Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 62 of 210
Found at i:21923842 original size:21 final size:22
Alignment explanation
Indices: 21923818--21923864 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
21923808 ATGAAATAAT
* *
21923818 TTTTTATTT-ATGACTTTTAAA
1 TTTTTATTTGATAAATTTTAAA
*
21923839 -TTTTATTTGATAAATTTTTAA
1 TTTTTATTTGATAAATTTTAAA
21923860 TTTTT
1 TTTTT
21923865 TATAAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 8 0.38
21 9 0.43
22 4 0.19
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (22 bp):
TTTTTATTTGATAAATTTTAAA
Found at i:21923857 original size:22 final size:20
Alignment explanation
Indices: 21923832--21923879 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
21923822 TATTTATGAC
21923832 TTTTAAATTTTATTTGATAAAT-
1 TTTTAAA-TTT-TTT-ATAAATA
21923854 TTTT-AATTTTTTATAAATA
1 TTTTAAATTTTTTATAAATA
21923873 TTTTAAA
1 TTTTAAA
21923880 ACAATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 6 0.25
19 7 0.29
20 5 0.21
21 2 0.08
22 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTAAATTTTTTATAAATA
Found at i:21925576 original size:20 final size:20
Alignment explanation
Indices: 21925545--21925582 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
21925535 AAAATATTTT
21925545 TATTTTTTTATTT-TTAACA
1 TATTTTTTTATTTATTAACA
21925564 TATTTTTTGTATTTATTAA
1 TATTTTTT-TATTTATTAA
21925583 AAATCGGGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 5 0.29
21 4 0.24
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (20 bp):
TATTTTTTTATTTATTAACA
Found at i:21925578 original size:24 final size:25
Alignment explanation
Indices: 21925531--21925580 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
21925521 TTTAAAATAC
* *
21925531 TTTTAAAATATTTTTATTTTTTTAT
1 TTTTAAAATATTTTTATGTATTTAT
*
21925556 TTTTAACATATTTTT-TGTATTTAT
1 TTTTAAAATATTTTTATGTATTTAT
21925580 T
1 T
21925581 AAAAATCGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTTAAAATATTTTTATGTATTTAT
Found at i:21934024 original size:19 final size:18
Alignment explanation
Indices: 21933981--21934024 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
21933971 TATTATATTT
*
21933981 AAAAAATTATAAGATATT
1 AAAAAATTATAAGATATC
*
21933999 AATAAAATTAATAAGGTATC
1 AA-AAAATT-ATAAGATATC
21934019 AAAAAA
1 AAAAAA
21934025 AATATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 10 0.45
20 10 0.45
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (18 bp):
AAAAAATTATAAGATATC
Found at i:21934025 original size:20 final size:19
Alignment explanation
Indices: 21933981--21934025 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
21933971 TATTATATTT
*
21933981 AAAAAATTATAAGATATTA
1 AAAAAATTATAAGATATCA
* *
21934000 ATAAAATTAATAAGGTATCA
1 AAAAAATT-ATAAGATATCA
21934020 AAAAAA
1 AAAAAA
21934026 ATATTTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (19 bp):
AAAAAATTATAAGATATCA
Found at i:21936186 original size:1 final size:1
Alignment explanation
Indices: 21936180--21936212 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
21936170 CTCCAATTCC
21936180 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
21936213 TCATGTTAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:21938478 original size:21 final size:21
Alignment explanation
Indices: 21938452--21938531 Score: 106
Period size: 21 Copynumber: 3.8 Consensus size: 21
21938442 GGGATACGAT
* * *
21938452 GAAGGTGGCGGAGGGTATGCG
1 GAAGGTGGTGGAGGGTAAGCC
21938473 GAAGGTGGTGGAGGGTAAGCC
1 GAAGGTGGTGGAGGGTAAGCC
* *
21938494 GAATGTGGTGGAGGATAAGCC
1 GAAGGTGGTGGAGGGTAAGCC
