Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 321 of 325
Found at i:101107166 original size:21 final size:21
Alignment explanation
Indices: 101107140--101107179 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
101107130 GAACCATGAT
101107140 CAAAGTTCATGTATATAATTA
1 CAAAGTTCATGTATATAATTA
101107161 CAAAGTTCATGTATATAAT
1 CAAAGTTCATGTATATAAT
101107180 GGCATATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (21 bp):
CAAAGTTCATGTATATAATTA
Found at i:101107556 original size:30 final size:30
Alignment explanation
Indices: 101107482--101107558 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 30
101107472 AAGGTCTAAT
*
101107482 AAATTTTTAAAAATCTTAAGGGTTTAAAATGA
1 AAATTTTTAAAAAT-TTAAGGGATT-AAATGA
* *
101107514 GAATTTTT-AAAATTTAAGGGATT-AATTA
1 AAATTTTTAAAAATTTAAGGGATTAAATGA
101107542 AAATTTTCTAAAAATTT
1 AAATTTT-TAAAAATTT
101107559 CAATGGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 10 0.26
29 1 0.03
30 16 0.41
31 5 0.13
32 7 0.18
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (30 bp):
AAATTTTTAAAAATTTAAGGGATTAAATGA
Found at i:101109194 original size:19 final size:19
Alignment explanation
Indices: 101109155--101109194 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
101109145 TTTATCTCTT
*
101109155 TAAAAATTCAAAATATTTA
1 TAAAAATTCAAAATATATA
101109174 TAAAAATTTCAAAAT-TATA
1 TAAAAA-TTCAAAATATATA
101109193 TA
1 TA
101109195 TTTTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAATTCAAAATATATA
Found at i:101109204 original size:17 final size:16
Alignment explanation
Indices: 101109184--101109242 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 16
101109174 TAAAAATTTC
*
101109184 AAAATTATATATTTTAAA
1 AAAATTA-AAATTTT-AA
*
101109202 AAAATTAAAAATTTAAA
1 AAAATT-AAAATTTTAA
101109219 AAAAGTTAAAATTTTAA
1 AAAA-TTAAAATTTTAA
101109236 AATAATT
1 AA-AATT
101109243 TTAAAATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
17 19 0.54
18 15 0.43
19 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
AAAATTAAAATTTTAA
Found at i:101109207 original size:18 final size:17
Alignment explanation
Indices: 101109184--101109242 Score: 73
Period size: 18 Copynumber: 3.4 Consensus size: 17
101109174 TAAAAATTTC
*
101109184 AAAATTATATATTTTAAA
1 AAAATTA-AAATTTTAAA
*
101109202 AAAATTAAAAATTTAAA
1 AAAATTAAAATTTTAAA
101109219 AAAAGTTAAAATTTTAAA
1 AAAA-TTAAAATTTTAAA
*
101109237 ATAATT
1 AAAATT
101109243 TTAAAATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 14 0.39
18 22 0.61
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
AAAATTAAAATTTTAAA
Found at i:101109244 original size:11 final size:11
Alignment explanation
Indices: 101109228--101109252 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
101109218 AAAAAGTTAA
101109228 AATTTTAAAAT
1 AATTTTAAAAT
101109239 AATTTTAAAAT
1 AATTTTAAAAT
101109250 AAT
1 AAT
101109253 AATTCTGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTTTAAAAT
Found at i:101110004 original size:21 final size:21
Alignment explanation
Indices: 101109964--101110003 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
101109954 ATCATTAATT
101109964 AAATTATTTATTTAAGTTTTA
1 AAATTATTTATTTAAGTTTTA
*
101109985 AAATTA-TTATTTAAATTTT
1 AAATTATTTATTTAAGTTTT
101110004 TTTAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
AAATTATTTATTTAAGTTTTA
Found at i:101110016 original size:32 final size:33
Alignment explanation
Indices: 101109945--101110017 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 33
101109935 TTAATATGAT
*
101109945 AAATTTT-AAATCATTAATTAAATTATTTATTT
1 AAATTTTAAAATCATTAATTAAATTATTTATTA
* * *
101109977 AAGTTTTAAAATTATTATTTAAATT-TTT-TTAA
1 AAATTTTAAAATCATTAATTAAATTATTTATT-A
101110009 AAATTTTAA
1 AAATTTTAA
101110018 CTTTCTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
31 2 0.06
32 17 0.50
33 15 0.44
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (33 bp):
AAATTTTAAAATCATTAATTAAATTATTTATTA
Found at i:101116684 original size:21 final size:22
Alignment explanation
Indices: 101116658--101116704 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
101116648 CTCTGCTCAA
*
101116658 ACTCCACCTGCTGCGGAGTA-T
1 ACTCCACCTGCTGCGAAGTACT
101116679 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
101116701 ACTC
1 ACTC
101116705 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.23
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:101122274 original size:101 final size:101
Alignment explanation
Indices: 101122143--101122406 Score: 474
Period size: 101 Copynumber: 2.6 Consensus size: 101
101122133 ACTTCTGATC
* *
101122143 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGGCAAATGATA
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
101122208 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
66 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
101122244 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
101122309 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
66 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
* * * *
101122345 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATG
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATG
101122407 TGATCAGTGT
Statistics
Matches: 157, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 157 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (101 bp):
AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
Found at i:101122291 original size:51 final size:51
Alignment explanation
Indices: 101122143--101122400 Score: 394
Period size: 51 Copynumber: 5.1 Consensus size: 51
101122133 ACTTCTGATC
* *
101122143 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* * *
101122194 AGTGGCAAATGATAAGTGGTAG-CTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* * *
101122244 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* *
101122295 AGTGACAAATGATAAGTGGTAG-CTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* *
101122345 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
101122396 AGTGA
1 AGTGA
101122401 TAAATGTGAT
Statistics
Matches: 185, Mismatches: 20, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
50 89 0.48
51 96 0.52
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
Found at i:101126997 original size:39 final size:39
Alignment explanation
Indices: 101126943--101127021 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
101126933 GATCCTTCTT
101126943 GTGGTGCCCTTCAATAGATAAGTTGTCAGCAGCTTGCAA
1 GTGGTGCCCTTCAATAGATAAGTTGTCAGCAGCTTGCAA
101126982 GTGGTGCCCTTCAATAGATAAGTTGTCAGCAGCTTGCAA
1 GTGGTGCCCTTCAATAGATAAGTTGTCAGCAGCTTGCAA
101127021 G
1 G
101127022 ACAGAGGTGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
GTGGTGCCCTTCAATAGATAAGTTGTCAGCAGCTTGCAA
Found at i:101130777 original size:217 final size:217
Alignment explanation
Indices: 101130366--101130795 Score: 648
Period size: 217 Copynumber: 2.0 Consensus size: 217
101130356 AGACCTTACG
* * *
101130366 TAATAATTATTAACTTCTTCAATAAGTTAAGTATTTACCTCCCTTTACTCGTTCTTATTTCGGAA
1 TAATAATTATTAACTTCTTCAATAAGTTAAGTATTTACATCCCTTTACTCGTTCTCATTTCAGAA
* ** *
101130431 ACCTCTCGATTAAATTTAGTCTGAGAATCGAATTTTTCAACGCTAACGAAAAATAGATCGCCTTC
66 ACCTCTCGATTAAATTTAGCCCAAGAATCGAATTTTTCAACGCTAAAGAAAAATAGATCGCCTTC
* *
101130496 GTACCTATTTTTCCCAACAAGGTCATGTATGACAAGTGTATTGAGGGCACCTCCCACACTTTTAT
131 GTACCTATTTTTCCCAACAAGGTCATGTATGACAAATGTATTGAGGGCACCTACCACACTTTTAT
*
101130561 AGCTTTAAACCTCTTCAAGAAA
196 AGCTTTAAACATCTTCAAGAAA
* * *
101130583 TAATAATTATTAACTTC-TCTAATAAGTTAGGTATTTACATCCCTTTGCTCGTTCTCATTTTAGA
1 TAATAATTATTAACTTCTTC-AATAAGTTAAGTATTTACATCCCTTTACTCGTTCTCATTTCAGA
* * *
101130647 AACCTCTCGATTAAATTTGGCCCAAGAATCGGATTTTTCAACGCTAAAGAAAAATAGATTGCCTT
65 AACCTCTCGATTAAATTTAGCCCAAGAATCGAATTTTTCAACGCTAAAGAAAAATAGATCGCCTT
* * * *
101130712 CTTACTTA-TTTTCCCAACAAGGTCATGTATGACAAATGTATTGAGGGGTACCTACCACTCTTTT
130 CGTACCTATTTTTCCCAACAAGGTCATGTATGACAAATGTATTGA-GGGCACCTACCACACTTTT
101130776 ATAGCTTTAAACATCTTCAA
194 ATAGCTTTAAACATCTTCAA
101130796 CAAAGCTATC
Statistics
Matches: 191, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
216 37 0.19
217 154 0.81
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (217 bp):
TAATAATTATTAACTTCTTCAATAAGTTAAGTATTTACATCCCTTTACTCGTTCTCATTTCAGAA
ACCTCTCGATTAAATTTAGCCCAAGAATCGAATTTTTCAACGCTAAAGAAAAATAGATCGCCTTC
GTACCTATTTTTCCCAACAAGGTCATGTATGACAAATGTATTGAGGGCACCTACCACACTTTTAT
AGCTTTAAACATCTTCAAGAAA
Found at i:101132894 original size:28 final size:28
Alignment explanation
Indices: 101132854--101132912 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
101132844 TTGTACCCGC
101132854 TAATGACCATCCCAAAAGACTAATACGT
1 TAATGACCATCCCAAAAGACTAATACGT
101132882 TAATGACCATCCCAAAAGACTAATACGT
1 TAATGACCATCCCAAAAGACTAATACGT
101132910 TAA
1 TAA
101132913 AACCATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.44, C:0.24, G:0.10, T:0.22
Consensus pattern (28 bp):
TAATGACCATCCCAAAAGACTAATACGT
