Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 382 of 444
Found at i:110873327 original size:2 final size:2
Alignment explanation
Indices: 110873320--110873345 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
110873310 TAATTATAGA
110873320 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
110873346 TAGATTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110873708 original size:2 final size:2
Alignment explanation
Indices: 110873701--110873735 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
110873691 ATTTTCACAA
110873701 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110873736 TTTGGATTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:110877888 original size:21 final size:21
Alignment explanation
Indices: 110877862--110877902 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
110877852 GAACTAGAAA
110877862 AAGTTCTCTCCTTTTAGGGTG
1 AAGTTCTCTCCTTTTAGGGTG
110877883 AAGTTCTCTCCTTTTAGGGT
1 AAGTTCTCTCCTTTTAGGGT
110877903 AAAAATGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.44
Consensus pattern (21 bp):
AAGTTCTCTCCTTTTAGGGTG
Found at i:110878387 original size:26 final size:26
Alignment explanation
Indices: 110878351--110878407 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
110878341 TCTCATCCCT
110878351 ATTTTACCCCTAGTAAAATTTTA-ACG
1 ATTTTACCCCTAGTAAAA-TTTAGACG
* *
110878377 ATTTTACCCCTGGTATAATTTAGACG
1 ATTTTACCCCTAGTAAAATTTAGACG
110878403 ATTTT
1 ATTTT
110878408 GGCTCTGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTAGACG
Found at i:110880340 original size:205 final size:205
Alignment explanation
Indices: 110880036--110880756 Score: 1061
Period size: 205 Copynumber: 3.5 Consensus size: 205
110880026 TAGGCTGCAG
*
110880036 CATAGCAGATCTCGCCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* *
110880101 CTTACAAGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTATTTACGATGAAGCAAATCT
66 CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTATTTACGATGAAGCAAATCT
* * * *
110880166 AAAATGATTTGTCATCTCTGTATTGTCAGAGAACGAATCGAATTTTGGCATATTCACTTTGATGG
131 AAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGG
110880231 AGAGCAGACA
196 AGAGCAGACA
* * *
110880241 CATAGCAGATCTCGCATTCGGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* *
110880306 TTTACAAGGAACAAATCGAAGACATAGTTGATTTGGCTTTCACGTATTTACGATGAAGCAAATCT
66 CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTATTTACGATGAAGCAAATCT
* * * * * ** *
110880371 AAGATGATTTGTCGTCTCTGTAGTT-TCAGAGAACAAATTGAAGTCTAGCATCTCCACTTCAATA
131 AAGATGATTTGTCATCTCTGTA-TTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATG
*
110880435 GAGAGCAGATA
195 GAGAGCAGACA
* * * * *
110880446 CATAGCAAATCT-GACCGTCAGATGTTTATACTGAAGCAAGATCCAAGATGATTTGGCATTCTTG
1 CATAGCAGATCTCG-CCTTCAGATGTTTATGCTGAAGC-AGATCCAAGATGGTTTGGCATCCTTG
* *
110880510 TGCTTACAAGGAACAATTTGAAGACATAGCTGATTTGGCTTTCACGTGA-TTACGATGAAGCAAA
64 TGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGT-ATTTACGATGAAGCAAA
110880574 TCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGA
128 TCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGA
110880639 TGGAGAGCAGACA
193 TGGAGAGCAGACA
* * * * *
110880652 CATAGCAGATCTCGCCTTCGGATGTTTATGCTGAAGCGGATCTAAGATAGTTTGGCATCATTGTG
1 CATAGCAGATCTCGCCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * *
110880717 TTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTT
66 CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTT
110880757 TGGATGTTCC
Statistics
Matches: 453, Mismatches: 57, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
204 1 0.00
205 270 0.60
206 180 0.40
207 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (205 bp):
CATAGCAGATCTCGCCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTATTTACGATGAAGCAAATCT
AAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGG
AGAGCAGACA
Found at i:110881540 original size:19 final size:20
Alignment explanation
Indices: 110881516--110881553 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
110881506 TGTTCTTTAT
110881516 TTTG-AATACAAAAAAGAGA
1 TTTGAAATACAAAAAAGAGA
110881535 TTTGAAATACAAAAAAGAG
1 TTTGAAATACAAAAAAGAG
110881554 GTTATAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.21
Consensus pattern (20 bp):
TTTGAAATACAAAAAAGAGA
Found at i:110882777 original size:3 final size:3
Alignment explanation
Indices: 110882769--110882812 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
110882759 TATATATTTA
** *
110882769 TAT TAT TAT TGC TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
110882813 CTGAACATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:110883297 original size:3 final size:3
Alignment explanation
Indices: 110883291--110883381 Score: 123
Period size: 3 Copynumber: 30.7 Consensus size: 3
110883281 TGTTATCATC
* * * *
110883291 ATT ATT ATT ATT A-T ATT A-T AAT ACCT CTT TTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
110883335 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
110883382 ATTTTCCTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
2 4 0.05
3 75 0.94
4 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:110885295 original size:136 final size:137
Alignment explanation
Indices: 110885060--110885334 Score: 489
Period size: 136 Copynumber: 2.0 Consensus size: 137
110885050 AGCCTATTCA
* * *
110885060 GGTAATAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
*
110885125 CAGATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AACATATGCAAGC
66 CAGATAACAGTATGACCCATAGGCCCATTGCAAAATACATGCAACATCAATAAACATATGCAAGC
110885189 CCATTTG
131 CCATTTG
110885196 GGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
* *
110885261 CAGATAACAGTATGGCCCATAGGCCCATTGCAAAATACATGCAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGACCCATAGGCCCATTGCAAAATACATGCAACATCAATAAACATATGCAAGC
110885326 CCATTTG
131 CCATTTG
110885333 GG
1 GG
110885335 GAGACTACTC
Statistics
Matches: 132, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 110 0.83
137 22 0.17
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
GGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
CAGATAACAGTATGACCCATAGGCCCATTGCAAAATACATGCAACATCAATAAACATATGCAAGC
CCATTTG
Found at i:110887152 original size:26 final size:26
Alignment explanation
Indices: 110887116--110887251 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
110887106 CATGATATTC
110887116 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
110887142 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
110887168 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
110887194 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
110887220 TTATCATGGAACATTTACCTAGCCTA
1 TTATCATGAAACATTTACCTAACCCA
110887246 TTATCA
1 TTATCA
110887252 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:110888264 original size:73 final size:73
Alignment explanation
Indices: 110888181--110888375 Score: 282
Period size: 73 Copynumber: 2.6 Consensus size: 73
110888171 AAAAATCATT
* * * *
110888181 TTTTCATTTTTGGGTAAATTGTAAATAATTATATTATTGATGTAAAATACAATAGATTATAATAC
1 TTTTCATTTTTGGGTAAATTGTAAATAAATATATTATTGATGTAAAATACAATAAAATACAATAC
110888246 AAACAACA
66 AAACAACA
*
110888254 TTTTCATTTTTGGGTAAATTGTAACTAAATATATTATTGATGTAAAAATACAATAAAATACAATA
1 TTTTCATTTTTGGGTAAATTGTAAATAAATATATTATTGATGT-AAAATACAATAAAATACAATA
*
110888319 CAAACAATA
65 CAAACAACA
** * *
110888328 TTTTCATTTTTTTTGTAAATTATAAATAAGTATATTATTGATGTAAAA
1 TTTTCA-TTTTTGGGTAAATTGTAAATAAATATATTATTGATGTAAAA
110888376 AATAAACAAA
Statistics
Matches: 109, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
73 41 0.38
74 36 0.33
75 32 0.29
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.42
Consensus pattern (73 bp):
TTTTCATTTTTGGGTAAATTGTAAATAAATATATTATTGATGTAAAATACAATAAAATACAATAC
AAACAACA
Found at i:110889606 original size:1 final size:1
Alignment explanation
Indices: 110889600--110889639 Score: 80
Period size: 1 Copynumber: 40.0 Consensus size: 1
110889590 TTGGTTTTCC
110889600 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
110889640 GCAAAGTTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:110893294 original size:26 final size:27
Alignment explanation
Indices: 110893232--110893295 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
110893222 TTGTTTACTT
*
110893232 TTTTAATATTTTAAAATTTAATCCTTATA
1 TTTTAAT-TTTTAAAATTTAATAC-TATA
110893261 TTTT-ATTTTTAAAATTT-ATGAC-ATA
1 TTTTAATTTTTAAAATTTAAT-ACTATA
110893286 TTTTAATTTT
1 TTTTAATTTT
110893296 GTTCTAAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
25 7 0.22
26 7 0.22
27 12 0.38
28 2 0.06
29 4 0.12
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTTAATTTTTAAAATTTAATACTATA
Found at i:110894854 original size:5 final size:5
Alignment explanation
Indices: 110894844--110894875 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
110894834 AAGATATTAT
110894844 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
110894876 ATTAAATTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:110895037 original size:35 final size:34
Alignment explanation
Indices: 110894975--110895056 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 34
110894965 ACTTTTGGTA
110894975 TTCCTATTTCAATTTGGAATTAGATTATTCTCTCTT
1 TTCCTATTTCAATTTGGAATTAGATTATT-T-TCTT
110895011 TTCCTATTTTC-A-TTGGAATT-GAATTATTTTCTT
1 TTCCTA-TTTCAATTTGGAATTAG-ATTATTTTCTT
*
110895044 TT-CTCTTTCAATT
1 TTCCTATTTCAATT
110895057 ACATAGAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
31 4 0.10
32 3 0.07
33 7 0.17
34 2 0.05
35 14 0.34
36 7 0.17
37 4 0.10
ACGTcount: A:0.21, C:0.16, G:0.07, T:0.56
Consensus pattern (34 bp):
TTCCTATTTCAATTTGGAATTAGATTATTTTCTT
Found at i:110895431 original size:23 final size:22
Alignment explanation
Indices: 110895405--110895523 Score: 75
Period size: 23 Copynumber: 5.1 Consensus size: 22
110895395 ATATTATTCC
110895405 TATTATTTTTATGTTTCTATTTA
1 TATTATTTTTAT-TTTCTATTTA
*
110895428 TATTTATTTTGT-TATTCTAATATTA
1 TA-TTATTTT-TATTTTCT-AT-TTA
* *
110895453 TTATTATTTATCTA-TTTATATTTC
1 -TATTATTT-T-TATTTTCTATTTA
* *
110895477 TACTATTATTATATTTCTATTTA
1 TATTATTTTTAT-TTTCTATTTA
110895500 T-TATATTTTTA-TTTCTATTTA
1 TAT-TATTTTTATTTTCTATTTA
110895521 TAT
1 TAT
110895524 ACTAATATTA
Statistics
Matches: 74, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
21 13 0.18
22 2 0.03
23 28 0.38
24 12 0.16
25 12 0.16
26 7 0.09
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (22 bp):
TATTATTTTTATTTTCTATTTA
Found at i:110895468 original size:17 final size:17
Alignment explanation
Indices: 110895448--110895507 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 17
110895438 GTTATTCTAA
110895448 TATTATTATTATTTAT-C
1 TATTATTA-TATTTATAC
*
110895465 TA-T-TTATATTTCTAC
1 TATTATTATATTTATAC
*
110895480 TATTATTATATTTCTA-
1 TATTATTATATTTATAC
110895496 T-TTATTATATTT
1 TATTATTATATTT
