Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 66 of 136
Found at i:21867672 original size:35 final size:35
Alignment explanation
Indices: 21867621--21867734 Score: 185
Period size: 35 Copynumber: 3.2 Consensus size: 35
21867611 ACTCTCTGTT
21867621 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
* *
21867656 TTGGTGTGTTTTGGAGGGATTAGCTCTTACGAGCA
1 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
21867691 TTGGTGTGTTTCGGAGGGATT-GCCTCTTATGAGCA
1 TTGGTGTGTTTCGGAGGGATTAG-CTCTTATGAGCA
21867726 TCTGGTGTG
1 T-TGGTGTG
21867735 CTTTGGTTGG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
34 1 0.01
35 65 0.89
36 7 0.10
ACGTcount: A:0.15, C:0.12, G:0.35, T:0.38
Consensus pattern (35 bp):
TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
Found at i:21877190 original size:44 final size:45
Alignment explanation
Indices: 21877125--21877215 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
21877115 ACCTCTATTC
* * *
21877125 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
21877169 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
21877214 CA
1 CA
21877216 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:21877217 original size:16 final size:16
Alignment explanation
Indices: 21877196--21877264 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
21877186 GATTAGCTAT
21877196 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
21877212 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
21877229 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
21877245 TATACCTCTAATCCAA
1 TACACCTCTAATCCAA
21877261 TACA
1 TACA
21877265 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:21877238 original size:33 final size:32
Alignment explanation
Indices: 21877196--21877264 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
21877186 GATTAGCTAT
21877196 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
21877229 TACACCTCTAATCCAATATACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
21877261 TACA
1 TACA
21877265 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:21879551 original size:18 final size:18
Alignment explanation
Indices: 21879528--21879570 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
21879518 GAATAGGTTT
21879528 TTAATTAAACAATTTT-AA
1 TTAATTAAA-AATTTTAAA
21879546 TTAATTAAAAATTTTAAA
1 TTAATTAAAAATTTTAAA
21879564 TTAATTA
1 TTAATTA
21879571 CACCTTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAATTTTAAA
Found at i:21882872 original size:21 final size:21
Alignment explanation
Indices: 21882846--21882887 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21882836 GTAATTCATG
* *
21882846 CTTTTTTTTTTAATTTTTAAA
1 CTTTTTTTTATAAATTTTAAA
21882867 CTTTTTTTTATAAATTTTAAA
1 CTTTTTTTTATAAATTTTAAA
21882888 TTATTTGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
CTTTTTTTTATAAATTTTAAA
Found at i:21885245 original size:116 final size:116
Alignment explanation
Indices: 21885114--21885716 Score: 1133
Period size: 116 Copynumber: 5.2 Consensus size: 116
21885104 TAATTTTTTT
21885114 AATATTTCAATTAATTATTTAAAATATCATTATATTTTCACCTACATTGTGGGTATGGTAAATTC
1 AATATTTCAATTAATTATTTAAAATATCATTATATTTTCACCTACATTGTGGGTATGGTAAATTC
21885179 TAATATTATAAAATTATATAATTATTTAAAATATCATTATTTTATATGTGA
66 TAATATTATAAAATTATATAATTATTTAAAATATCATTATTTTATATGTGA
21885230 AATATTTCAATTAATTATTTAAAATATCATTATATTTTCACCTACATTGTGGGTATGGTAAATTC
1 AATATTTCAATTAATTATTTAAAATATCATTATATTTTCACCTACATTGTGGGTATGGTAAATTC
21885295 TAATATTATAAAATTATATAATTATTTAAAATATCATTATTTTATATGTGA
66 TAATATTATAAAATTATATAATTATTTAAAATATCATTATTTTATATGTGA
21885346 AATATTTCAATTAATTATTTAAAATATCATTATATTTTCACCTACATTGTGGGTATGGTAAATTC
1 AATATTTCAATTAATTATTTAAAATATCATTATATTTTCACCTACATTGTGGGTATGGTAAATTC
21885411 TAATATTATAAAATTATATAATTATTTAAAATATCATTATTTTATATGTGA
66 TAATATTATAAAATTATATAATTATTTAAAATATCATTATTTTATATGTGA
21885462 AATATTTCAATTAATTATTTAAAATATCATTATATTTTCACCTACATTGTGGGTATGGTAAATTC
1 AATATTTCAATTAATTATTTAAAATATCATTATATTTTCACCTACATTGTGGGTATGGTAAATTC
21885527 TAATATTATAAAATTATATAATTATTTAAAATATCATTATTTTATATGTGA
66 TAATATTATAAAATTATATAATTATTTAAAATATCATTATTTTATATGTGA
21885578 AATATTTCAATTAATTATTTAAAATATCATTATATTTTCACCTACATTGTGGGTATGGTAAATTC
1 AATATTTCAATTAATTATTTAAAATATCATTATATTTTCACCTACATTGTGGGTATGGTAAATTC
*
21885643 TAATATTAT-AAA--A-ATAATTATTTCAAATATCATTATTTTTATATGTGA
66 TAATATTATAAAATTATATAATTATTTAAAATATCATTA-TTTTATATGTGA
* * *
21885691 AATATTTGAAATAATTATTTGAAATA
1 AATATTTCAATTAATTATTTAAAATA
21885717 CACATACAAA
Statistics
Matches: 482, Mismatches: 4, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
112 21 0.04
113 36 0.07
115 3 0.01
116 422 0.88
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (116 bp):
AATATTTCAATTAATTATTTAAAATATCATTATATTTTCACCTACATTGTGGGTATGGTAAATTC
TAATATTATAAAATTATATAATTATTTAAAATATCATTATTTTATATGTGA
Found at i:21887386 original size:12 final size:13
Alignment explanation
Indices: 21887363--21887422 Score: 63
Period size: 13 Copynumber: 4.7 Consensus size: 13
21887353 ATTTAGCCAT
*
21887363 TTTTAT-TTTTTA
1 TTTTATATTTATA
21887375 TTTTAATATTTATA
1 TTTT-ATATTTATA
21887389 -TTTATATTTATA
1 TTTTATATTTATA
*
21887401 TTTTTTATTTA-A
1 TTTTATATTTATA
21887413 TTTTTATATT
1 -TTTTATATT
21887423 CTAATTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
12 14 0.34
13 22 0.54
14 5 0.12
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTATATTTATA
Found at i:21887432 original size:26 final size:25
Alignment explanation
Indices: 21887364--21887432 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
21887354 TTTAGCCATT
* *
21887364 TTTAT-TTTTTATTTTAATATTTATA
1 TTTATATTTATATTTT-TTATTTATA
*
21887389 TTTATATTTATATTTTTTATTTAATT
1 TTTATATTTATATTTTTTATTT-ATA
21887415 TTTATATTCTA-ATTTTTT
1 TTTATATT-TATATTTTTT
21887433 CGTTTGTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 10 0.26
26 26 0.68
27 2 0.05
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTATATTTATATTTTTTATTTATA
Found at i:21890014 original size:13 final size:13
Alignment explanation
Indices: 21889992--21890021 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21889982 TTTCAAAAGA
*
21889992 AGAAAGAAAATAG
1 AGAAAAAAAATAG
21890005 AGAAAAAAAATAG
1 AGAAAAAAAATAG
21890018 AGAA
1 AGAA
21890022 CGTGCCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (13 bp):
AGAAAAAAAATAG
Found at i:21890049 original size:18 final size:18
Alignment explanation
Indices: 21890028--21890063 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21890018 AGAACGTGCC
21890028 AAAAGAAAAGAAAATAAA
1 AAAAGAAAAGAAAATAAA
* *
21890046 AAAATAAAATAAAATAAA
1 AAAAGAAAAGAAAATAAA
21890064 TATTAAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (18 bp):
AAAAGAAAAGAAAATAAA
Found at i:21896187 original size:17 final size:17
Alignment explanation
Indices: 21896167--21896200 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21896157 AAATCTAAAT
*
21896167 AATAATTTTGATTATTA
1 AATAATTTTAATTATTA
*
21896184 AATATTTTTAATTATTA
1 AATAATTTTAATTATTA
21896201 TTTAAATAAT
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:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
AATAATTTTAATTATTA
Found at i:21900378 original size:3 final size:3
Alignment explanation
Indices: 21900370--21900475 Score: 117
Period size: 3 Copynumber: 35.3 Consensus size: 3
21900360 GCTTTTGTTA
21900370 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * * ***
21900418 ATT ATT ACA ACTT -TA ATT -TCC CCC ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
21900463 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
21900476 CAACTTTAAT
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
2 2 0.02
3 86 0.98
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:21900446 original size:51 final size:51
Alignment explanation
Indices: 21900391--21900495 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
21900381 TATTATTATT
*
21900391 ATTATTATTATTATTATTATTATTATTATTATTACAACTTTAATTTCCCCC
1 ATTATTATTATTATTATTATTATTATTATTATTACAACTTTAATTTCACCC
21900442 ATTATTATTATTATTATTATTATTATTATTATTACAACTTTAATTTCACCC
1 ATTATTATTATTATTATTATTATTATTATTATTACAACTTTAATTTCACCC
21900493 ATT
1 ATT
21900496 TTTAATTGTC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.55
Consensus pattern (51 bp):
ATTATTATTATTATTATTATTATTATTATTATTACAACTTTAATTTCACCC
Found at i:21905616 original size:20 final size:20
Alignment explanation
Indices: 21905545--21905622 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
21905535 GAAATTTAAG
21905545 ATTTAGGGTTTAAGG-TTTA
1 ATTTAGGGTTTAAGGTTTTA
* ** *
21905564 ATTTTAGAGTTTGGGGTTTGTG
1 A-TTTAGGGTTTAAGGTTT-TA
*
21905586 A-TTATGGGTTTAGGGTTTTA
1 ATTTA-GGGTTTAAGGTTTTA
21905606 ATTTAGGGTTTAAGGTT
1 ATTTAGGGTTTAAGGTT
21905623 ATAGGTTCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
19 1 0.02
20 27 0.59
21 16 0.35
22 2 0.04
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.49
Consensus pattern (20 bp):
ATTTAGGGTTTAAGGTTTTA
Found at i:21905678 original size:21 final size:21
Alignment explanation
Indices: 21905619--21905679 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
21905609 TAGGGTTTAA
*
21905619 GGTTAT-AGGTTCAAGGTTCTG
1 GGTTATGA-GTTCAAGGTTCGG
* * *
21905640 GTTTAGGA-TACAATGGTTCGG
1 GGTTATGAGTTCAA-GGTTCGG
21905661 GGTTATGAGTTCAAGGTTC
1 GGTTATGAGTTCAAGGTTC
21905680 ATTAGAGGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 4 0.13
21 21 0.70
22 5 0.17
ACGTcount: A:0.21, C:0.10, G:0.33, T:0.36
Consensus pattern (21 bp):
GGTTATGAGTTCAAGGTTCGG
Found at i:21907257 original size:34 final size:34
Alignment explanation
Indices: 21907218--21907284 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
21907208 TGGAGTTTGG
21907218 GGTTTGCGATTATAGA-TTTAGAGTTTTGATTTAA