Found at i:101134131 original size:21 final size:21
Alignment explanation
Indices: 101134097--101134143 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
101134087 AATATTTCTA
101134097 AAAAACTTTATTTTAAAT-AT
1 AAAAACTTTATTTTAAATCAT
*
101134117 AAAAACTTTATTTTTATATCAT
1 AAAAACTTTA-TTTTAAATCAT
101134139 AAAAA
1 AAAAA
101134144 TTAAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.42
21 7 0.29
22 7 0.29
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (21 bp):
AAAAACTTTATTTTAAATCAT
Found at i:101149656 original size:6 final size:6
Alignment explanation
Indices: 101149647--101149678 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
101149637 TGCCAATTTA
*
101149647 CCTTTG CCTTTG CCTTTG CCTTTG CCATTG CC
1 CCTTTG CCTTTG CCTTTG CCTTTG CCTTTG CC
101149679 AGGTTCAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.03, C:0.38, G:0.16, T:0.44
Consensus pattern (6 bp):
CCTTTG
Found at i:101153324 original size:31 final size:31
Alignment explanation
Indices: 101153289--101153356 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
101153279 TAAACAACCT
*
101153289 AGTGACTTAAATAAAAACTTTTGAATAGTTC
1 AGTGACTTAAATAAAAACTTTCGAATAGTTC
* * *
101153320 AGTGATTTAAATGAAAACTTTCGAATAGTTT
1 AGTGACTTAAATAAAAACTTTCGAATAGTTC
101153351 AGTGAC
1 AGTGAC
101153357 CAAATTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTCGAATAGTTC
Found at i:101157462 original size:25 final size:25
Alignment explanation
Indices: 101157412--101157462 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
101157402 CTTCGTTTGC
** *
101157412 CTCTAAGCAATTGATTTTTCTTTAA
1 CTCTAAGCAATTGATTAGTCTATAA
101157437 CTCTAAGCAATTGACTTAGTC-ATAA
1 CTCTAAGCAATTGA-TTAGTCTATAA
101157462 C
1 C
101157463 ATTACTCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (25 bp):
CTCTAAGCAATTGATTAGTCTATAA
Found at i:101160343 original size:2 final size:2
Alignment explanation
Indices: 101160287--101160328 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
101160277 TCATATACCG
101160287 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
101160329 GCATTAATTC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:101162643 original size:5 final size:5
Alignment explanation
Indices: 101162633--101162659 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
101162623 AGTTATTGCA
101162633 TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TA
101162660 GATTTGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:101165880 original size:14 final size:14
Alignment explanation
Indices: 101165861--101165888 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
101165851 TAAATCCTAA
101165861 GTGGATGACAGACT
1 GTGGATGACAGACT
101165875 GTGGATGACAGACT
1 GTGGATGACAGACT
101165889 ATGTATGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.36, T:0.21
Consensus pattern (14 bp):
GTGGATGACAGACT
Found at i:101170857 original size:29 final size:29
Alignment explanation
Indices: 101170824--101170884 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
101170814 TCAAGAAGAT
101170824 AGAACTAATAAGATATTACCAAAGTTAAA
1 AGAACTAATAAGATATTACCAAAGTTAAA
101170853 AGAACTAATAAGATATTACCAAAGTTAAA
1 AGAACTAATAAGATATTACCAAAGTTAAA
101170882 AGA
1 AGA
101170885 GTATGGTGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.56, C:0.10, G:0.11, T:0.23
Consensus pattern (29 bp):
AGAACTAATAAGATATTACCAAAGTTAAA
Found at i:101171627 original size:66 final size:66
Alignment explanation
Indices: 101171546--101171752 Score: 371
Period size: 66 Copynumber: 3.1 Consensus size: 66
101171536 AGCATAATGA
*
101171546 GAACCCATTCCGCTCATGTAGTCCATGGTCGGAGTACCATTCAACCCTGTCATGACTTGAGAAGG
1 GAACCCATTCCGCTCATGTAGTCCATGGTCTGAGTACCATTCAACCCTGTCATGACTTGAGAAGG
101171611 T
66 T
*
101171612 GAACCCATTCCGCTCATGTAGTCCATGGTCTGAGTACCATTGAACCCTGTCATGACTTGAGAAGG
1 GAACCCATTCCGCTCATGTAGTCCATGGTCTGAGTACCATTCAACCCTGTCATGACTTGAGAAGG
101171677 T
66 T
101171678 GAACCCATTCCGCTCATGTAGTCCATGGTCTGAGTACCA-TCGAACCCTGTCATGACTTGAGAAG
1 GAACCCATTCCGCTCATGTAGTCCATGGTCTGAGTACCATTC-AACCCTGTCATGACTTGAGAAG
101171742 GT
65 GT
101171744 GAACGCCAT
1 GAAC-CCAT
101171753 GAAGATGAGG
Statistics
Matches: 136, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
65 1 0.01
66 131 0.96
67 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (66 bp):
GAACCCATTCCGCTCATGTAGTCCATGGTCTGAGTACCATTCAACCCTGTCATGACTTGAGAAGG
T
Found at i:101175436 original size:25 final size:25
Alignment explanation
Indices: 101175402--101175454 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
101175392 AGGCAAGAAT
*
101175402 ATTAATAGAACAAGCTATATCAATG
1 ATTAATAGAACAAGCTATATAAATG
101175427 ATTAATAGAACAAGCTATATAAATG
1 ATTAATAGAACAAGCTATATAAATG
101175452 ATT
1 ATT
101175455 TTTTTTGTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.30
Consensus pattern (25 bp):
ATTAATAGAACAAGCTATATAAATG
Found at i:101200939 original size:36 final size:35
Alignment explanation
Indices: 101200863--101200941 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 35
101200853 ATACCATCTT
* *
101200863 AAAAAAAAAGTATCAAATTTAGATACTAAATTAGA
1 AAAAAAAAAGAATCAAATTTAGATACTAAACTAGA
* *
101200898 AAAAAAAAAGAAGTCAAGTTTAGATACTAAACTGGA
1 AAAAAAAAAGAA-TCAAATTTAGATACTAAACTAGA
*
101200934 CAAAAAAA
1 AAAAAAAA
101200942 GTTTTAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
35 11 0.29
36 27 0.71
ACGTcount: A:0.61, C:0.08, G:0.11, T:0.20
Consensus pattern (35 bp):
AAAAAAAAAGAATCAAATTTAGATACTAAACTAGA
Found at i:101209375 original size:35 final size:31
Alignment explanation
Indices: 101209302--101209377 Score: 152
Period size: 31 Copynumber: 2.5 Consensus size: 31
101209292 TTGAAAAATA
101209302 ACAAATCAATCACTAACGTTATTAAAAAGTG
1 ACAAATCAATCACTAACGTTATTAAAAAGTG
101209333 ACAAATCAATCACTAACGTTATTAAAAAGTG
1 ACAAATCAATCACTAACGTTATTAAAAAGTG
101209364 ACAAATCAATCACT
1 ACAAATCAATCACT
101209378 CATTAACATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.25
Consensus pattern (31 bp):
ACAAATCAATCACTAACGTTATTAAAAAGTG
Found at i:101209843 original size:5 final size:5
Alignment explanation
Indices: 101209833--101209872 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
101209823 TCAAGTCTTG
*
101209833 GATAT GATAT GATAT GATAT GATAT GACAT GATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT
101209873 AAACAGAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:101211491 original size:18 final size:17
Alignment explanation
Indices: 101211463--101211496 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
101211453 TAATAATATT
101211463 TAATATTAAATTTAATC
1 TAATATTAAATTTAATC
101211480 TAATATTTAAATTTAAT
1 TAATA-TTAAATTTAAT
101211497 GTTAAAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATATTAAATTTAATC
Found at i:101215667 original size:22 final size:21
Alignment explanation
Indices: 101215632--101215707 Score: 59
Period size: 22 Copynumber: 3.7 Consensus size: 21
101215622 AAAAGGTATC
* * *
101215632 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
101215653 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
101215676 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
101215695 TGC-AATCATATCT
1 TACAAATCATATCT
101215708 AAGATTGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 9 0.20
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:101215683 original size:17 final size:19
Alignment explanation
Indices: 101215668--101215736 Score: 117
Period size: 17 Copynumber: 3.8 Consensus size: 19
101215658 AATCATATCT
101215668 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
101215687 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
101215705 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
101215722 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
101215737 AATTGAAGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.34
18 16 0.34
19 15 0.32
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:101216157 original size:45 final size:45
Alignment explanation
Indices: 101216101--101216368 Score: 301
Period size: 45 Copynumber: 5.9 Consensus size: 45
101216091 CAATATCGGC
* *
101216101 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * *
101216146 TATCTTCGATCTGCTCCCCGTCTAATATAGAGACGCCAAATCTGC
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* *
101216191 T-TCTTCAATCTGTTCCCCGTCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * *
101216235 TAGCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * * * * * * *
101216280 CATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAGATCTGT
1 TATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAAATCTGT
101216325 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 TA--TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
101216369 ATCTTGGATC
Statistics
Matches: 182, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
43 6 0.03
44 44 0.24
45 102 0.56
47 19 0.10
48 5 0.03
49 6 0.03
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