*
21938515 GAAGGTGGAGGAGGGTA
1 GAAGGTGGTGGAGGGTA
21938532 TGCAGATGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.25, C:0.07, G:0.53, T:0.15
Consensus pattern (21 bp):
GAAGGTGGTGGAGGGTAAGCC
Found at i:21939653 original size:69 final size:69
Alignment explanation
Indices: 21939539--21939675 Score: 202
Period size: 69 Copynumber: 2.0 Consensus size: 69
21939529 CCGCTAGAGA
* * * **
21939539 TTATTCATCGAAACATATCTCATCCTAGTACATGCAAAAAATGACAATTCGATTTTGGTTTTCGA
1 TTATTCATCAAAACATATCTCACCCTAGTACATGCAAAAAATGACAATTCAATTTCAGTTTTCGA
21939604 TTTG
66 TTTG
* * *
21939608 TTATTCATCAAAACATATCTTACCCTAGTGCATGCAAAAAGTGACAATTCAATTTCAGTTTTCGA
1 TTATTCATCAAAACATATCTCACCCTAGTACATGCAAAAAATGACAATTCAATTTCAGTTTTCGA
21939673 TTT
66 TTT
21939676 TTTTACCTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (69 bp):
TTATTCATCAAAACATATCTCACCCTAGTACATGCAAAAAATGACAATTCAATTTCAGTTTTCGA
TTTG
Found at i:21940433 original size:2 final size:2
Alignment explanation
Indices: 21940426--21940455 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21940416 CATGCATTCG
21940426 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21940456 ATGCTGAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21949180 original size:102 final size:102
Alignment explanation
Indices: 21948834--21949167 Score: 329
Period size: 100 Copynumber: 3.3 Consensus size: 102
21948824 CCAAATAACA
* * * * *
21948834 AAATTATCTGCTTAACACTTTGATTGGTAGCTAATTAACAAATGATAGTCACTGATTTTTCGCTC
1 AAATTATCTGCTTATCACTCTGATTAGTAGCTAATTAACAAATTATAGTCACTGATTTTTCACTC
* *
21948899 TAGAGATCAAAAGACTACATTCAATTGTGGAATAAAC
66 TAGAGATCAAAAGACTAAATTCAATCGTGGAATAAAC
* * *
21948936 AAA--ATCTGCTTATCACTCTGATTATTAGCTAATTAA-AAATTAATAATCACTGATTTTTCAAT
1 AAATTATCTGCTTATCACTCTGATTAGTAGCTAATTAACAAATT-ATAGTCACTGATTTTTCACT
* ** * * * ***
21948998 CTAAATTTACAATTAA-ATCACAAATTTAGCTC-CCAAAT-AAC
65 CTAGAGAT-CAA--AAGA-C-TAAATTCA-ATCGTGGAATAAAC
* * * * *
21949039 AAAATTATCTGCTTAGCACTCTGATTGGTAGCTAATTAACAAGTTACAGTCACTGATTCTTCACT
1 -AAATTATCTGCTTATCACTCTGATTAGTAGCTAATTAACAAATTATAGTCACTGATTTTTCACT
21949104 CTAGAGATCAAAAGACTAAATTCAATCGTGGAATAAAC
65 CTAGAGATCAAAAGACTAAATTCAATCGTGGAATAAAC
*
21949142 AAATTATCTGCTTATCACTTTGATTA
1 AAATTATCTGCTTATCACTCTGATTA
21949168 CTGGCAAATT
Statistics
Matches: 179, Mismatches: 39, Indels: 28
0.73 0.16 0.11
Matches are distributed among these distances:
99 4 0.02
100 51 0.28
101 5 0.03
102 36 0.20
103 12 0.07
104 12 0.07
105 4 0.02
106 51 0.28
107 4 0.02
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (102 bp):
AAATTATCTGCTTATCACTCTGATTAGTAGCTAATTAACAAATTATAGTCACTGATTTTTCACTC
TAGAGATCAAAAGACTAAATTCAATCGTGGAATAAAC
Found at i:21949195 original size:102 final size:102
Alignment explanation
Indices: 21948834--21949208 Score: 328
Period size: 102 Copynumber: 3.7 Consensus size: 102
21948824 CCAAATAACA
* * * * * * *
21948834 AAATTATCTGCTTAACACTTTGATTGGTAGCTAATTAACAAATGATAGTCACTGATTTTTCGCTC
1 AAATTATCTGCTTATCACTCTGATTAGTAGCTAATTAACAAGTAATAATCACTGATTTTTCACTC
* *
21948899 TAGAGATCAAAAGACTACATTCAATTGTGGAATAAAC
66 TAGAGATCAAAAGACTAAATTCAATCGTGGAATAAAC
* * * *
21948936 AAA--ATCTGCTTATCACTCTGATTATTAGCTAATTAAAAATTAATAATCACTGATTTTTCAATC
1 AAATTATCTGCTTATCACTCTGATTAGTAGCTAATTAACAAGTAATAATCACTGATTTTTCACTC
* ** * * * ***
21948999 TAAATTTACAATTAA-ATCACAAATTTAGCTC-CCAAAT-AAC
66 TAGAGAT-CAA--AAGA-C-TAAATTCA-ATCGTGGAATAAAC
* * * * * *
21949039 AAAATTATCTGCTTAGCACTCTGATTGGTAGCTAATTAACAAGTTACAGTCACTGATTCTTCACT
1 -AAATTATCTGCTTATCACTCTGATTAGTAGCTAATTAACAAGTAATAATCACTGATTTTTCACT