110895508 TTATTTCTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
14 6 0.15
15 17 0.44
16 3 0.08
17 13 0.33
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTATTATATTTATAC
Found at i:110895471 original size:29 final size:27
Alignment explanation
Indices: 110895425--110895535 Score: 81
Period size: 32 Copynumber: 4.1 Consensus size: 27
110895415 ATGTTTCTAT
* *
110895425 TTATATTTATTTTGTTATTCTAATATTA
1 TTATATTTCTATT-TTATTCTAATATTA
*
110895453 TTATTATTTATCTATTTATATTTCTACTATTA
1 TTA-TA-TT-TCTATTT-TA-TTCTAATATTA
110895485 TTATATTTCTA-TTTA-T-T-ATATT-
1 TTATATTTCTATTTTATTCTAATATTA
*
110895507 TT-TATTTCTATTTATATACTAATATTA
1 TTATATTTCTATTT-TATTCTAATATTA
110895534 TT
1 TT
110895536 TTCATTATTA
Statistics
Matches: 67, Mismatches: 5, Indels: 23
0.71 0.05 0.24
Matches are distributed among these distances:
21 8 0.12
22 4 0.06
23 6 0.09
24 1 0.01
25 2 0.03
26 5 0.07
27 4 0.06
28 5 0.07
29 6 0.09
30 5 0.07
31 8 0.12
32 13 0.19
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (27 bp):
TTATATTTCTATTTTATTCTAATATTA
Found at i:110895486 original size:43 final size:43
Alignment explanation
Indices: 110895405--110895522 Score: 105
Period size: 43 Copynumber: 2.7 Consensus size: 43
110895395 ATATTATTCC
* ** *
110895405 TATTATTTTTATGTTTCTATTTATATTTATTTTGTTATTCTAA
1 TATTATTATTATGTTTCTATTTATATTTATACTATTATTCTAA
* *
110895448 TATTATTATTAT-TTATCTATTTATATTTCTACTATTATTAT-A
1 TATTATTATTATGTT-TCTATTTATATTTATACTATTATTCTAA
* * * *
110895490 TTTCTATTTATTATATTTTTATTTCTATTTATA
1 TAT-TA-TTATTATGTTTCTATTTATATTTATA
110895523 TACTAATATT
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
42 5 0.08
43 34 0.56
44 20 0.33
45 2 0.03
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (43 bp):
TATTATTATTATGTTTCTATTTATATTTATACTATTATTCTAA
Found at i:110895500 original size:15 final size:15
Alignment explanation
Indices: 110895468--110895513 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
110895458 ATTTATCTAT
110895468 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
110895485 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
110895500 TTATATTTTTATTT
1 TTATATTTCTATTT
110895514 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:110895507 original size:32 final size:32
Alignment explanation
Indices: 110895442--110895500 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
110895432 TATTTTGTTA
110895442 TTCTAATATTATTATTATTTATCTATTTATAT
1 TTCTAATATTATTATTATTTATCTATTTATAT
*
110895474 TTCTACTATTATTA-TA-TT-TCTATTTAT
1 TTCTAATATTATTATTATTTATCTATTTAT
110895501 TATATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.35
30 2 0.08
31 2 0.08
32 13 0.50
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (32 bp):
TTCTAATATTATTATTATTTATCTATTTATAT
Found at i:110897514 original size:19 final size:19
Alignment explanation
Indices: 110897492--110897555 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
110897482 ATTTCTTTCT
*
110897492 TTTGCAT-TCATTCCATGCA
1 TTTGCATATCATTGCAT-CA
*
110897511 TTTGTATATCATTGCATCA
1 TTTGCATATCATTGCATCA
* *
110897530 ATTGCATAGCATTGCATCA
1 TTTGCATATCATTGCATCA
110897549 TTTGCAT
1 TTTGCAT
110897556 TAAATTTTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 30 0.79
20 8 0.21
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (19 bp):
TTTGCATATCATTGCATCA
Found at i:110901732 original size:64 final size:64
Alignment explanation
Indices: 110901631--110901757 Score: 218
Period size: 64 Copynumber: 2.0 Consensus size: 64
110901621 CATTCATAGT
* * *
110901631 ACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAGCATC
1 ACATCTAGCTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTATTTGGCATAAGCATC
*
110901695 ACATCTAGCTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTGTTTGGCATAAGCAT
1 ACATCTAGCTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTATTTGGCATAAGCAT
110901758 ATATACATGA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (64 bp):
ACATCTAGCTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAACTATTTGGCATAAGCATC
Found at i:110902096 original size:133 final size:133
Alignment explanation
Indices: 110901858--110902169 Score: 471
Period size: 133 Copynumber: 2.3 Consensus size: 133
110901848 GGGTAACAGG
* * * * * *
110901858 CTGCAAATTATAGATCTCATCTCCATTTATTGACTATGGAGCAGATCAGAAATGGCGAGTCTTAT
1 CTGCAAATTATAGATCTTATCTCCATGTATCGACTATGGAGCAAATAAAAAATGGCGAGTCTTAT
* *
110901923 CTCCATGTATCGGCTATAGAGCAGATTTTAGCCACTAGTCTTATCTTCTTGAAGTTGCAGGGAGC
66 CTCCATGTATCGGCTATAGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAGAGAGC
110901988 AGA
131 AGA
* * * *
110901991 CTGCAAATTAGAGATATTATCTCCATGCATCGACTATGGAGCAAATAAAAAATGGCGGGTCTTAT
1 CTGCAAATTATAGATCTTATCTCCATGTATCGACTATGGAGCAAATAAAAAATGGCGAGTCTTAT
* *
110902056 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCTCTAGTCTTATCTTCCTGAAGTTGCAGAGAGC
66 CTCCATGTATCGGCTATAGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAGAGAGC
110902121 AGA
131 AGA
* * *
110902124 CTGTAAATTATAGATCTTATCTTCATGTATCGGCTATGGAGCAAAT
1 CTGCAAATTATAGATCTTATCTCCATGTATCGACTATGGAGCAAAT
110902170 TTTAGCCACT
Statistics
Matches: 159, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
133 159 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (133 bp):
CTGCAAATTATAGATCTTATCTCCATGTATCGACTATGGAGCAAATAAAAAATGGCGAGTCTTAT
CTCCATGTATCGGCTATAGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAGAGAGC
AGA
Found at i:110902152 original size:88 final size:88
Alignment explanation
Indices: 110902050--110902237 Score: 313
Period size: 88 Copynumber: 2.1 Consensus size: 88
110902040 AAATGGCGGG
* *
110902050 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCTCTAGTCTTATCTTCCTGAAGTTGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAAATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
* *
110902115 GAGAGCAGACTGTAAATTATAGA
66 GAGAGCAGACTGCAAATTAGAGA
*
110902138 TCTTATCTTCATGTATCGGCTATGGAGCAAATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAAATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
*
110902203 GGGAGCAGACTGCAAATTAGAGA
66 GAGAGCAGACTGCAAATTAGAGA
*
110902226 TATTATCTCCAT
1 TCTTATCTCCAT
110902238 TAGGGGTGAG
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 92 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (88 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAAATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCA
GAGAGCAGACTGCAAATTAGAGA
Found at i:110902186 original size:44 final size:44
Alignment explanation
Indices: 110902049--110902191 Score: 114
Period size: 44 Copynumber: 3.2 Consensus size: 44
110902039 AAAATGGCGG
* * *
110902049 GTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCTCTA
1 GTCTTATCTTCATGTATCGGCTATGGAGCAAATTTTAGCCACTA
* * * * * * ***
110902093 GTCTTATCTTCCTGAAGT-TGC-A-GAGAGCAGACTGTAAATTA-TA
1 GTCTTATCTTCATGTA-TCGGCTATG-GAGCA-AATTTTAGCCACTA
110902136 GATCTTATCTTCATGTATCGGCTATGGAGCAAATTTTAGCCACTA
1 G-TCTTATCTTCATGTATCGGCTATGGAGCAAATTTTAGCCACTA
110902181 GTCTTATCTTC
1 GTCTTATCTTC
110902192 CTGAAGTTGC
Statistics
Matches: 70, Mismatches: 21, Indels: 16
0.65 0.20 0.15
Matches are distributed among these distances:
42 1 0.01
43 10 0.14
44 48 0.69
45 10 0.14
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (44 bp):
GTCTTATCTTCATGTATCGGCTATGGAGCAAATTTTAGCCACTA
Found at i:110902414 original size:18 final size:18
Alignment explanation
Indices: 110902380--110902416 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
110902370 TAACTTTTTG
**
110902380 AATTCGAATAACTCGAAT
1 AATTCGAATAAAACGAAT
110902398 AATTCGAATAAAACGAAT
1 AATTCGAATAAAACGAAT
110902416 A
1 A
110902417 TAAACTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (18 bp):
AATTCGAATAAAACGAAT
Found at i:110902712 original size:3 final size:3
Alignment explanation
Indices: 110902704--110902801 Score: 196
Period size: 3 Copynumber: 32.7 Consensus size: 3
110902694 AAATAAACTC
110902704 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
110902752 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
110902800 TC
1 TC
110902802 ACATCAAAAT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 95 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:110903126 original size:17 final size:17
Alignment explanation
Indices: 110903076--110903126 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
110903066 TTATAACTTG
110903076 AATATTATAAATT-TTA
1 AATATTATAAATTCTTA
* * *
110903092 GA-ATTAGAAAAATCTTA
1 AATATTA-TAAATTCTTA
110903109 AATATTATAAATTCTTA
1 AATATTATAAATTCTTA
110903126 A
1 A
110903127 TTCCAACTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
15 4 0.15
16 5 0.19
17 13 0.50
18 4 0.15
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (17 bp):
AATATTATAAATTCTTA
Found at i:110903694 original size:16 final size:16
Alignment explanation
Indices: 110903673--110903704 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
110903663 GATAAGAGAA
110903673 TATTTAATATATTCTC
1 TATTTAATATATTCTC
110903689 TATTTAATATATTCTC
1 TATTTAATATATTCTC
110903705 GGGATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTAATATATTCTC
Found at i:110907086 original size:133 final size:133
Alignment explanation
Indices: 110906848--110907455 Score: 863
Period size: 133 Copynumber: 4.6 Consensus size: 133
110906838 CTCACCCATA
* * *
110906848 ATCTCCATGTATCGGCTATGAAGCAGAT-TGAAAATGGCGGGTCTTATCTCCATGTATCGGCTAT
1 ATCTCCATGTATCGGCTATGGAGCAGATCAG-AAATGGCGAGTCTTATCTCCATGTATCGGCTAT
* * * *
110906912 GGAGCAGATTTTAGCCTCTAGTATTATCTTCCTGAAGTTGCACGGAGTAGACTGCAAATTATAGA
65 GGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAGGGAGCAGACTGCAAATTATAGA
110906977 TCTT
130 TCTT
* * * *
110906981 ATCTCCATGTATCGGCTATGGAGCAAATCAGAAATGGCGAGTCTTTTCTCCATATATTGGCTATG
1 ATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATG
* *
110907046 GAGCAGATTTTAGCCACTAGTCTTATCTTTCTGAAGTTGCAGGGAGCAGACTGCAAATTAGAGAT
66 GAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAGGGAGCAGACTGCAAATTATAGAT
110907111 CTT
131 CTT
* * * * *
110907114 ATTTCCATGTATCGGCTATGGAGCAGATCAGAAATGGTGAATCTTATCTCTATGTATTGGCTATG
1 ATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATG
* *
110907179 GAGCAGATTTTAGCCACTAGTCTTATCTTCCTAAAGTTGTA-GGAGCAGACTGC-AATATATAGA
66 GAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAGGGAGCAGACTGCAAAT-TATAGA
110907242 TCTT
130 TCTT
* * * *
110907246 ATCTCCATGTATTGGCTATGGAGCAGATTAGAAATCGCAAGTCTTATCTCCATGTATCGGCTATG
1 ATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATG
*
110907311 GAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAGGGAGCAGACTGCAAATTACAGAT
66 GAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAGGGAGCAGACTGCAAATTATAGAT
110907376 CTT
131 CTT
* * * * *
110907379 ATCTCCATGTATCGGCTAT-G-G-A-TTGA-AAATGGTGAGTCTTATCTTCATGTATCAGCTATG
1 ATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATG
*
110907439 GAGTAGATTTTAGCCAC
66 GAGCAGATTTTAGCCAC
110907456 CAACCTTATC