Found at i:101216228 original size:89 final size:90
Alignment explanation
Indices: 101216109--101216368 Score: 301
Period size: 89 Copynumber: 2.9 Consensus size: 90
101216099 GCTATCTTTG
* *
101216109 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAT
1 ATCTGTTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
* *
101216174 AGAGACGCCAAATCTG-CTTCTTCA
66 AGAGATGCCAAATCTGTCATCTTCA
* * * *
101216198 ATCTGTTCCCCGTCTAATACAGAGATGCCAAATCTGTTAGCTCCGATTTGCTCCCCGTCTAATAC
1 ATCTGTTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
**
101216263 AGAGATGCCAAATCTGTCATCTTGG
66 AGAGATGCCAAATCTGTCATCTTCA
*** * * * * *
101216288 ATCTGCTTCGATGT-AAACACATGA-AGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTA
1 ATCTG-TTCCCCGTCTAATACA-GAGACGCCAAATCTGTTA--TCTTCGATCTGCTCCCCGTCTA
101216351 ATACAGAGATGCCAAATC
62 ATACAGAGATGCCAAATC
101216369 ATCTTGGATC
Statistics
Matches: 145, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
89 74 0.51
90 27 0.19
91 7 0.05
92 37 0.26
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (90 bp):
ATCTGTTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
AGAGATGCCAAATCTGTCATCTTCA
Found at i:101216437 original size:78 final size:78
Alignment explanation
Indices: 101216308--101216601 Score: 446
Period size: 78 Copynumber: 3.8 Consensus size: 78
101216298 ATGTAAACAC
*
101216308 ATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
101216373 TGGATCTGCTTCA
66 TGGATCTGCTTCA
** * *
101216386 ATGAAGGTCCA-ATCTATTATGTCTTTGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
*
101216450 TTGGATCTGCTTTA
65 TTGGATCTGCTTCA
*
101216464 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
101216529 TGGATCTACTTCA
66 TGGATCTGCTTCA
* * * * **
101216542 ATGAAGGTCAGATCCGCTATGTCTTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAAT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAAT
101216602 TTGTTTCTTC
Statistics
Matches: 196, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
77 2 0.01
78 192 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:101216855 original size:44 final size:44
Alignment explanation
Indices: 101216783--101217216 Score: 271
Period size: 44 Copynumber: 9.9 Consensus size: 44
101216773 ATCTGCTATG
* * * *
101216783 TCTTCAATCTGTTCTCTGTCGAATATAGAGATGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCTG-CCAATACAGAGATGCCAAATCTGTTA
* * * *
101216828 TCTTTGATCTGCTCCCTGCCAATATAGAGACGCCAAATC----A
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
* * ** * * * * *
101216868 TCTTAGATTTGCT-TCAACGTAA-ACACGTGAAAGCCAAATCAGCTATG
1 TCTTCGATCTGCTCTCTGC-CAATACA-GAG-ATGCCAAATCTG-T-TA
* * * * * *
101216915 TCCTCGATTTGCTCCCTACCAATACAGAGATGCCAAATTTGCTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
* *
101216959 TTTTCGATCTGCTCTCTGCCAATACAGAGATACCAAATCTGTTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
*
101217003 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
* * *
101217047 TCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATC----A
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
* * ** * * * *
101217087 TCTTGGATTTGCT-TCAACGTAA-ACATGTGAAAGCCAAATCAGTTA
1 TCTTCGATCTGCTCTCTGC-CAATACA-GAG-ATGCCAAATCTGTTA
* * * * *
101217132 TGTCTTCGATCTGCTCTTTGCCAATATAGAGATGTCAAATCTATCA
1 --TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
* ** *
101217178 TCTTCGATCTGCTCCCTAACAATACAGAGACGCCAAATC
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATC
101217217 ATCTTGGATC
Statistics
Matches: 297, Mismatches: 70, Indels: 45
0.72 0.17 0.11
Matches are distributed among these distances:
39 9 0.03
40 31 0.10
41 18 0.06
44 165 0.56
45 15 0.05
46 19 0.06
47 30 0.10
48 10 0.03
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
Found at i:101217104 original size:219 final size:218
Alignment explanation
Indices: 101216557--101217216 Score: 704
Period size: 219 Copynumber: 3.0 Consensus size: 218
101216547 GGTCAGATCC
* * * * * *
101216557 GCTATGTCTTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAATTTGTTTCTTCGATTTGTTCT
1 GCTATATCTTCGATCTGCTCTCTGTCGAATATAGAGATGCCAAATCTGTATCTTCGATCTGCTCT
* * * *
101216622 CTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATC
66 CTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATC
* ** ** * *
101216687 TGCTATGTCTTCGATCTGCTCCTTGTAAACGCA-AGGATGCCAAA--TCATATTGGATCTACTTC
131 AGCTATGTCTTCGATCTGCTCCTTGCCAATACAGA-GATGCCAAATTTCATATTCGATCTGC-TC
* * * * * *
101216749 GATGTGAAAATATCCGAAGGT-TAGATCT
194 --TCTGACAATA-CAG-AGATCCAAATCT
* * * *
101216777 GCTATGTCTTCAATCTGTTCTCTGTCGAATATAGAGATGCCAAATCTGTTATCTTTGATCTGCTC
1 GCTATATCTTCGATCTGCTCTCTGTCGAATATAGAGATGCCAAATCTG-TATCTTCGATCTGCTC
* * *
101216842 CCTGCCAATATAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAAT
65 TCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAAT
* * * * *
101216907 CAGCTATGTCCTCGATTTGCTCCCTACCAATACAGAGATGCCAAATTTGCTATTTTCGATCTGCT
130 CAGCTATGTCTTCGATCTGCTCCTTGCCAATACAGAGATGCCAAATTT-C-ATATTCGATCTGCT
*
101216972 CTCTGCCAATACAGAGATACCAAATCT
193 CTCTGACAATACAGAGAT-CCAAATCT
* * *
101216999 G-T-TATCTTCGATCTGCTCTCTG-CCAATACAGAGATGCCAAATCTGCTATCTTCGATCTACTC
1 GCTATATCTTCGATCTGCTCTCTGTCGAATATAGAGATGCCAAATCTG-TATCTTCGATCTGCTC
* *
101217061 TCTGACAATACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAACATGTGAAAGCCAAAT
65 TCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAAT
* * * * *
101217126 CAGTTATGTCTTCGATCTGCTCTTTGCCAATATAGAGATGTCAAATCTATCATCTTCGATCTGCT
130 CAGCTATGTCTTCGATCTGCTCCTTGCCAATACAGAGATGCCAAAT-T-TCATATTCGATCTGCT
* * *
101217191 CCCTAACAATACAGAGACGCCAAATC
193 CTCTGACAATACAGAGA-TCCAAATC
101217217 ATCTTGGATC
Statistics
Matches: 369, Mismatches: 60, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
219 167 0.45
220 66 0.18
221 108 0.29
222 14 0.04
223 1 0.00
224 3 0.01
225 10 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (218 bp):
GCTATATCTTCGATCTGCTCTCTGTCGAATATAGAGATGCCAAATCTGTATCTTCGATCTGCTCT
CTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATC
AGCTATGTCTTCGATCTGCTCCTTGCCAATACAGAGATGCCAAATTTCATATTCGATCTGCTCTC
TGACAATACAGAGATCCAAATCT
Found at i:101217240 original size:131 final size:129
Alignment explanation
Indices: 101216991--101217233 Score: 371
Period size: 131 Copynumber: 1.9 Consensus size: 129
101216981 TACAGAGATA
*
101216991 CCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCTTCGATC
1 CCAAATCAGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCTTCGATC
* * *
101217056 TACTCTCTGACAATACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAACATGTGAAAG
66 TACTCCCTAACAATACAGAGACGCCAAATCATCTTGGATCTGCTTCAACGTAAACATGTGAAAG
* * * *
101217120 CCAAATCAGTTATGTCTTCGATCTGCTCTTTGCCAATATAGAGATGTCAAATCT-ATCATCTTCG
1 CCAAATCAGTTA--TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCT-ATCTTCG
*
101217184 ATCTGCTCCCTAACAATACAGAGACGCCAAATCATCTTGGATCTGCTTCA
63 ATCTACTCCCTAACAATACAGAGACGCCAAATCATCTTGGATCTGCTTCA
101217234 GTGTAAATAC
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
129 11 0.11
130 1 0.01
131 90 0.88
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (129 bp):
CCAAATCAGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATCTTCGATC
TACTCCCTAACAATACAGAGACGCCAAATCATCTTGGATCTGCTTCAACGTAAACATGTGAAAG
Found at i:101218198 original size:7 final size:7
Alignment explanation
Indices: 101218186--101218238 Score: 56
Period size: 7 Copynumber: 7.9 Consensus size: 7
101218176 GGCCTCTTCA
101218186 TTTTTTC
1 TTTTTTC
*
101218193 TTTTTTA
1 TTTTTTC
101218200 TTTTTTC
1 TTTTTTC
* *
101218207 TTGTAT-
1 TTTTTTC
*
101218213 TTTCTT-
1 TTTTTTC
101218219 TTTTTTC
1 TTTTTTC
101218226 TTTTTTC
1 TTTTTTC
101218233 TTTTTT
1 TTTTTT
101218239 TTGAAATAGA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
6 8 0.22
7 29 0.78
ACGTcount: A:0.04, C:0.09, G:0.02, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:101218214 original size:26 final size:26
Alignment explanation
Indices: 101218185--101218234 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
101218175 TGGCCTCTTC
101218185 ATTTT-TTCTTTTTTATTTTTTCTTGT
1 ATTTTCTT-TTTTTTATTTTTTCTTGT
*
101218211 ATTTTCTTTTTTTTCTTTTTTCTT
1 ATTTTCTTTTTTTTATTTTTTCTT
101218235 TTTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.06, C:0.10, G:0.02, T:0.82
Consensus pattern (26 bp):
ATTTTCTTTTTTTTATTTTTTCTTGT
Found at i:101223971 original size:22 final size:21
Alignment explanation
Indices: 101223936--101224011 Score: 59
Period size: 22 Copynumber: 3.7 Consensus size: 21
101223926 AAAAGGTATC
* * *
101223936 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
101223957 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
101223980 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
101223999 TGC-AATCATATCT
1 TACAAATCATATCT
101224012 AAGATTGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 9 0.20
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:101223996 original size:19 final size:19
Alignment explanation