1 GGTTTGCGATTATAGATTTTAG-GTTTTGATTTAA
* * *
21907252 GGTTTGGGGTTATAGATTTTAGGTTTTGGTTTA
1 GGTTTGCGATTATAGATTTTAGGTTTTGATTTA
21907285 GGATTCAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 24 0.83
35 5 0.17
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.49
Consensus pattern (34 bp):
GGTTTGCGATTATAGATTTTAGGTTTTGATTTAA
Found at i:21907352 original size:7 final size:7
Alignment explanation
Indices: 21907316--21907349 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
21907306 TAGGTTACGT
21907316 GTTCAAG
1 GTTCAAG
21907323 GTTCAAG
1 GTTCAAG
21907330 GTTCAAG
1 GTTCAAG
*
21907337 ATTCAAGG
1 GTTCAA-G
21907345 GTTCA
1 GTTCA
21907350 GGGGTTATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (7 bp):
GTTCAAG
Found at i:21917992 original size:5 final size:5
Alignment explanation
Indices: 21917972--21918008 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
21917962 AATGCCTTTT
21917972 TTTCA TTT-A TTTTCA TTTCA TTTCA TTTCA TTTCA TT
1 TTTCA TTTCA -TTTCA TTTCA TTTCA TTTCA TTTCA TT
21918009 ACATGCATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.03
5 28 0.93
6 1 0.03
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.65
Consensus pattern (5 bp):
TTTCA
Found at i:21918152 original size:85 final size:86
Alignment explanation
Indices: 21918008--21918180 Score: 339
Period size: 85 Copynumber: 2.0 Consensus size: 86
21917998 TTCATTTCAT
21918008 TACATGCATTAAATTTCATAAAAAGACCCTAATTAATCGAAATTATGATAGTTATCCTGGAAACC
1 TACATGCATTAAATTTCATAAAAAGACCCTAATTAATCGAAATTATGATAGTTATCCTGGAAACC
21918073 AACAAGAATCTGCCAACTGAA
66 AACAAGAATCTGCCAACTGAA
21918094 TACATGCATT-AATTTCATAAAAAGACCCTAATTAATCGAAATTATGATAGTTATCCTGGAAACC
1 TACATGCATTAAATTTCATAAAAAGACCCTAATTAATCGAAATTATGATAGTTATCCTGGAAACC
21918158 AACAAGAATCTGCCAACTGAA
66 AACAAGAATCTGCCAACTGAA
21918179 TA
1 TA
21918181 TCGTTATGGG
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 77 0.89
86 10 0.11
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (86 bp):
TACATGCATTAAATTTCATAAAAAGACCCTAATTAATCGAAATTATGATAGTTATCCTGGAAACC
AACAAGAATCTGCCAACTGAA
Found at i:21926208 original size:44 final size:43
Alignment explanation
Indices: 21926158--21926315 Score: 185
Period size: 44 Copynumber: 3.6 Consensus size: 43
21926148 TACCATAGGG
*
21926158 AATCTTATCTCTCTGAAGTTGCAGTGAAGCAAGATGAAGCTACA
1 AATCTTATCTC-CTGAAGTTGCAGTGGAGCAAGATGAAGCTACA
*
21926202 AATCTTATCTCCTTGAAGTTGCAGTGGAG-AGGATGAAGCTACA
1 AATCTTATCTCC-TGAAGTTGCAGTGGAGCAAGATGAAGCTACA
* *
21926245 AATCTTATCTCCCTAAAGTTGTAGTGGAGC-AGATTGAAGCTACA
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAAGA-TGAAGCTACA
* * * *
21926289 AATCCTATACCCCTAAAGTTACAGTGG
1 AATCTTAT-CTCCTGAAGTTGCAGTGG
21926316 GTTGGATTGA
Statistics
Matches: 100, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
43 40 0.40
44 59 0.59
45 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACA
Found at i:21926251 original size:43 final size:43
Alignment explanation
Indices: 21926158--21926292 Score: 184
Period size: 43 Copynumber: 3.1 Consensus size: 43
21926148 TACCATAGGG
*
21926158 AATCTTATCT-CTCTGAAGTTGCAGTGAAGCAAGATGAAGCTACA
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGC-AGATGAAGCTACA
21926202 AATCTTATCTCCTTGAAGTTGCAGTGGAG-AGGATGAAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCA-GATGAAGCTACA
* * *
21926245 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGA-TGAAGCTACA
21926289 AATC
1 AATC
21926293 CTATACCCCT
Statistics
Matches: 83, Mismatches: 4, Indels: 8
0.87 0.04 0.08
Matches are distributed among these distances:
42 1 0.01
43 40 0.48
44 40 0.48
45 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATGAAGCTACA
Found at i:21926493 original size:94 final size:94
Alignment explanation
Indices: 21926104--21926480 Score: 364
Period size: 94 Copynumber: 4.1 Consensus size: 94
21926094 CATGAAACAA
* * * * *
21926104 TACAAATTCTATACCCCTAAAGTTGTAGTAGGTCAGATTGAAGT-TACCATAGGGAATCTTATCT
1 TACAAATCCTATACCCCTGAAGTTGCAGTAGGTCGGATTGAA-TCTACCATAGCGAATCTTATCT
*
21926168 CTCTGAAGTTGCAGTGAAGCAAGA-TGAAGC
65 CACTGAAGTTGCAGTGAAGC-AGATTGAAGC
* * ** *
21926198 TACAAATCTTAT-CTCCTTGAAGTTGCAGT-GGAGAGGA-TGAAGCTA-C--A---AATCTTATC
1 TACAAATCCTATAC-CCCTGAAGTTGCAGTAGG-TCGGATTGAATCTACCATAGCGAATCTTATC
* * * *
21926254 TCCCTAAAGTTGTAGTGGAGCAGATTGAAGC
64 TCACTGAAGTTGCAGTGAAGCAGATTGAAGC
* * * * * *
21926285 TACAAATCCTATACCCCTAAAGTTACAGTGGGTTGGATTGATTCTACTATAGCGAATCTTATCTC
1 TACAAATCCTATACCCCTGAAGTTGCAGTAGGTCGGATTGAATCTACCATAGCGAATCTTATCTC
* *
21926350 ACTGAAGTTTCTA-TGGAGCAGATTGAAGC
66 ACTGAAGTTGC-AGTGAAGCAGATTGAAGC
* * *
21926379 TACAAATCCCATACCCCTGAATTTGCAGTAGGTCGGATTGAATCTACCATAGCGAATCTTATCTT
1 TACAAATCCTATACCCCTGAAGTTGCAGTAGGTCGGATTGAATCTACCATAGCGAATCTTATCTC
* * *
21926444 ACTGAAGTTGCAGTTAAACAGATTAAAGC
66 ACTGAAGTTGCAGTGAAGCAGATTGAAGC
21926473 TACAAATC
1 TACAAATC
21926481 TTATTTCACT
Statistics
Matches: 228, Mismatches: 40, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
86 3 0.01
87 58 0.25
88 9 0.04
90 1 0.00
91 1 0.00
92 1 0.00
93 10 0.04
94 144 0.63
95 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (94 bp):
TACAAATCCTATACCCCTGAAGTTGCAGTAGGTCGGATTGAATCTACCATAGCGAATCTTATCTC
ACTGAAGTTGCAGTGAAGCAGATTGAAGC
Found at i:21926496 original size:44 final size:44
Alignment explanation
Indices: 21926433--21926524 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
21926423 TACCATAGCG
*
21926433 AATCTTATCTTACTGAAGTTGCAGT-TAAACAGATTAAAGCTACA
1 AATCTTATCTTACTGAAGTTACAGTGT-AACAGATTAAAGCTACA
* * *
21926477 AATCTTAT-TTCACTGAAGTTATAGTGTAGCAGATTGAAGCTACA
1 AATCTTATCTT-ACTGAAGTTACAGTGTAACAGATTAAAGCTACA
21926521 AATC
1 AATC
21926525 CTATACCCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.05
44 39 0.93
45 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (44 bp):
AATCTTATCTTACTGAAGTTACAGTGTAACAGATTAAAGCTACA
Found at i:21926605 original size:138 final size:138
Alignment explanation
Indices: 21926339--21926622 Score: 351
Period size: 138 Copynumber: 2.1 Consensus size: 138
21926329 TACTATAGCG
* * *
21926339 AATCTTATCTCACTGAAGTTTCTATGGAGCAGATTGAAGCTACAAATCCCATACCCCTGAATTTG
1 AATCTTATCTCACTGAAGTTTATATGGAGCAGATTGAAGCTACAAATCCCATACCCCTGAAGTGG
* * *
21926404 CAGTAGGTCGGATTGAATCTACCATAGCGAATCTTATCTTACTGAAGTTGCAGTTAAACAGATT-
66 CAGTAGGTCGGATTGAATCAACCATAGCGAATCTTATCTTACTGAAATTGCAGTGAAACAGATTG
21926468 AAAGCTACA
131 AAA-CTACA
* * * *
21926477 AATCTTATTTCACTGAAG-TTATAGTGTAGCAGATTGAAGCTACAAATCCTATACCCTTGAAGTG
1 AATCTTATCTCACTGAAGTTTATA-TGGAGCAGATTGAAGCTACAAATCCCATACCCCTGAAGTG
* * * * * *
21926541 GCAGT-GGATCGGATTGAATCAACCATAGTGACTCTTATC-TCCTTGAAATTGTAGTGGAATAGA
65 GCAGTAGG-TCGGATTGAATCAACCATAGCGAATCTTATCTTAC-TGAAATTGCAGTGAAACAGA
*
21926604 TTGAAACTATA
128 TTGAAACTACA
21926615 AATCTTAT
1 AATCTTAT
21926623 ACCTCTAAAG
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
137 8 0.06
138 114 0.91
139 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (138 bp):
AATCTTATCTCACTGAAGTTTATATGGAGCAGATTGAAGCTACAAATCCCATACCCCTGAAGTGG
CAGTAGGTCGGATTGAATCAACCATAGCGAATCTTATCTTACTGAAATTGCAGTGAAACAGATTG
AAACTACA
Found at i:21926607 original size:232 final size:232
Alignment explanation
Indices: 21926237--21926674 Score: 538
Period size: 232 Copynumber: 1.9 Consensus size: 232
21926227 GGAGAGGATG
* *
21926237 AAGCTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCTACAAATCCTATACCCC
1 AAGCTACAAATCTTATCTCACTAAAGTTATAGTGGAGCAGATTGAAGCTACAAATCCTATACCCC
* * * * * * *
21926302 TAAAGTTACAGTGGGTTGGATTGATTCTACTATAGCGAATCTTATCTCACTGAAGTTTCTATGGA
66 TAAAGTGACAGTGGATCGGATTGAATCAACCATAGCGAATCTTATCTCACTGAAGATTCTATGGA
* * * * * *
21926367 GCAGATTGAAGCTACAAATCCCATACCCCTGAATTTGCAGTAGGTCGGATTGAATCTACCATAGC
131 ACAGATTGAAACTACAAATCCCATACCCCTAAAGTTGCAATAGGTCAGATTGAATCTACCATAGC
21926432 GAATCTTATCTTACTGAAGTTGCAGTTAAACAGATTA
196 GAATCTTATCTTACTGAAGTTGCAGTTAAACAGATTA
* * * *
21926469 AAGCTACAAATCTTATTTCACTGAAGTTATAGTGTAGCAGATTGAAGCTACAAATCCTATACCCT
1 AAGCTACAAATCTTATCTCACTAAAGTTATAGTGGAGCAGATTGAAGCTACAAATCCTATACCCC
* * * * *
21926534 TGAAGTGGCAGTGGATCGGATTGAATCAACCATAGTGACTCTTATCTC-CTTGAA-ATTGTAGTG
66 TAAAGTGACAGTGGATCGGATTGAATCAACCATAGCGAATCTTATCTCAC-TGAAGATTCTA-TG
* * ** * * * * *
21926597 GAATAGATTGAAACTATAAATCTTATACCTCTAAAGTTGCAATGGGTTAGATTGATTCTACTATA
129 GAACAGATTGAAACTACAAATCCCATACCCCTAAAGTTGCAATAGGTCAGATTGAATCTACCATA
*
21926662 GTGAATCTTATCT
194 GCGAATCTTATCT
21926675 CCCTTGTAAC
Statistics
Matches: 170, Mismatches: 34, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
231 5 0.03
232 165 0.97
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (232 bp):
AAGCTACAAATCTTATCTCACTAAAGTTATAGTGGAGCAGATTGAAGCTACAAATCCTATACCCC
TAAAGTGACAGTGGATCGGATTGAATCAACCATAGCGAATCTTATCTCACTGAAGATTCTATGGA
ACAGATTGAAACTACAAATCCCATACCCCTAAAGTTGCAATAGGTCAGATTGAATCTACCATAGC
GAATCTTATCTTACTGAAGTTGCAGTTAAACAGATTA
Found at i:21928007 original size:24 final size:23
Alignment explanation
Indices: 21927979--21928047 Score: 86
Period size: 24 Copynumber: 3.0 Consensus size: 23
21927969 TTGTTATTTG
21927979 GTAAAGGATGAATTGACAGAAAAT
1 GTAAAGGATGAATTGAC-GAAAAT
* *
21928003 GTAAAGGCTGAATTGGCGGAAAAT
1 GTAAAGGATGAATTGAC-GAAAAT
*
21928027 GTAAATGATG-ATTGACGAAAA
1 GTAAAGGATGAATTGACGAAAA
21928048 ATTACCTAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.13
23 5 0.13
24 29 0.74
ACGTcount: A:0.45, C:0.06, G:0.28, T:0.22
Consensus pattern (23 bp):
GTAAAGGATGAATTGACGAAAAT
Found at i:21930345 original size:7 final size:7
Alignment explanation
Indices: 21930333--21930371 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
21930323 TTTTTTACCG
21930333 AAAAATT
1 AAAAATT
21930340 AAAAATT
1 AAAAATT
21930347 AAAAATT
1 AAAAATT
21930354 AAAAATT