21949104 CTAGAGATCAAAAGACTAAATTCAATCGTGGAATAAAC
65 CTAGAGATCAAAAGACTAAATTCAATCGTGGAATAAAC
* * * * * * * *
21949142 AAATTATCTGCTTATCACTTTGATTACTGGCAAATTAACGAGTAATAACCACTGATTTGTCGCTC
1 AAATTATCTGCTTATCACTCTGATTAGTAGCTAATTAACAAGTAATAATCACTGATTTTTCACTC
21949207 TA
66 TA
21949209 AAATATCAAA
Statistics
Matches: 207, Mismatches: 54, Indels: 24
0.73 0.19 0.08
Matches are distributed among these distances:
100 54 0.26
101 5 0.02
102 66 0.32
103 12 0.06
104 12 0.06
105 4 0.02
106 54 0.26
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.34
Consensus pattern (102 bp):
AAATTATCTGCTTATCACTCTGATTAGTAGCTAATTAACAAGTAATAATCACTGATTTTTCACTC
TAGAGATCAAAAGACTAAATTCAATCGTGGAATAAAC
Found at i:21952345 original size:21 final size:22
Alignment explanation
Indices: 21952321--21952363 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
21952311 GGGCTGGGGT
21952321 ATTGGGTTTAG-GTTTAGGCTA
1 ATTGGGTTTAGTGTTTAGGCTA
*
21952342 ATTGGGTTTAGTGTTTGGGCTA
1 ATTGGGTTTAGTGTTTAGGCTA
21952364 GGTTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.16, C:0.05, G:0.35, T:0.44
Consensus pattern (22 bp):
ATTGGGTTTAGTGTTTAGGCTA
Found at i:21957265 original size:19 final size:19
Alignment explanation
Indices: 21957241--21957287 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
21957231 TACTCGTTCA
21957241 TTTATAAAT-TTGTATGTA-T
1 TTTATAAATCTT-T-TGTACT
21957260 TTTATACAATCTTTTGTACT
1 TTTATA-AATCTTTTGTACT
21957280 TTTATAAA
1 TTTATAAA
21957288 AAATATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 12 0.48
20 11 0.44
21 2 0.08
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (19 bp):
TTTATAAATCTTTTGTACT
Found at i:21962764 original size:96 final size:96
Alignment explanation
Indices: 21962632--21962839 Score: 258
Period size: 96 Copynumber: 2.2 Consensus size: 96
21962622 GATGGCGGCG
* * * * *
21962632 CCACCGCTTATGAAGTTGGTCAATTCTTCACGCAGGAGGAAGATATTTATAACCTAAAT-AGCGT
1 CCACAGCTTTTGAAGGTGGTCAATTCTTCACGCAGGAGGAAAATATTTATAACC-AAATCAACGT
*
21962696 TCTAAATTCTACAGTTGCTTCGAACATCGACG-
65 TCTAAATTCCACAGTTGCTTCGAACATCGA-GA
* * * * *
21962728 TCACAGCTTTTGAAGGTGGTCAGTTCTTCACGCAGGAGGAAAATATTTATGATCAAATCAATGTT
1 CCACAGCTTTTGAAGGTGGTCAATTCTTCACGCAGGAGGAAAATATTTATAACCAAATCAACGTT
* *
21962793 CTAAGTTCCACGGTTGCTTCGAACATCGAGA
66 CTAAATTCCACAGTTGCTTCGAACATCGAGA
*
21962824 CCACCGCTTTTGAAGG
1 CCACAGCTTTTGAAGG
21962840 AGGTGAAACC
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
95 5 0.05
96 90 0.95
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (96 bp):
CCACAGCTTTTGAAGGTGGTCAATTCTTCACGCAGGAGGAAAATATTTATAACCAAATCAACGTT
CTAAATTCCACAGTTGCTTCGAACATCGAGA
Found at i:21965845 original size:12 final size:12
Alignment explanation
Indices: 21965824--21965853 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21965814 TCACCGTTAG
*
21965824 TATATTCATATA
1 TATATACATATA
21965836 TATATACATATA
1 TATATACATATA
21965848 TATATA
1 TATATA
21965854 TAATATCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATACATATA
Found at i:21968116 original size:17 final size:17
Alignment explanation
Indices: 21968081--21968112 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
21968071 TAAATTCTAC
21968081 AAATATTTAAAATATTT
1 AAATATTTAAAATATTT
21968098 AAATA-TT-AAATATTT
1 AAATATTTAAAATATTT
21968113 TTAATTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.53
16 2 0.13
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATATTTAAAATATTT
Found at i:21976569 original size:30 final size:32
Alignment explanation
Indices: 21976531--21976605 Score: 91