Indices: 101223972--101224116 Score: 221
Period size: 19 Copynumber: 7.9 Consensus size: 19
101223962 AATCATATCT
101223972 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
101223991 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
101224009 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
* *
101224026 TATAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
101224045 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
101224063 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
101224080 TCTAATATTGCATATCATA
1 TCTAAGATTGCATATCATA
101224099 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
101224117 TGAAGATTAT
Statistics
Matches: 114, Mismatches: 6, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
17 29 0.25
18 32 0.28
19 53 0.46
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:101224044 original size:54 final size:54
Alignment explanation
Indices: 101223978--101224116 Score: 251
Period size: 54 Copynumber: 2.6 Consensus size: 54
101223968 ATCTTCTAAG
101223978 ATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATATAAA
1 ATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATATAAA
* *
101224032 ATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAT
1 ATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATATAAA
101224086 ATTGCATATCATATCTAAGATTGCATATCAT
1 ATTGCATATCATATCTAAGATTGCA-ATCAT
101224117 TGAAGATTAT
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
54 77 0.94
55 5 0.06
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.38
Consensus pattern (54 bp):
ATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATATAAA
Found at i:101229575 original size:6 final size:6
Alignment explanation
Indices: 101229566--101229599 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
101229556 GAGACTGCGG
*
101229566 CGGCGA CGGCGA TGGCGA CGGCGA CGGCGA CGGC
1 CGGCGA CGGCGA CGGCGA CGGCGA CGGCGA CGGC
101229600 CTTGGTTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.32, G:0.50, T:0.03
Consensus pattern (6 bp):
CGGCGA
Found at i:101230186 original size:127 final size:124
Alignment explanation
Indices: 101230032--101230258 Score: 294
Period size: 127 Copynumber: 1.8 Consensus size: 124
101230022 AATATGTAAG
* *
101230032 ATTAAAATTAAAATACATTTGAATCACACTTAAAATTCTACGTATACAATTGTAACGAATCAAAA
1 ATTAAAATTAAAATACATTTGAATCACACTCAAAATTCTACATATACAATTGTAAC-AATCAAAA
** *
101230097 TTT-ATGTATCAAACTGTATATTAAATCAAAATTTATATATACTTTTAAAATTTATACCTA
65 TTTAATACAT-AAACTGTACATTAAATCAAAATTTATATATACTTTTAAAATTTATACCTA
* * ** * * *
101230157 ATTAAAATGTTAAAATATATTTGAATCACAGTCAATGTTTTATATATACAATTGTAACAATTAAA
1 ATTAAAA--TTAAAATACATTTGAATCACACTCAAAATTCTACATATACAATTGTAACAATCAAA
*
101230222 GTTTAATACATAAACTGTACATTAAATCAAAATTTAT
64 ATTTAATACATAAACTGTACATTAAATCAAAATTTAT
101230259 GAATAATTTT
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
125 7 0.08
126 34 0.40
127 45 0.52
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.38
Consensus pattern (124 bp):
ATTAAAATTAAAATACATTTGAATCACACTCAAAATTCTACATATACAATTGTAACAATCAAAAT
TTAATACATAAACTGTACATTAAATCAAAATTTATATATACTTTTAAAATTTATACCTA
Found at i:101230777 original size:9 final size:9
Alignment explanation
Indices: 101230742--101230808 Score: 53
Period size: 9 Copynumber: 7.0 Consensus size: 9
101230732 CAATTTATGG
101230742 TTTTTATAA
1 TTTTTATAA
*
101230751 TGTTTATATA
1 TTTTTATA-A
101230761 TTCCTTTATAA
1 TT--TTTATAA
*
101230772 TTTTTATGA
1 TTTTTATAA
*
101230781 TTTTAATTAA
1 TTTTTA-TAA
*
101230791 ATTTTATAA
1 TTTTTATAA
*
101230800 TTTTAATAA
1 TTTTTATAA
101230809 CTTTAGAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
9 28 0.62
10 8 0.18
11 3 0.07
12 6 0.13
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:101241536 original size:35 final size:35
Alignment explanation
Indices: 101241497--101241756 Score: 256
Period size: 35 Copynumber: 7.4 Consensus size: 35
101241487 TTTCAGTAGG
* ***
101241497 CATGCTAATCAAAATCAGTATAGCAACATGCTTAA
1 CATGCTAATCAGAATCAGTATAATGACATGCTTAA
* *
101241532 CATGCAAATCAGAATCAGTATAATGGCATGCTTAA
1 CATGCTAATCAGAATCAGTATAATGACATGCTTAA
* * *
101241567 CATG-TGAATCAGAATTAGAATAATGACATGTTTAA
1 CATGCT-AATCAGAATCAGTATAATGACATGCTTAA
* *
101241602 CATGCGAATCAGAATCAATATAATGACATGCTTAA
1 CATGCTAATCAGAATCAGTATAATGACATGCTTAA
* * * *
101241637 CATGCGAATCATAATCGGTATAATGACATGCTTTA
1 CATGCTAATCAGAATCAGTATAATGACATGCTTAA
* * *
101241672 CATG-TGAAACAAAATCAGAATAATGACATGCTTAA
1 CATGCT-AATCAGAATCAGTATAATGACATGCTTAA
* * *
101241707 CATG-TGAATTAGAATCAGTATAATGGCATACTTAA
1 CATGCT-AATCAGAATCAGTATAATGACATGCTTAA
* * *
101241742 CCTGCGAATAAGAAT
1 CATGCTAATCAGAAT
101241757 ATCAAAAAAT
Statistics
Matches: 186, Mismatches: 35, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
35 186 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (35 bp):
CATGCTAATCAGAATCAGTATAATGACATGCTTAA
Found at i:101241596 original size:70 final size:70
Alignment explanation
Indices: 101241503--101241756 Score: 285
Period size: 70 Copynumber: 3.6 Consensus size: 70
101241493 TAGGCATGCT
* *** *
101241503 AATCAAAATCAGTATAGCAACATGCTTAACATGCAAATCAGAATCAGTATAATGGCATGCTTAAC
1 AATCAGAATCAGTATAATGACATGCTTAACATGCAAATCAGAATCAGTATAATGACATGCTTAAC
101241568 ATGTG
66 ATGTG
* * * * *
101241573 AATCAGAATTAGAATAATGACATGTTTAACATGCGAATCAGAATCAATATAATGACATGCTTAAC
1 AATCAGAATCAGTATAATGACATGCTTAACATGCAAATCAGAATCAGTATAATGACATGCTTAAC
*
101241638 ATGCG
66 ATGTG
* * * * * *
101241643 AATCATAATCGGTATAATGACATGCTTTACATGTGAAA-CAAAATCAGAATAATGACATGCTTAA
1 AATCAGAATCAGTATAATGACATGCTTAACATG-CAAATCAGAATCAGTATAATGACATGCTTAA
101241707 CATGTG
65 CATGTG
* * * * * *
101241713 AATTAGAATCAGTATAATGGCATACTTAACCTGCGAATAAGAAT
1 AATCAGAATCAGTATAATGACATGCTTAACATGCAAATCAGAAT
101241757 ATCAAAAAAT
Statistics
Matches: 148, Mismatches: 34, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
69 2 0.01
70 144 0.97
71 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (70 bp):
AATCAGAATCAGTATAATGACATGCTTAACATGCAAATCAGAATCAGTATAATGACATGCTTAAC
ATGTG
Found at i:101241679 original size:105 final size:105
Alignment explanation
Indices: 101241522--101241756 Score: 326
Period size: 105 Copynumber: 2.2 Consensus size: 105
101241512 CAGTATAGCA
* * * * *
101241522 ACATGCTTAACATGCAAATCAGAATCAGTATAATGGCATGCTTAACATGTGAATCAGAATTAGAA
1 ACATGCTTAACATGCGAATCAGAATCAGTATAATGACATGCTTAACATGTGAAACAAAATCAGAA
*
101241587 TAATGACATGTTTAACATGCGAATCAGAATCAATATAATG
66 TAATGACATGCTTAACATGCGAATCAGAATCAATATAATG
* * *
101241627 ACATGCTTAACATGCGAATCATAATCGGTATAATGACATGCTTTACATGTGAAACAAAATCAGAA
1 ACATGCTTAACATGCGAATCAGAATCAGTATAATGACATGCTTAACATGTGAAACAAAATCAGAA
* * *
101241692 TAATGACATGCTTAACATGTGAATTAGAATCAGTATAATG
66 TAATGACATGCTTAACATGCGAATCAGAATCAATATAATG
* * * *
101241732 GCATACTTAACCTGCGAATAAGAAT
1 ACATGCTTAACATGCGAATCAGAAT
101241757 ATCAAAAAAT
Statistics
Matches: 113, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
105 113 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (105 bp):
ACATGCTTAACATGCGAATCAGAATCAGTATAATGACATGCTTAACATGTGAAACAAAATCAGAA
TAATGACATGCTTAACATGCGAATCAGAATCAATATAATG
Found at i:101243825 original size:16 final size:14
Alignment explanation
Indices: 101243806--101243842 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 14
101243796 GTTCTTCTCT
101243806 TTTTTTTCCACGAAA
1 TTTTTTT-CACGAAA
101243821 CTTTTTTTCACGAAA
1 -TTTTTTTCACGAAA
101243836 TTTTTTT
1 TTTTTTT
101243843 AATACCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 7 0.33
16 7 0.33
ACGTcount: A:0.22, C:0.16, G:0.05, T:0.57
Consensus pattern (14 bp):
TTTTTTTCACGAAA
Found at i:101243842 original size:15 final size:16
Alignment explanation
Indices: 101243805--101243842 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
101243795 TGTTCTTCTC
101243805 TTTTTTTTCCACGAAA
1 TTTTTTTTCCACGAAA
*
101243821 CTTTTTTT-CACGAAA
1 TTTTTTTTCCACGAAA
101243836 TTTTTTT
1 TTTTTTT
101243843 AATACCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.21, C:0.16, G:0.05, T:0.58
Consensus pattern (16 bp):
TTTTTTTTCCACGAAA
Found at i:101244218 original size:23 final size:23
Alignment explanation
Indices: 101244174--101244220 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
101244164 CTTACGGTAT
* *
101244174 GATTGACCGCGACACTCCAAAAA
1 GATTGACCGCCACACTCAAAAAA
*
101244197 GATTGACCGCCACACTTAAAAAA
1 GATTGACCGCCACACTCAAAAAA
101244220 G
1 G
101244221 GGATGGGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.28, G:0.17, T:0.15
Consensus pattern (23 bp):
GATTGACCGCCACACTCAAAAAA
Found at i:101245578 original size:14 final size:14
Alignment explanation
Indices: 101245545--101245578 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
101245535 CTATGAAGTT
*
101245545 TCTAAATTTAGGTA
1 TCTAAATTTAGATA
*
101245559 TTTAAATTTAGATA
1 TCTAAATTTAGATA
101245573 TCTAAA
1 TCTAAA
101245579 CATTATTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (14 bp):
TCTAAATTTAGATA