1 AAAAATT
21930361 AAAAATT
1 AAAAATT
21930368 AAAA
1 AAAA
21930372 TATCTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:21930524 original size:23 final size:23
Alignment explanation
Indices: 21930494--21930547 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
21930484 GGCTGAGGGA
21930494 TTTTTTTTGTATTTTCCCTTCCT
1 TTTTTTTTGTATTTTCCCTTCCT
*
21930517 TTTTTTTTGTATTTTCCTTTCCT
1 TTTTTTTTGTATTTTCCCTTCCT
21930540 TTTTTTTT
1 TTTTTTTT
21930548 TTTGAGTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.76
Consensus pattern (23 bp):
TTTTTTTTGTATTTTCCCTTCCT
Found at i:21937227 original size:38 final size:38
Alignment explanation
Indices: 21937161--21937278 Score: 121
Period size: 38 Copynumber: 3.1 Consensus size: 38
21937151 ATTGTAAATA
* * *
21937161 TTGTCAGATTCACTAGCCAGTGTTGGGCACACATACAT
1 TTGTCAGATTCACCAACCAGTGCTGGGCACACATACAT
* * *
21937199 TTGTCAGATTCACCAACTAGTGCAGGGCACACATATAT
1 TTGTCAGATTCACCAACCAGTGCTGGGCACACATACAT
* ** * *
21937237 TCGTTGGATAT-ACCAACCAATGCTGGGCACACATACAA
1 TTGTCAGAT-TCACCAACCAGTGCTGGGCACACATACAT
21937275 TTGT
1 TTGT
21937279 TGGTTTTACC
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
38 63 0.98
39 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (38 bp):
TTGTCAGATTCACCAACCAGTGCTGGGCACACATACAT
Found at i:21939651 original size:16 final size:17
Alignment explanation
Indices: 21939630--21939662 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21939620 AACCTTTGTA
21939630 ATCATC-CATAATTCAT
1 ATCATCACATAATTCAT
*
21939646 ATCATCACATATTTCAT
1 ATCATCACATAATTCAT
21939663 TTACTTGTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.39
Consensus pattern (17 bp):
ATCATCACATAATTCAT
Found at i:21941856 original size:36 final size:36
Alignment explanation
Indices: 21941814--21941884 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
21941804 GATTATGTAA
*
21941814 TCTTAGAGTTTTAATTGTATACAGCTTCTAATTATG
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
*
21941850 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTAT
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTAT
21941885 AGCCTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
Found at i:21947956 original size:36 final size:36
Alignment explanation
Indices: 21947915--21947985 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
21947905 GATTATTTAA
*
21947915 TCTTAGAGTTTTAATTGTATACAGCTTCTAATTATG
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
*
21947951 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTAT
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTAT
21947986 AGCCTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
Found at i:21954771 original size:29 final size:31
Alignment explanation
Indices: 21954713--21954790 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 31
21954703 TTAGTTTAAT
* *
21954713 ATGCAATTTTATATA-TGAACTTTGATTTTG
1 ATGCAATTTTATAAATTAAACTTTGATTTTG
*
21954743 -TGCAATTTTATAAATTAAATTTTGA-TTTG
1 ATGCAATTTTATAAATTAAACTTTGATTTTG
* *
21954772 ATCCAATTTTCACAAATTA
1 ATGCAATTTT-ATAAATTA
21954791 TTAACACAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 17 0.43
30 16 0.40
31 7 0.17
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (31 bp):
ATGCAATTTTATAAATTAAACTTTGATTTTG
Found at i:21965324 original size:99 final size:100
Alignment explanation
Indices: 21965202--21965400 Score: 391
Period size: 99 Copynumber: 2.0 Consensus size: 100
21965192 AAAATATTAT
21965202 TACCATAATTAATTATTCTTAATTATTTATTTTGAAATTTAACATAAATTAAATTATTTTAAATT
1 TACCATAATTAATTATTCTTAATTATTTATTTTGAAATTTAACATAAATTAAATTATTTTAAATT
21965267 TTTAAAGAAAAATAATTTACCTAATTTTAGAATTG
66 TTTAAAGAAAAATAATTTACCTAATTTTAGAATTG
21965302 TACCATAATT-ATTATTCTTAATTATTTATTTTGAAATTTAACATAAATTAAATTATTTTAAATT
1 TACCATAATTAATTATTCTTAATTATTTATTTTGAAATTTAACATAAATTAAATTATTTTAAATT
21965366 TTTAAAGAAAAATAATTTACCTAATTTTAGAATTG
66 TTTAAAGAAAAATAATTTACCTAATTTTAGAATTG
21965401 AGAGATACCG
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
99 89 0.90
100 10 0.10
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (100 bp):
TACCATAATTAATTATTCTTAATTATTTATTTTGAAATTTAACATAAATTAAATTATTTTAAATT
TTTAAAGAAAAATAATTTACCTAATTTTAGAATTG
Found at i:21969892 original size:30 final size:30
Alignment explanation
Indices: 21969856--21969917 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
21969846 TTTCCACTCA
*
21969856 GGTTGGGCATACGCCTGTGTGAGCCACACG
1 GGTTGGGCATACGCCCGTGTGAGCCACACG
*
21969886 GGTTGGGCATATGCCCGTGTGAGCCACACG
1 GGTTGGGCATACGCCCGTGTGAGCCACACG
21969916 GG
1 GG
21969918 CTAGCCACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.16, C:0.26, G:0.39, T:0.19
Consensus pattern (30 bp):
GGTTGGGCATACGCCCGTGTGAGCCACACG
Found at i:21975282 original size:63 final size:63
Alignment explanation
Indices: 21975100--21975283 Score: 201
Period size: 63 Copynumber: 2.9 Consensus size: 63
21975090 GTGTGAGGTT
* * * * * * *
21975100 TCACAGGGGCGTGTGAGAAGCGAAGGAAAACACACACGACCAAGCCAC-CAGACGTGTGGGATC
1 TCACATGGGCGTGAGAGAAGTGAAGGAAAACACACACGGCC-TGACACACGGACGTGTGGGATC
* * * * * *
21975163 TCATATGGGCGTGGGAGAAGTGAAAG-AAACACACACGGCCTAACCACAGGGGCGTGTGGGATC
1 TCACATGGGCGTGAGAGAAGTGAAGGAAAACACACACGGCCTGA-CACACGGACGTGTGGGATC
* *
21975226 TCACATGGACGTGAGAGAAGTGAAGGAAAACACACACGGCCTGACACACGGCCGTGTG
1 TCACATGGGCGTGAGAGAAGTGAAGGAAAACACACACGGCCTGACACACGGACGTGTG
21975284 AGCCACATGG
Statistics
Matches: 99, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
62 16 0.16
63 67 0.68
64 16 0.16
ACGTcount: A:0.32, C:0.23, G:0.33, T:0.12
Consensus pattern (63 bp):
TCACATGGGCGTGAGAGAAGTGAAGGAAAACACACACGGCCTGACACACGGACGTGTGGGATC
Found at i:21975546 original size:12 final size:12
Alignment explanation
Indices: 21975528--21975570 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
21975518 TCTGCTATTT
21975528 CTATTATTTTTA
1 CTATTATTTTTA
*
21975540 GTATTATTTTTTA
1 CTATTA-TTTTTA
*
21975553 CTATTATTCTTA
1 CTATTATTTTTA
*
21975565 CAATTA
1 CTATTA
21975571 CCTTTAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (12 bp):
CTATTATTTTTA
Found at i:21975552 original size:13 final size:13
Alignment explanation
Indices: 21975528--21975560 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
21975518 TCTGCTATTT
21975528 CTATTA-TTTTTA
1 CTATTATTTTTTA
*
21975540 GTATTATTTTTTA
1 CTATTATTTTTTA
21975553 CTATTATT
1 CTATTATT
21975561 CTTACAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (13 bp):
CTATTATTTTTTA
Found at i:21975614 original size:6 final size:6
Alignment explanation
Indices: 21975599--21975662 Score: 51
Period size: 6 Copynumber: 10.8 Consensus size: 6
21975589 TCATTGAGTT
* * * *
21975599 TTTTTC -TTTTC TTTTTC TTTTTC GTTTTC GTTTTC GTTTTAC -TTTTG
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC TTTTTC
* *
21975646 TTTTTG TTTTTG TTTTT
1 TTTTTC TTTTTC TTTTT
21975663 AGTTGCTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
5 8 0.16
6 38 0.76
7 4 0.08
ACGTcount: A:0.02, C:0.11, G:0.09, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:21975626 original size:18 final size:17
Alignment explanation
Indices: 21975599--21975661 Score: 63
Period size: 18 Copynumber: 3.6 Consensus size: 17
21975589 TCATTGAGTT
21975599 TTTTTCTTTTCTTTTTC
1 TTTTTCTTTTCTTTTTC
*
21975616 TTTTTCGTTTTCGTTTTC
1 TTTTTC-TTTTCTTTTTC
* * *
21975634 GTTTTACTTTTGTTTTTG
1 -TTTTTCTTTTCTTTTTC
*
21975652 TTTTTGTTTT
1 TTTTTCTTTT
21975662 TAGTTGCTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 14 0.38
18 18 0.49
19 5 0.14
ACGTcount: A:0.02, C:0.11, G:0.10, T:0.78
Consensus pattern (17 bp):
TTTTTCTTTTCTTTTTC
Found at i:21992650 original size:14 final size:14
Alignment explanation
Indices: 21992631--21992658 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21992621 TTGTTTGGTG
21992631 GAAAATATTTTCCA
1 GAAAATATTTTCCA
21992645 GAAAATATTTTCCA
1 GAAAATATTTTCCA
21992659 CCTTTTCCAG
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:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
GAAAATATTTTCCA
Found at i:21995197 original size:14 final size:14
Alignment explanation
Indices: 21995174--21995213 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
21995164 CAATGAAAGT
*
21995174 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
21995188 AAATCATTTTACGG
1 AAAACATTTTACAG
21995202 AAAACATTTTAC
1 AAAACATTTTAC
21995214 TGGCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:21998981 original size:4 final size:4
Alignment explanation
Indices: 21998972--21998999 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
21998962 CCTTTTTCTT
21998972 TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC
21999000 CTTCCTTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:21999077 original size:15 final size:15
Alignment explanation
Indices: 21999049--21999090 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
21999039 GTTTCGTCTC
* *
21999049 TTCTATTCTGTTTCTT
1 TTCT-TTCTTTTTCTA
21999065 TTCTTTCTTTTTCTA
1 TTCTTTCTTTTTCTA
21999080 TTCTTTCTTTT
1 TTCTTTCTTTT
21999091 GTTTTATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (15 bp):
TTCTTTCTTTTTCTA
Found at i:21999112 original size:5 final size:5
Alignment explanation
Indices: 21999099--21999170 Score: 62
Period size: 5 Copynumber: 14.4 Consensus size: 5
21999089 TTGTTTTATG
21999099 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
21999147 CATAA TCATTAC TATAA TATAA TA
1 TATAA T-A-TAA TATAA TATAA TA
21999171 ATATTTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 34 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:21999124 original size:19 final size:19
Alignment explanation
Indices: 21999100--21999142 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
21999090 TGTTTTATGT