Statistics
Matches: 426, Mismatches: 45, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
128 45 0.11
129 2 0.00
130 1 0.00
131 4 0.01
132 117 0.27
133 253 0.59
134 4 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (133 bp):
ATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATG
GAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAGGGAGCAGACTGCAAATTATAGAT
CTT
Found at i:110907138 original size:45 final size:44
Alignment explanation
Indices: 110907109--110907318 Score: 125
Period size: 45 Copynumber: 4.8 Consensus size: 44
110907099 CAAATTAGAG
*
110907109 ATCTTATTTCCATGTATCGGCTATGGAGCAGATCAGAAATGGTGA
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAAT-GTGA
* * * ** *
110907154 ATCTTATCTCTATGTATTGGCTATGGAGCAGATTTTAGCCA-CT-A
1 ATCTTATCTCCATGTATCGGCTATGGAGCAGA--TCAGAAATGTGA
* * * *
110907198 GTCTTATCTTCCTAAAGT-T--G-TA-GGAGCAGACTGCA-ATATAT-A
1 ATCTTATC-TCC--ATGTATCGGCTATGGAGCAGA-T-CAGAAATGTGA
* * *
110907240 GATCTTATCTCCATGTATTGGCTATGGAGCAGATTAGAAATCG-CA
1 -ATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAAT-GTGA
110907285 AGTCTTATCTCCATGTATCGGCTATGGAGCAGAT
1 A-TCTTATCTCCATGTATCGGCTATGGAGCAGAT
110907319 TTTAGCCACT
Statistics
Matches: 127, Mismatches: 21, Indels: 34
0.70 0.12 0.19
Matches are distributed among these distances:
40 3 0.02
41 3 0.02
42 14 0.11
43 11 0.09
44 16 0.13
45 72 0.57
46 1 0.01
47 7 0.06
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (44 bp):
ATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGTGA
Found at i:110907325 original size:265 final size:265
Alignment explanation
Indices: 110906848--110907455 Score: 888
Period size: 265 Copynumber: 2.3 Consensus size: 265
110906838 CTCACCCATA
* * * * *
110906848 ATCTCCATGTATCGGCTATGAAGCAGATTGAAAATGGCGGGTCTTATCTCCATGTATCGGCTATG
1 ATCTCCATGTATCGGCTATGGAGCAGATAG-AAATGGTGAGTCTTATCTCTATGTATCGGCTATG
* * *
110906913 GAGCAGATTTTAGCCTCTAGTATTATCTTCCTGAAGTTGCACGGAGTAGACTGCAAATTATAGAT
65 GAGCAGATTTTAGCCACTAGTATTATCTTCCTAAAGTTGCACGGAGCAGACTGCAAATTATAGAT
* * * *
110906978 CTTATCTCCATGTATCGGCTATGGAGCAAATCAGAAATGGCGAGTCTTTTCTCCATATATTGGCT
130 CTTATCTCCATGTATCGGCTATGGAGCAAATCAGAAATCGCAAGTCTTATCTCCATATATCGGCT
* *
110907043 ATGGAGCAGATTTTAGCCACTAGTCTTATCTTTCTGAAGTTGCAGGGAGCAGACTGCAAATTAGA
195 ATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAGGGAGCAGACTGCAAATTACA
110907108 GATCTT
260 GATCTT
* * *
110907114 ATTTCCATGTATCGGCTATGGAGCAGATCAGAAATGGTGAATCTTATCTCTATGTATTGGCTATG
1 ATCTCCATGTATCGGCTATGGAGCAGAT-AGAAATGGTGAGTCTTATCTCTATGTATCGGCTATG
* *
110907179 GAGCAGATTTTAGCCACTAGTCTTATCTTCCTAAAGTTGTA-GGAGCAGACTGC-AATATATAGA
65 GAGCAGATTTTAGCCACTAGTATTATCTTCCTAAAGTTGCACGGAGCAGACTGCAAAT-TATAGA
* * * *
110907242 TCTTATCTCCATGTATTGGCTATGGAGCAGATTAGAAATCGCAAGTCTTATCTCCATGTATCGGC
129 TCTTATCTCCATGTATCGGCTATGGAGCAAATCAGAAATCGCAAGTCTTATCTCCATATATCGGC
110907307 TATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAGGGAGCAGACTGCAAATTAC
194 TATGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAGGGAGCAGACTGCAAATTAC
110907372 AGATCTT
259 AGATCTT
** *
110907379 ATCTCCATGTATCGGCTATGGA-TTG--A-AAATGGTGAGTCTTATCT-TCATGTATCAGCTATG
1 ATCTCCATGTATCGGCTATGGAGCAGATAGAAATGGTGAGTCTTATCTCT-ATGTATCGGCTATG
*
110907439 GAGTAGATTTTAGCCAC
65 GAGCAGATTTTAGCCAC
110907456 CAACCTTATC
Statistics
Matches: 309, Mismatches: 30, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
259 1 0.00
260 45 0.15
261 1 0.00
264 4 0.01
265 165 0.53
266 92 0.30
267 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (265 bp):
ATCTCCATGTATCGGCTATGGAGCAGATAGAAATGGTGAGTCTTATCTCTATGTATCGGCTATGG
AGCAGATTTTAGCCACTAGTATTATCTTCCTAAAGTTGCACGGAGCAGACTGCAAATTATAGATC
TTATCTCCATGTATCGGCTATGGAGCAAATCAGAAATCGCAAGTCTTATCTCCATATATCGGCTA
TGGAGCAGATTTTAGCCACTAGTCTTATCTTCCTGAAGTTGCAGGGAGCAGACTGCAAATTACAG
ATCTT
Found at i:110907654 original size:134 final size:134
Alignment explanation
Indices: 110907502--110907753 Score: 423
Period size: 134 Copynumber: 1.9 Consensus size: 134
110907492 GAAGATACAG
* ** *
110907502 GTCTTATCTTCTTGAAGTTACAGGAAGCTGACTGAAAAGTTACAAATCTTATCTCCATGTATGGG
1 GTCTTATCTTCCTGAAGTTACAGGAAGCAAACTGAAAAGTTACAAATCTTATCTCCATGTATCGG
* *
110907567 CTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATGGGCTATGGAGCAGATTTTAGCC
66 CTATGGAGCAAATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
110907632 ACTA
131 ACTA
**
110907636 GTCTTATCTTCCTGAAGTTGTAGGAAGCAAACTGAAAAGTTACAAATCTTATCTCCATGTATCGG
1 GTCTTATCTTCCTGAAGTTACAGGAAGCAAACTGAAAAGTTACAAATCTTATCTCCATGTATCGG
*
110907701 CTATGGAGCAAATCAGAAATGGCGAGTCTTATCTTCATGTATCGGCTATGGAG
66 CTATGGAGCAAATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAG
110907754 TAGACTGAAA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
134 109 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (134 bp):
GTCTTATCTTCCTGAAGTTACAGGAAGCAAACTGAAAAGTTACAAATCTTATCTCCATGTATCGG
CTATGGAGCAAATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
ACTA
Found at i:110907959 original size:44 final size:44
Alignment explanation
Indices: 110907813--110908052 Score: 179
Period size: 44 Copynumber: 5.5 Consensus size: 44
110907803 GACAGCAAGC
* * *
110907813 CTTAACCCCCTAAGCAGTAGGGTAATAGACTGAAAATTACAGAT
1 CTTAACTCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGAT
* * *** * * *
110907857 CTTATCTCCCTAAACAGTA--GTAGAGCAAATTGAAGATGGT-GAG-C
1 CTTAACTCCCTAAGCAGTAGGGTA-A-CAGGCTGAAAAT--TACAGAT
110907901 CTTAACTCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGAT
1 CTTAACTCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGAT
* * * * ** *
110907945 CTTATCTCCTTAAGCAGTAGTGG-AACA-GATCGAAGA-TAGTGAGC
1 CTTAACTCCCTAAGCAGTAG-GGTAACAGGCT-GAAAATTACAGA-T
* *
110907989 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGAT
1 CTTAACTCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGAT
*
110908033 CTTACCTCCCTAAGCAGTAG
1 CTTAACTCCCTAAGCAGTAG
110908053 TGAAGTAGAC
Statistics
Matches: 147, Mismatches: 35, Indels: 28
0.70 0.17 0.13
Matches are distributed among these distances:
42 4 0.03
43 11 0.07
44 117 0.80
45 11 0.07
46 4 0.03
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (44 bp):
CTTAACTCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGAT
Found at i:110908054 original size:88 final size:88
Alignment explanation
Indices: 110907786--110908054 Score: 387
Period size: 88 Copynumber: 3.1 Consensus size: 88
110907776 CCTTAAACAA
* ** * *
110907786 TAGT-GAAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAATAGACTGAAAAT
1 TAGTGGAA-CAGATCGAAGATAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAAT
*
110907850 TACAGATCTTATCTCCCTAAACAG
65 TACAGATCTTATCTCCCTAAGCAG
* * * * * *
110907874 TAGTAGAGCAAATTGAAGATGGTGAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTGAAAATT
1 TAGTGGAACAGATCGAAGATAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATT
*
110907939 ACAGATCTTATCTCCTTAAGCAG
66 ACAGATCTTATCTCCCTAAGCAG
*
110907962 TAGTGGAACAGATCGAAGATAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATT
1 TAGTGGAACAGATCGAAGATAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATT
*
110908027 ACAGATCTTACCTCCCTAAGCAG
66 ACAGATCTTATCTCCCTAAGCAG
110908050 TAGTG
1 TAGTG
110908055 AAGTAGACTG
Statistics
Matches: 159, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
88 157 0.99
89 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (88 bp):
TAGTGGAACAGATCGAAGATAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATT
ACAGATCTTATCTCCCTAAGCAG
Found at i:110909121 original size:15 final size:14
Alignment explanation
Indices: 110909053--110909181 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 14
110909043 TTATTCCTAT
110909053 TATTTTTATGTT-TC
1 TATTTTTAT-TTATC
*
110909067 TATTTATATTTAT-
1 TATTTTTATTTATC
*
110909080 T-TTGTTATTCTAATAC
1 TATTTTTATT-T-AT-C
*
110909096 TATTATTATTTATC
1 TATTTTTATTTATC
110909110 TAATTTTTATTTATC
1 T-ATTTTTATTTATC
* *
110909125 TATTTATATTTCTAC
1 TATTTTTATTTAT-C
*
110909140 TATTATTATATT-TC
1 TATTTTTAT-TTATC
*
110909154 TATTTATTATATT-TT
1 TATTT-TTAT-TTATC
*
110909169 TATTTCTATTTAT
1 TATTTTTATTTAT
110909182 ATACTAATAT
Statistics
Matches: 92, Mismatches: 12, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
12 6 0.07
13 6 0.07
14 32 0.35
15 37 0.40
16 4 0.04
17 7 0.08
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.66
Consensus pattern (14 bp):
TATTTTTATTTATC
Found at i:110909134 original size:29 final size:28
Alignment explanation
Indices: 110909053--110909160 Score: 78
Period size: 29 Copynumber: 3.8 Consensus size: 28
110909043 TTATTCCTAT
*
110909053 TATTTTTATGTTTCTATTTATATTTAT-
1 TATTTTTATATTTCTATTTATATTTATC
* * * *
110909080 TTTGTTATTCTAATACTA-TTATTATTTATC
1 TAT-TT-TTATATTTCTATTTA-TATTTATC
*
110909110 TAATTTTTAT-TTATCTATTTATATTTCTAC
1 T-ATTTTTATATT-TCTATTTATATTTAT-C
*
110909140 TATTATTATATTTCTATTTAT
1 TATTTTTATATTTCTATTTAT
110909161 TATATTTTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
27 2 0.03
28 6 0.10
29 42 0.69
30 10 0.16
31 1 0.02
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (28 bp):
TATTTTTATATTTCTATTTATATTTATC
Found at i:110909166 original size:23 final size:24
Alignment explanation
Indices: 110909093--110909214 Score: 83
Period size: 21 Copynumber: 5.5 Consensus size: 24
110909083 GTTATTCTAA
110909093 TACTATTATTAT-TTATCTAATTT-T
1 TACTATTATTATATT-TCT-ATTTAT
* * *
110909117 TA-T-TTA-TCTATTTATATTT-C
1 TACTATTATTATATTTCTATTTAT
110909137 TACTATTATTATATTTCTATTTAT
1 TACTATTATTATATTTCTATTTAT
110909161 TA-TATT-TT-TATTTCTATTTAT
1 TACTATTATTATATTTCTATTTAT
*
110909182 ATACTAATATTAT-TTT-TA-TTAT
1 -TACTATTATTATATTTCTATTTAT
110909204 TACT-TT-TTATA
1 TACTATTATTATA
110909215 CAACGCTCAT
Statistics
Matches: 80, Mismatches: 8, Indels: 24
0.71 0.07 0.21
Matches are distributed among these distances:
19 4 0.05
20 7 0.09
21 22 0.28
22 16 0.20
23 21 0.26
24 9 0.11
25 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (24 bp):
TACTATTATTATATTTCTATTTAT
Found at i:110913380 original size:17 final size:16
Alignment explanation
Indices: 110913346--110913380 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
110913336 ATTATTTAAT
*
110913346 ATATAAATTAAAATCA
1 ATATAAATTAAAAACA
110913362 ATATAAATTAAAAAACA
1 ATATAAATT-AAAAACA
110913379 AT
1 AT
110913381 TAGTCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
ATATAAATTAAAAACA
Found at i:110913510 original size:26 final size:26
Alignment explanation
Indices: 110913480--110913535 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
110913470 TATTTAAAAG
*
110913480 AATTAGATAAATTTTGAAATCTTGAA
1 AATTAGATAAAATTTGAAATCTTGAA
** *
110913506 AATTATTTAAAATTTGAAATCTTTAA
1 AATTAGATAAAATTTGAAATCTTGAA
110913532 AATT
1 AATT
110913536 TGAAATTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (26 bp):
AATTAGATAAAATTTGAAATCTTGAA
Found at i:110913525 original size:17 final size:17
Alignment explanation