Found at i:101252470 original size:248 final size:248
Alignment explanation
Indices: 101252032--101252528 Score: 994
Period size: 248 Copynumber: 2.0 Consensus size: 248
101252022 TACAAATTTA
101252032 ACCAAAAAAAGAGAGAGAAAGGATTACATTTTATTATGGTGAAAGGAGAAGAATTGAGTTTGGAG
1 ACCAAAAAAAGAGAGAGAAAGGATTACATTTTATTATGGTGAAAGGAGAAGAATTGAGTTTGGAG
101252097 AGCGCGCAACTTCTGAGCTTTGGCAACCGAAGCCGCTTCCTCTTCAGGTTTCGGTGCTTTTCGGG
66 AGCGCGCAACTTCTGAGCTTTGGCAACCGAAGCCGCTTCCTCTTCAGGTTTCGGTGCTTTTCGGG
101252162 GGCGGCCGTGCATTTTTTGTTTTCTCTTCCTGTTTCTCAAGTGGGTTTGGCTTGGGCTGTGGCTT
131 GGCGGCCGTGCATTTTTTGTTTTCTCTTCCTGTTTCTCAAGTGGGTTTGGCTTGGGCTGTGGCTT
101252227 TGACATTTTGATTTAATTCAATTTTTATAAATTACTAACACAATTATCGATAT
196 TGACATTTTGATTTAATTCAATTTTTATAAATTACTAACACAATTATCGATAT
101252280 ACCAAAAAAAGAGAGAGAAAGGATTACATTTTATTATGGTGAAAGGAGAAGAATTGAGTTTGGAG
1 ACCAAAAAAAGAGAGAGAAAGGATTACATTTTATTATGGTGAAAGGAGAAGAATTGAGTTTGGAG
101252345 AGCGCGCAACTTCTGAGCTTTGGCAACCGAAGCCGCTTCCTCTTCAGGTTTCGGTGCTTTTCGGG
66 AGCGCGCAACTTCTGAGCTTTGGCAACCGAAGCCGCTTCCTCTTCAGGTTTCGGTGCTTTTCGGG
101252410 GGCGGCCGTGCATTTTTTGTTTTCTCTTCCTGTTTCTCAAGTGGGTTTGGCTTGGGCTGTGGCTT
131 GGCGGCCGTGCATTTTTTGTTTTCTCTTCCTGTTTCTCAAGTGGGTTTGGCTTGGGCTGTGGCTT
101252475 TGACATTTTGATTTAATTCAATTTTTATAAATTACTAACACAATTATCGATAT
196 TGACATTTTGATTTAATTCAATTTTTATAAATTACTAACACAATTATCGATAT
101252528 A
1 A
101252529 GCAGAAAATT
Statistics
Matches: 249, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
248 249 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (248 bp):
ACCAAAAAAAGAGAGAGAAAGGATTACATTTTATTATGGTGAAAGGAGAAGAATTGAGTTTGGAG
AGCGCGCAACTTCTGAGCTTTGGCAACCGAAGCCGCTTCCTCTTCAGGTTTCGGTGCTTTTCGGG
GGCGGCCGTGCATTTTTTGTTTTCTCTTCCTGTTTCTCAAGTGGGTTTGGCTTGGGCTGTGGCTT
TGACATTTTGATTTAATTCAATTTTTATAAATTACTAACACAATTATCGATAT
Found at i:101254122 original size:7 final size:7
Alignment explanation
Indices: 101254110--101254139 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
101254100 AATAAGAACT
101254110 GATTTGG
1 GATTTGG
101254117 GATTTGG
1 GATTTGG
*
101254124 AATTTGG
1 GATTTGG
101254131 GATTTGG
1 GATTTGG
101254138 GA
1 GA
101254140 AAAGGGTCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (7 bp):
GATTTGG
Found at i:101257495 original size:29 final size:28
Alignment explanation
Indices: 101257444--101257500 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
101257434 TATATGTACT
* * *
101257444 TTGGTAAACTATCAAATATCTTGGAGGAC
1 TTGGTAAACTACCAAAAACCTTGG-GGAC
*
101257473 TTGGTAAATTACCAAAAACCTTGGGGAC
1 TTGGTAAACTACCAAAAACCTTGGGGAC
101257501 CAAGGCCCCC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (28 bp):
TTGGTAAACTACCAAAAACCTTGGGGAC
Found at i:101258411 original size:32 final size:32
Alignment explanation
Indices: 101258349--101258411 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
101258339 CACACAGTTC
* * *
101258349 GATAAATATCAGAGCTGGAACAATCTGGTATG
1 GATAAATATCAGACCAGGAACAATCAGGTATG
* *
101258381 GATAAATATCAGACCAGTAATAATCAGGTAT
1 GATAAATATCAGACCAGGAACAATCAGGTAT
101258412 ACTTAACAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (32 bp):
GATAAATATCAGACCAGGAACAATCAGGTATG
Found at i:101280748 original size:24 final size:24
Alignment explanation
Indices: 101280718--101280768 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
101280708 TATATGATAG
101280718 CTTTTTATCAGCTATGGATATTTA
1 CTTTTTATCAGCTATGGATATTTA
101280742 CTTTTTATCAGCTATGGATATTTA
1 CTTTTTATCAGCTATGGATATTTA
101280766 CTT
1 CTT
101280769 GCTTTGTGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.51
Consensus pattern (24 bp):
CTTTTTATCAGCTATGGATATTTA
Found at i:101280924 original size:5 final size:5
Alignment explanation
Indices: 101280908--101280950 Score: 59
Period size: 5 Copynumber: 8.4 Consensus size: 5
101280898 TCATATGTAT
* *
101280908 CCCAA CCCCAA CCCAA CTCAA CCCAG CCCAA CCCAA CCCAA CC
1 CCCAA -CCCAA CCCAA CCCAA CCCAA CCCAA CCCAA CCCAA CC
101280951 TTTGAATCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.35, C:0.60, G:0.02, T:0.02
Consensus pattern (5 bp):
CCCAA
Found at i:101298774 original size:13 final size:13
Alignment explanation
Indices: 101298756--101298782 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
101298746 ATATATATAT
101298756 AAGAAACAAAAGA
1 AAGAAACAAAAGA
101298769 AAGAAACAAAAGA
1 AAGAAACAAAAGA
101298782 A
1 A
101298783 TAAAAAGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.07, G:0.15, T:0.00
Consensus pattern (13 bp):
AAGAAACAAAAGA
Found at i:101300242 original size:21 final size:21
Alignment explanation
Indices: 101300161--101300248 Score: 95
Period size: 21 Copynumber: 4.1 Consensus size: 21
101300151 GGCTTTATCG
* *
101300161 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* *
101300182 ATTTCAAGCACCTCGTGTGTCGT
1 A--TCAGGCACCTCATGTGTCGT
*
101300205 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* *
101300226 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
101300247 AT
1 AT
101300249 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
21 40 0.70
23 17 0.30
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:101300243 original size:23 final size:21
Alignment explanation
Indices: 101300174--101300248 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
101300164 AGGCACTTTA
*
101300174 TGTGTCGTATTTCAAGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
101300197 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* **
101300218 TGTGTCGTATCAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
101300239 TGTGTCGTAT
1 TGTGTCGTAT
101300249 ACTGATCAGG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 39 0.81
23 9 0.19
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:101300431 original size:18 final size:19
Alignment explanation
Indices: 101300410--101300450 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
101300400 AATGAAATGA
101300410 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
101300428 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
101300447 GAAA
1 GAAA
101300451 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:101306300 original size:16 final size:15
Alignment explanation
Indices: 101306270--101306311 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
101306260 TTATTTACCA
101306270 AATTAATTT-TAATT
1 AATTAATTTCTAATT
101306284 AATTAATTTTCTAATT
1 AATTAA-TTTCTAATT
*
101306300 AAATAAGTTTCT
1 AATTAA-TTTCT
101306312 CAACTCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 6 0.25
15 3 0.12
16 15 0.62
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (15 bp):
AATTAATTTCTAATT
Found at i:101307925 original size:17 final size:17
Alignment explanation
Indices: 101307903--101307936 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
101307893 ATTTTGAATT
101307903 TTTTTCCAATTTTTTTA
1 TTTTTCCAATTTTTTTA
**
101307920 TTTTTCTTATTTTTTTA
1 TTTTTCCAATTTTTTTA
101307937 GATTATATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCCAATTTTTTTA
Found at i:101308952 original size:21 final size:22
Alignment explanation
Indices: 101308923--101308968 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
101308913 CGATTAATTT
101308923 CAAGATTTGTCAAAAGTTTTGG
1 CAAGATTTGTCAAAAGTTTTGG
101308945 CAAG-TTTGTCAAAAGTTTTGG
1 CAAGATTTGTCAAAAGTTTTGG
101308966 CAA
1 CAA
101308969 ACCCCGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.35
Consensus pattern (22 bp):
CAAGATTTGTCAAAAGTTTTGG
Found at i:101312038 original size:2 final size:2
Alignment explanation
Indices: 101312031--101312108 Score: 50
Period size: 2 Copynumber: 43.0 Consensus size: 2
101312021 ATTCTAGTTA
*
101312031 AT AT AT AT AT AT AT AT AT AT AT GT A- AGT A- AT GAT -T AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT -AT AT AT AT AT
*
101312071 -T A- AT AT -T TT AT AT -T AT AT -T AT AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101312107 AT
1 AT
101312109 GACAAAGAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 24
0.69 0.03 0.27
Matches are distributed among these distances:
1 10 0.16
2 48 0.79
3 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (2 bp):
AT
Found at i:101312174 original size:40 final size:40
Alignment explanation
Indices: 101312117--101312212 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
101312107 ATGACAAAGA
101312117 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
101312158 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
101312198 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
101312213 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:101318341 original size:21 final size:21
Alignment explanation
Indices: 101318315--101318355 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
101318305 AGACGAGCAA
* *
101318315 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
101318336 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
101318356 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:101329978 original size:23 final size:23
