13 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTTAAAAAATTTAAA
Found at i:18314945 original size:400 final size:402
Alignment explanation
Indices: 18314160--18314967 Score: 1451
Period size: 400 Copynumber: 2.0 Consensus size: 402
18314150 AAAAGTTGTA
* * * *
18314160 TACAATCAGAACTCTAAGGCTACATAATCTTATCTTCTTAAATTATATATCTTTGAATATTATCT
1 TACAATCAAAACTCTAAGACTACATAATCTTATCTTC----A-TATATATCTTTGAAGATTATAT
* * * *
18314225 TCCATATTTATCGGGCTTTGGATATGGGCTTTTAATCTCTCCAAGCAACGGACCAGTTTGATTGG
61 TCCATATTTATCGGGCTCTGGAGATGGCCTTTTAATCTCTCCAAGCAACAGACCAGTTTGATTGG
18314290 GCCAAATGACCTCCCTTAAATACGATGGATCGCACAAGTTTGTCATGGTTGCGTGCTCCCATGCG
126 GCCAAATGACCTCCCTTAAATACGATGGATCGCACAAGTTTGTCATGGTTGCGTGCTCCCATGCG
18314355 CAACCCATGACATTCTCCCCCACTTGTTCTAGCGACGCCCTCGTTGCATCCTCCTTATAGAACTG
191 CAACCCATGACATTCTCCCCCACTTGTTCTAGCGACGCCCTCGTTGCATCCTCCTTATAGAACTG
18314420 GTCAATCTTCCCTTAGAACTGCCATAATGCCTCGGCAGGTTCCCAACTTGCTTCACTATCAGGAA
256 GTCAATCTTCCCTTAGAACTGCCATAATGCCTCGGCAGGTTCCCAACTTGCTTCACTATCAGGAA
18314485 GTCCCTTCCATCGATCTAAGTATTCATGCCAAGGTCGGTGGTACTTTTGTCTAATTACCCGATCT
321 GTCCCTTCCATCGATCTAAGTATTCATGCCAAGGTCGGTGGTACTTTTGTCTAATTACCCGATCT
18314550 ACCTCAATGTTTTCGAC
386 ACCTCAATGTTTTCGAC
18314567 TACAATCAAAACTCTAAGACTACATAATCTTATCTTC-T-TATATCTTTGAAGATTATATAT-CA
1 TACAATCAAAACTCTAAGACTACATAATCTTATCTTCATATATATCTTTGAAGATTATAT-TCCA
* *
18314629 TATTTATCGGGCTCTGGAGATGGCCTTTTAATCTCTCCATGCAACATACCAGTTTGATTGGGCCA
65 TATTTATCGGGCTCTGGAGATGGCCTTTTAATCTCTCCAAGCAACAGACCAGTTTGATTGGGCCA
18314694 AATGACCTCCCTTAAATACGATGGATCGCACAAGTTTGTCATGGTTGCGTGCTCCCATGCGCAAC
130 AATGACCTCCCTTAAATACGATGGATCGCACAAGTTTGTCATGGTTGCGTGCTCCCATGCGCAAC
18314759 CCATGACATTCTCCCCCACTTGTTCTAGCGACGCCCTCGTTGCATCCTCCTTATAGAACTGGTCA
195 CCATGACATTCTCCCCCACTTGTTCTAGCGACGCCCTCGTTGCATCCTCCTTATAGAACTGGTCA
18314824 ATCTTCCCTTAGAACTGCCATAATGCCTCGGCAGGTTCCCAACTTGCTTCACTATCAGGAAGTCC
260 ATCTTCCCTTAGAACTGCCATAATGCCTCGGCAGGTTCCCAACTTGCTTCACTATCAGGAAGTCC
18314889 CTTCCATCGATCTAAGTATTCATGCCAAGGTCGGTGGTACTTTTGTCTAATTACCCGATCTACCT
325 CTTCCATCGATCTAAGTATTCATGCCAAGGTCGGTGGTACTTTTGTCTAATTACCCGATCTACCT
18314954 CAATGTTTTCGAC
390 CAATGTTTTCGAC
18314967 T
1 T
18314968 TCACAATCGT
Statistics
Matches: 390, Mismatches: 10, Indels: 9
0.95 0.02 0.02
Matches are distributed among these distances:
400 353 0.91
401 2 0.01
407 35 0.09
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.32
Consensus pattern (402 bp):
TACAATCAAAACTCTAAGACTACATAATCTTATCTTCATATATATCTTTGAAGATTATATTCCAT
ATTTATCGGGCTCTGGAGATGGCCTTTTAATCTCTCCAAGCAACAGACCAGTTTGATTGGGCCAA
ATGACCTCCCTTAAATACGATGGATCGCACAAGTTTGTCATGGTTGCGTGCTCCCATGCGCAACC
CATGACATTCTCCCCCACTTGTTCTAGCGACGCCCTCGTTGCATCCTCCTTATAGAACTGGTCAA
TCTTCCCTTAGAACTGCCATAATGCCTCGGCAGGTTCCCAACTTGCTTCACTATCAGGAAGTCCC
TTCCATCGATCTAAGTATTCATGCCAAGGTCGGTGGTACTTTTGTCTAATTACCCGATCTACCTC
AATGTTTTCGAC
Found at i:18323027 original size:13 final size:14
Alignment explanation
Indices: 18323009--18323037 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18322999 ATTTCACTAT
18323009 CAATTATAATA-AA
1 CAATTATAATACAA
18323022 CAATTATAATACAA
1 CAATTATAATACAA
18323036 CA
1 CA