Indices: 110913505--110913548 Score: 72
Period size: 16 Copynumber: 2.6 Consensus size: 17
110913495 GAAATCTTGA
110913505 AAATTATTTAAAATTTG
1 AAATTATTTAAAATTTG
*
110913522 AAA-TCTTTAAAATTTG
1 AAATTATTTAAAATTTG
110913538 AAATTATTTAA
1 AAATTATTTAA
110913549 TATATAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (17 bp):
AAATTATTTAAAATTTG
Found at i:110913664 original size:8 final size:8
Alignment explanation
Indices: 110913651--110913679 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
110913641 ACACTAATTA
110913651 CCCTAAAC
1 CCCTAAAC
110913659 CCCTAAA-
1 CCCTAAAC
110913666 CCCTAAAC
1 CCCTAAAC
110913674 CCCTAA
1 CCCTAA
110913680 CCCTTGTCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.14
Consensus pattern (8 bp):
CCCTAAAC
Found at i:110913669 original size:7 final size:7
Alignment explanation
Indices: 110913650--110913831 Score: 50
Period size: 7 Copynumber: 25.3 Consensus size: 7
110913640 CACACTAATT
110913650 ACCCTAA
1 ACCCTAA
110913657 ACCCCTAA
1 A-CCCTAA
110913665 ACCCTAA
1 ACCCTAA
110913672 ACCCCT-A
1 A-CCCTAA
**
110913679 ACCCTTG
1 ACCCTAA
*
110913686 TCCCATTAA
1 ACCC--TAA
*
110913695 CCCCTAA
1 ACCCTAA
*
110913702 TCCCT-A
1 ACCCTAA
110913708 ACCACTAA
1 ACC-CTAA
* *
110913716 CCCCCAA
1 ACCCTAA
*
110913723 ACCTTAA
1 ACCCTAA
*
110913730 ACCATAA
1 ACCCTAA
*
110913737 ACCAT-A
1 ACCCTAA
110913743 ACCTCTAA
1 ACC-CTAA
110913751 ACCCATAA
1 ACCC-TAA
* *
110913759 TCCATAA
1 ACCCTAA
*
110913766 ACCTTAA
1 ACCCTAA
*
110913773 A--ATAGTA
1 ACCCTA--A
*
110913780 ACTCATAA
1 AC-CCTAA
*
110913788 ACCTTAA
1 ACCCTAA
110913795 ACCCTAA
1 ACCCTAA
** *
110913802 ACTATAT
1 ACCCTAA
*
110913809 ACCTTAA
1 ACCCTAA
*
110913816 ACCATAA
1 ACCCTAA
110913823 ACCCTAA
1 ACCCTAA
110913830 AC
1 AC
110913832 TATAATGATA
Statistics
Matches: 131, Mismatches: 29, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
5 2 0.02
6 11 0.08
7 85 0.65
8 26 0.20
9 4 0.03
10 3 0.02
ACGTcount: A:0.41, C:0.37, G:0.01, T:0.21
Consensus pattern (7 bp):
ACCCTAA
Found at i:110913670 original size:15 final size:14
Alignment explanation
Indices: 110913650--110913683 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
110913640 CACACTAATT
110913650 ACCCTAAACCCCTAA
1 ACCCTAAACCCCT-A
110913665 ACCCTAAACCCCTA
1 ACCCTAAACCCCTA
110913679 ACCCT
1 ACCCT
110913684 TGTCCCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.35, C:0.50, G:0.00, T:0.15
Consensus pattern (14 bp):
ACCCTAAACCCCTA
Found at i:110913756 original size:22 final size:21
Alignment explanation
Indices: 110913721--110913831 Score: 111
Period size: 22 Copynumber: 5.2 Consensus size: 21
110913711 ACTAACCCCC
110913721 AAACCTTAAACCATAAACCAT
1 AAACCTTAAACCATAAACCAT
*
110913742 -AACCTCTAAACCCATAATCCAT
1 AAACCT-TAAA-CCATAAACCAT
110913764 AAACCTTAAA--ATAGTAACTCAT
1 AAACCTTAAACCATA--AAC-CAT
* *
110913786 AAACCTTAAACCCTAAACTAT
1 AAACCTTAAACCATAAACCAT
* *
110913807 ATACCTTAAACCATAAACCCT
1 AAACCTTAAACCATAAACCAT
110913828 AAAC
1 AAAC
110913832 TATAATGATA
Statistics
Matches: 73, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
19 3 0.04
20 5 0.07
21 28 0.38
22 30 0.41
23 5 0.07
24 2 0.03
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.23
Consensus pattern (21 bp):
AAACCTTAAACCATAAACCAT
Found at i:110913816 original size:14 final size:14
Alignment explanation
Indices: 110913721--110913836 Score: 65
Period size: 14 Copynumber: 8.1 Consensus size: 14
110913711 ACTAACCCCC
* *
110913721 AAACCTTAAACCAT
1 AAACCCTAAACTAT
* * *
110913735 AAACCATAACCTCT
1 AAACCCTAAACTAT
* *
110913749 AAACCCATAATCCAT
1 AAACCC-TAAACTAT
* *
110913764 AAACCTTAAAATAGT
1 AAACCCTAAACTA-T
*
110913779 -AACTCATAAACCT-T
1 AAAC-CCTAAA-CTAT
110913793 AAACCCTAAACTAT
1 AAACCCTAAACTAT
* * *
110913807 ATACCTTAAACCAT
1 AAACCCTAAACTAT
110913821 AAACCCTAAACTAT
1 AAACCCTAAACTAT
110913835 AA
1 AA
110913837 TGATAATTAA
Statistics
Matches: 75, Mismatches: 21, Indels: 12
0.69 0.19 0.11
Matches are distributed among these distances:
13 2 0.03
14 53 0.71
15 19 0.25
16 1 0.01
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (14 bp):
AAACCCTAAACTAT
Found at i:110914185 original size:40 final size:40
Alignment explanation
Indices: 110914141--110914254 Score: 138
Period size: 40 Copynumber: 2.9 Consensus size: 40
110914131 TGTTTTTTGT
* * * * *
110914141 GGCGTTTTTGACAAAGCGCTGATAATGATCGATCTATAGC
1 GGCGTTTTTCAAAAAGCGCAGCTAATGCTCGATCTATAGC
* * *
110914181 GGCGTTTTTCAAAAAACGCAGCTAATGCTTGATCTATAGT
1 GGCGTTTTTCAAAAAGCGCAGCTAATGCTCGATCTATAGC
* *
110914221 GGCATTTTTCAGAAAGCGCAGCTAATGCTCGATC
1 GGCGTTTTTCAAAAAGCGCAGCTAATGCTCGATC
110914255 ACCGCTAATG
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (40 bp):
GGCGTTTTTCAAAAAGCGCAGCTAATGCTCGATCTATAGC
Found at i:110914470 original size:39 final size:39
Alignment explanation
Indices: 110914404--110914510 Score: 106
Period size: 40 Copynumber: 2.7 Consensus size: 39
110914394 TTAATTTTTT
* * * * *
110914404 GCAGCATTTTTCAAAAAGCGCCACTAATGGTTGACCTATA
1 GCAGCGTTTTT-AGAAAGCACCGCTAATGCTTGACCTATA
*
110914444 GCAGCGTTTTTAGAAAGCACCGCTAATGCTTGATCTATA
1 GCAGCGTTTTTAGAAAGCACCGCTAATGCTTGACCTATA
** * *
110914483 GTGGTGTTTTTTAGAAAACACCGCTAAT
1 GCAGCG-TTTTTAGAAAGCACCGCTAAT
110914511 ATTCGATCCA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 26 0.46
40 30 0.54
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (39 bp):
GCAGCGTTTTTAGAAAGCACCGCTAATGCTTGACCTATA
Found at i:110927753 original size:40 final size:41
Alignment explanation
Indices: 110927695--110927801 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 41
110927685 CAAAAATTGT
*
110927695 AAAACACAGAGCAATAGCGGCG-TTTACCAAAAACGCCACTA
1 AAAAC-CAGAGCATTAGCGGCGCTTTACCAAAAACGCCACTA
* **** *
110927736 AAAACCAGATCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTACCAAAAACGCCACTA
* *
110927777 AAAACCAGGGCATTAGCGGCACTTT
1 AAAACCAGAGCATTAGCGGCGCTTT
110927802 TGGTAAAACG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 14 0.25
41 41 0.75
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (41 bp):
AAAACCAGAGCATTAGCGGCGCTTTACCAAAAACGCCACTA
Found at i:110927769 original size:41 final size:41
Alignment explanation
Indices: 110927724--110927861 Score: 197
Period size: 41 Copynumber: 3.4 Consensus size: 41
110927714 GCGTTTACCA
* **
110927724 AAAACGCCACTAAAAACCAGATCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGGGCATTAGCGGCGCTTTTGGT
*
110927765 AAAACGCCGCTAAAAACCAGGGCATTAGCGGCACTTTTGGT
1 AAAACGCCGCTAAAAACCAGGGCATTAGCGGCGCTTTTGGT
* * *
110927806 AAAACGTCGCTAAAAGA-CAGGGCATTACCAGCGCTTTTGGT
1 AAAACGCCGCTAAAA-ACCAGGGCATTAGCGGCGCTTTTGGT
110927847 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
110927862 GACATATAAC
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 86 0.99
42 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGGGCATTAGCGGCGCTTTTGGT
Found at i:110928472 original size:24 final size:24
Alignment explanation
Indices: 110928445--110928493 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
110928435 CGTATATTTA
*
110928445 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
110928469 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
110928493 T
1 T
110928494 GTTATTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:110928792 original size:14 final size:14
Alignment explanation
Indices: 110928773--110928891 Score: 67
Period size: 14 Copynumber: 8.4 Consensus size: 14
110928763 ATTTTAAGGT
*
110928773 TTATGGATTATGGG
1 TTATGGTTTATGGG
*
110928787 TTATGGGTTTATGGA
1 TTAT-GGTTTATGGG
* *
110928802 TTATGGTTTATAGT
1 TTATGGTTTATGGG
*
110928816 TTATGGTTTAAGGG
1 TTATGGTTTATGGG
** * *
110928830 TTGGGGTTTAAGGT
1 TTATGGTTTATGGG
* * *
110928844 TTAGGGGTTAGGGG
1 TTATGGTTTATGGG
* * *
110928858 TTAGGGATTAGGGG
1 TTATGGTTTATGGG
* *
110928872 TTAGGGGTTTAGGGG
1 TTA-TGGTTTATGGG
110928887 TTATG
1 TTATG
110928892 TTGTATGATT
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
14 61 0.71
15 25 0.29
ACGTcount: A:0.18, C:0.00, G:0.40, T:0.41
Consensus pattern (14 bp):
TTATGGTTTATGGG
Found at i:110928817 original size:7 final size:7
Alignment explanation
Indices: 110928765--110928825 Score: 68
Period size: 7 Copynumber: 8.6 Consensus size: 7
110928755 GAGTTACTAT
*
110928765 TTTAAGG
1 TTTATGG
110928772 TTTATGG
1 TTTATGG
*
110928779 ATTATGG
1 TTTATGG
*
110928786 GTTATGGG
1 TTTAT-GG
110928794 TTTATGG
1 TTTATGG
*
110928801 ATTATGG
1 TTTATGG
*
110928808 TTTATAG
1 TTTATGG
110928815 TTTATGG
1 TTTATGG
110928822 TTTA
1 TTTA
110928826 AGGGTTGGGG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (7 bp):
TTTATGG
Found at i:110928838 original size:21 final size:22
Alignment explanation
Indices: 110928814--110928882 Score: 88
Period size: 21 Copynumber: 3.2 Consensus size: 22
110928804 ATGGTTTATA
* *
110928814 GTTTATGGTTTAAGGGTT-GGG
1 GTTTAAGGTTTAGGGGTTAGGG
110928835 GTTTAAGGTTTAGGGGTTAGGG
1 GTTTAAGGTTTAGGGGTTAGGG
* *
110928857 G-TTAGGGATTAGGGGTTAGGG
1 GTTTAAGGTTTAGGGGTTAGGG
110928878 GTTTA
1 GTTTA
110928883 GGGGTTATGT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
21 35 0.83
22 7 0.17
ACGTcount: A:0.17, C:0.00, G:0.45, T:0.38
Consensus pattern (22 bp):
GTTTAAGGTTTAGGGGTTAGGG
Found at i:110928854 original size:7 final size:7
Alignment explanation
Indices: 110928844--110928889 Score: 74
Period size: 7 Copynumber: 6.4 Consensus size: 7
110928834 GGTTTAAGGT
110928844 TTAGGGG
1 TTAGGGG
110928851 TTAGGGG
1 TTAGGGG
*
110928858 TTAGGGA
1 TTAGGGG
110928865 TTAGGGG
1 TTAGGGG
110928872 TTAGGGG
1 TTAGGGG
110928879 TTTAGGGG
1 -TTAGGGG
110928887 TTA
1 TTA
110928890 TGTTGTATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
7 29 0.81
8 7 0.19
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:110933618 original size:43 final size:42
Alignment explanation
Indices: 110933571--110933707 Score: 126
Period size: 43 Copynumber: 3.3 Consensus size: 42
110933561 TTTCATGACT
* *
110933571 TTTAGCGGCATTTTTGAGAAAAGTGCTGCTAAAGGTCTTGATC
1 TTTAGCGGCATTTGTGAGAAAAGAGCTGCTAAAGGTC-TGATC
* * *
110933614 TTTAGCGGCGTTTGT-AGGAAAAGCGCTGCTAAA-G---AATC
1 TTTAGCGGCATTTGTGA-GAAAAGAGCTGCTAAAGGTCTGATC
110933652 TTTAGCGGCATTTGTG-GAAAA-AGCGTCGCTAAAGGTCATGATC
1 TTTAGCGGCATTTGTGAGAAAAGAGC-T-GCTAAAGGTC-TGATC
*
110933695 TTTAGCGGTATTT
1 TTTAGCGGCATTT
110933708 TTTTCAAATA
Statistics
Matches: 77, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
36 2 0.03
37 6 0.08
38 23 0.30
39 1 0.01
42 2 0.03
43 43 0.56
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCATTTGTGAGAAAAGAGCTGCTAAAGGTCTGATC
Found at i:110933666 original size:38 final size:38
Alignment explanation
Indices: 110933611--110933685 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
110933601 AAAGGTCTTG
*
110933611 ATCTTTAGCGGCGTTTGTAGG-AAAAGCG-CTGCTAAAGA
1 ATCTTTAGCGGCATTTGT-GGAAAAAGCGTC-GCTAAAGA
110933649 ATCTTTAGCGGCATTTGTGGAAAAAGCGTCGCTAAAG
1 ATCTTTAGCGGCATTTGTGGAAAAAGCGTCGCTAAAG