Alignment explanation
Indices: 101329948--101329997 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
101329938 AGGTGGGAGT
* * *
101329948 TTCAGCGCTTTCTGCGTGTTATA
1 TTCAGCGCCTTATGCGTGTTACA
*
101329971 TTCAGCGCCTTATGTGTGTTACA
1 TTCAGCGCCTTATGCGTGTTACA
101329994 TTCA
1 TTCA
101329998 ACGTTATATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (23 bp):
TTCAGCGCCTTATGCGTGTTACA
Found at i:101330248 original size:28 final size:28
Alignment explanation
Indices: 101330191--101330251 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
101330181 CAAAACTTAT
* **
101330191 TTTTATTTAATTATAATATATTTTTTAA
1 TTTTATTTAATTATAAAATATTTTAAAA
*
101330219 TTTTATTTTATTA-AAAATATTTATAAAA
1 TTTTATTTAATTATAAAATATTT-TAAAA
101330247 TTTTA
1 TTTTA
101330252 CAAATATAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTATTTAATTATAAAATATTTTAAAA
Found at i:101330933 original size:12 final size:13
Alignment explanation
Indices: 101330911--101330960 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
101330901 ACATTAAGAG
101330911 GTTTTTGAAAAAA
1 GTTTTTGAAAAAA
101330924 GTTTTT--AAAAA
1 GTTTTTGAAAAAA
* *
101330935 GTTCTATAGAAAAAT
1 GTT-T-TTGAAAAAA
101330950 GTTTTTGAAAA
1 GTTTTTGAAAA
101330961 TTTTAGTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
11 8 0.27
12 1 0.03
13 13 0.43
14 1 0.03
15 7 0.23
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (13 bp):
GTTTTTGAAAAAA
Found at i:101332605 original size:39 final size:39
Alignment explanation
Indices: 101332550--101332628 Score: 133
Period size: 39 Copynumber: 2.0 Consensus size: 39
101332540 CAAGACATGG
*
101332550 TTTATTCCTTTCATCTAAGGA-ACAAAATTTAACTATCAA
1 TTTATTCCTTTAATCTAA-GATACAAAATTTAACTATCAA
101332589 TTTATTCCTTTAATCTAAGATACAAAATTTAACTATCAA
1 TTTATTCCTTTAATCTAAGATACAAAATTTAACTATCAA
101332628 T
1 T
101332629 CATTGGAACA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 2 0.05
39 36 0.95
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (39 bp):
TTTATTCCTTTAATCTAAGATACAAAATTTAACTATCAA
Found at i:101337077 original size:27 final size:28
Alignment explanation
Indices: 101337037--101337134 Score: 94
Period size: 27 Copynumber: 3.5 Consensus size: 28
101337027 AAAAAGTAAA
*
101337037 AAAAATTACAAAAAATCATAAATAT-AT
1 AAAAATTATAAAAAATCATAAATATCAT
* *
101337064 AAAAATTATTAAAACTCA-AAAT-TCAT
1 AAAAATTATAAAAAATCATAAATATCAT
* * *
101337090 ATAAACTTATTAAAAATTATAAATAATCAT
1 A-AAAATTATAAAAAATCATAAAT-ATCAT
*
101337120 AAAAATCATAAAAAA
1 AAAAATTATAAAAAA
101337135 ACTTATAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
25 1 0.02
26 7 0.12
27 29 0.51
28 4 0.07
29 11 0.19
30 5 0.09
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (28 bp):
AAAAATTATAAAAAATCATAAATATCAT
Found at i:101337121 original size:10 final size:9
Alignment explanation
Indices: 101337100--101337133 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
101337090 ATAAACTTAT
*
101337100 TAAAAATTA
1 TAAAAATCA
101337109 TAAATAATCA
1 TAAA-AATCA
101337119 TAAAAATCA
1 TAAAAATCA
101337128 TAAAAA
1 TAAAAA
101337134 AACTTATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (9 bp):
TAAAAATCA
Found at i:101337166 original size:24 final size:23
Alignment explanation
Indices: 101337139--101337194 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
101337129 AAAAAAACTT
*
101337139 ATAAATAAATA-TAAAAAATTTATA
1 ATAAATAAAAACT-AAAAA-TTATA
101337163 ATAAA-AAAAACTAAAAATTATA
1 ATAAATAAAAACTAAAAATTATA
101337185 AT-AATAAAAA
1 ATAAATAAAAA
101337195 AAGTCATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 2 0.07
22 12 0.41
23 9 0.31
24 6 0.21
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAATAAAAACTAAAAATTATA
Found at i:101337183 original size:22 final size:24
Alignment explanation
Indices: 101337152--101337195 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
101337142 AATAAATATA
101337152 AAAAATTTATAATAA-AAAAAACT
1 AAAAATTTATAATAATAAAAAACT
101337175 AAAAA-TTATAATAATAAAAAA
1 AAAAATTTATAATAATAAAAAA
101337196 AGTCATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (24 bp):
AAAAATTTATAATAATAAAAAACT
Found at i:101338883 original size:1 final size:1
Alignment explanation
Indices: 101338877--101338901 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
101338867 CTTTCCCAAC
101338877 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
101338902 GGTAGAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:101344434 original size:99 final size:99
Alignment explanation
Indices: 101344325--101344523 Score: 398
Period size: 99 Copynumber: 2.0 Consensus size: 99
101344315 TAGAACTAAA
101344325 ATTCTAAATAATAATTTTTATTTTACCTTTTCAAGTATGATATGTGCCATGAATTTTAGACTCTA
1 ATTCTAAATAATAATTTTTATTTTACCTTTTCAAGTATGATATGTGCCATGAATTTTAGACTCTA
101344390 CATTTCTGTCTGGTGCATACCTCGTGAACAGCAG
66 CATTTCTGTCTGGTGCATACCTCGTGAACAGCAG
101344424 ATTCTAAATAATAATTTTTATTTTACCTTTTCAAGTATGATATGTGCCATGAATTTTAGACTCTA
1 ATTCTAAATAATAATTTTTATTTTACCTTTTCAAGTATGATATGTGCCATGAATTTTAGACTCTA
101344489 CATTTCTGTCTGGTGCATACCTCGTGAACAGCAG
66 CATTTCTGTCTGGTGCATACCTCGTGAACAGCAG
101344523 A
1 A
101344524 CCCAGGGAAT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (99 bp):
ATTCTAAATAATAATTTTTATTTTACCTTTTCAAGTATGATATGTGCCATGAATTTTAGACTCTA
CATTTCTGTCTGGTGCATACCTCGTGAACAGCAG
Found at i:101359255 original size:46 final size:46
Alignment explanation
Indices: 101359179--101359409 Score: 320
Period size: 46 Copynumber: 5.0 Consensus size: 46
101359169 TGATGTCATA
* * *
101359179 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATGTCATGTTGCCATG
* **
101359225 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATG
*
101359272 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* * *
101359318 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* * *
101359364 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
101359410 CTAGCTGGAT
Statistics
Matches: 169, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
46 130 0.77
47 39 0.23
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
Found at i:101362013 original size:23 final size:23
Alignment explanation
Indices: 101361959--101362016 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
101361949 CTAAATAACT
* *
101361959 CAAACATTCAATCTAACCTTTAA
1 CAAACATTCAATCCAACCTTGAA
* * *
101361982 AAAAAATTCAATCCAATCTTGAA
1 CAAACATTCAATCCAACCTTGAA
101362005 CAAACATTCAAT
1 CAAACATTCAAT
101362017 ACATAATCGC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.48, C:0.22, G:0.02, T:0.28
Consensus pattern (23 bp):
CAAACATTCAATCCAACCTTGAA
Found at i:101365244 original size:2 final size:2
Alignment explanation
Indices: 101365237--101365262 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
101365227 TTCATCTTCT
101365237 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
101365263 CTGTTGATTT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:101366429 original size:6 final size:6
Alignment explanation
Indices: 101366420--101366454 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
101366410 AGGCTTAGGC
101366420 CTATGG CTATGG CTATGG CTATGG CTATGG CTATG
1 CTATGG CTATGG CTATGG CTATGG CTATGG CTATG
101366455 AGTAGTGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.34
Consensus pattern (6 bp):
CTATGG
Found at i:101368720 original size:20 final size:21
Alignment explanation
Indices: 101368690--101368728 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
101368680 AAAAACAACA
*
101368690 AAAAAATAGTAAGAAAATAAT
1 AAAAAATAGTAAAAAAATAAT
101368711 AAAAAA-AGTAAAAAAATA
1 AAAAAATAGTAAAAAAATA
101368729 GCAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (21 bp):
AAAAAATAGTAAAAAAATAAT
Found at i:101369370 original size:59 final size:59
Alignment explanation
Indices: 101369307--101369420 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
101369297 TTATTAGTTT
* * * ** *
101369307 AAATTAGGCCTTAAACTTGATAACTGTTCTTACATTGGGACCTAAACTTTTTTTTGTCC
1 AAATTAGGCCATAAACTTGACAAATGTTCCCACATTGGAACCTAAACTTTTTTTTGTCC
* *
101369366 AAATTAGGCCATAAACTTGACAAATGTTCCCACATTGGAACTTGAACTTTTTTTT
1 AAATTAGGCCATAAACTTGACAAATGTTCCCACATTGGAACCTAAACTTTTTTTT
101369421 TATCTAAGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
59 47 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (59 bp):
AAATTAGGCCATAAACTTGACAAATGTTCCCACATTGGAACCTAAACTTTTTTTTGTCC
Found at i:101374066 original size:21 final size:21
Alignment explanation
Indices: 101374041--101374083 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
101374031 ACATCACTAA
101374041 TTTTAATTTCACCGTCAATAT
1 TTTTAATTTCACCGTCAATAT
101374062 TTTTAATTTCACCGTCAATAT
1 TTTTAATTTCACCGTCAATAT
101374083 T
1 T
101374084 ATTTTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.19, G:0.05, T:0.49
Consensus pattern (21 bp):
TTTTAATTTCACCGTCAATAT
Found at i:101379099 original size:21 final size:20
Alignment explanation
Indices: 101379075--101379116 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