18323038 TTTCCTGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (14 bp):
CAATTATAATACAA
Found at i:18323295 original size:46 final size:45
Alignment explanation
Indices: 18323237--18323363 Score: 175
Period size: 46 Copynumber: 2.8 Consensus size: 45
18323227 CTCAATATGA
*
18323237 TTTTCTTCACTGAAATACCATACCTACTTTTCACAACTCAGTATAG
1 TTTTCTT-ACTGAAATACCATACCTACGTTTCACAACTCAGTATAG
*
18323283 TTTTCGTTACTGAAATACCATACCTACGTTTCACAACTCAGTATGG
1 TTTTC-TTACTGAAATACCATACCTACGTTTCACAACTCAGTATAG
* *
18323329 TTTTCTTTACT-AAATTACCATGCCTACGTTCCACA
1 TTTTC-TTACTGAAA-TACCATACCTACGTTTCACA
18323364 CTTTTCCATG
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
45 3 0.04
46 69 0.93
47 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (45 bp):
TTTTCTTACTGAAATACCATACCTACGTTTCACAACTCAGTATAG
Found at i:18332589 original size:45 final size:43
Alignment explanation
Indices: 18332540--18332698 Score: 152
Period size: 41 Copynumber: 3.7 Consensus size: 43
18332530 TATGTGTTCT
18332540 CGTGTAAGACCACGTCTGGA-ACGATGGCATCGATATATGTGATTA
1 CGTGTAAGACCACGTCTGGACA-G-TGGCATCG-TATATGTGATTA
* *
18332585 CGTGTAAGACCATGTCTAGGACATTGGCATCGTAT-T-TGATT-
1 CGTGTAAGACCACGTCT-GGACAGTGGCATCGTATATGTGATTA
*
18332626 CGTGTAAGACC-CTGTCTGGGACAGTGGCATCG-ATATGAGA-TA
1 CGTGTAAGACCAC-GTCT-GGACAGTGGCATCGTATATGTGATTA
* *
18332668 GCATGTAAGACCACGTCTGGGACATTGGCAT
1 -CGTGTAAGACCACGTCT-GGACAGTGGCAT
18332699 TTTTCGATAT
Statistics
Matches: 98, Mismatches: 8, Indels: 18
0.79 0.06 0.15
Matches are distributed among these distances:
40 2 0.02
41 30 0.31
42 7 0.07
43 27 0.28
44 4 0.04
45 24 0.24
46 3 0.03
47 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGACAGTGGCATCGTATATGTGATTA
Found at i:18332643 original size:86 final size:84
Alignment explanation
Indices: 18332539--18332698 Score: 209
Period size: 84 Copynumber: 1.9 Consensus size: 84
18332529 ATATGTGTTC
* * *
18332539 TCGTGTAAGACCACGTCTGGAAC-GATGGCATCGATATATGTGATTA-CGTGTAAGACCATGTCT
1 TCGTGTAAGACCACGTCTGGAACAG-TGGCATCG--ATATGAGA-TAGCATGTAAGACCACGTCT
18332602 AGGACATTGGCATCGTATTTGAT
62 AGGACATTGGCATCGTATTTGAT
* *
18332625 TCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGAGATAGCATGTAAGACCACGTCTGGG
1 TCGTGTAAGACCAC-GTCTGGAACAGTGGCATCGATATGAGATAGCATGTAAGACCACGTCTAGG
18332689 ACATTGGCAT
65 ACATTGGCAT
18332699 TTTTCGATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
83 2 0.03
84 34 0.52
85 1 0.02
86 28 0.42
87 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (84 bp):
TCGTGTAAGACCACGTCTGGAACAGTGGCATCGATATGAGATAGCATGTAAGACCACGTCTAGGA
CATTGGCATCGTATTTGAT
Found at i:18336857 original size:21 final size:21
Alignment explanation
Indices: 18336831--18336906 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
18336821 CACAGAAGCA
*
18336831 CATAAGTGTTAAACAAAAACC
1 CATAAGGGTTAAACAAAAACC
* * *
18336852 CATAAGGGTTGAACAAAAGCT
1 CATAAGGGTTAAACAAAAACC
* * * *
18336873 CGTAAGAGCTGAACAAAAACC
1 CATAAGGGTTAAACAAAAACC
18336894 CATAAGGGTTAAA
1 CATAAGGGTTAAA
18336907 TTGAAGCTCA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.47, C:0.17, G:0.18, T:0.17
Consensus pattern (21 bp):
CATAAGGGTTAAACAAAAACC
Found at i:18336901 original size:42 final size:41
Alignment explanation