110933686 GTCATGATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
37 2 0.06
38 31 0.91
39 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (38 bp):
ATCTTTAGCGGCATTTGTGGAAAAAGCGTCGCTAAAGA
Found at i:110934819 original size:23 final size:23
Alignment explanation
Indices: 110934784--110934827 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
110934774 TAATTATTAC
110934784 TTAATTAGTATTA-TAGTTATAGA
1 TTAATTAGTATTAGTA-TTATAGA
110934807 TTAATTA-TGATTAGTATTATA
1 TTAATTAGT-ATTAGTATTATA
110934828 TATTTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 1 0.05
23 16 0.84
24 2 0.11
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (23 bp):
TTAATTAGTATTAGTATTATAGA
Found at i:110939665 original size:29 final size:28
Alignment explanation
Indices: 110939609--110939666 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
110939599 CATTAATTTC
**
110939609 AAAAAATTTCAATATTACTTATTTAATA
1 AAAAAATTTCAATATTACTTATGCAATA
110939637 AAAAAATTT-AATATTACTTAATGGCAATA
1 AAAAAATTTCAATATTACTT-AT-GCAATA
110939666 A
1 A
110939667 CTATTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 10 0.38
28 11 0.42
29 5 0.19
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (28 bp):
AAAAAATTTCAATATTACTTATGCAATA
Found at i:110940254 original size:63 final size:64
Alignment explanation
Indices: 110940130--110940254 Score: 171
Period size: 65 Copynumber: 2.0 Consensus size: 64
110940120 TTTTTAGAAA
* * * * *
110940130 ATATATAATTTATTAATAAATTAAAAATTAGACTATAAATATATGCGTGAAAAATATTTAAATTT
1 ATATATAATTTATCAAGAAACTAAAAAGTAGACTATAAATATAT-CATGAAAAATATTTAAATTT
* *
110940195 ATATATGATTTATCAAGAAACTAAAAAGTATACTATAAATATAT-ATGAAAAATATTTAAA
1 ATATATAATTTATCAAGAAACTAAAAAGTAGACTATAAATATATCATGAAAAATATTTAAA
110940255 AACATATCGG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
63 15 0.28
65 38 0.72
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (64 bp):
ATATATAATTTATCAAGAAACTAAAAAGTAGACTATAAATATATCATGAAAAATATTTAAATTT
Found at i:110941850 original size:11 final size:11
Alignment explanation
Indices: 110941836--110941865 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
110941826 TTTAGCTTTT
*
110941836 TTTTTTATATA
1 TTTTATATATA
110941847 TTTTATATATA
1 TTTTATATATA
110941858 TTTTATAT
1 TTTTATAT
110941866 TTGAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTATATATA
Found at i:110948265 original size:24 final size:24
Alignment explanation
Indices: 110948236--110948345 Score: 84
Period size: 24 Copynumber: 4.5 Consensus size: 24
110948226 CAAAGAAAAA
110948236 TAAAATAAATAATATAAAACAATT
1 TAAAATAAATAATATAAAACAATT
* *
110948260 TAAAATAAAT-A-ACAAGACAATT
1 TAAAATAAATAATATAAAACAATT
*
110948282 TTAAATAAATAATACATAAAAAACAAGTT
1 TAAAATAAATAAT--AT--AAAACAA-TT
*
110948311 TAAAATAGACT-ATA-AAAAGCAATT
1 TAAAATA-AATAATATAAAA-CAATT
*
110948335 TAAAGTAAATA
1 TAAAATAAATA
110948346 GTATGTGAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
22 18 0.27
23 4 0.06
24 22 0.33
25 3 0.04
26 1 0.01
27 1 0.01
28 6 0.09
29 10 0.15
30 2 0.03
ACGTcount: A:0.63, C:0.06, G:0.05, T:0.26
Consensus pattern (24 bp):
TAAAATAAATAATATAAAACAATT
Found at i:110948282 original size:22 final size:22
Alignment explanation
Indices: 110948236--110948293 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
110948226 CAAAGAAAAA
*
110948236 TAAAATAAATAATATAAAACAATT
1 TAAAATAAAT-A-ACAAAACAATT
*
110948260 TAAAATAAATAACAAGACAATT
1 TAAAATAAATAACAAAACAATT
*
110948282 TTAAATAAATAA
1 TAAAATAAATAA
110948294 TACATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 20 0.65
23 1 0.03
24 10 0.32
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (22 bp):
TAAAATAAATAACAAAACAATT
Found at i:110948450 original size:15 final size:15
Alignment explanation
Indices: 110948430--110948463 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
110948420 TATGAAATCT
110948430 TAAAATAAATAAAAA
1 TAAAATAAATAAAAA
* *
110948445 TAAAATAATTTAAAA
1 TAAAATAAATAAAAA
110948460 TAAA
1 TAAA
110948464 TAATAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAATAAATAAAAA
Found at i:110948457 original size:25 final size:24
Alignment explanation
Indices: 110948429--110948483 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
110948419 ATATGAAATC
*
110948429 TTAAAATAAATAAAAATAAAATAAT
1 TTAAAATAAATAAAAA-AAAAGAAT
* *
110948454 TTAAAATAAATAATAAAGAAGAAT
1 TTAAAATAAATAAAAAAAAAGAAT
110948478 TTAAAA
1 TTAAAA
110948484 CAGTTAACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (24 bp):
TTAAAATAAATAAAAAAAAAGAAT
Found at i:110948483 original size:24 final size:23
Alignment explanation
Indices: 110948404--110948483 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 23
110948394 TATAAAACAG
*
110948404 TTAAATATAAATAATATATG-AAAT
1 TTAAA-ATAAATAATA-AAGAAAAT
* *
110948428 CTTAAAATAAATAAAAATAAAATAAT
1 -TTAAAATAAATAATAA-AGAA-AAT
110948454 TTAAAATAAATAATAAAGAAGAAT
1 TTAAAATAAATAATAAAGAA-AAT
110948478 TTAAAA
1 TTAAAA
110948484 CAGTTAACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
23 1 0.02
24 21 0.46
25 21 0.46
26 3 0.07
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (23 bp):
TTAAAATAAATAATAAAGAAAAT
Found at i:110948532 original size:24 final size:26
Alignment explanation
Indices: 110948488--110948546 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
110948478 TTAAAACAGT
*
110948488 TAACATATAAAACAGTATAAACTAAA
1 TAACATATAAAACAGTATAAAATAAA
* *
110948514 TAACATATAAAA-A-TTTAAAATAGA
1 TAACATATAAAACAGTATAAAATAAA
*
110948538 TAATATATA
1 TAACATATA
110948547 TATATGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 16 0.55
25 1 0.03
26 12 0.41
ACGTcount: A:0.61, C:0.07, G:0.03, T:0.29
Consensus pattern (26 bp):
TAACATATAAAACAGTATAAAATAAA
Found at i:110948546 original size:50 final size:49
Alignment explanation
Indices: 110948390--110948546 Score: 147
Period size: 50 Copynumber: 3.2 Consensus size: 49
110948380 ATATATAAAA
* *
110948390 AATATATAAAACAGTTAAATATAAATAATATAT-GAAATCTTAAAATAAAT
1 AATATATAAAACAGTTAAA-ATAAATAATATATAAAAAT-TTAAAATAGAT
* * * * * * * *
110948440 AA-AAATAAAATAATTTAAAATAAATAATAAAGAAGAATTTAAAACAGTT
1 AATATATAAAA-CAGTTAAAATAAATAATATATAAAAATTTAAAATAGAT
* * *
110948489 AACATATAAAACAGTATAAACTAAATAACATATAAAAATTTAAAATAGAT
1 AATATATAAAACAGT-TAAAATAAATAATATATAAAAATTTAAAATAGAT
110948539 AATATATA
1 AATATATA
110948547 TATATGAAAT
Statistics
Matches: 82, Mismatches: 21, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
49 30 0.37
50 52 0.63
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (49 bp):
AATATATAAAACAGTTAAAATAAATAATATATAAAAATTTAAAATAGAT
Found at i:110949600 original size:15 final size:15
Alignment explanation
Indices: 110949582--110949613 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
110949572 TAGATTTGCG
*
110949582 AAAAAAATAAAATAA
1 AAAAAAATAAAAGAA
110949597 AAAAAAATAAAAGAA
1 AAAAAAATAAAAGAA
110949612 AA
1 AA
110949614 TGATAAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (15 bp):
AAAAAAATAAAAGAA
Found at i:110950465 original size:44 final size:45
Alignment explanation
Indices: 110950363--110950474 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 45
110950353 AATTTGCTCT
* * * * *
110950363 ACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTGTTCC
1 ACTGCAACTTCAGGGAGATAAGACTAGTGATCTTCAATCTATTCC
* * * *
110950408 TCTACAACTTCAGGGAGATAAGACTAGTGGT-TTCTATCTATTCC
1 ACTGCAACTTCAGGGAGATAAGACTAGTGATCTTCAATCTATTCC
110950452 ACTGCAACTTCAGGGAGATAAGA
1 ACTGCAACTTCAGGGAGATAAGA
110950475 TTTGCCATGG
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
44 32 0.57
45 24 0.43
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (45 bp):
ACTGCAACTTCAGGGAGATAAGACTAGTGATCTTCAATCTATTCC
Found at i:110950597 original size:38 final size:38
Alignment explanation
Indices: 110950544--110950617 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
110950534 TGTAGCTTTA
* *
110950544 ATCTGTTCCATTGCAACTTCAGGGAAATGAGATTTGCT
1 ATCTGCTCCACTGCAACTTCAGGGAAATGAGATTTGCT
*
110950582 ATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTG
1 ATCTGCTCCACTGCAACTTCAGGGAAATGAGATTTG
110950618 TAACTTCAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (38 bp):
ATCTGCTCCACTGCAACTTCAGGGAAATGAGATTTGCT
Found at i:110950648 original size:44 final size:44
Alignment explanation
Indices: 110950596--110950738 Score: 164
Period size: 44 Copynumber: 3.3 Consensus size: 44
110950586 GCTCCACTGC
*
110950596 AACTTCAGGGAGATGAGATTTGTAACTTCAACTTGCTCCATCGT
1 AACTTCAGGGAGATGAGATTTGTAACTTTAACTTGCTCCATCGT
* * * * * *
110950640 AACTTCAGGG-GATAAGGTTTGTGACTTTAATTTGCTCCATTGC
1 AACTTCAGGGAGATGAGATTTGTAACTTTAACTTGCTCCATCGT
* * *
110950683 AACTTCAGGGAGATGAGACTAGTAACTTTAACCTGCTCCA-CTGT
1 AACTTCAGGGAGATGAGATTTGTAACTTTAACTTGCTCCATC-GT
*
110950727 AACTTTAGGGAG
1 AACTTCAGGGAG
110950739 GTAAGGTTTG
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
43 36 0.45
44 44 0.55
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (44 bp):
AACTTCAGGGAGATGAGATTTGTAACTTTAACTTGCTCCATCGT
Found at i:110950676 original size:43 final size:44
Alignment explanation
Indices: 110950596--110950791 Score: 159
Period size: 44 Copynumber: 4.5 Consensus size: 44
110950586 GCTCCACTGC
* *
110950596 AACTTCAGGGAGATGAGATTTGTAACTTCAACTTGCTCCATCGT
1 AACTTCAGGGAGATAAGATTTGTAACTTTAACTTGCTCCATCGT
* * * * *
110950640 AACTTCAGGG-GATAAGGTTTGTGACTTTAATTTGCTCCATTGC
1 AACTTCAGGGAGATAAGATTTGTAACTTTAACTTGCTCCATCGT
* * * *
110950683 AACTTCAGGGAGATGAGACTAGTAACTTTAACCTGCTCCA-CTGT
1 AACTTCAGGGAGATAAGATTTGTAACTTTAACTTGCTCCATC-GT
* * * ** * *
110950727 AACTTTAGGGAGGTAAGGTTTGTGGCTCTAA-TCTGTTCCA-C-T
1 AACTTCAGGGAGATAAGATTTGTAACTTTAACT-TGCTCCATCGT
110950769 ACAACTTCAGGGAGATAAGATTT
1 --AACTTCAGGGAGATAAGATTT
110950792 ACCATGATGA
Statistics
Matches: 117, Mismatches: 30, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
42 1 0.01
43 36 0.31
44 80 0.68
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTTGTAACTTTAACTTGCTCCATCGT
Found at i:110950692 original size:87 final size:88
Alignment explanation
Indices: 110950582--110950791 Score: 280
Period size: 87 Copynumber: 2.4 Consensus size: 88
110950572 GAGATTTGCT
*
110950582 ATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGTAACTTCAACTTGCTCCA-TCGTAACTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGTAACTTCAACCTGCTCCACT-GTAACTTC
*
110950646 AGGG-GATAAGGTTTGTGACTTTA
65 AGGGAGATAAGGTTTGTGACTCTA
* * * * * *
110950669 ATTTGCTCCATTGCAACTTCAGGGAGATGAGACTAGTAACTTTAACCTGCTCCACTGTAACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGTAACTTCAACCTGCTCCACTGTAACTTCA
* *
110950734 GGGAGGTAAGGTTTGTGGCTCTA
66 GGGAGATAAGGTTTGTGACTCTA
* * *
110950757 ATCTGTTCCACTACAACTTCAGGGAGATAAGATTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATGAGATTT
110950792 ACCATGATGA
Statistics
Matches: 104, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
87 59 0.57
88 45 0.43