21999100 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
21999119 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
21999138 ATATA
1 ATATA
21999143 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:21999152 original size:24 final size:25
Alignment explanation
Indices: 21999106--21999171 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
21999096 ATGTATATAT
* *
21999106 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
21999130 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
21999155 TTACTATAATATAATAA
1 ATAATATAATATAATAA
21999172 TATTTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.06
24 18 0.51
25 13 0.37
26 2 0.06
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:22009081 original size:56 final size:56
Alignment explanation
Indices: 22009019--22009153 Score: 252
Period size: 56 Copynumber: 2.4 Consensus size: 56
22009009 AATGATAGTA
*
22009019 TTATATAGTTATGTTTATACATAAGTATGTAACTTTGCATGTGTATGGAATGAATT
1 TTATATAATTATGTTTATACATAAGTATGTAACTTTGCATGTGTATGGAATGAATT
*
22009075 TTATATAATTATGTTTATACATAAGTATGTAACTTTGTATGTGTATGGAATGAATT
1 TTATATAATTATGTTTATACATAAGTATGTAACTTTGCATGTGTATGGAATGAATT
22009131 TTATATAATTATGTTTATACATA
1 TTATATAATTATGTTTATACATA
22009154 TGATACACTT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 77 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (56 bp):
TTATATAATTATGTTTATACATAAGTATGTAACTTTGCATGTGTATGGAATGAATT
Found at i:22009143 original size:28 final size:28
Alignment explanation
Indices: 22009057--22009144 Score: 69
Period size: 28 Copynumber: 3.1 Consensus size: 28
22009047 GTAACTTTGC
22009057 ATGTGTATGGAATGAATTTTATATAATT
1 ATGTGTATGGAATGAATTTTATATAATT
* * *
22009085 ATGTTTAT--ACAT-AAGTATGTA-ACT-TTGT
1 ATGTGTATGGA-ATGAA-T-TTTATA-TAAT-T
22009113 ATGTGTATGGAATGAATTTTATATAATT
1 ATGTGTATGGAATGAATTTTATATAATT
22009141 ATGT
1 ATGT
22009145 TTATACATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 20
0.63 0.09 0.29
Matches are distributed among these distances:
26 3 0.07
27 5 0.11
28 28 0.64
29 5 0.11
30 3 0.07
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (28 bp):
ATGTGTATGGAATGAATTTTATATAATT
Found at i:22011809 original size:54 final size:54
Alignment explanation
Indices: 22011721--22011836 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 54
22011711 CTACTTACTC
* * *
22011721 TTTTCAAATGAAAAATAATAAAACAAATAGTTATTTTAATAA-CCATAATATGATG
1 TTTT-AAATGAAAAATAATAAAACAAACAATTATTTTAA-AATCCATAATATGATA
* * * *
22011776 TTTTAAATGAAAAATAGTGAAAGAAACAATTATTTTAAAATCCATAATGTGATA
1 TTTTAAATGAAAAATAATAAAACAAACAATTATTTTAAAATCCATAATATGATA
22011830 TTTTAAA
1 TTTTAAA
22011837 AATAAGTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 2 0.04
54 47 0.89
55 4 0.08
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (54 bp):
TTTTAAATGAAAAATAATAAAACAAACAATTATTTTAAAATCCATAATATGATA
Found at i:22013198 original size:18 final size:18
Alignment explanation
Indices: 22013160--22013198 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
22013150 TCTGCTCCCA
* *
22013160 TTTTGCACTTTTTTGTGT
1 TTTTCCACTTTTTTGTAT
*
22013178 TTTTCCACTTTTTTTTAT
1 TTTTCCACTTTTTTGTAT
22013196 TTT
1 TTT
22013199 CTTTCTTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.13, G:0.08, T:0.72
Consensus pattern (18 bp):
TTTTCCACTTTTTTGTAT
Found at i:22017045 original size:15 final size:15
Alignment explanation
Indices: 22017027--22017056 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22017017 TATATTAATT
22017027 ATTATTATAATTATA
1 ATTATTATAATTATA
22017042 ATTATTATAATTATA
1 ATTATTATAATTATA
22017057 TATTTACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATTATAATTATA
Found at i:22017048 original size:9 final size:9
Alignment explanation
Indices: 22017022--22017055 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
22017012 ATTAGTATAT
22017022 TAATTATTA
1 TAATTATTA
* *
22017031 TTATAATTA
1 TAATTATTA
22017040 TAATTATTA
1 TAATTATTA
22017049 TAATTAT
1 TAATTAT
22017056 ATATTTACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TAATTATTA
Found at i:22017158 original size:16 final size:18
Alignment explanation
Indices: 22017129--22017161 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
22017119 ACTAAAAATA
22017129 TTAAAGAAATTAAATTTG
1 TTAAAGAAATTAAATTTG
22017147 TTAAA-AAA-TAAATTT
1 TTAAAGAAATTAAATTT
22017162 TATAAAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (18 bp):
TTAAAGAAATTAAATTTG
Found at i:22030755 original size:35 final size:37
Alignment explanation
Indices: 22030701--22030772 Score: 130
Period size: 36 Copynumber: 2.0 Consensus size: 37
22030691 ATACAAGCAA
22030701 AGCTGAATTAACAGCTCATACATCAGC-AAAGTACAT
1 AGCTGAATTAACAGCTCATACATCAGCAAAAGTACAT
22030737 AGCTGAATT-ACAGCTCATACATCAGCAAAAGTACAT
1 AGCTGAATTAACAGCTCATACATCAGCAAAAGTACAT
22030773 CAATCATCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 17 0.49
36 18 0.51
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (37 bp):
AGCTGAATTAACAGCTCATACATCAGCAAAAGTACAT
Found at i:22039014 original size:4 final size:4
Alignment explanation
Indices: 22039005--22039029 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
22038995 ATTAAAACAA
22039005 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
22039030 CACAGAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:22047090 original size:3 final size:3
Alignment explanation
Indices: 22047082--22047122 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
22047072 AGCAAATTTC
22047082 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
22047123 TCGGTCATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22047962 original size:12 final size:10
Alignment explanation
Indices: 22047933--22047967 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
22047923 CAGTACACTT
22047933 AAACAAACCC
1 AAACAAACCC
22047943 AAACAAACCC
1 AAACAAACCC
22047953 AATTACAAACCC
1 AA--ACAAACCC
22047965 AAA
1 AAA
22047968 TCAGATGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 13 0.57
12 10 0.43
ACGTcount: A:0.60, C:0.34, G:0.00, T:0.06
Consensus pattern (10 bp):
AAACAAACCC
Found at i:22049984 original size:109 final size:109
Alignment explanation
Indices: 22049714--22049971 Score: 453
Period size: 109 Copynumber: 2.4 Consensus size: 109
22049704 NNNNNNNNNN
*
22049714 CCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTT
1 CCTAAGGTGCTGGGTGTCGATTTTTCTCGTTTAACCAAATGGCTTAATATCCTTTTAAAAATTTT
* * *
22049779 AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGC
66 AAAATAAGACAATGTTTTGCATTTGGAAATTCGAGAAAACATAC
*
22049823 CATAAGGTGCTGGGTGTCGATTTTTCTCGTTTAACCAAATGGCTTAATATCCTTTTAAAAATTTT
1 CCTAAGGTGCTGGGTGTCGATTTTTCTCGTTTAACCAAATGGCTTAATATCCTTTTAAAAATTTT
* *
22049888 AAAATAAGACAATGTTTTGTATTTGGAAATTTGAGAAAACATAC
66 AAAATAAGACAATGTTTTGCATTTGGAAATTCGAGAAAACATAC
22049932 CCTAAGGTGCTGGGTGTCGATTTTTCTCGTTTAACCAAAT
1 CCTAAGGTGCTGGGTGTCGATTTTTCTCGTTTAACCAAAT
22049972 TGCCAAATAT
Statistics
Matches: 141, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
109 141 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (109 bp):
CCTAAGGTGCTGGGTGTCGATTTTTCTCGTTTAACCAAATGGCTTAATATCCTTTTAAAAATTTT
AAAATAAGACAATGTTTTGCATTTGGAAATTCGAGAAAACATAC
Found at i:22050980 original size:6 final size:6
Alignment explanation
Indices: 22050969--22050999 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
22050959 TCCATGCATT
22050969 TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC T
1 TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC T
22051000 TTCTTTCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TCTTTC
Found at i:22058789 original size:13 final size:12
Alignment explanation
Indices: 22058768--22058817 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
22058758 TTAACAATGT
*
22058768 TTTTAAAAAGTG
1 TTTTGAAAAGTG
22058780 CTTTTGAAAAGTG
1 -TTTTGAAAAGTG
*
22058793 TTGTGAAAAAGTG
1 TTTTG-AAAAGTG
22058806 TTTTTGAAAAGT
1 -TTTTGAAAAGT
22058818 TTGGTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 4 0.12
13 24 0.75
14 4 0.12
ACGTcount: A:0.36, C:0.02, G:0.22, T:0.40
Consensus pattern (12 bp):
TTTTGAAAAGTG
Found at i:22063961 original size:25 final size:25
Alignment explanation
Indices: 22063927--22063974 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
22063917 CCTCATACAT
22063927 ATTTCAATACAAATAAGATGCTGTA
1 ATTTCAATACAAATAAGATGCTGTA
*
22063952 ATTTCAATACAAATACGATGCTG
1 ATTTCAATACAAATAAGATGCTG
22063975 ACAGTTTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (25 bp):
ATTTCAATACAAATAAGATGCTGTA
Found at i:22068201 original size:51 final size:51
Alignment explanation
Indices: 22068146--22068246 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
22068136 GATGAAGAAA
* *
22068146 AAGAAAAGAAAGAGGCAAAGGGTGATGATGGATCTTTAGTGATTAATGCAG
1 AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATGAATGCAG
22068197 AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATGAATGCA
1 AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATGAATGCA
22068247 TCCATTGTTG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.43, C:0.06, G:0.31, T:0.21
Consensus pattern (51 bp):
AAGAAAAGAAAGAAGCAAAGGGTGATGATGGATCTTTAGTGATGAATGCAG
Found at i:22069303 original size:15 final size:16
Alignment explanation
Indices: 22069277--22069309 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22069267 GTTAAAAGTT
22069277 TTTTGAATTTGGGTTA
1 TTTTGAATTTGGGTTA
*
22069293 TTTTG-ATTTGGTTTA
1 TTTTGAATTTGGGTTA
22069308 TT
1 TT
22069310 ATAAGAGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.64
Consensus pattern (16 bp):
TTTTGAATTTGGGTTA
Found at i:22077152 original size:195 final size:195
Alignment explanation
Indices: 22076819--22077282 Score: 732