101379065 AAAATTATAG
101379075 TTTAAATATTA-AAATTGAATT
1 TTTAAATA-TACAAATT-AATT
101379096 TTTAAATATACAAATTAATT
1 TTTAAATATACAAATTAATT
101379116 T
1 T
101379117 AGATTATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
TTTAAATATACAAATTAATT
Found at i:101379927 original size:3 final size:3
Alignment explanation
Indices: 101379921--101379946 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
101379911 CCCACTTATT
101379921 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
101379947 TGGCCTTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:101384203 original size:27 final size:28
Alignment explanation
Indices: 101384155--101384234 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 28
101384145 TTTTAATTTT
* *
101384155 TATTAAAAATATTTATATTATATTTTTTA-A
1 TATTGAAAAT-TTT-TA-TATATTTTTCATA
* *
101384185 TATTTAATAA-TTTTATATATTTTTCATT
1 TATTGAA-AATTTTTATATATTTTTCATA
101384213 TATTGAAAATTTTTATATATTT
1 TATTGAAAATTTTTATATATTT
101384235 AGTATAGGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
27 12 0.28
28 20 0.47
29 3 0.07
30 6 0.14
31 2 0.05
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (28 bp):
TATTGAAAATTTTTATATATTTTTCATA
Found at i:101389067 original size:38 final size:38
Alignment explanation
Indices: 101388979--101389073 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 38
101388969 ATGTCATCTT
* * * **
101388979 CAAAACCATAGATCATCTTTAAACCCTCAAGTTGTTTC
1 CAAACCCATAGATAATCTTCAAACCCTCAAGTAATTTC
* * * *
101389017 TAATCCCCTAGATAATGTTCAAACCCTCAAGTAATTTC
1 CAAACCCATAGATAATCTTCAAACCCTCAAGTAATTTC
*
101389055 CAAACCCATAGATCATCTT
1 CAAACCCATAGATAATCTT
101389074 TAGACATTCC
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (38 bp):
CAAACCCATAGATAATCTTCAAACCCTCAAGTAATTTC
Found at i:101389136 original size:19 final size:19
Alignment explanation
Indices: 101389081--101389136 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
101389071 CTTTAGACAT
* *
101389081 TCCAAACCCATAGATCATA
1 TCCAGACCCACAGATCATA
* * *
101389100 GCCGGACCCTCA-AGTCATA
1 TCCAGACCCACAGA-TCATA
101389119 TCCAGACCCACAGATCAT
1 TCCAGACCCACAGATCAT
101389137 CTTTAGTCCC
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
18 1 0.04
19 25 0.93
20 1 0.04
ACGTcount: A:0.34, C:0.36, G:0.12, T:0.18
Consensus pattern (19 bp):
TCCAGACCCACAGATCATA
Found at i:101401800 original size:13 final size:14
Alignment explanation
Indices: 101401777--101401805 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
101401767 GAGAAAAGTG
101401777 TAAACTTTGAGAGT
1 TAAACTTTGAGAGT
101401791 TAAA-TTTGAGAGT
1 TAAACTTTGAGAGT
101401804 TA
1 TA
101401806 TAGCCATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (14 bp):
TAAACTTTGAGAGT
Found at i:101404634 original size:11 final size:11
Alignment explanation
Indices: 101404601--101404637 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
101404591 AAAAAAAAAC
101404601 TTGCTACTGTT
1 TTGCTACTGTT
101404612 TT--TACTGTT
1 TTGCTACTGTT
*
101404621 TTGCTACCGTT
1 TTGCTACTGTT
101404632 TTGCTA
1 TTGCTA
101404638 TTACATTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 9 0.39
11 14 0.61
ACGTcount: A:0.11, C:0.19, G:0.16, T:0.54
Consensus pattern (11 bp):
TTGCTACTGTT
Found at i:101405400 original size:32 final size:33
Alignment explanation
Indices: 101405363--101405435 Score: 96
Period size: 32 Copynumber: 2.2 Consensus size: 33
101405353 CATATTTTAC
*
101405363 AAAATATTTTCAAA-AAATTTATCAAACAAC-AA
1 AAAATATTTT-AAACAAATTCATCAAACAACTAA
**
101405395 AAAATATTTTAAACAAATTCATCAAAGTACTAA
1 AAAATATTTTAAACAAATTCATCAAACAACTAA
101405428 AAAATATT
1 AAAATATT
101405436 AATTTTTCCG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 3 0.08
32 23 0.64
33 10 0.28
ACGTcount: A:0.58, C:0.11, G:0.01, T:0.30
Consensus pattern (33 bp):
AAAATATTTTAAACAAATTCATCAAACAACTAA
Found at i:101408945 original size:14 final size:15
Alignment explanation
Indices: 101408920--101408949 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
101408910 CTTTGTTCAT
101408920 TTTTCATTTATTTTA
1 TTTTCATTTATTTTA
101408935 TTTTC-TTTATTTTA
1 TTTTCATTTATTTTA
101408949 T
1 T
101408950 ATACATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTCATTTATTTTA
Found at i:101409848 original size:19 final size:19
Alignment explanation
Indices: 101409824--101409861 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
101409814 TTGAGATTGC
101409824 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
101409843 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
101409862 TATTCATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:101409955 original size:6 final size:7
Alignment explanation
Indices: 101409937--101409962 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
101409927 CACTCCCTTT
101409937 TAAAAAA
1 TAAAAAA
101409944 TAAAAAA
1 TAAAAAA
101409951 TAAAAAA
1 TAAAAAA
101409958 TAAAA
1 TAAAA
101409963 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:101413831 original size:20 final size:20
Alignment explanation
Indices: 101413806--101413845 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
101413796 GCCCGAAATT
* *
101413806 GTTTAAAATGCCTTAAATGA
1 GTTTAAAATGACTGAAATGA
*
101413826 GTTTAATATGACTGAAATGA
1 GTTTAAAATGACTGAAATGA
101413846 AGTGCAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.35
Consensus pattern (20 bp):
GTTTAAAATGACTGAAATGA
Found at i:101414247 original size:16 final size:19
Alignment explanation
Indices: 101414210--101414247 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
101414200 GATTTAAAAC
101414210 AATAATGATGATGAGATTA
1 AATAATGATGATGAGATTA
101414229 AATAATG-TGAT-AG-TTA
1 AATAATGATGATGAGATTA
101414245 AAT
1 AAT
101414248 TAAAGTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 2 0.11
18 4 0.21
19 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.34
Consensus pattern (19 bp):
AATAATGATGATGAGATTA
Found at i:101415160 original size:36 final size:36
Alignment explanation
Indices: 101415120--101415192 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
101415110 CAAATTCAAG
101415120 TTAATTCACTCAACGTAAGTGTCTAACCAATATGCC
1 TTAATTCACTCAACGTAAGTGTCTAACCAATATGCC
*
101415156 TTAATTTACTCAACGTAAGTGTCTAACCAATATGCC
1 TTAATTCACTCAACGTAAGTGTCTAACCAATATGCC
101415192 T
1 T
101415193 CATTTGGCAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (36 bp):
TTAATTCACTCAACGTAAGTGTCTAACCAATATGCC
Found at i:101417446 original size:15 final size:17
Alignment explanation
Indices: 101417426--101417457 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
101417416 GGGTATAATA
101417426 AAATAT-TAAAA-AAAT
1 AAATATATAAAAGAAAT
101417441 AAATATATAAAAGAAAT
1 AAATATATAAAAGAAAT
101417458 GAGACACATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
AAATATATAAAAGAAAT
Found at i:101417731 original size:19 final size:18
Alignment explanation
Indices: 101417702--101417737 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
101417692 GAGACGTTAA
*
101417702 TAGTTTTTAAATAAATTT
1 TAGTTTTTAAAAAAATTT
101417720 TAGTTATTTAAAAAAATT
1 TAGTT-TTTAAAAAAATT
101417738 CTCATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
TAGTTTTTAAAAAAATTT
Found at i:101417782 original size:32 final size:32
Alignment explanation
Indices: 101417746--101417847 Score: 86
Period size: 32 Copynumber: 3.2 Consensus size: 32
101417736 TTCTCATAAA
101417746 TTTTAATCAATTTTAATAATTTTCTATAATGT
1 TTTTAATCAATTTTAATAATTTTCTATAATGT
* * **
101417778 TTTT-AT-AATAATTTAAAAATCATTCCCT-A-GT
1 TTTTAATCAAT--TTTAATAAT-TTTCTATAATGT
*
101417809 TCATTTGATCAATTTTAATAATTTTCTATAATGT
1 T--TTTAATCAATTTTAATAATTTTCTATAATGT
101417843 TTTTA
1 TTTTA
101417848 TAATTCTCAT
Statistics
Matches: 52, Mismatches: 9, Indels: 18
0.66 0.11 0.23
Matches are distributed among these distances:
30 3 0.06
31 5 0.10
32 20 0.38
33 16 0.31
34 5 0.10
35 3 0.06
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (32 bp):
TTTTAATCAATTTTAATAATTTTCTATAATGT
Found at i:101417845 original size:21 final size:21
Alignment explanation
Indices: 101417821--101417871 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
101417811 ATTTGATCAA
* *
101417821 TTTTAATAATTTTC-TATAATG
1 TTTTTATAATTCTCATA-AATG
101417842 TTTTTATAATTCTCATAAATG
1 TTTTTATAATTCTCATAAATG
101417863 TTTTTATAA
1 TTTTTATAA
101417872 ATATTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (21 bp):
TTTTTATAATTCTCATAAATG
Found at i:101422734 original size:22 final size:20
Alignment explanation
Indices: 101422691--101422737 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
101422681 ATATTTTCTA
101422691 AAAAAATACTAAAAAATCAT
1 AAAAAATACTAAAAAATCAT
* *
101422711 AAAAAATATTTAAAAATC-T
1 AAAAAATACTAAAAAATCAT
*
101422730 AATAAATA
1 AAAAAATA
101422738 ATAATTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAAATACTAAAAAATCAT
Found at i:101422825 original size:20 final size:20
Alignment explanation
Indices: 101422802--101422866 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