Period size: 30 Copynumber: 2.4 Consensus size: 32
21976521 TACATGCATA
*
21976531 TATATATATATAGGTTAATCCTAGAGATT-TC
1 TATATATATATAGGTTAATCCTAGACATTGTC
* * *
21976562 T-TATATATACATGTTTATCCTAGACATTGTC
1 TATATATATATAGGTTAATCCTAGACATTGTC
21976593 TATATAATATATA
1 TATAT-ATATATA
21976606 TATGTCTTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 23 0.64
31 4 0.11
32 3 0.08
33 6 0.17
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (32 bp):
TATATATATATAGGTTAATCCTAGACATTGTC
Found at i:21977955 original size:238 final size:239
Alignment explanation
Indices: 21977403--21977956 Score: 776
Period size: 239 Copynumber: 2.3 Consensus size: 239
21977393 CTTTACCATT
*
21977403 ATACTTCTAATGTGCTTATCTTTTGGATATGTTAGGTATAAATGAACCCGATATTCCCCCTTCAA
1 ATACTTCTAATGTGCTTATCTTTTGGATATGTTAGGTATAAATGAACCTGATATTCCCCCTTCAA
* *
21977468 ACCGTTGAATATGTTACTAGTCCAAAGTGGGTTCTAGTTAAATGCGATATTTCCTGTGAATTACT
66 ACTGTTGAATATGTTACTAATCCAAAGTGGGTTCTAGTTAAATGCGATATTTCCTGTGAATTACT
* * * *
21977533 CTTAGAAGGTATGATCCATGGACAATAAACTCGATGGTGCTTCAACAACAACATGTTTCCGAGCA
131 CTTAGAAGCTATAATCCATGGACAATAAACTCAATGGTGCTTCAACAACAACATGTTTCCAAGCA
* * *
21977598 TCTAGGCTCATTGACATGGCTTTACTGTTATAAGATTCTAACGC
196 TCTAGGCTCATTGACATGGCTTGACCGTTATAAGATTCTAACAC
* * * * *
21977642 ATACTTCTAATGTACTTCTCTTTCGGATATGTTCGGAATAAATGAACCTGATATTCCCCCTTCAA
1 ATACTTCTAATGTGCTTATCTTTTGGATATGTTAGGTATAAATGAACCTGATATTCCCCCTTCAA
* * * *
21977707 ACTGTTGAATATGTT-CATAATCCGACGTGGGTTCTAGTTAAATGTGATATTTGCTGTG-ATTAC
66 ACTGTTGAATATGTTAC-TAATCCAAAGTGGGTTCTAGTTAAATGCGATATTTCCTGTGAATTAC
*
21977770 TCTTAGAAGCTATAATCTATGGACAATAAACTCAATGTGATGCTTCAACGAA-AACATG-TTCCA
130 TCTTAGAAGCTATAATCCATGGACAATAAACTCAATG-G-TGCTTCAAC-AACAACATGTTTCCA
* * *
21977833 AGCATCTAGGCTCGTTGACGTGGCTTGACCGTTATGAGATT-TAACAC
192 AGCATCTAGGCTCATTGACATGGCTTGACCGTTATAAGATTCTAACAC
* * * * *
21977880 ATACTTCTAATGTGCTTTTCTTTTGGACATGTTTGGTATAAATGAACCTGATATTCCCCCATCGA
1 ATACTTCTAATGTGCTTATCTTTTGGATATGTTAGGTATAAATGAACCTGATATTCCCCCTTCAA
*
21977945 ACTATTGAATAT
66 ACTGTTGAATAT
21977957 TGGTGTAAAA
Statistics
Matches: 279, Mismatches: 32, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
238 112 0.40
239 150 0.54
240 15 0.05
241 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (239 bp):
ATACTTCTAATGTGCTTATCTTTTGGATATGTTAGGTATAAATGAACCTGATATTCCCCCTTCAA
ACTGTTGAATATGTTACTAATCCAAAGTGGGTTCTAGTTAAATGCGATATTTCCTGTGAATTACT
CTTAGAAGCTATAATCCATGGACAATAAACTCAATGGTGCTTCAACAACAACATGTTTCCAAGCA
TCTAGGCTCATTGACATGGCTTGACCGTTATAAGATTCTAACAC
Found at i:22002149 original size:5 final size:5
Alignment explanation
Indices: 22002139--22002164 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22002129 TTCAAAAATT
22002139 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
22002165 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:22002463 original size:18 final size:19
Alignment explanation
Indices: 22002440--22002476 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
22002430 GAGTCTATTA
*
22002440 ATTTTTTAATATA-TATAT
1 ATTTTTTAAAATAGTATAT
22002458 ATTTTTTAAAATAGTATAT
1 ATTTTTTAAAATAGTATAT
22002477 TTATATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
ATTTTTTAAAATAGTATAT
Found at i:22005187 original size:5 final size:5
Alignment explanation
Indices: 22005170--22005200 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
22005160 CTATTTTTTA
22005170 AATAT AA-AT AATAT AATAT AATAT AATAT AA
1 AATAT AATAT AATAT AATAT AATAT AATAT AA
22005201 CTCTAAAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
AATAT