Period size: 195 Copynumber: 2.4 Consensus size: 195
22076809 AACATTATAG
22076819 TTTTGATATTAAATTAGGAATTTTGATATCCATAGAAATTTTGGTATGACTTTAAAAATTTTGGT
1 TTTTGATATTAAATTAGGAATTTTGATATCCATAGAAATTTTGGTATGACTTTAAAAA-TTTGGT
* * * **
22076884 TCAAGCTATTGGTGAGACCACGAGCTAGAAAAGAGAATTTTAATATACCAAACTATCTAATGGTT
65 TCAAGCTATTGGTGAGACCACAAGCTACAAAAAAGAATTTTAATATACCAAAAAATCTAATGGTT
* * * *
22076949 TCATTAAAAGTAGTAGTATAGCGTTAGAAATTTTGATAGAAGCTCTTACGGGCGAGAAAGGGAAA
130 TCATTAAAAATAGTAGTATAGCGTTAGAAATTTTGATACAAACTCGTACGGGCGAGAAAGGGAAA
22077014 A
195 A
*
22077015 TTTTGATCTTAAATTAGGAATTTTGATATCCATAGAAATTTTGGTATGACTTTAAAAATTTGGTT
1 TTTTGATATTAAATTAGGAATTTTGATATCCATAGAAATTTTGGTATGACTTTAAAAATTTGGTT
*
22077080 CAAGCTATTGGTGAGACTACAAGCTACAAAAAAGAATTTTAATATACCAAAAAATCTAATGGTTT
66 CAAGCTATTGGTGAGACCACAAGCTACAAAAAAGAATTTTAATATACCAAAAAATCTAATGGTTT
* * *
22077145 CATTAAAAATATTAGTATAGCGTTAGAAATTTTGATACAAACTCGTACGGGTGAGAAAGGGGAAA
131 CATTAAAAATAGTAGTATAGCGTTAGAAATTTTGATACAAACTCGTACGGGCGAGAAAGGGAAAA
* * *
22077210 TTTTGATATTTAAA-TAGGAATTTTAATATCCATAAAAAATTTGGTATGACTTTAAAAATTTGGG
1 TTTTGATA-TTAAATTAGGAATTTTGATATCCATAGAAATTTTGGTATGACTTTAAAAATTT-GG
*
22077274 TTGAAGCTA
64 TTCAAGCTA
22077283 AAAGAGAAAT
Statistics
Matches: 247, Mismatches: 19, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
195 175 0.71
196 72 0.29
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.34
Consensus pattern (195 bp):
TTTTGATATTAAATTAGGAATTTTGATATCCATAGAAATTTTGGTATGACTTTAAAAATTTGGTT
CAAGCTATTGGTGAGACCACAAGCTACAAAAAAGAATTTTAATATACCAAAAAATCTAATGGTTT
CATTAAAAATAGTAGTATAGCGTTAGAAATTTTGATACAAACTCGTACGGGCGAGAAAGGGAAAA
Found at i:22078951 original size:19 final size:19
Alignment explanation
Indices: 22078913--22078964 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
22078903 ATTTATTATT
***
22078913 TGTTTTATAATATTTTAAA
1 TGTTTTATAATATACCAAA
22078932 TGTTTTATAATATACCAAA
1 TGTTTTATAATATACCAAA
*
22078951 TAATTTTA-AATATA
1 T-GTTTTATAATATA
22078965 ATTTTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (19 bp):
TGTTTTATAATATACCAAA
Found at i:22079161 original size:28 final size:28
Alignment explanation
Indices: 22079104--22079163 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
22079094 AAATAATTTT
** *
22079104 TAAAAAAAATTCAAAAAAAAATTTTGAA
1 TAAAAAAAATTCAAAAAAAAATAATAAA
*
22079132 TAAAAAAAATT-ATAAAACAAATAATAAA
1 TAAAAAAAATTCA-AAAAAAAATAATAAA
22079160 TAAA
1 TAAA
22079164 CCAGAAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 1 0.04
28 26 0.96
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.23
Consensus pattern (28 bp):
TAAAAAAAATTCAAAAAAAAATAATAAA
Found at i:22082910 original size:32 final size:31
Alignment explanation
Indices: 22082864--22082923 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
22082854 CTCTCCATTG
22082864 ATTCAATAATATAAT-TAAAATATTTTAATTT
1 ATTCAATAATATAATAT-AAATATTTTAATTT
* *
22082895 ATTCAAATATTATAATATAAATTTTTTAA
1 ATTC-AATAATATAATATAAATATTTTAA
22082924 ATAATAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 4 0.16
32 20 0.80
33 1 0.04
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (31 bp):
ATTCAATAATATAATATAAATATTTTAATTT
Found at i:22092275 original size:49 final size:49
Alignment explanation
Indices: 22092203--22092392 Score: 136
Period size: 49 Copynumber: 3.6 Consensus size: 49
22092193 GGGAAAATAA
22092203 TTAAATATAAAA-T-ATA-AA-ATAATTTAATCAAAGTGAGAATAAAAG
1 TTAAATATAAAATTAATATAATATAATTTAATCAAAGTGAGAATAAAAG
* * * * *
22092248 TTAAATATAAAATTAATATAATATAATTTAGAGGCTAAATTCATTAATTTAAACAATT
1 TTAAATATAAAATTAATATAATATAATTTA-A-TC-AAAGTGA-GAA--T-AA-AA-G
* *
22092306 TATGGGAAATAATTAAATATAAAATATAAAATAATTTAATCAAAGTGAGAATAAAAG
1 T-T---AAAT-A-TAAA-AT-TAATATAATATAATTTAATCAAAGTGAGAATAAAAG
22092363 TTAAATATAAAATTAATATAATATAATTTA
1 TTAAATATAAAATTAATATAATATAATTTA
22092393 GAGGCTAAAT
Statistics
Matches: 110, Mismatches: 14, Indels: 38
0.68 0.09 0.23
Matches are distributed among these distances:
45 12 0.11
46 1 0.01
47 3 0.03
48 2 0.02
49 23 0.21
50 3 0.03
51 5 0.05
52 6 0.05
53 6 0.05
55 1 0.01
56 3 0.03
57 3 0.03
58 3 0.03
59 3 0.03
60 1 0.01
62 6 0.05
63 6 0.05
64 5 0.05
65 3 0.03
66 15 0.14
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (49 bp):
TTAAATATAAAATTAATATAATATAATTTAATCAAAGTGAGAATAAAAG
Found at i:22092316 original size:115 final size:115
Alignment explanation
Indices: 22092177--22092403 Score: 438
Period size: 115 Copynumber: 2.0 Consensus size: 115
22092167 CGATTTAATC
22092177 TAATTTAAACAATTATGGGAAAATAATTAAATATAAAATATAAAATAATTTAATCAAAGTGAGAA
1 TAATTTAAACAATTATGGGAAAATAATTAAATATAAAATATAAAATAATTTAATCAAAGTGAGAA
22092242 TAAAAGTTAAATATAAAATTAATATAATATAATTTAGAGGCTAAATTCAT
66 TAAAAGTTAAATATAAAATTAATATAATATAATTTAGAGGCTAAATTCAT
22092292 TAATTTAAACAATTTATGGG-AAATAATTAAATATAAAATATAAAATAATTTAATCAAAGTGAGA
1 TAATTTAAACAA-TTATGGGAAAATAATTAAATATAAAATATAAAATAATTTAATCAAAGTGAGA
22092356 ATAAAAGTTAAATATAAAATTAATATAATATAATTTAGAGGCTAAATT
65 ATAAAAGTTAAATATAAAATTAATATAATATAATTTAGAGGCTAAATT
22092404 AATAAACGGT
Statistics
Matches: 111, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
115 104 0.94
116 7 0.06
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (115 bp):
TAATTTAAACAATTATGGGAAAATAATTAAATATAAAATATAAAATAATTTAATCAAAGTGAGAA
TAAAAGTTAAATATAAAATTAATATAATATAATTTAGAGGCTAAATTCAT
Found at i:22095921 original size:17 final size:19
Alignment explanation
Indices: 22095888--22095922 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
22095878 ATTGTTTGGA
22095888 TATTGTATAACTTTTGTTT
1 TATTGTATAACTTTTGTTT
22095907 TATTGT-TAA-TTTTGTT
1 TATTGTATAACTTTTGTT
22095923 ACTATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (19 bp):
TATTGTATAACTTTTGTTT
Found at i:22097354 original size:3 final size:3
Alignment explanation
Indices: 22097348--22097384 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
22097338 AACTAATAAG
22097348 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
22097385 CTATGTCTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22098916 original size:11 final size:11
Alignment explanation
Indices: 22098900--22098924 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22098890 TATTATTTAT
22098900 AGTGCATTCAA
1 AGTGCATTCAA
22098911 AGTGCATTCAA
1 AGTGCATTCAA
22098922 AGT
1 AGT
22098925 TGTCTCACTG
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:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (11 bp):
AGTGCATTCAA
Found at i:22100223 original size:685 final size:685
Alignment explanation
Indices: 22098913--22100270 Score: 2707
Period size: 685 Copynumber: 2.0 Consensus size: 685
22098903 GCATTCAAAG
22098913 TGCATTCAAAGTTGTCTCACTGAGTCACAGTCACTAAATTATTTATATCTTGAGCTACGGAACCT
1 TGCATTCAAAGTTGTCTCACTGAGTCACAGTCACTAAATTATTTATATCTTGAGCTACGGAACCT
22098978 CAAATTAAGATCCGTTAATTTTCCCTGAAACTAGACTCACATGTATTCTTACCATAAAAATTTCA
66 CAAATTAAGATCCGTTAATTTTCCCTGAAACTAGACTCACATGTATTCTTACCATAAAAATTTCA
22099043 AAATTTTTGGTTTAGCCAATAAGTACAATTTATTTTTTAAAGTTTTCCCTATTTCACTGTTTGAT
131 AAATTTTTGGTTTAGCCAATAAGTACAATTTATTTTTTAAAGTTTTCCCTATTTCACTGTTTGAT
22099108 AGTTTCGACCCTTCTTCACTAAAAATTAATTATCTCATTGTACAGAATTCAGATGATGTTTCCAT
196 AGTTTCGACCCTTCTTCACTAAAAATTAATTATCTCATTGTACAGAATTCAGATGATGTTTCCAT
22099173 TTGTTTCTTCTGAAAATAGACTCATTAAGGATTCTAACCATATAAATTATAACTCATAATAATTT
261 TTGTTTCTTCTGAAAATAGACTCATTAAGGATTCTAACCATATAAATTATAACTCATAATAATTT
22099238 TTGTACAATTTTTAATGATTTTCCAAAGTCAGAAAAGGGGAACCCGAATTCATTTTGACCTTGTC
326 TTGTACAATTTTTAATGATTTTCCAAAGTCAGAAAAGGGGAACCCGAATTCATTTTGACCTTGTC
22099303 TCACAAAATCTATTATATCCCATGATTTACAATTTCATTGCTTACACCGTTTCTTATATAAGAAA
391 TCACAAAATCTATTATATCCCATGATTTACAATTTCATTGCTTACACCGTTTCTTATATAAGAAA
22099368 CTATACTCAATAAGATTTAATTTTATATTTTATTCATTCTCTAATTTGATCTCTACAATTTTTGG
456 CTATACTCAATAAGATTTAATTTTATATTTTATTCATTCTCTAATTTGATCTCTACAATTTTTGG
22099433 TGATTTTTCAAAATTAGAGTACTGCTGCTGTCCAAAACTGTTTTAGTGTATGATGTTAATTACCA
521 TGATTTTTCAAAATTAGAGTACTGCTGCTGTCCAAAACTGTTTTAGTGTATGATGTTAATTACCA
22099498 TTTTTCCCTAAACTTTCAATAAATGATAATTTCATCCCTGCTCAATTAACCTCTCAATTGAGCTG
586 TTTTTCCCTAAACTTTCAATAAATGATAATTTCATCCCTGCTCAATTAACCTCTCAATTGAGCTG
*
22099563 ATTTTTCTCAATTAACACTTTATTATTATTTATAC
651 ATTTTTCTCAATCAACACTTTATTATTATTTATAC
22099598 TGCATTCAAAGTTGTCTCACTGAGTCACAGTCACTAAATTATTTATATCTTGAGCTACGGAACCT
1 TGCATTCAAAGTTGTCTCACTGAGTCACAGTCACTAAATTATTTATATCTTGAGCTACGGAACCT
22099663 CAAATTAAGATCCGTTAATTTTCCCTGAAACTAGACTCACATGTATTCTTACCATAAAAATTTCA
66 CAAATTAAGATCCGTTAATTTTCCCTGAAACTAGACTCACATGTATTCTTACCATAAAAATTTCA
22099728 AAATTTTTGGTTTAGCCAATAAGTACAATTTATTTTTTAAAGTTTTCCCTATTTCACTGTTTGAT
131 AAATTTTTGGTTTAGCCAATAAGTACAATTTATTTTTTAAAGTTTTCCCTATTTCACTGTTTGAT
22099793 AGTTTCGACCCTTCTTCACTAAAAATTAATTATCTCATTGTACAGAATTCAGATGATGTTTCCAT
196 AGTTTCGACCCTTCTTCACTAAAAATTAATTATCTCATTGTACAGAATTCAGATGATGTTTCCAT
22099858 TTGTTTCTTCTGAAAATAGACTCATTAAGGATTCTAACCATATAAATTATAACTCATAATAATTT
261 TTGTTTCTTCTGAAAATAGACTCATTAAGGATTCTAACCATATAAATTATAACTCATAATAATTT
22099923 TTGTACAATTTTTAATGATTTTCCAAAGTCAGAAAAGGGGAACCCGAATTCATTTTGACCTTGTC
326 TTGTACAATTTTTAATGATTTTCCAAAGTCAGAAAAGGGGAACCCGAATTCATTTTGACCTTGTC
22099988 TCACAAAATCTATTATATCCCATGATTTACAATTTCATTGCTTACACCGTTTCTTATATAAGAAA
391 TCACAAAATCTATTATATCCCATGATTTACAATTTCATTGCTTACACCGTTTCTTATATAAGAAA
22100053 CTATACTCAATAAGATTTAATTTTATATTTTATTCATTCTCTAATTTGATCTCTACAATTTTTGG
456 CTATACTCAATAAGATTTAATTTTATATTTTATTCATTCTCTAATTTGATCTCTACAATTTTTGG
22100118 TGATTTTTCAAAATTAGAGTACTGCTGCTGTCCAAAACTGTTTTAGTGTATGATGTTAATTACCA
521 TGATTTTTCAAAATTAGAGTACTGCTGCTGTCCAAAACTGTTTTAGTGTATGATGTTAATTACCA
22100183 TTTTTCCCTAAACTTTCAATAAATGATAATTTCATCCCTGCTCAATTAACCTCTCAATTGAGCTG
586 TTTTTCCCTAAACTTTCAATAAATGATAATTTCATCCCTGCTCAATTAACCTCTCAATTGAGCTG