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (88 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGTAACTTCAACCTGCTCCACTGTAACTTCA
GGGAGATAAGGTTTGTGACTCTA
Found at i:110953818 original size:7 final size:7
Alignment explanation
Indices: 110953806--110953833 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
110953796 AAGCATAAGA
110953806 TATTTAT
1 TATTTAT
110953813 TATTTAT
1 TATTTAT
110953820 TATTTAT
1 TATTTAT
110953827 TATTTAT
1 TATTTAT
110953834 CATTAGTAAA
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TATTTAT
Found at i:110953942 original size:23 final size:24
Alignment explanation
Indices: 110953916--110953974 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
110953906 ATAATGGCAA
*
110953916 TTGTAATAAAA-ATAT-TGGTACAT
1 TTGTAATAAAAGATATAT-GTACAC
110953939 TTGTAATAAATAGATATATGTACAC
1 TTGTAATAAA-AGATATATGTACAC
*
110953964 TTGTTATAAAA
1 TTGTAATAAAA
110953975 TAATTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 18 0.58
26 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (24 bp):
TTGTAATAAAAGATATATGTACAC
Found at i:110954205 original size:2 final size:2
Alignment explanation
Indices: 110954198--110954239 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
110954188 TAAAATAAAG
110954198 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
110954240 AGGTATAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:110955616 original size:47 final size:47
Alignment explanation
Indices: 110955537--110955626 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 47
110955527 TTGTGTGTCT
** * *
110955537 TACTGTTACTGTTACTTCGGTTTAATCCGATGAGGTACTGAGTACTG
1 TACTGTTACTGTTACTTCGGTCAAAGCCGATGAGGCACTGAGTACTG
*
110955584 TACTGTTACTGTTTACTTCGG-CAAAGCTGATGAGGCACTGAGT
1 TACTGTTACTG-TTACTTCGGTCAAAGCCGATGAGGCACTGAGT
110955627 GCCGTATTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
47 28 0.76
48 9 0.24
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (47 bp):
TACTGTTACTGTTACTTCGGTCAAAGCCGATGAGGCACTGAGTACTG
Found at i:110955943 original size:12 final size:12
Alignment explanation
Indices: 110955920--110955954 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
110955910 TATGAGAAAG
110955920 TGAAATTATGAAT
1 TGAAA-TATGAAT
110955933 TGAAATATGAAT
1 TGAAATATGAAT
110955945 TGAAAT-TGAA
1 TGAAATATGAA
110955955 ATATCAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 4 0.18
12 13 0.59
13 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (12 bp):
TGAAATATGAAT
Found at i:110958497 original size:37 final size:37
Alignment explanation
Indices: 110958452--110958523 Score: 119
Period size: 37 Copynumber: 1.9 Consensus size: 37
110958442 ATCCATATGA
*
110958452 TTGGTTATGGATGAAAT-AGAAAGAATAAAAGAATATT
1 TTGGTTATGAATGAAATGA-AAAGAATAAAAGAATATT
110958489 TTGGTTATGAATGAAATGAAAAGAATAAAAGAATA
1 TTGGTTATGAATGAAATGAAAAGAATAAAAGAATA
110958524 CTTGCTCAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
37 32 0.97
38 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (37 bp):
TTGGTTATGAATGAAATGAAAAGAATAAAAGAATATT
Found at i:110965906 original size:24 final size:24
Alignment explanation
Indices: 110965877--110965936 Score: 88
Period size: 22 Copynumber: 2.6 Consensus size: 24
110965867 CAAAGAAAAA
110965877 TAAAATAAATAATATAAAACAATT
1 TAAAATAAATAATATAAAACAATT
*
110965901 TAAAATAAAT-A-ATAAGACAATT
1 TAAAATAAATAATATAAAACAATT
*
110965923 TTAAATAAATAATA
1 TAAAATAAATAATA
110965937 CATAAAAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 19 0.59
23 2 0.06
24 11 0.34
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (24 bp):
TAAAATAAATAATATAAAACAATT
Found at i:110966032 original size:33 final size:33
Alignment explanation
Indices: 110965965--110966034 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
110965955 AATAGGCTAT
* * * *
110965965 AAAAAGCAATTTAAAGTAAATAGTATGTGAAAA
1 AAAAAGAAATTTAAAATAAATAATATATGAAAA
*
110965998 AAAAAGAAATTTAAAATAAATAATATAT-ATAA
1 AAAAAGAAATTTAAAATAAATAATATATGAAAA
110966030 AAAAA
1 AAAAA
110966035 TATATAAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 8 0.25
33 24 0.75
ACGTcount: A:0.66, C:0.01, G:0.09, T:0.24
Consensus pattern (33 bp):
AAAAAGAAATTTAAAATAAATAATATATGAAAA
Found at i:110966252 original size:26 final size:26
Alignment explanation
Indices: 110966170--110966260 Score: 83
Period size: 28 Copynumber: 3.3 Consensus size: 26
110966160 ATTAAAATAG
* *
110966170 ATAATATATATATATGAAATGGTTTAAA
1 ATAA-ATA-ATATATAAAATAGTTTAAA
* * *
110966198 ACAAATAATATATAAAAAAATATTCAAA
1 ATAAATAATATATAAAATAGT-TT-AAA
*
110966226 ATAAATAATATGTAAAATAGTTTAAA
1 ATAAATAATATATAAAATAGTTTAAA
*
110966252 ATAGATAAT
1 ATAAATAAT
110966261 GCAAAAAATC
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
26 21 0.41
27 7 0.14
28 23 0.45
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (26 bp):
ATAAATAATATATAAAATAGTTTAAA
Found at i:110966344 original size:25 final size:26
Alignment explanation
Indices: 110966309--110966365 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
110966299 ATAATGTACA
* * *
110966309 ATAAAACAATTTGAAATGAATACTAT
1 ATAAAACAATTTAAAATGAAAAATAT
110966335 ATAAAA-AATTTAAAATGAAAAATAT
1 ATAAAACAATTTAAAATGAAAAATAT
110966360 ATAAAA
1 ATAAAA
110966366 GTTTATAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 22 0.79
26 6 0.21
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (26 bp):
ATAAAACAATTTAAAATGAAAAATAT
Found at i:110970189 original size:105 final size:105
Alignment explanation
Indices: 110969995--110970190 Score: 257
Period size: 105 Copynumber: 1.9 Consensus size: 105
110969985 ATATATATTA
* * * * *
110969995 TTTAAGAATGCATTGGCCCTTTTGACGTGAAGTGGAATGATAACCCAAACACCTCACCCCGGTTA
1 TTTAAGAATGCATTGGCCCTTTTGACGCGAAGTGGAATGACAACCCAAACACCCCAACCCAGTTA
* * * *
110970060 CTTAGCCCAACATACTCTTTATTTATCATTATTATTTTTG
66 CCTAGCCCAACACACTCCTAATTTATCATTATTATTTTTG
* * ** *
110970100 TTTAAGAATGTATTGGCCCTTTTGATGCGAAGTGGAATGACAATGCAAACACCCCAACCTAGTTA
1 TTTAAGAATGCATTGGCCCTTTTGACGCGAAGTGGAATGACAACCCAAACACCCCAACCCAGTTA
*
110970165 CCTAGCCCAACACATTCCTAATTTAT
66 CCTAGCCCAACACACTCCTAATTTAT
110970191 TTTTTTATTT
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
105 76 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (105 bp):
TTTAAGAATGCATTGGCCCTTTTGACGCGAAGTGGAATGACAACCCAAACACCCCAACCCAGTTA
CCTAGCCCAACACACTCCTAATTTATCATTATTATTTTTG
Found at i:110970985 original size:12 final size:12
Alignment explanation
Indices: 110970968--110970992 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
110970958 GCAAGAAAAT
110970968 AAAGAAAATAAA
1 AAAGAAAATAAA
110970980 AAAGAAAATAAA
1 AAAGAAAATAAA
110970992 A
1 A
110970993 TTGGATTGCC
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:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAGAAAATAAA
Found at i:110971558 original size:22 final size:22
Alignment explanation
Indices: 110971530--110971571 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
110971520 GTTTAATTAC
110971530 TATTAAAAGTG-TAAAATGATCT
1 TATT-AAAGTGATAAAATGATCT
*
110971552 TATTAAATTGATAAAATGAT
1 TATTAAAGTGATAAAATGAT
110971572 ATGTAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (22 bp):
TATTAAAGTGATAAAATGATCT
Found at i:110979542 original size:12 final size:12
Alignment explanation
Indices: 110979527--110979551 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
110979517 TTTTTACTTC
110979527 TTTTTTTCTTTT
1 TTTTTTTCTTTT
110979539 TTTTTTTCTTTT
1 TTTTTTTCTTTT
110979551 T
1 T
110979552 CCGGGATTCC
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:110981223 original size:30 final size:30
Alignment explanation
Indices: 110981187--110981272 Score: 127
Period size: 30 Copynumber: 2.9 Consensus size: 30
110981177 CTAGCCTTTG
*
110981187 CCACCACCAACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
110981217 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* * **
110981247 CCTCTACTTACTCCACTAGCCACACT
1 CCACCACCAACTCCACTAGCCACACT
110981273 CCACCACCAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.26, C:0.48, G:0.06, T:0.21
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:110981799 original size:24 final size:23
Alignment explanation
Indices: 110981751--110981802 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
110981741 TTTTTTTTGT
*
110981751 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
110981774 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
110981798 TATTA
1 TATTA
110981803 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:110981856 original size:25 final size:26
Alignment explanation
Indices: 110981828--110981890 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
110981818 CTATATTGCG
*
110981828 TGTATATATATATT-ATACTATTTTA
1 TGTATATATATATTAATACTATATTA
*
110981853 TGTATATATCT-TTAATACTATATTA
1 TGTATATATATATTAATACTATATTA
*
110981878 TTTATATATATAT
1 TGTATATATATAT
110981891 ATATTTTACA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 2 0.06
25 29 0.91
26 1 0.03
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.56
Consensus pattern (26 bp):
TGTATATATATATTAATACTATATTA
Found at i:110981959 original size:25 final size:24
Alignment explanation
Indices: 110981909--110981995 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 24
110981899 CATGTTATCT
*
110981909 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
110981935 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
** * *
110981960 TACATA-TTTTTAA-TATTATCACG
1 TATGTATTTTTTAACTA-TATTATG
*
110981983 TATTTATTTTTTA
1 TATGTATTTTTTA
110981996 TATATGTACA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 2 0.04
23 10 0.20
24 17 0.33
25 15 0.29
26 7 0.14
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:110981977 original size:20 final size:20
Alignment explanation
Indices: 110981952--110982010 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
110981942 TTTTTACACT
110981952 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
110981972 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
110981995 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
110982011 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:110982157 original size:16 final size:15
Alignment explanation
Indices: 110982133--110982167 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
110982123 TAATTATTAT
110982133 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
110982149 TATTTTAATATTTTA
1 TATTCTAATATTTTA
110982164 TATT
1 TATT
110982168 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:110988832 original size:35 final size:35
Alignment explanation
Indices: 110988765--110988932 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
110988755 TCCTCATTGA
*** *
110988765 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
110988801 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
110988841 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