101422792 AGATTTTATA
101422802 AAAATTATAAAAAAAG-TAT
1 AAAATTATAAAAAAAGATAT
* **
101422821 CAAAAGTTATTAAAATTGATAT
1 -AAAA-TTATAAAAAAAGATAT
* *
101422843 AAACTTATAAAAAAATATAT
1 AAAATTATAAAAAAAGATAT
101422863 AAAA
1 AAAA
101422867 GTTTAAATTG
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
20 19 0.56
21 12 0.35
22 3 0.09
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAATTATAAAAAAAGATAT
Found at i:101423282 original size:20 final size:20
Alignment explanation
Indices: 101423257--101423313 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
101423247 CAGTCCAGTT
*
101423257 TAAGTTTTTATAATTTTTTA
1 TAAGTTTTTATAATTTTTAA
*
101423277 TAAGTTTATATCAA-TTTTAA
1 TAAGTTTTTAT-AATTTTTAA
101423297 T-A-TTTTTATAATTTTTA
1 TAAGTTTTTATAATTTTTA
101423314 TTGCATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 2 0.06
18 11 0.34
19 1 0.03
20 16 0.50
21 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (20 bp):
TAAGTTTTTATAATTTTTAA
Found at i:101423310 original size:9 final size:9
Alignment explanation
Indices: 101423261--101423438 Score: 91
Period size: 9 Copynumber: 19.0 Consensus size: 9
101423251 CCAGTTTAAG
101423261 TTTTTATAA
1 TTTTTATAA
101423270 TTTTTTATAA
1 -TTTTTATAA
*
101423280 GTTTATATCAA
1 -TTTTTAT-AA
*
101423291 TTTTAAT-A
1 TTTTTATAA
101423299 TTTTTATAA
1 TTTTTATAA
*
101423308 TTTTTATTGCA
1 TTTTTA-T-AA
101423319 TTTTTA-AGA
1 TTTTTATA-A
* *
101423328 CTTCTAATACA
1 -TTTTTATA-A
101423339 TTTTT-TAA
1 TTTTTATAA
*
101423347 -ATTTA-AA
1 TTTTTATAA
*
101423354 TATTTTAAATCA
1 T-TTTT--ATAA
101423366 TTTTTATAA
1 TTTTTATAA
*
101423375 ATTTTATAA
1 TTTTTATAA
101423384 TTTATTATAA
1 TTT-TTATAA
101423394 TTTGTTAT-A
1 TTT-TTATAA
101423403 TTTATTAT-A
1 TTT-TTATAA
101423412 TTTTTATAA
1 TTTTTATAA
*
101423421 TATTTATAA
1 TTTTTATAA
*
101423430 TTTTAATAA
1 TTTTTATAA
101423439 GTTCATATCA
Statistics
Matches: 130, Mismatches: 23, Indels: 31
0.71 0.12 0.17
Matches are distributed among these distances:
7 5 0.04
8 12 0.09
9 54 0.42
10 41 0.32
11 16 0.12
12 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:101423393 original size:19 final size:17
Alignment explanation
Indices: 101423365--101423512 Score: 72
Period size: 18 Copynumber: 8.4 Consensus size: 17
101423355 ATTTTAAATC
101423365 ATTTTTATAAATTTTATA
1 ATTTTTAT-AATTTTATA
101423383 ATTTATTATAATTTGT-TA
1 ATTT-TTATAATTT-TATA
*
101423401 TATTTATTATATTTTTATA
1 -ATTT-TTATAATTTTATA
*
101423420 ATATTTATAATTTTAATA
1 ATTTTTATAATTTT-ATA
**
101423438 AGTTCATATCAATTTTA-A
1 A-TTTTTAT-AATTTTATA
* *
101423456 CATATTT-TAATATT-TA
1 -ATTTTTATAATTTTATA
* *
101423472 ATATTTATAGTTTTATA
1 ATTTTTATAATTTTATA
* *
101423489 TTTTTTTATGATTTT-TA
1 -ATTTTTATAATTTTATA
101423506 ATATTTT
1 AT-TTTT
101423513 TATGGAAAAA
Statistics
Matches: 100, Mismatches: 17, Indels: 27
0.69 0.12 0.19
Matches are distributed among these distances:
15 6 0.06
16 12 0.12
17 18 0.18
18 32 0.32
19 26 0.26
20 6 0.06
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTTTTATAATTTTATA
Found at i:101423427 original size:17 final size:18
Alignment explanation
Indices: 101423376--101423434 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
101423366 TTTTTATAAA
101423376 TTTTATAATTTATTATAAT
1 TTTTATAATTTATTAT-AT
101423395 TTGTTAT-ATTTATTATAT
1 TT-TTATAATTTATTATAT
* *
101423413 TTTTATAATAT-TTATAA
1 TTTTATAATTTATTATAT
101423430 TTTTA
1 TTTTA
101423435 ATAAGTTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
17 14 0.39
18 7 0.19
19 11 0.31
20 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTATAATTTATTATAT
Found at i:101424113 original size:15 final size:15
Alignment explanation
Indices: 101424093--101424124 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
101424083 GTTTTGGTGC
*
101424093 TGTTTTGTTGTTGTT
1 TGTTTTGTTATTGTT
101424108 TGTTTTGTTATTGTT
1 TGTTTTGTTATTGTT
101424123 TG
1 TG
101424125 CTACTGTTTT
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:0.03, C:0.00, G:0.25, T:0.72
Consensus pattern (15 bp):
TGTTTTGTTATTGTT
Found at i:101424168 original size:23 final size:23
Alignment explanation
Indices: 101424115--101424168 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
101424105 GTTTGTTTTG
* * *
101424115 TTATTGTTTGCTACTGTTTTGCTC
1 TTATT-TTTGCTACTGTATTACTA
* *
101424139 TTTTTTTTGCTATTGTATTACTA
1 TTATTTTTGCTACTGTATTACTA
101424162 TTATTTT
1 TTATTTT
101424169 ATTGTTATTG
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.13, C:0.11, G:0.11, T:0.65
Consensus pattern (23 bp):
TTATTTTTGCTACTGTATTACTA
Found at i:101425172 original size:21 final size:23
Alignment explanation
Indices: 101425141--101425182 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
101425131 AAAAAAGAAA
*
101425141 ATTTAAAATTATG-ATATTTTGG
1 ATTTAAAATTAAGTATATTTTGG
101425163 ATTT-AAATTAAGTATATTTT
1 ATTTAAAATTAAGTATATTTT
101425183 ACTTTTGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (23 bp):
ATTTAAAATTAAGTATATTTTGG
Found at i:101425341 original size:13 final size:13
Alignment explanation
Indices: 101425323--101425361 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
101425313 AATATGTACA
*
101425323 AATTATAAACATT
1 AATTATAAAAATT
101425336 AATTATAAAAATT
1 AATTATAAAAATT
101425349 AA--ATAAAAATT
1 AATTATAAAAATT
101425360 AA
1 AA
101425362 ATAAATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 11 0.44
13 14 0.56
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (13 bp):
AATTATAAAAATT
Found at i:101425356 original size:11 final size:11
Alignment explanation
Indices: 101425340--101425371 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
101425330 AACATTAATT
101425340 ATAAAAATTAA
1 ATAAAAATTAA
101425351 ATAAAAATTAA
1 ATAAAAATTAA
*
101425362 ATAAATATTA
1 ATAAAAATTA
101425372 CATTGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
ATAAAAATTAA
Found at i:101425495 original size:13 final size:13
Alignment explanation
Indices: 101425477--101425501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101425467 TAAATGAAAG
101425477 AATGAAAGAAAAT
1 AATGAAAGAAAAT
101425490 AATGAAAGAAAA
1 AATGAAAGAAAA
101425502 GGGGACATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
AATGAAAGAAAAT
Found at i:101429909 original size:16 final size:15
Alignment explanation
Indices: 101429888--101429937 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
101429878 GAGAAATATT
101429888 TATTTTAATTTTTTAG
1 TATTTTAATTTTTT-G
* *
101429904 TATTTTTAATGTATTG
1 TA-TTTTAATTTTTTG
*
101429920 TATTTTTATTTTTTG
1 TATTTTAATTTTTTG
101429935 TAT
1 TAT
101429938 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 13 0.46
16 5 0.18
17 10 0.36
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (15 bp):
TATTTTAATTTTTTG
Found at i:101434742 original size:21 final size:21
Alignment explanation
Indices: 101434718--101434760 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
101434708 TTATTTATTT
101434718 AAATAATAAT-TGTATAAATAA
1 AAATAATAATCT-TATAAATAA
*
101434739 AAATGATAATCTTATAAATAA
1 AAATAATAATCTTATAAATAA
101434760 A
1 A
101434761 CAATTCAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (21 bp):
AAATAATAATCTTATAAATAA
Found at i:101436364 original size:10 final size:10
Alignment explanation
Indices: 101436349--101436387 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
101436339 ATTTAAGTTA
101436349 TAAATTATAT
1 TAAATTATAT
101436359 TAAATTATAT
1 TAAATTATAT
*
101436369 TATATTTAGTAT
1 TA-AATTA-TAT
101436381 TAAATTA
1 TAAATTA
101436388 AGTAAAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 12 0.48
11 8 0.32
12 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (10 bp):
TAAATTATAT
Found at i:101436372 original size:22 final size:22
Alignment explanation
Indices: 101436346--101436387 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
101436336 TTTATTTAAG
101436346 TTATAAATTA-TATTAAATTATA
1 TTAT-AATTAGTATTAAATTATA
*
101436368 TTATATTTAGTATTAAATTA
1 TTATAATTAGTATTAAATTA
101436388 AGTAAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TTATAATTAGTATTAAATTATA
Found at i:101436578 original size:21 final size:21
Alignment explanation
Indices: 101436552--101436592 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
101436542 AAATAAAAGA
*
101436552 AAAAGAATAAAGAAAAGAAAC
1 AAAAGAACAAAGAAAAGAAAC
101436573 AAAAGAACAAAGAAAAGAAA
1 AAAAGAACAAAGAAAAGAAA
101436593 ACAGAAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (21 bp):
AAAAGAACAAAGAAAAGAAAC
Found at i:101438139 original size:21 final size:21
Alignment explanation
Indices: 101438089--101438141 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
101438079 TATGTATCGT
101438089 ATTTCAGGCACCTCGTGTGCC
1 ATTTCAGGCACCTCGTGTGCC
* * *
101438110 GTATCAGGCACCTCGTGTGTC
1 ATTTCAGGCACCTCGTGTGCC
*
101438131 ATTTTAGGCAC
1 ATTTCAGGCAC
101438142 TTTATGTGTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.17, C:0.28, G:0.25, T:0.30
Consensus pattern (21 bp):
ATTTCAGGCACCTCGTGTGCC
Done.