22100248 ATTTTTCTCAATCAACACTTTAT
651 ATTTTTCTCAATCAACACTTTAT
22100271 CCCATCACTT
Statistics
Matches: 672, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
685 672 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (685 bp):
TGCATTCAAAGTTGTCTCACTGAGTCACAGTCACTAAATTATTTATATCTTGAGCTACGGAACCT
CAAATTAAGATCCGTTAATTTTCCCTGAAACTAGACTCACATGTATTCTTACCATAAAAATTTCA
AAATTTTTGGTTTAGCCAATAAGTACAATTTATTTTTTAAAGTTTTCCCTATTTCACTGTTTGAT
AGTTTCGACCCTTCTTCACTAAAAATTAATTATCTCATTGTACAGAATTCAGATGATGTTTCCAT
TTGTTTCTTCTGAAAATAGACTCATTAAGGATTCTAACCATATAAATTATAACTCATAATAATTT
TTGTACAATTTTTAATGATTTTCCAAAGTCAGAAAAGGGGAACCCGAATTCATTTTGACCTTGTC
TCACAAAATCTATTATATCCCATGATTTACAATTTCATTGCTTACACCGTTTCTTATATAAGAAA
CTATACTCAATAAGATTTAATTTTATATTTTATTCATTCTCTAATTTGATCTCTACAATTTTTGG
TGATTTTTCAAAATTAGAGTACTGCTGCTGTCCAAAACTGTTTTAGTGTATGATGTTAATTACCA
TTTTTCCCTAAACTTTCAATAAATGATAATTTCATCCCTGCTCAATTAACCTCTCAATTGAGCTG
ATTTTTCTCAATCAACACTTTATTATTATTTATAC
Found at i:22101526 original size:18 final size:18
Alignment explanation
Indices: 22101503--22101545 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
22101493 TGGCAGGTGA
*
22101503 GTATCCTAGCACTTATAT
1 GTATCCTAACACTTATAT
*
22101521 GTATCCTAACCCTTATAT
1 GTATCCTAACACTTATAT
*
22101539 GTTTCCT
1 GTATCCT
22101546 TTTTCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACACTTATAT
Found at i:22103482 original size:57 final size:57
Alignment explanation
Indices: 22103412--22103526 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
22103402 CTTAGCCTCT
* *
22103412 CTAATTTTTCTTGCTATAGCTTATGCAACCTGATAATGAAATTTGGCTCATTTATAG
1 CTAATTTTTCTTGCTATAACTTATACAACCTGATAATGAAATTTGGCTCATTTATAG
*
22103469 CTAATTTTTCTTGCTGTAACTTATACAACCTGATAATGAAATTTGGCTCATTTATAG
1 CTAATTTTTCTTGCTATAACTTATACAACCTGATAATGAAATTTGGCTCATTTATAG
22103526 C
1 C
22103527 CTAAGGCCAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.42
Consensus pattern (57 bp):
CTAATTTTTCTTGCTATAACTTATACAACCTGATAATGAAATTTGGCTCATTTATAG
Found at i:22103876 original size:125 final size:125
Alignment explanation
Indices: 22103545--22104062 Score: 650
Period size: 125 Copynumber: 4.1 Consensus size: 125
22103535 AAACAAAAAT
* *
22103545 TACTGTAGAAAAAGAGCATTC-ACGTGAGAGCTTTTTTC-ATCAATTTTGCTAACAGTGCATCCT
1 TACTGTAGAAAAAGAGC-GTCAACGTGAGAGCTTTTTTCAAT-AATTTTGCTGACAGTGCATCCT
* * *
22103608 GCTTGAAGCATTTTTGACACAATTTATTCAGAACCATCTTCTCAAAATTATTTTTTTAGGAAC
64 GCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTA-TTTTTTAGGAAC
* * * *
22103671 TACTGTAGAAAAAAGAGCGTCAATGTGGGAGCTTTTTTTTCAGTATTTTTGCTGACAGTGCATCC
1 TACTGTAG-AAAAAGAGCGTCAACGTGAGAGC--TTTTTTCAATAATTTTGCTGACAGTGCATCC
* * * *
22103736 TGCTTAAAGCATTTTTTACACCATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTAGGAAC
63 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTAGGAAC
*
22103799 TACTGTAGAAAAAGAGCGTTC-ACGTGAGAGCTTTTTTCAATATTTTTGCTGACAGTGCATCCTG
1 TACTGTAGAAAAAGAGCG-TCAACGTGAGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCCTG
* * *
22103863 CTTGAAGCGTTTTTAACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTAGGAAC
65 CTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTAGGAAC
* ** * * *
22103924 TACTGTAGAAAAAGAGCGTCTACGTTTGAGCTTTTTTCAGTAATTTTGATGACAGTGCATTCTGC
1 TACTGTAGAAAAAGAGCGTCAACGTGAGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCCTGC
* * * * *
22103989 TTGAAGCGTTTTTGATATTATCTT-TTCAGAACCGTATTCTCAAAATTAATTTTTCT-GAAAC
66 TTGAAGCATTTTTGACACTAT-TTGTTCAGAACCGTCTTCTCAAAATT-ATTTTT-TAGGAAC
*
22104050 TATTGTAGAAAAA
1 TACTGTAGAAAAA
22104063 AACTAAAATC
Statistics
Matches: 350, Mismatches: 32, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
124 2 0.01
125 184 0.53
126 34 0.10
127 36 0.10
128 22 0.06
129 71 0.20
130 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (125 bp):
TACTGTAGAAAAAGAGCGTCAACGTGAGAGCTTTTTTCAATAATTTTGCTGACAGTGCATCCTGC
TTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTAGGAAC
Found at i:22104171 original size:34 final size:33
Alignment explanation
Indices: 22104121--22104235 Score: 135
Period size: 34 Copynumber: 3.5 Consensus size: 33
22104111 CACAAAATTA
**
22104121 TTTTTAAAAAAACTAAACCCTAATTTAATTAAT
1 TTTTTAAAAACTCTAAACCCTAATTTAATTAAT
22104154 TTTCTTAAAAACTCTAAACCCTAATTTAATTAAT
1 TTT-TTAAAAACTCTAAACCCTAATTTAATTAAT
* * *
22104188 TTATTT-TAAACCCTAAAACCTAATTTAATT-AT
1 TT-TTTAAAAACTCTAAACCCTAATTTAATTAAT
**
22104220 TTTAAAAAAACTCTAA
1 TTTTTAAAAACTCTAA
22104236 GCCTTGATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
31 1 0.01
32 12 0.17
33 24 0.34
34 32 0.46
35 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (33 bp):
TTTTTAAAAACTCTAAACCCTAATTTAATTAAT
Found at i:22117879 original size:32 final size:31
Alignment explanation
Indices: 22117830--22117924 Score: 172
Period size: 31 Copynumber: 3.0 Consensus size: 31
22117820 NNNNNNNNNN
22117830 TTAAAGAGTTTTATTAGGATTCAATTACTCT
1 TTAAAGAGTTTTATTAGGATTCAATTACTCT
22117861 TTAAAGAGTTTTTATTAGGATTCAATTACTCT
1 TTAAAGAG-TTTTATTAGGATTCAATTACTCT
*
22117893 TGAAAGAGTTTTATTAGGATTCAATTACTCT
1 TTAAAGAGTTTTATTAGGATTCAATTACTCT
22117924 T
1 T
22117925 GTAATTTGCC
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 32 0.52
32 30 0.48
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (31 bp):
TTAAAGAGTTTTATTAGGATTCAATTACTCT
Found at i:22120030 original size:21 final size:20
Alignment explanation
Indices: 22119975--22120039 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
22119965 GGCTTATAAC
22119975 TTTTTTATATATTTT--TAGT
1 TTTTTTATATATTTTGCTA-T
22119994 TTGTTTTATA-ATTTTGCTAT
1 TT-TTTTATATATTTTGCTAT
*
22120014 TTTTTTATAATATTTTGCAAT
1 TTTTTTAT-ATATTTTGCTAT
22120035 TTTTT
1 TTTTT
22120040 AAACATTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
19 13 0.32
20 11 0.28
21 16 0.40
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (20 bp):
TTTTTTATATATTTTGCTAT
Found at i:22120057 original size:19 final size:19
Alignment explanation
Indices: 22120035--22120076 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
22120025 ATTTTGCAAT
22120035 TTTTTAAACATTTTTATAA
1 TTTTTAAACATTTTTATAA
* *
22120054 TTTTTAAATATTTTTATGA
1 TTTTTAAACATTTTTATAA
22120073 TTTT
1 TTTT
22120077 ATATAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTAAACATTTTTATAA
Found at i:22124451 original size:33 final size:33
Alignment explanation
Indices: 22124406--22124471 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
22124396 TTCTTGACTG
*
22124406 GTCAGCCGTGAGTTTGGACAAAGAGAAAAAACC
1 GTCAGCCATGAGTTTGGACAAAGAGAAAAAACC
22124439 GTCAGCCATGAGTTTGGACAAAGAGAAAAAACC
1 GTCAGCCATGAGTTTGGACAAAGAGAAAAAACC
22124472 TCTTGGCGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.15
Consensus pattern (33 bp):
GTCAGCCATGAGTTTGGACAAAGAGAAAAAACC
Found at i:22128398 original size:10 final size:10
Alignment explanation
Indices: 22128377--22128460 Score: 77
Period size: 10 Copynumber: 8.8 Consensus size: 10
22128367 TATGTGGCAA
22128377 AAAAATTA-T
1 AAAAATTATT
*
22128386 AAAAACTATT
1 AAAAATTATT
*
22128396 AAAAATCA-T
1 AAAAATTATT
22128405 AAAAATTATT
1 AAAAATTATT
* *
22128415 AAAATTTAGT
1 AAAAATTATT
*
22128425 AAAAAATA-T
1 AAAAATTATT
*
22128434 AAAAAAT-TT
1 AAAAATTATT
*
22128443 AAAATTTATT
1 AAAAATTATT
22128453 AAAAATTA
1 AAAAATTA
22128461 GAAAAAAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
9 29 0.48
10 31 0.52
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.33
Consensus pattern (10 bp):
AAAAATTATT
Found at i:22128418 original size:28 final size:28
Alignment explanation
Indices: 22128377--22128458 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
22128367 TATGTGGCAA
**
22128377 AAAAATTA-TAAAAACTATTAAAAATCAT
1 AAAAATTATTAAAATTTATTAAAAAT-AT
*
22128405 AAAAATTATTAAAATTTAGTAAAAAATAT
1 AAAAATTATTAAAATTTA-TTAAAAATAT
*
22128434 AAAAAAT-TTAAAATTTATTAAAAAT
1 AAAAATTATTAAAATTTATTAAAAAT
22128459 TAGAAAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.15
28 18 0.38
29 15 0.32
30 7 0.15
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.33
Consensus pattern (28 bp):
AAAAATTATTAAAATTTATTAAAAATAT
Found at i:22128438 original size:38 final size:39
Alignment explanation
Indices: 22128404--22128486 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 39
22128394 TTAAAAATCA
* * **
22128404 TAAAAATTATTAAAATTTAG-TAAAAAATATAAAAAATT
1 TAAAAATTATTAAAAATTAGAAAAAAAATATAAAAAAAG
* * *
22128442 TAAAATTTATTAAAAATTAGAAAAAAAATGTAAAAACAG
1 TAAAAATTATTAAAAATTAGAAAAAAAATATAAAAAAAG
22128481 TAAAAA
1 TAAAAA
22128487 AATTAGGGAC
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
38 18 0.50
39 18 0.50
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (39 bp):
TAAAAATTATTAAAAATTAGAAAAAAAATATAAAAAAAG
Found at i:22128465 original size:28 final size:28
Alignment explanation
Indices: 22128376--22128467 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 28
22128366 ATATGTGGCA
** *
22128376 AAAAAATTATAAAAACTATTAAAAATCAT
1 AAAAAATT-TAAAATTTATTAAAAATTAT
* * *
22128405 AAAAATTATTAAAATTTAGTAAAAAATAT
1 AAAAAAT-TTAAAATTTATTAAAAATTAT
*
22128434 AAAAAATTTAAAATTTATTAAAAATTAG
1 AAAAAATTTAAAATTTATTAAAAATTAT
22128462 AAAAAA
1 AAAAAA
22128468 AATGTAAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
28 24 0.46
29 27 0.52
30 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (28 bp):
AAAAAATTTAAAATTTATTAAAAATTAT
Found at i:22132257 original size:17 final size:17
Alignment explanation
Indices: 22132237--22132274 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
22132227 AAAAATTAAA
*
22132237 AAAACCTCA-AAAATTTT
1 AAAA-CTCAGAAAATTAT
22132254 AAAACTCAGAAAATTAT
1 AAAACTCAGAAAATTAT
22132271 AAAA
1 AAAA
22132275 AAATCATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.61, C:0.13, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAACTCAGAAAATTAT
Found at i:22137143 original size:34 final size:33
Alignment explanation
Indices: 22137076--22137170 Score: 102
Period size: 34 Copynumber: 2.8 Consensus size: 33
22137066 CTGAATCCTA
* *
22137076 AGGTTCAAGGTTTAAGATTTAAGGTTTATAGTTT
1 AGGTTCAAGGTTTAAGATTT-AGGGTTAGAGTTT
*
22137110 -GGATTCAGGGTTTAAGATTTAGGGTTACGAGTTT
1 AGG-TTCAAGGTTTAAGATTTAGGGTTA-GAGTTT
**
22137144 AAGGTTCAAGGTTCGAGATTTAGGGTT
1 -AGGTTCAAGGTTTAAGATTTAGGGTT
22137171 TAGGGTTCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
33 8 0.16
34 21 0.41
35 20 0.39
36 2 0.04
ACGTcount: A:0.26, C:0.05, G:0.29, T:0.39
Consensus pattern (33 bp):
AGGTTCAAGGTTTAAGATTTAGGGTTAGAGTTT
Found at i:22137145 original size:21 final size:20
Alignment explanation
Indices: 22137119--22137178 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
22137109 TGGATTCAGG
*
22137119 GTTTAAGATTTAGGGTTACGA
1 GTTTAAGGTTTAGGGTT-CGA
* *
22137140 GTTTAAGGTTCAAGGTTCGA
1 GTTTAAGGTTTAGGGTTCGA
*
22137160 GATTTAGGGTTTAGGGTTC
1 G-TTTAAGGTTTAGGGTTC
22137179 AAGATTCTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 4 0.12
21 28 0.88
ACGTcount: A:0.23, C:0.07, G:0.32, T:0.38
Consensus pattern (20 bp):
GTTTAAGGTTTAGGGTTCGA
Found at i:22137172 original size:28 final size:28
Alignment explanation
Indices: 22137140--22137197 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
22137130 AGGGTTACGA
* *
22137140 GTTTAAGGTTCAAGGTTCGAGATTTAGG
1 GTTTAAGGTTCAAGATTCGAGATTCAGG
* *
22137168 GTTTAGGGTTCAAGATTCTAGATTCAGG
1 GTTTAAGGTTCAAGATTCGAGATTCAGG
22137196 GT
1 GT
22137198 AAAAAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.24, C:0.09, G:0.31, T:0.36
Consensus pattern (28 bp):
GTTTAAGGTTCAAGATTCGAGATTCAGG
Found at i:22139524 original size:21 final size:22
Alignment explanation
Indices: 22139487--22139529 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
22139477 ATTGGTTTAT
*
22139487 AATTTATAATTATTTTTTGTTAA
1 AATTTATAA-TATTTTTAGTTAA
22139510 AATTTATAA-ATTTTTAGTTA
1 AATTTATAATATTTTTAGTTA
22139530 TTTATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
23 9 0.47
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (22 bp):
AATTTATAATATTTTTAGTTAA
Found at i:22144648 original size:15 final size:16
Alignment explanation
Indices: 22144618--22144648 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22144608 GGCATTATCA
22144618 TATTTGCCTGCAGCTT
1 TATTTGCCTGCAGCTT
22144634 TATTTGCCT-CAGCTT
1 TATTTGCCTGCAGCTT
22144649 CAACAAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.13, C:0.26, G:0.16, T:0.45
Consensus pattern (16 bp):
TATTTGCCTGCAGCTT
Found at i:22151191 original size:110 final size:110
Alignment explanation
Indices: 22150997--22151403 Score: 633
Period size: 110 Copynumber: 3.7 Consensus size: 110
22150987 TACTTCAAAA
* *
22150997 TTAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTG
1 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTG
*
22151062 TTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
65 CTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
* *
22151108 TTAAAAATTTTAAAATAAGGCAATGTTTTGAGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
1 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
*
22151173 TGGGTGTCTATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
66 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
* *
22151218 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGTCCTAAGGTGC
1 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
* *
22151283 TGGGTGTCGATTTTTCTCATTCAACCAAATAG-TTAAATATCC--C
66 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTT-AATATCCTTC
* * *
22151326 TTCAAAAATTTCAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTG
1 TT-AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTG
*
22151390 CTGGGTTTCGATTT
65 CTGGGTGTCGATTT
22151404 CTCATTTATC
Statistics
Matches: 277, Mismatches: 17, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
108 30 0.11
109 44 0.16
110 169 0.61
111 34 0.12
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (110 bp):
TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
Found at i:22155257 original size:20 final size:20
Alignment explanation
Indices: 22155232--22155272 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
22155222 CCCTCCTCTA
22155232 AATATAATTGAAATTAATTT
1 AATATAATTGAAATTAATTT
22155252 AATATAATTGAAATTAATTT
1 AATATAATTGAAATTAATTT
22155272 A
1 A
22155273 CTTAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AATATAATTGAAATTAATTT
Found at i:22155269 original size:10 final size:11
Alignment explanation
Indices: 22155231--22155270 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
22155221 TCCCTCCTCT
22155231 AAATATAATTG
1 AAATATAATTG
22155242 AAAT-TAATT-
1 AAATATAATTG
*
22155251 TAATATAATTG
1 AAATATAATTG
22155262 AAAT-TAATT
1 AAATATAATT
22155271 TACTTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 3 0.12
10 15 0.60
11 7 0.28
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (11 bp):
AAATATAATTG
Found at i:22158981 original size:112 final size:116
Alignment explanation
Indices: 22158781--22159083 Score: 354
Period size: 122 Copynumber: 2.6 Consensus size: 116
22158771 AAAATTCAAG
* * * * * * **
22158781 AGGATATTTGGCAATTTGGTTTAAACGAG--AAATCGAAATCCAGCACCTTAGGACACGTCCCTC
1 AGGATATTTAGCCATTTGGTTT-AACGAGAAAAATCGACACCCAGCACCTTAGGGCACTTTTCTC
**
22158844 GAATTT-CCAAACGCAAAACATTGCCTTA-TTT-CGA-A-TTT-TTTTTTAA
65 GAATTTCCCAAACGCAAAACATTGCCTTATTTTAAAATATTTTATTTTTTAA
22158890 AGGATATTTAGCCATTTGGTTTAACGAGAAAAATCGACACCCAGCACCTTAGGGCACTTTTTCTC
1 AGGATATTTAGCCATTTGGTTTAACGAGAAAAATCGACACCCAGCACCTTAGGGCAC-TTTTCTC
22158955 GAATTTCCCAAACGCAAAACATTGCCTTATTTTTAAAATTATTTTAAAATTTTTTAA
65 GAATTTCCCAAACGCAAAACATTGCCTTA-TTTTAAAA-TATTTT---ATTTTTTAA
* *
22159012 AGGATATTAAGCCATTTGG-TTAAGCGAGAAAAATCGACACTCAGCACCTTAGGGCACGTTTTCT
1 AGGATATTTAGCCATTTGGTTTAA-CGAGAAAAATCGACACCCAGCACCTTAGGGCAC-TTTTCT
22159076 CGAATTTC
64 CGAATTTC
22159084 TAAACGCTAA
Statistics
Matches: 166, Mismatches: 13, Indels: 17
0.85 0.07 0.09
Matches are distributed among these distances:
108 6 0.04
109 20 0.12
110 24 0.14
111 10 0.06
112 22 0.13
114 3 0.02
115 1 0.01
117 1 0.01
118 3 0.02
121 4 0.02
122 72 0.43
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (116 bp):
AGGATATTTAGCCATTTGGTTTAACGAGAAAAATCGACACCCAGCACCTTAGGGCACTTTTCTCG
AATTTCCCAAACGCAAAACATTGCCTTATTTTAAAATATTTTATTTTTTAA
Found at i:22159115 original size:122 final size:123
Alignment explanation
Indices: 22158882--22159122 Score: 353
Period size: 122 Copynumber: 2.0 Consensus size: 123
22158872 TTTCGAATTT
*
22158882 TTTTTTAAAGGATATTTAGCCATTTGGTTTAACGAGAAAAATCGACACCCAGCACCTTAGGGCAC
1 TTTTTTAAAGGATATTAAGCCATTTGGTTTAACGAGAAAAATCGACACCCAGCACCTTAGGGCAC
* * **
22158947 TTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTTAAAA-TTATTTTAAAA
66 GTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTCATTTGAAAAATTTATTTTAAAA
*
22159004 TTTTTTAAAGGATATTAAGCCATTTGG-TTAAGCGAGAAAAATCGACACTCAGCACCTTAGGGCA
1 TTTTTTAAAGGATATTAAGCCATTTGGTTTAA-CGAGAAAAATCGACACCCAGCACCTTAGGGCA
* * * *
22159068 CGTTTTCTCGAATTT-CTAAACGCTAAATATTGTCTCATTTAGAAAAATTTATTTT
65 CGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTCATTT-GAAAAATTTATTTT
22159123 TGAAGTATGG
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
121 24 0.23
122 75 0.71
123 7 0.07
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (123 bp):
TTTTTTAAAGGATATTAAGCCATTTGGTTTAACGAGAAAAATCGACACCCAGCACCTTAGGGCAC
GTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTCATTTGAAAAATTTATTTTAAAA
Found at i:22159623 original size:13 final size:13
Alignment explanation
Indices: 22159600--22159632 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
22159590 TATATGAATC
22159600 ATAAA-ATATAAA
1 ATAAATATATAAA
*
22159612 ATACATATATAAA
1 ATAAATATATAAA
22159625 ATAAATAT
1 ATAAATAT
22159633 TTTAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAAATATATAAA
Found at i:22160373 original size:12 final size:12
Alignment explanation
Indices: 22160355--22160389 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
22160345 TTTATATTTC
22160355 GAAATAAAAAAA
1 GAAATAAAAAAA
* *
22160367 TAAATAAAAAAC
1 GAAATAAAAAAA
22160379 GAAATAAAAAA
1 GAAATAAAAAA
22160390 GAGTGACCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.80, C:0.03, G:0.06, T:0.11
Consensus pattern (12 bp):
GAAATAAAAAAA
Found at i:22168329 original size:17 final size:17
Alignment explanation
Indices: 22168289--22168339 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
22168279 GCTGCCTCAA
* * *
22168289 GTGTTGGGCCGCTGTTG
1 GTGTTGGGCAGTTGCTG
22168306 G-GTTGGGCAGTTGCTG
1 GTGTTGGGCAGTTGCTG
*
22168322 GTGTTGGGCTGTTGCTG
1 GTGTTGGGCAGTTGCTG
22168339 G
1 G
22168340 ACGGGCCTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 13 0.45
17 16 0.55
ACGTcount: A:0.02, C:0.14, G:0.49, T:0.35
Consensus pattern (17 bp):
GTGTTGGGCAGTTGCTG
Found at i:22168415 original size:14 final size:14
Alignment explanation
Indices: 22168396--22168441 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
22168386 GCCTCTACTA
22168396 GGTCTGCTGGATTG
1 GGTCTGCTGGATTG
22168410 GGTCTGCT--A---
1 GGTCTGCTGGATTG
22168419 GGTCTGCTGGATTG
1 GGTCTGCTGGATTG
22168433 GGTCTGCTG
1 GGTCTGCTG
22168442 AGTCTGCTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
9 8 0.30
11 1 0.04
12 1 0.04
14 17 0.63
ACGTcount: A:0.07, C:0.17, G:0.41, T:0.35
Consensus pattern (14 bp):
GGTCTGCTGGATTG
Found at i:22168423 original size:23 final size:23
Alignment explanation
Indices: 22168372--22168450 Score: 115
Period size: 23 Copynumber: 3.3 Consensus size: 23
22168362 CGCTGCTGGA
*