110988876 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
110988911 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
110988933 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:110988891 original size:75 final size:73
Alignment explanation
Indices: 110988760--110988932 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
110988750 GGTTTTCCTC
*** * * **
110988760 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
110988825 TCAGTATGG
65 TCAGTATGG
*
110988834 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
110988898 ACTCAGTATGG
63 ACTCAGTATGG
110988909 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
110988933 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:110990744 original size:26 final size:26
Alignment explanation
Indices: 110990705--110990790 Score: 97
Period size: 26 Copynumber: 3.4 Consensus size: 26
110990695 ATGGCTATCA
110990705 TGAGC-TCCTGATTAAAGGCTCTTTG
1 TGAGCTTCCTGATTAAAGGCTCTTTG
* * *
110990730 TGAGCTTCCTTATTAAAAGTTCTTTG
1 TGAGCTTCCTGATTAAAGGCTCTTTG
* * *
110990756 TGAACTTCCTGATT-ATGGCTC-TTA
1 TGAGCTTCCTGATTAAAGGCTCTTTG
110990780 TGAGCTTCCTG
1 TGAGCTTCCTG
110990791 TTATATAGCC
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
24 12 0.24
25 9 0.18
26 29 0.58
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (26 bp):
TGAGCTTCCTGATTAAAGGCTCTTTG
Found at i:111003768 original size:21 final size:21
Alignment explanation
Indices: 111003707--111003768 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
111003697 AGCTAAGTAG
111003707 AAACCCATAAGGGTTGAACAA
1 AAACCCATAAGGGTTGAACAA
* * * * *
111003728 AAGCTCGTAAGAGCTGAACAA
1 AAACCCATAAGGGTTGAACAA
*
111003749 AAACCCATAAGGGTTAAACA
1 AAACCCATAAGGGTTGAACA
111003769 GAAGCTCAAA
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.15
Consensus pattern (21 bp):
AAACCCATAAGGGTTGAACAA
Found at i:111003825 original size:42 final size:42
Alignment explanation
Indices: 111003707--111003826 Score: 132
Period size: 42 Copynumber: 2.9 Consensus size: 42
111003697 AGCTAAGTAG
* * * *
111003707 AAACCCATAAGGGTTGAACAAAAGCTCGTAAGAGCTGAACAA
1 AAACCCATAAGAGTTAAACAGAAGCTCATAAGAGCTGAACAA
* * **
111003749 AAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGCTGAACGG
1 AAACCCATAAGAGTTAAACAGAAGCTCATAAGAGCTGAACAA
* * * *
111003791 AAACTCATATGAGTTAAATAGAAGCTCATGAGAGCT
1 AAACCCATAAGAGTTAAACAGAAGCTCATAAGAGCT
111003827 AAATGAAAAG
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (42 bp):
AAACCCATAAGAGTTAAACAGAAGCTCATAAGAGCTGAACAA
Found at i:111007203 original size:26 final size:25
Alignment explanation
Indices: 111007143--111007206 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 25
111007133 CCCAATTCAG
111007143 CCTAGCCCAACAATTGAAACCCAAAC
1 CCTAGCCCAA-AATTGAAACCCAAAC
* *
111007169 CCAAGGCCCAAAATT-AAACCTAACTAC
1 CCTA-GCCCAAAATTGAAACCCAA--AC
111007196 CCTAGCCCAAA
1 CCTAGCCCAAA
111007207 TGGCCCAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 7 0.22
26 14 0.44
27 11 0.34
ACGTcount: A:0.42, C:0.38, G:0.08, T:0.12
Consensus pattern (25 bp):
CCTAGCCCAAAATTGAAACCCAAAC
Found at i:111008247 original size:3 final size:3
Alignment explanation
Indices: 111008239--111008306 Score: 88
Period size: 3 Copynumber: 23.3 Consensus size: 3
111008229 TTTCAAATTA
*
111008239 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
111008286 ATT -TAT ATT AGT A-T ATT ATT A
1 ATT AT-T ATT ATT ATT ATT ATT A
111008307 CTCTAATTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
2 5 0.09
3 52 0.90
4 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:111008668 original size:24 final size:24
Alignment explanation
Indices: 111008641--111008689 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
111008631 GAATAACGAA
111008641 CGTTTTAAAACATTTTTAAATGTT
1 CGTTTTAAAACATTTTTAAATGTT
111008665 CGTTTTAAAACATTTTTAAATGTT
1 CGTTTTAAAACATTTTTAAATGTT
111008689 C
1 C
111008690 TCGGGAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (24 bp):
CGTTTTAAAACATTTTTAAATGTT
Found at i:111012535 original size:46 final size:46
Alignment explanation
Indices: 111012470--111012742 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
111012460 TTATCTTTGA
* * * * *
111012470 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGT
***
111012516 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* * **
111012562 TAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
*** *
111012608 CACACTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* * *
111012653 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAATCCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
*
111012699 CATGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
111012743 ATCAAAGAGC
Statistics
Matches: 200, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
45 45 0.22
46 155 0.77
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
Found at i:111012698 original size:91 final size:92
Alignment explanation
Indices: 111012521--111012746 Score: 328
Period size: 91 Copynumber: 2.5 Consensus size: 92
111012511 TCTGTCATGT
*** * *
111012521 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTTAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
** * *
111012586 CATGGTCTTATTCATTTCATGTCACAC
66 CATGGTCTTACACAATCCATGTCACAC
111012613 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
***
111012677 CATGGTCTTACACAATCCATGTCATGT
66 CATGGTCTTACACAATCCATGTCACAC
*
111012704 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
111012747 AAGAGCACAC
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
91 81 0.68
92 39 0.32
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACAATCCATGTCACAC
Found at i:111012698 original size:137 final size:137
Alignment explanation
Indices: 111012475--111012742 Score: 367
Period size: 137 Copynumber: 1.9 Consensus size: 137
111012465 TTTGACATGA
* * * * *
111012475 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGTTGCCATGGTATCTTTCAAC
*** * * * * **
111012540 CATGGTCTTGTTCATTTCATGTTAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCA
65 CATGGTCTTACACAATCCATGTCAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCA
111012605 TGTCACAC
130 TGTCACAC
*
111012613 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGTTGCCATGGTATCTTTCAAC
*
111012677 CATGGTCTTACACAATCCATGTCATGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCA
65 CATGGTCTTACACAATCCATGTCAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCA
111012742 T
130 T
111012743 ATCAAAGAGC
Statistics
Matches: 113, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
136 3 0.03
137 81 0.72
138 29 0.26
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (137 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGTTGCCATGGTATCTTTCAACC
ATGGTCTTACACAATCCATGTCAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCAT
GTCACAC
Found at i:111017535 original size:44 final size:44
Alignment explanation
Indices: 111017355--111017539 Score: 155
Period size: 44 Copynumber: 4.2 Consensus size: 44
111017345 AAGATCATAG
* * * * *
111017355 ATCTTATCTCCCTGAGCAGTAGTGGAGCAAATCGAAGATGGCGA
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGA
* ** * **
111017399 ATCTTATCTCCCTGAGGTAGTAAG-GGAGCAGATTTAAGCCACT-A
1 ATCTTATCTCCCT-AAGTAGT-AGTGGAGCAGATCGAAGACGGTGA
** * *
111017443 GCCTTATCTCCCTAAGTAGTAGTGGAGCAG-GCTAA-A-GGTTGTA
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGG-TG-A
111017486 GATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGA
1 -ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGA
111017531 ATCTTATCT
1 ATCTTATCT
111017540 TTTCGAGGTA
Statistics
Matches: 108, Mismatches: 23, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
41 1 0.01
42 5 0.05
43 14 0.13
44 62 0.57
45 19 0.18
46 5 0.05
47 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGA
Found at i:111017581 original size:88 final size:88
Alignment explanation
Indices: 111017488--111017780 Score: 265
Period size: 88 Copynumber: 3.3 Consensus size: 88
111017478 AGGTTGTAGA
* * * *
111017488 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTTCGAGGTAGTA
1 TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTTTCGAGGTAGCA
111017553 GGGAAGCAGATTTAAGCCACTAG
66 GGGAAGCAGATTTAAGCCACTAG
* ** * * * * *
111017576 CCTTATCTCCCCGAGCAGCAGTGGAGCAG-GCTGAAGATTGT-AGATCCTATCTCCTT-GA-GCA
1 TCTTATCTCCCTAAGCAGCAGTGGAGCAGATC-GAAGATGGTGA-ATCTTATCT-TTTCGAGGTA
* * ****
111017637 GCAGTGG-AGCATATTGAAGATTGTAG
63 GCAG-GGAAGCAGATTTAAGCCACTAG
* * * * **
111017663 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAATATGGCGAATCTTATCTTCCCGAGGTAGC
1 -TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTTTCGAGGTAGC
111017728 A-GGAGAGCAGATTTAAGCCACTAG
65 AGGGA-AGCAGATTTAAGCCACTAG
*
111017752 TCTTATCTCCCTGAGCAGCAGTGGAGCAG
1 TCTTATCTCCCTAAGCAGCAGTGGAGCAG
111017781 GCTGAAAATT
Statistics
Matches: 154, Mismatches: 40, Indels: 22
0.71 0.19 0.10
Matches are distributed among these distances:
87 22 0.14
88 111 0.72
89 21 0.14
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (88 bp):
TCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTTTCGAGGTAGCA
GGGAAGCAGATTTAAGCCACTAG
Found at i:111017599 original size:132 final size:132
Alignment explanation
Indices: 111017352--111017656 Score: 416
Period size: 132 Copynumber: 2.3 Consensus size: 132
111017342 GTGAAGATCA
*
111017352 TAGATCTTATCTCCCTGAGCAGTAGTGGAGCAAATCGAAGATGGCGAATCTTATCTCCCTGAGGT
1 TAGATCTTATCTCCCTGAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTATCTCCCTGAGGT
* * * *
111017417 AGTAAGGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTAAGTAGTAGTGGAGCAGGCTAAAGGT
66 AGTAAGGGAGCAGATTTAAGCCACTAGCCTTATCTCCCCAAGCAGCAGTGGAGCAGGCTAAAGAT
111017482 TG
131 TG
* * * * **
111017484 TAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCT-TTTCGAGG
1 TAGATCTTATCTCCCTGAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTATCTCCCT-GAGG
* *
111017548 TAGT-AGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCCGAGCAGCAGTGGAGCAGGCTGAAG
65 TAGTAAGGG-AGCAGATTTAAGCCACTAGCCTTATCTCCCCAAGCAGCAGTGGAGCAGGCTAAAG
111017612 ATTG
129 ATTG
* * * * *
111017616 TAGATCCTATCTCCTTGAGCAGCAGTGGAGCATATTGAAGA
1 TAGATCTTATCTCCCTGAGCAGTAGTGGAGCAAATCGAAGA
111017657 TTGTAGATCT
Statistics
Matches: 151, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
131 5 0.03
132 146 0.97
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (132 bp):
TAGATCTTATCTCCCTGAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTATCTCCCTGAGGT
AGTAAGGGAGCAGATTTAAGCCACTAGCCTTATCTCCCCAAGCAGCAGTGGAGCAGGCTAAAGAT
TG
Found at i:111017642 original size:44 final size:44
Alignment explanation
Indices: 111017579--111017958 Score: 188
Period size: 44 Copynumber: 8.6 Consensus size: 44
111017569 CCACTAGCCT
* *
111017579 TATCTCCCCGAGCAGCAGTGGAGCAGGCTGAAGATTGTAGATCC
1 TATCTCCCTGAGCAGCAGTGGAGCAGACTGAAGATTGTAGATCC
* * * *
111017623 TATCTCCTTGAGCAGCAGTGGAGCATATTGAAGATTGTAGATCT