Indices: 18336842--18336995 Score: 164
Period size: 42 Copynumber: 3.7 Consensus size: 41
18336832 ATAAGTGTTA
* **
18336842 AACAAAAACCCATAAGGGTTGAACAAAAGCTCGTAAGAGCTG
1 AACAAAAACCCATAAGGGTTAAACTGAAGCTC-TAAGAGCTG
* *
18336884 AACAAAAACCCATAAGGGTTAAATTGAAGCTCAAAAGAGCTG
1 AACAAAAACCCATAAGGGTTAAACTGAAGCTC-TAAGAGCTG
** * *
18336926 AACGGAAACCCATTAGGGTTAAACTGAAGCTCTAAAAAGCTG
1 AACAAAAACCCATAAGGGTTAAACTGAAGCTCT-AAGAGCTG
** * *
18336968 AACGGAAACCCATTATGGTTAAACTGAA
1 AACAAAAACCCATAAGGGTTAAACTGAA
18336996 ACTCATATAA
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
42 98 1.00
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (41 bp):
AACAAAAACCCATAAGGGTTAAACTGAAGCTCTAAGAGCTG
Found at i:18336968 original size:84 final size:84
Alignment explanation
Indices: 18336847--18337000 Score: 193
Period size: 84 Copynumber: 1.8 Consensus size: 84
18336837 TGTTAAACAA
* * *
18336847 AAACCCATAAGGGTTGAACAAAAGCTCGTAAGAGCTGAACAAAAACCCATAAGGGTTAAATTGAA
1 AAACCCATAAGGGTTAAACAAAAGCTCGTAAAAGCTGAACAAAAACCCATAAGGGTTAAACTGAA
*
18336912 GCTCAAAAGAGCTGAACGG
66 ACTCAAAAGAGCTGAACGG
* ** ** * *
18336931 AAACCCATTAGGGTTAAACTGAAGCTC-TAAAAAGCTGAACGGAAACCCATTATGGTTAAACTGA
1 AAACCCATAAGGGTTAAACAAAAGCTCGT-AAAAGCTGAACAAAAACCCATAAGGGTTAAACTGA
18336995 AACTCA
65 AACTCA
18337001 TATAAGTTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
83 1 0.02
84 57 0.98
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (84 bp):
AAACCCATAAGGGTTAAACAAAAGCTCGTAAAAGCTGAACAAAAACCCATAAGGGTTAAACTGAA
ACTCAAAAGAGCTGAACGG
Found at i:18342058 original size:13 final size:13
Alignment explanation
Indices: 18342040--18342064 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18342030 CATGTTTAGG
18342040 TATGTTTAATGTA
1 TATGTTTAATGTA
18342053 TATGTTTAATGT
1 TATGTTTAATGT
18342065 GCCTATATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (13 bp):
TATGTTTAATGTA
Found at i:18342502 original size:20 final size:21
Alignment explanation
Indices: 18342477--18342518 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18342467 ACCCCTGCAG
* *
18342477 CCTAAA-TTTTTAAATTTTTT
1 CCTAAACTTTTCAAATGTTTT
18342497 CCTAAACTTTTCAAATGTTTT
1 CCTAAACTTTTCAAATGTTTT
18342518 C
1 C
18342519 GATTTAGTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.52
Consensus pattern (21 bp):
CCTAAACTTTTCAAATGTTTT
Found at i:18344157 original size:16 final size:16
Alignment explanation
Indices: 18344136--18344168 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
18344126 GCAGAAAGAG
18344136 TACAATATGAAGATAA
1 TACAATATGAAGATAA
18344152 TACAATATGAAGATAA
1 TACAATATGAAGATAA
18344168 T
1 T
18344169 CTCAACGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (16 bp):
TACAATATGAAGATAA
Found at i:18361930 original size:32 final size:32
Alignment explanation
Indices: 18361893--18361955 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
18361883 GAGCTGGGTC
18361893 ACTCATACAGGCTCAACTCATTAAGAAACACT
1 ACTCATACAGGCTCAACTCATTAAGAAACACT
**
18361925 ACTCATACAGGCTCAACTTGTTAAGAAACAC
1 ACTCATACAGGCTCAACTCATTAAGAAACAC
18361956 CACTTCAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (32 bp):
ACTCATACAGGCTCAACTCATTAAGAAACACT
Done.