Found at i:22012453 original size:11 final size:11
Alignment explanation
Indices: 22012432--22012461 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
22012422 AGAAAATTAA
22012432 AAAATATATTTT
1 AAAA-ATATTTT
22012444 AAAAATATTTT
1 AAAAATATTTT
22012455 AAAAATA
1 AAAAATA
22012462 AAAAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:22012464 original size:29 final size:29
Alignment explanation
Indices: 22012432--22012498 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
22012422 AGAAAATTAA
22012432 AAAATATATTTTAAAA-ATATTTTAAAAAT
1 AAAATATATTTTAAAATAT-TTTTAAAAAT
* * *
22012461 AAAAAAAAATTTAAAATATTTTTAAAAAT
1 AAAATATATTTTAAAATATTTTTAAAAAT
22012490 AAAATATAT
1 AAAATATAT
22012499 ATATTTATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 29 0.94
30 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAATATATTTTAAAATATTTTTAAAAAT
Found at i:22014424 original size:30 final size:31
Alignment explanation
Indices: 22014387--22014468 Score: 98
Period size: 29 Copynumber: 2.7 Consensus size: 31
22014377 ATGTTTCCTG
*
22014387 AGATTAATGAGAATTTTCAAAAAAA-AAAAG
1 AGATTAATGAGAATTTTCAAAAAAATAAAAA
* * *
22014417 AGCTTAATTA-AAATTT-AAAAAAATAAAAA
1 AGATTAATGAGAATTTTCAAAAAAATAAAAA
*
22014446 AGAATAATGAGAATTTTCAAAAA
1 AGATTAATGAGAATTTTCAAAAA
22014469 TTAAATGGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
28 7 0.17
29 16 0.39
30 13 0.32
31 5 0.12
ACGTcount: A:0.61, C:0.04, G:0.10, T:0.26
Consensus pattern (31 bp):
AGATTAATGAGAATTTTCAAAAAAATAAAAA
Found at i:22014484 original size:59 final size:60
Alignment explanation
Indices: 22014386--22014553 Score: 178
Period size: 61 Copynumber: 2.8 Consensus size: 60
22014376 AATGTTTCCT
* * *
22014386 GAGATTAATGAGAATTTTCAAAAAAAAAAAGAGCTTAATTAAAATTTAAAAAAATAAAAAA
1 GAGA-TAATGAGAATTTTCAAAAAATAAAAGGGCCTAATTAAAATTTAAAAAAATAAAAAA
* * * * ** *
22014447 GA-ATAATGAGAATTTTCAAAAATTAAATGGGCCTAATTAAAAATTTTAAATAACTTCAAAG
1 GAGATAATGAGAATTTTCAAAAAATAAAAGGGCCTAATT-AAAA-TTTAAAAAAATAAAAAA
* *
22014508 GAGA-AATGAAAATTTTCAAAAAATATAAGGGGCCTAATTAAAATTT
1 GAGATAATGAGAATTTTCAAAAAATA-AAAGGGCCTAATTAAAATTT
22014554 TTTAAAATTA
Statistics
Matches: 90, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
59 30 0.33
60 8 0.09
61 39 0.43
62 13 0.14
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.28
Consensus pattern (60 bp):
GAGATAATGAGAATTTTCAAAAAATAAAAGGGCCTAATTAAAATTTAAAAAAATAAAAAA
Found at i:22014492 original size:31 final size:29
Alignment explanation
Indices: 22014457--22014565 Score: 80
Period size: 31 Copynumber: 3.6 Consensus size: 29
22014447 GAATAATGAG
22014457 AATTTTCAAAAATTAAATGGGCCTAATTAAA
1 AATTTTCAAAAATTAAA-GGGCCTAATT-AA
* *
22014488 AATTTT-AAATAACTTCAAAGGAG--AAATGAA
1 AATTTTCAAA-AA-TT-AAAGG-GCCTAATTAA
*
22014518 AATTTTCAAAAAATATAAGGGGCCTAATTAA
1 AATTTTC-AAAAAT-TAAAGGGCCTAATTAA
**
22014549 AATTTTTTAAAATTAAA
1 AATTTTCAAAAATTAAA
22014566 AAATCAAGAT
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
29 4 0.07
30 21 0.34
31 25 0.41
32 7 0.11
33 4 0.07
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.32
Consensus pattern (29 bp):
AATTTTCAAAAATTAAAGGGCCTAATTAA
Found at i:22020392 original size:31 final size:31
Alignment explanation
Indices: 22020354--22020416 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
22020344 AGTATGAGAA
22020354 AGTCTAGTCTATTCTACTTTGCTGGTTTTCC
1 AGTCTAGTCTATTCTACTTTGCTGGTTTTCC
22020385 AGTCTAGTCTATTCTACTTTGCTGGTTTTCC
1 AGTCTAGTCTATTCTACTTTGCTGGTTTTCC
22020416 A
1 A
22020417 ACCAATGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.14, C:0.22, G:0.16, T:0.48