1 TATCTCCCTGAGCAGCAGTGGAGCAGACTGAAGATTGTAGATCC
* * * * ** *
111017667 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAATA-TGGCGAATCT
1 TATCTCCCTGAGCAGCAGTGGAGCAGACTGAAGATTGTAG-ATCC
* * * **** *
111017711 TATCTTCCC-GAGGTAGCAG-GAGAGCAGATTTAAGCCACTAG-TCT
1 TATC-TCCCTGA-GCAGCAGTG-GAGCAGACTGAAGATTGTAGATCC
* * *
111017755 TATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAAATTGTAGATCT
1 TATCTCCCTGAGCAGCAGTGGAGCAGACTGAAGATTGTAGATCC
** * * * * ** *
111017799 TATCTCTATGAGGTAACAATGGAGCAGATTGAAGA-TGGCGAATCT
1 TATCTCCCTGA-GCAGCAGTGGAGCAGACTGAAGATTGTAG-ATCC
* * * * * *
111017844 TATCTCCCTAAGGTAGCAAG-GGAGGAAATTTAAGCCA-T-TAG--CC
1 TATCTCCCTGA-GCAGC-AGTGGAGCAGACTGAAG--ATTGTAGATCC
* **
111017887 TTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTGTAGATTT
1 -TATCTCCCTGAGCAGCAGTGGAGCAGACTGAAGATTGTAGATCC
*
111017932 TATC-CCCTTGAGTAGCAGTGGAGCAGA
1 TATCTCCC-TGAGCAGCAGTGGAGCAGA
111017959 TCAAAGACGA
Statistics
Matches: 252, Mismatches: 64, Indels: 40
0.71 0.18 0.11
Matches are distributed among these distances:
41 1 0.00
42 3 0.01
43 45 0.18
44 133 0.53
45 65 0.26
46 3 0.01
47 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAGCAGCAGTGGAGCAGACTGAAGATTGTAGATCC
Found at i:111017663 original size:176 final size:177
Alignment explanation
Indices: 111017481--111017855 Score: 533
Period size: 176 Copynumber: 2.1 Consensus size: 177
111017471 AGGCTAAAGG
* * **
111017481 TTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTTCGA
1 TTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGA
*
111017546 GGTAGTAGG-GAAGCAGATTTAAGCCACTAGCCTTATCTCCCCGAGCAGCAGTGGAGCAGGCTGA
66 GGTAGCAGGAG-AGCAGATTTAAGCCACTAGCCTTATCTCCCCGAGCAGCAGTGGAGCAGGCTGA
* * * *
111017610 AGATTGTAGATCCTATCTCCT-TGA-GCAGCAGTGGAGCATATTGAAGA
130 AAATTGTAGATCCTATCT-CTATGAGGCAACAATGGAGCAGATTGAAGA
* * *
111017657 TTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAATATGGCGAATCTTATCTTCCCGA
1 TTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGA
* *
111017722 GGTAGCAGGAGAGCAGATTTAAGCCACTAGTCTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAA
66 GGTAGCAGGAGAGCAGATTTAAGCCACTAGCCTTATCTCCCCGAGCAGCAGTGGAGCAGGCTGAA
* *
111017787 AATTGTAGATCTTATCTCTATGAGGTAACAATGGAGCAGATTGAAGA
131 AATTGTAGATCCTATCTCTATGAGGCAACAATGGAGCAGATTGAAGA
**
111017834 -TGGCGAATCTTATCTCCCTAAG
1 TTGTAG-ATCTTATCTCCCTAAG
111017856 GTAGCAAGGG
Statistics
Matches: 177, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
175 2 0.01
176 139 0.79
177 36 0.20
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (177 bp):
TTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGA
GGTAGCAGGAGAGCAGATTTAAGCCACTAGCCTTATCTCCCCGAGCAGCAGTGGAGCAGGCTGAA
AATTGTAGATCCTATCTCTATGAGGCAACAATGGAGCAGATTGAAGA
Found at i:111017713 original size:132 final size:133
Alignment explanation
Indices: 111017577--111017935 Score: 332
Period size: 133 Copynumber: 2.7 Consensus size: 133
111017567 AGCCACTAGC
* *** *
111017577 CTTATCTCCCCGA-GCAGCAGTG-GAGCAGGCTGAAGATTGTAGATCCTATCTCCTTGAGCAGCA
1 CTTATCTCCCCGAGGCAGCAG-GAGAGCAGACTGAAGACACTAG-TCCTATCTCCCTGAGCAGCA
* * * * ** * *
111017640 GTGGAGCATATTGAAGATTGTAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATTGAATATGG
64 GTGGAGCAGACTGAAAATTGTAGATCTTATCTCCATGAAGCAACAATGGAGCAGATTGAAGATGG
111017704 CGAAT
129 CGAAT
* * * * * *
111017709 CTTATCTTCCCGAGGTAGCAGGAGAGCAGATTTAAGCCACTAGTCTTATCTCCCTGAGCAGCAGT
1 CTTATCTCCCCGAGGCAGCAGGAGAGCAGACTGAAGACACTAGTCCTATCTCCCTGAGCAGCAGT
* * * *
111017774 GGAGCAGGCTGAAAATTGTAGATCTTATCTCTATGAGGTAACAATGGAGCAGATTGAAGATGGCG
66 GGAGCAGACTGAAAATTGTAGATCTTATCTCCATGAAGCAACAATGGAGCAGATTGAAGATGGCG
111017839 AAT
131 AAT
** * * * * * * *
111017842 CTTATCTCCCTAAGGTAGCAAGG-GAGGAAATTTAAGCCATTAG-CCTTATCTCCCTGAGCAGCA
1 CTTATCTCCCCGAGGCAGC-AGGAGAGCAGACTGAAGACACTAGTCC-TATCTCCCTGAGCAGCA
* * *
111017905 GTGGAGCAGGCTGAAGATTGTAGATTTTATC
64 GTGGAGCAGACTGAAAATTGTAGATCTTATC
111017936 CCCTTGAGTA
Statistics
Matches: 190, Mismatches: 32, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
132 62 0.33
133 125 0.66
134 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (133 bp):
CTTATCTCCCCGAGGCAGCAGGAGAGCAGACTGAAGACACTAGTCCTATCTCCCTGAGCAGCAGT
GGAGCAGACTGAAAATTGTAGATCTTATCTCCATGAAGCAACAATGGAGCAGATTGAAGATGGCG
AAT
Found at i:111017799 original size:88 final size:87
Alignment explanation
Indices: 111017531--111017803 Score: 273
Period size: 88 Copynumber: 3.1 Consensus size: 87
111017521 AAGACGGTGA
** * * *
111017531 ATCTTATCTTTTCGAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCCGAGCAGCA
1 ATCTTATCTTCCCGAGGTAGCAGGG-AGCAGATTTAAGCCACTAGTCTTATCTCCCTGAGCAGCA
*
111017596 GTGGAGCAGGCTGAAGATTGTAG
65 GTGGAGCAGGCTGAAAATTGTAG
* * * * * **** *
111017619 ATCCTATC-TCCTTGA-GCAGCAGTGGAGCATATTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 ATCTTATCTTCC-CGAGGTAGCAG-GGAGCAGATTTAAGCCACTAG-TCTTATCTCCCTGAGCAG
* ** * **
111017682 TAGTGGAGCAGATTGAATA-TGGCG
63 CAGTGGAGCAGGCTGAAAATTGTAG
111017706 AATCTTATCTTCCCGAGGTAGCAGGAGAGCAGATTTAAGCCACTAGTCTTATCTCCCTGAGCAGC
1 -ATCTTATCTTCCCGAGGTAGCAGG-GAGCAGATTTAAGCCACTAGTCTTATCTCCCTGAGCAGC
111017771 AGTGGAGCAGGCTGAAAATTGTAG
64 AGTGGAGCAGGCTGAAAATTGTAG
111017795 ATCTTATCT
1 ATCTTATCT
111017804 CTATGAGGTA
Statistics
Matches: 140, Mismatches: 37, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
87 22 0.16
88 92 0.66
89 26 0.19
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (87 bp):
ATCTTATCTTCCCGAGGTAGCAGGGAGCAGATTTAAGCCACTAGTCTTATCTCCCTGAGCAGCAG
TGGAGCAGGCTGAAAATTGTAG
Found at i:111017858 original size:133 final size:130
Alignment explanation
Indices: 111017623--111018024 Score: 482
Period size: 132 Copynumber: 3.0 Consensus size: 130
111017613 TTGTAGATCC
* *** * * * *
111017623 TATCTCCTTGAGCAGCAGTGGAGCATATTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTGTAGATCTTATCT-CTTGAGTAGCAGTGG
*
111017688 AGCAGATTGAATATGGCGAATCTTATCTTCCC-GAGGTAGCAGGAGAGCAGATTTAAGCCACTAG
65 AGCAGATTGAAGATGGCGAATCTTATC-TCCCTGAGGTAGCAGG-GAGCAGATTTAAGCCACTAG
*
111017752 TCT
128 CCT
* * *
111017755 TATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAAATTGTAGATCTTATCTCTATGAGGTAACAATG
1 TATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTGTAGATCTTATCTCT-TGA-GTAGCAGTG
* * * *
111017820 GAGCAGATTGAAGATGGCGAATCTTATCTCCCTAAGGTAGCAAGGGAGGAAATTTAAGCCATTAG
64 GAGCAGATTGAAGATGGCGAATCTTATCTCCCTGAGGTAGC-AGGGAGCAGATTTAAGCCACTAG
111017885 CCT
128 CCT
* *
111017888 TATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTGTAGATTTTATCCCCTTGAGTAGCAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTGTAGATCTTAT-CTCTTGAGTAGCAGTGG
** * * * ** *
111017953 AGCAGATCAAAGACGACGGATCTTATCTTTCTGAGGTAACAGGGGAGCAGATTTAAGCCACTAGC
65 AGCAGATTGAAGATGGCGAATCTTATCTCCCTGAGGTAGCA-GGGAGCAGATTTAAGCCACTAGC
111018018 CT
129 CT
111018020 TATCT
1 TATCT
111018025 AGGCTGAAAT
Statistics
Matches: 230, Mismatches: 34, Indels: 12
0.83 0.12 0.04
Matches are distributed among these distances:
131 2 0.01
132 116 0.50
133 106 0.46
134 6 0.03
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (130 bp):
TATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTGTAGATCTTATCTCTTGAGTAGCAGTGGA
GCAGATTGAAGATGGCGAATCTTATCTCCCTGAGGTAGCAGGGAGCAGATTTAAGCCACTAGCCT
Found at i:111018441 original size:26 final size:25
Alignment explanation
Indices: 111018381--111018444 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 25
111018371 CCTAATTCAG
111018381 CCTAGCCCAACAATTGAAACCCAAAC
1 CCTAGCCCAA-AATTGAAACCCAAAC
* *
111018407 CCAAGGCCCAAAATT-AAACCTAACTAC
1 CCTA-GCCCAAAATTGAAACCCAA--AC
111018434 CCTAGCCCAAA
1 CCTAGCCCAAA
111018445 TGGCCCAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 7 0.22
26 14 0.44
27 11 0.34
ACGTcount: A:0.42, C:0.38, G:0.08, T:0.12
Consensus pattern (25 bp):
CCTAGCCCAAAATTGAAACCCAAAC
Found at i:111018871 original size:2 final size:2
Alignment explanation
Indices: 111018864--111018888 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
111018854 TACGAAACCT
111018864 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
111018889 TAAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111019498 original size:3 final size:3
Alignment explanation
Indices: 111019490--111019631 Score: 173
Period size: 3 Copynumber: 47.7 Consensus size: 3
111019480 ATTTTCAAAT
111019490 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
111019538 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG CTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
111019585 CTA CTC TTA TTAA TGTA TTG TTA TTT TTA TT- TCA TT- TTA TTA TTA
1 TTA TTA TTA TT-A T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
111019630 TT
1 TT
111019632 GTTTCATCCT
Statistics
Matches: 120, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
2 5 0.04
3 110 0.92
4 4 0.03
5 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:111020753 original size:26 final size:26
Alignment explanation
Indices: 111020724--111020831 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
111020714 TGGTACAAAT
111020724 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
111020750 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
111020776 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
111020802 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
111020828 TGAT
1 TGAT
111020832 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:111024292 original size:88 final size:90
Alignment explanation
Indices: 111024139--111024310 Score: 213
Period size: 88 Copynumber: 1.9 Consensus size: 90
111024129 AACCTCTACC
* * * * * * *
111024139 CTTTTTTTTCACTTATTTGGCTATTTGAACTTTTAAAATGTATAAAAAAGACCTTCAA-ACCTTT
1 CTTTTTTTGCACTCAATTGGCTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAATACCTTT
*
111024203 TT-AAAAAAATCAATTAATCCCTTA
66 TTAAAAAAAAGCAATTAATCCCTTA
* ***
111024227 CTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAATTTTTTT
1 CTTTTTTTGCACTCAATTGGCTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAATACCTTT
111024292 TTCAAAAAAAAGCAATTAA
66 TT-AAAAAAAAGCAATTAA
111024311 GCCCCTGCCT
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
88 50 0.72
89 5 0.07
91 14 0.20
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (90 bp):
CTTTTTTTGCACTCAATTGGCTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAATACCTTT
TTAAAAAAAAGCAATTAATCCCTTA
Found at i:111024404 original size:11 final size:10
Alignment explanation
Indices: 111024390--111024433 Score: 56
Period size: 9 Copynumber: 4.5 Consensus size: 10
111024380 ATAAAAATTT
111024390 AAATATTAAAA
1 AAATATT-AAA
111024401 AAATATT-AA
1 AAATATTAAA
111024410 AAATA-TAAA
1 AAATATTAAA
*
111024419 AAATAGTAAA
1 AAATATTAAA
111024429 AAATA
1 AAATA
111024434 AAAAAAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 1 0.03
9 14 0.45
10 9 0.29
11 7 0.23
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (10 bp):
AAATATTAAA
Done.