22168372 GTCTGCTGGATTGGGCCTCTACTAG
1 GTCTGCTGGATTGGG--TCTGCTAG
22168397 GTCTGCTGGATTGGGTCTGCTAG
1 GTCTGCTGGATTGGGTCTGCTAG
22168420 GTCTGCTGGATTGGGTCTGCT-G
1 GTCTGCTGGATTGGGTCTGCTAG
22168442 AGTCTGCTG
1 -GTCTGCTG
22168451 TATTTGGTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
22 1 0.02
23 36 0.69
25 15 0.29
ACGTcount: A:0.09, C:0.20, G:0.37, T:0.34
Consensus pattern (23 bp):
GTCTGCTGGATTGGGTCTGCTAG
Found at i:22168463 original size:23 final size:24
Alignment explanation
Indices: 22168364--22168464 Score: 111
Period size: 23 Copynumber: 4.2 Consensus size: 24
22168354 TATTGGGCCG
22168364 CTGCTG-GAGTCTGCTGGATTGGGCCT
1 CTGCTGAG-GTCTGCTGGATTGGG--T
*
22168390 CTACT-AGGTCTGCTGGATTGGGT
1 CTGCTGAGGTCTGCTGGATTGGGT
22168413 CTGCT-AGGTCTGCTGGATTGGGT
1 CTGCTGAGGTCTGCTGGATTGGGT
* *
22168436 CTGCTGA-GTCTGCTGTATTTGGT
1 CTGCTGAGGTCTGCTGGATTGGGT
*
22168459 TTGCTG
1 CTGCTG
22168465 GATTGGGCCT
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
23 47 0.69
24 1 0.01
25 15 0.22
26 5 0.07
ACGTcount: A:0.09, C:0.19, G:0.36, T:0.37
Consensus pattern (24 bp):
CTGCTGAGGTCTGCTGGATTGGGT
Found at i:22169396 original size:29 final size:29
Alignment explanation
Indices: 22169315--22169405 Score: 121
Period size: 30 Copynumber: 3.1 Consensus size: 29
22169305 GATACAACAC
*
22169315 AATTTTAGAAAAAGTGGGGGCTAAAAATGT
1 AATTTTAGAAAAAGTGGGGGC-CAAAATGT
* *
22169345 AATTTTAGAAAAAATAGGAGGCCAAAATGT
1 AATTTTAGAAAAAGT-GGGGGCCAAAATGT
22169375 AATTTTA-AAAAAGTGGGGGGCCAAAATGT
1 AATTTTAGAAAAAGT-GGGGGCCAAAATGT
22169404 AA
1 AA
22169406 ATAGTATTCT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
29 21 0.39
30 28 0.52
31 5 0.09
ACGTcount: A:0.46, C:0.05, G:0.24, T:0.24
Consensus pattern (29 bp):
AATTTTAGAAAAAGTGGGGGCCAAAATGT
Found at i:22170117 original size:75 final size:76
Alignment explanation
Indices: 22169994--22170450 Score: 598
Period size: 76 Copynumber: 6.0 Consensus size: 76
22169984 TAAAAGACTA
* * * *
22169994 AAATTTAAAATACCTCGACGTGCAATCCGAAGCTCAACTCACCTATCGGATTATGAGTTGA-TCT
1 AAATTGAAAATACCTCGACGTGCAACCCGAGGCTCAACTCACCTATCGGATTATGAGTTGATTTT
22170058 TTGAAAAATAG
66 TTGAAAAATAG
* * *
22170069 AAATTAAAAATACCTCGATGTGCGACCCGAGGCTCAACTCACCTATCGGATTATGAGTTGATTTT
1 AAATTGAAAATACCTCGACGTGCAACCCGAGGCTCAACTCACCTATCGGATTATGAGTTGATTTT
*
22170134 TTGAAAAACAG
66 TTGAAAAATAG
* * ** *
22170145 AAACTGAAAATAGCTC-AGCGTGCAACTTGAGGCTCAACTCACCTATCGGATTATGAGTTTATTT
1 AAATTGAAAATACCTCGA-CGTGCAACCCGAGGCTCAACTCACCTATCGGATTATGAGTTGATTT
22170209 TTTGAAAAATAG
65 TTTGAAAAATAG
* * ** * *
22170221 AAGTTGAAAATATCTCGGTGTGCAACCCGAGGCTCAACTCACCTCTCGAATTATGAGTTGATTTT
1 AAATTGAAAATACCTCGACGTGCAACCCGAGGCTCAACTCACCTATCGGATTATGAGTTGA-TTT
22170286 TTTGAAAAATAG
65 TTTGAAAAATAG
* * * * * *
22170298 AAGTTGAAAATACCTCGGCGTGCGACCCGAAGCTCAACTCACCTATTGGATTATGAGTTGA-TAT
1 AAATTGAAAATACCTCGACGTGCAACCCGAGGCTCAACTCACCTATCGGATTATGAGTTGATTTT
22170362 TTGAAAAATAG
66 TTGAAAAATAG
* * * * *
22170373 AAATTGAAAATACCTCGATGTGCAACCCAAGGCTCAACTCATCTCTCAGATTATGAGTTGATTTT
1 AAATTGAAAATACCTCGACGTGCAACCCGAGGCTCAACTCACCTATCGGATTATGAGTTGATTTT
22170438 TTGAAAAA-AG
66 TTGAAAAATAG
22170448 AAA
1 AAA
22170451 AAAGAAATAA
Statistics
Matches: 332, Mismatches: 45, Indels: 10
0.86 0.12 0.03
Matches are distributed among these distances:
75 126 0.38
76 137 0.41
77 69 0.21
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (76 bp):
AAATTGAAAATACCTCGACGTGCAACCCGAGGCTCAACTCACCTATCGGATTATGAGTTGATTTT
TTGAAAAATAG
Found at i:22182619 original size:17 final size:16
Alignment explanation
Indices: 22182572--22182619 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
22182562 GCCTCAAGTT
*
22182572 TTGGGCCGTTGCTGGG
1 TTGGGCAGTTGCTGGG
* *
22182588 TTGGGCAGCTACTGGTG
1 TTGGGCAGTTGCTGG-G
*
22182605 TTGGGCTGTTGCTGG
1 TTGGGCAGTTGCTGG
22182620 ACGGGTCTCC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.04, C:0.17, G:0.46, T:0.33
Consensus pattern (16 bp):
TTGGGCAGTTGCTGGG
Found at i:22182674 original size:16 final size:16
Alignment explanation
Indices: 22182653--22182684 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22182643 ACTGCTGGAG
22182653 TCTATTGGATTGGGCC
1 TCTATTGGATTGGGCC
22182669 TCTATTGGATTGGGCC
1 TCTATTGGATTGGGCC
22182685 GCTGCTGGAG
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:0.12, C:0.19, G:0.31, T:0.38
Consensus pattern (16 bp):
TCTATTGGATTGGGCC
Found at i:22182747 original size:14 final size:14
Alignment explanation
Indices: 22182726--22182760 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
22182716 GGTCTGTTGA
22182726 GCCTGCTAGATTGG
1 GCCTGCTAGATTGG
*
22182740 GTCTGCTAGATTGG
1 GCCTGCTAGATTGG
22182754 GCCTGCT
1 GCCTGCT
22182761 GCTATTGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.11, C:0.23, G:0.34, T:0.31
Consensus pattern (14 bp):
GCCTGCTAGATTGG
Found at i:22183481 original size:30 final size:28
Alignment explanation
Indices: 22183433--22183527 Score: 118
Period size: 30 Copynumber: 3.2 Consensus size: 28
22183423 CAAGGCTAAG
*
22183433 ATGTAATTTTTGAAAAAGTAGGGGGCAAA
1 ATGTAATTTTAGAAAAAGT-GGGGGCAAA
*
22183462 ATGTAATTTTAGAAAAAAGTGAGGGCCAAA
1 ATGTAATTTTAG-AAAAAGTG-GGGGCAAA
*
22183492 ATATAATTTTAGAAAAAGTGGAGGGCCAAA
1 ATGTAATTTTAGAAAAAGTGG-GGG-CAAA
22183522 ATGTAA
1 ATGTAA
22183528 ATAGTATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.02
29 22 0.39
30 34 0.60
ACGTcount: A:0.45, C:0.05, G:0.24, T:0.25
Consensus pattern (28 bp):
ATGTAATTTTAGAAAAAGTGGGGGCAAA
Found at i:22199399 original size:3 final size:3
Alignment explanation
Indices: 22199391--22199427 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
22199381 GGGTTTAGTA
*
22199391 ATG ATG ATG GTG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
22199428 AGGGAAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:22203506 original size:6 final size:6
Alignment explanation
Indices: 22203497--22203521 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22203487 GCAATAACGG
22203497 ATTAGA ATTAGA ATTAGA ATTAGA A
1 ATTAGA ATTAGA ATTAGA ATTAGA A
22203522 CTAAATCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (6 bp):
ATTAGA
Found at i:22204309 original size:6 final size:6
Alignment explanation
Indices: 22204298--22204372 Score: 141
Period size: 6 Copynumber: 12.5 Consensus size: 6
22204288 GCGACAATCA
*
22204298 TATATG TATATG TATATG TATATG TATATG TATATG TGTATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
22204346 TATATG TATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TATATG TAT
22204373 TTATGTATTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:22207260 original size:6 final size:6
Alignment explanation
Indices: 22207251--22207277 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
22207241 TAGCAATAAC
22207251 GAATTA GAATTA GAATTA GAATTA GAA
1 GAATTA GAATTA GAATTA GAATTA GAA
22207278 CTAAATCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.30
Consensus pattern (6 bp):
GAATTA
Found at i:22208620 original size:17 final size:17
Alignment explanation
Indices: 22208598--22208630 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22208588 ATATTTTTTA
22208598 TTTTTAATCAAATATAG
1 TTTTTAATCAAATATAG
*
22208615 TTTTTAATTAAATATA
1 TTTTTAATCAAATATA
22208631 TATATTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (17 bp):
TTTTTAATCAAATATAG
Found at i:22208633 original size:21 final size:21
Alignment explanation
Indices: 22208576--22208636 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
22208566 ACCCAAATTA
22208576 TATATTAAATATATAT-TTTT
1 TATATTAAATATATATATTTT
* * *
22208596 TATTTTTAATCAAATATAGTTTT
1 TATATTAAAT-ATATATA-TTTT
22208619 TA-ATTAAATATATATATT
1 TATATTAAATATATATATT
22208637 AAATATATAC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
20 10 0.31
21 11 0.34
22 5 0.16
23 6 0.19
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TATATTAAATATATATATTTT
Found at i:22208639 original size:13 final size:13
Alignment explanation
Indices: 22208621--22208645 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22208611 ATAGTTTTTA
22208621 ATTAAATATATAT
1 ATTAAATATATAT
22208634 ATTAAATATATA
1 ATTAAATATATA
22208646 CTTTTTTGGA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTAAATATATAT
Found at i:22211633 original size:22 final size:22
Alignment explanation
Indices: 22211597--22211656 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
22211587 GGCCCGGCCC
22211597 ATTT-TTTTAATAAATACT-AAAA
1 ATTTATTTTAA-AAATA-TAAAAA
22211619 ATTTATTTTAAAAAT-TAAAAA
1 ATTTATTTTAAAAATATAAAAA
**
22211640 AAGTATTTTAAAAATAT
1 ATTTATTTTAAAAATAT
22211657 TTTAAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 17 0.52
22 9 0.27
23 6 0.18
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTTATTTTAAAAATATAAAAA
Found at i:22211669 original size:17 final size:17
Alignment explanation
Indices: 22211647--22211680 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22211637 AAAAAGTATT
*
22211647 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTTAAAA
22211664 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
22211681 AGTATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:22211687 original size:12 final size:11
Alignment explanation
Indices: 22211637--22211698 Score: 62
Period size: 11 Copynumber: 5.9 Consensus size: 11
22211627 TAAAAATTAA
22211637 AAAAAGTATTTT
1 AAAAA-TATTTT
22211649 AAAAATATTTT
1 AAAAATATTTT
22211660 --AAA-A--TT
1 AAAAATATTTT
*
22211666 AAAAAAATTTT
1 AAAAATATTTT
22211677 AAAAAGTATTTT
1 AAAAA-TATTTT
22211689 AAAAATATTT
1 AAAAATATTT
22211699 CGGGCCGGGC
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
6 2 0.05
8 4 0.09
9 4 0.09
11 18 0.42
12 15 0.35
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Done.