Consensus pattern (31 bp):
AGTCTAGTCTATTCTACTTTGCTGGTTTTCC
Found at i:22024251 original size:29 final size:29
Alignment explanation
Indices: 22024209--22024267 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
22024199 TATCCGAAAT
*
22024209 TTACACACGAGCTCG-GTACCTTTCCGTAC
1 TTACACACGAGCTCGAGTACC-CTCCGTAC
*
22024238 TTACACCCGAGCTCGAGTACCCTCCGTAC
1 TTACACACGAGCTCGAGTACCCTCCGTAC
22024267 T
1 T
22024268 GTTGCTGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.20, C:0.37, G:0.17, T:0.25
Consensus pattern (29 bp):
TTACACACGAGCTCGAGTACCCTCCGTAC
Found at i:22024431 original size:2 final size:2
Alignment explanation
Indices: 22024424--22024448 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22024414 ACTAACCTGC
22024424 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22024449 GTATGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22024552 original size:4 final size:4
Alignment explanation
Indices: 22024545--22024569 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
22024535 TGATGATGCT
22024545 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
22024570 GTAAAAGAGG
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:22024872 original size:15 final size:15
Alignment explanation
Indices: 22024838--22024877 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
22024828 GATGATGCTT
* *
22024838 ATGTATTATGTGATGT
1 ATGTA-TATATGATGA
22024854 ATGTATATATGATGA
1 ATGTATATATGATGA
22024869 ATGTATATA
1 ATGTATATA
22024878 AGAAAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (15 bp):
ATGTATATATGATGA
Found at i:22031886 original size:146 final size:139
Alignment explanation
Indices: 22030889--22032315 Score: 1122
Period size: 137 Copynumber: 10.2 Consensus size: 139
22030879 CCAAAAAACC
* * *
22030889 AAAA-GAACATTAAAATTTTTCACCTAAATGACGAAATTTGGACAACTAAAGTAGCTAAATTAAG
1 AAAATGAACACTAAAATTTTTCACCTAAATGACGAAA-TTAGACAATTAAAGTAGCTAAATTAAG
* * * * *
22030953 CTTATTCCACCATAATATACTTTCTAAGCAACCAAA-AAGC--AATATATACATATGCTTGTGCA
65 CTTATTCCACTATAATTTACTTTCTAAGTAACCAAACAA-CAAAATATATACTTAT--AT-T-CA
** * ** *
22031015 TAAACTTACTAATAAC
125 TAAA-GAACCACCAAA
* * * *
22031031 AAAA-GAAACACGAAAGTTTTTCACCTAAATGACTAATTTTAGACAATTAAAGTAGCTAAATTAA
1 AAAATG-AACACTAAAATTTTTCACCTAAATGACGAA-ATTAGACAATTAAAGTAGCTAAATTAA
* * * **
22031095 GCTTATCCCACTACAATTTACTTTCTAAGAAACCAAACAACAAAATATATACACATATTCATAAA
64 GCTTATTCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACTTATATTCATAAA
** *
22031160 GAAACTTGCTAATA
129 G-AAC-CACCAA-A
* * * * *
22031174 ACAAAAGAACACAAAAAATTTTCACCTAAATGACGAATTTTAGACAATGAAAGTAGCTAAATTAA
1 A-AAATGAACACTAAAATTTTTCACCTAAATGACGAA-ATTAGACAATTAAAGTAGCTAAATTAA
* * * * ***
22031239 GCTCAATCCA-TGATAATTTGCTTTCTAAGTGACCAAACAACAAAATATATAAAGATATTCATAA
64 GCTTATTCCACT-ATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACTTATATTCATAA
* **
22031303 AGAACTATAAAAA
128 AGAACCA-CCAAA
* ** * ** * *
22031316 AAAATAACAAAAGACACTAAAGCTTTTCACCTAAACGAATACATTTAGACAAGTAAAGTAGCTAA
1 AAAAT-----GA-ACACTAAAATTTTTCACCTAAATGACGA-AATTAGACAATTAAAGTAGCTAA
* * * * * * * *
22031381 ATTAAGGTTATCCCACTGTAATTTACTTTGTAGGTAACCAAACAATAAATTATATACATATATTC
59 ATTAAGCTTATTCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACTTATATTC
* **
22031446 ATAATGAACCATAAAAAA
124 ATAAAGAACC--ACCAAA
* * * * * *
22031464 TAGCAAAAGAACACTAAATTTTTTCACCTAAGTGACGAAATTTAGAAAACTAAAGTAGC-ATACT
1 -A--AAATGAACACTAAAATTTTTCACCTAAATGACGAAA-TTAGACAATTAAAGTAGCTA-AAT
** ** * ***
22031528 TAAGCTTACCCCACTACCATTTACTTTCTAAGTAACCAAACAACAAAACATATAGACATATTCAT
61 TAAGCTTATTCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACTTATATTCAT
**
22031593 AAAGAA--A-CTTA
126 AAAGAACCACCAAA
** * *
22031604 CTAAT--A-AC--AATTTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGTGTAAATTAA
1 AAAATGAACACTAAAATTTTTCACCTAAATGACGAAA-TTAGACAATTAAAGTAG-CTAAATTAA
* * * * *
22031664 GCTTATCCCGCTATAATTTACTTTCTAAGTAAACAAACAACAAATTATATACATATATTCATAAA
64 GCTTATTCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACTTATATTCATAAA
*
22031729 GAACCATCAAA
129 GAACCACCAAA
** *
22031740 AAAATAGCAAAAGAACACTAATGTTTTTCACCTAAATGACCAAACTTAGA-AATTAAAGTAGCTA
1 AAAAT-------GAACACTAAAATTTTTCACCTAAATGACGAAA-TTAGACAATTAAAGTAGCTA
* *
22031804 ACTTAAGCTTATTCCACTATAATTTACTTTCTAAGTAACCCAACAACAAAATATATACTTATATT
58 AATTAAGCTTATTCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACTTATATT
22031869 CATAAAGAACCACC---
123 CATAAAGAACCACCAAA
22031883 AAAATGAACACTAAAATTTTTCACCTAAATGACGAAATTGAGACAATTAAAGTAGCTAAATTAAG
1 AAAATGAACACTAAAATTTTTCACCTAAATGACGAAATT-AGACAATTAAAGTAGCTAAATTAAG
* * *
22031948 CTTAATCCACTAAAATTTACTTTCTAAATAACCAAACAACAAAATATATACTTATATTCATAAAG
65 CTTATTCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACTTATATTCATAAAG
22032013 AACCACC--A
130 AACCACCAAA
* *
22032021 AAAAT-AACACCAAAATTTTTCA-C-----GAC------A-AC---TAAAGTAGCTATATTAAGC
1 AAAATGAACACTAAAATTTTTCACCTAAATGACGAAATTAGACAATTAAAGTAGCTAAATTAAGC
* * *
22032069 TTAATCCACTATAATTTACTTTCTAAGTAACCAAAGAACAAAATATATACTTACATTCATAAAGA
66 TTATTCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACTTATATTCATAAAGA
22032134 ACCACC--A
131 ACCACCAAA
* * * * * *
22032141 AAAA-GAACACTAAATTTTTTCACCTAAATTACGAAATTGAGACAATTAAAATGGTTAAATTAAA
1 AAAATGAACACTAAAATTTTTCACCTAAATGACGAAATT-AGACAATTAAAGTAGCTAAATTAAG
* * *
22032205 CTTAATCCACT-TCAATTTACTTTCTACGTAACCAAACAACAAAATATATACATATATTCATAAA
65 CTTATTCCACTAT-AATTTACTTTCTAAGTAACCAAACAACAAAATATATACTTATATTCATAAA
* **
22032269 GAAACTTATTAATA
129 G-AAC-CACCAA-A
*
22032283 ACAAAAGAACACTAAAA-TTTTCACCTAAATGAC
1 A-AAATGAACACTAAAATTTTTCACCTAAATGAC
22032316 CAAACAACAA
Statistics
Matches: 1058, Mismatches: 154, Indels: 145
0.78 0.11 0.11
Matches are distributed among these distances:
120 105 0.10
121 1 0.00
123 2 0.00
124 1 0.00
126 2 0.00
131 3 0.00
132 39 0.04
133 65 0.06
134 5 0.00
135 4 0.00
136 39 0.04
137 178 0.17
138 8 0.01
139 1 0.00
140 1 0.00
141 12 0.01
142 15 0.01
143 114 0.11
144 125 0.12
145 112 0.11
146 77 0.07
147 111 0.10
148 33 0.03
149 2 0.00
151 3 0.00
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (139 bp):
AAAATGAACACTAAAATTTTTCACCTAAATGACGAAATTAGACAATTAAAGTAGCTAAATTAAGC
TTATTCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACTTATATTCATAAAGA
ACCACCAAA
Found at i:22031997 original size:137 final size:138
Alignment explanation
Indices: 22030888--22032271 Score: 988
Period size: 145 Copynumber: 10.0 Consensus size: 138
22030878 CCCAAAAAAC
* * *
22030888 CAAAA-GAACATTAAAATTTTTCACCTAAATGACGAAATTTGGACAACTAAAGTAGCTAAATTAA
1 CAAAATGAACACTAAAATTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGCTAAATTAA
* * * * *
22030952 GCTTATTCCACCATAATATACTTTCTAAGCAACCAAA-AAGC--AATATATACATATGCTTGTGC
66 GCTTAATCCACTATAATTTACTTTCTAAGTAACCAAACAA-CAAAATATATACATAT--AT-T-C
** * *
22031014 ATAAACTTACTAATAA
126 ATAAA-GAAC-CA-CA
* * * *
22031030 CAAAA-GAAACACGAAAGTTTTTCACCTAAATGACTAATTTTAGACAATTAAAGTAGCTAAATTA
1 CAAAATG-AACACTAAAATTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGCTAAATTA
* * *
22031094 AGCTT-ATCCCACTACAATTTACTTTCTAAGAAACCAAACAACAAAATATATACACATATTCATA
65 AGCTTAAT-CCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATATTCATA
*
22031158 AAGAAACTTGCTAATAA
129 AAG-AAC---C--A-CA
* * * *
22031175 CAAAA-GAACACAAAAAATTTTCACCTAAATGACGAATTTTAGACAATGAAAGTAGCTAAATTAA
1 CAAAATGAACACTAAAATTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGCTAAATTAA
* * * * *
22031239 GCTCAATCCA-TGATAATTTGCTTTCTAAGTGACCAAACAACAAAATATATAAAGATATTCATAA
66 GCTTAATCCACT-ATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATATTCATAA
* *
22031303 AGAACTATAAAA
130 AGAAC---CACA
* * ** * ** * *
22031315 AAAAATAACAAAAGACACTAAAGCTTTTCACCTAAACGAATACATTTAGACAAGTAAAGTAGCTA
1 CAAAAT-----GA-ACACTAAAATTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGCTA
* * * * * *
22031380 AATTAAGGTT-ATCCCACTGTAATTTACTTTGTAGGTAACCAAACAATAAATTATATACATATAT
60 AATTAAGCTTAAT-CCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATAT
* *
22031444 TCATAATGAACCATA
124 TCATAAAGAACCACA
* * * * *
22031459 AAAAATAGCAAAAGAACACTAAATTTTTTCACCTAAGTGACGAAATTTAGAAAACTAAAGTAGC-
1 CAAAAT-------GAACACTAAAATTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGCT
* ** ** * * *
22031523 ATACTTAAGCTTACCCCACTACCATTTACTTTCTAAGTAACCAAACAACAAAACATATAGACATA
59 A-AATTAAGCTTAATCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATA
* **
22031588 TTCATAAAGAAACTTA
123 TTCATAAAGAACCACA
* * *
22031604 C-TAAT--A-AC--AATTTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGTGTAAATTA
1 CAAAATGAACACTAAAATTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAG-CTAAATTA
* * *
22031663 AGCTT-ATCCCGCTATAATTTACTTTCTAAGTAAACAAACAACAAATTATATACATATATTCATA
65 AGCTTAAT-CCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATATTCATA
22031727 AAGAACCATCAA
129 AAGAACCA-C-A
* ** * *
22031739 AAAAATAGCAAAAGAACACTAATGTTTTTCACCTAAATGACCAAACTTAGA-AATTAAAGTAGCT
1 CAAAAT-------GAACACTAAAATTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGCT
* * * *
22031803 AACTTAAGCTTATTCCACTATAATTTACTTTCTAAGTAACCCAACAACAAAATATATACTTATAT
59 AAATTAAGCTTAATCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATAT
22031868 TCATAAAGAACCAC-
124 TCATAAAGAACCACA
*
22031882 CAAAATGAACACTAAAATTTTTCACCTAAATGACGAAATTGAGACAATTAAAGTAGCTAAATTAA
1 CAAAATGAACACTAAAATTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGCTAAATTAA
* * *
22031947 GCTTAATCCACTAAAATTTACTTTCTAAATAACCAAACAACAAAATATATACTTATATTCATAAA
66 GCTTAATCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATATTCATAAA
22032012 GAACCAC-
131 GAACCACA
* * * * * *
22032019 CAAAAAT-AACACCAAAATTTTTCA-CGACA--ACTAAA-GTAG-CTATATT--A--AGCTTAAT
1 C-AAAATGAACACTAAAATTTTTCACCTAAATGACGAAATTTAGAC-A-ATTAAAGTAGCTAAAT
** * *** ** *
22032074 CCA-CTATAAT----T-TACTTT-CTAAGTAACCAA--AGAACAA-AATATATACTTAC--AT-T
63 TAAGCT-TAATCCACTATAATTTACTTTCTAAGTAACCA-AACAACAAAATATA--TACATATAT
22032126 -CATAAAGAACCAC-
124 TCATAAAGAACCACA
* * * * * * *
22032139 CAAAAAGAACACTAAATTTTTTCACCTAAATTACGAAATTGAGACAATTAAAATGGTTAAATTAA
1 CAAAATGAACACTAAAATTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGCTAAATTAA
* *
22032204 ACTTAATCCACT-TCAATTTACTTTCTACGTAACCAAACAACAAAATATATACATATATTCATAA
66 GCTTAATCCACTAT-AATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATATTCATAA
22032268 AGAA
130 AGAA
22032272 ACTTATTAAT
Statistics
Matches: 995, Mismatches: 171, Indels: 157
0.75 0.13 0.12
Matches are distributed among these distances:
119 4 0.00
120 29 0.03
121 4 0.00
122 10 0.01
123 13 0.01
124 13 0.01
125 6 0.01
126 1 0.00
127 10 0.01
128 2 0.00
129 2 0.00
130 12 0.01
131 2 0.00
132 45 0.05
133 75 0.08
134 16 0.02
135 12 0.01
136 40 0.04
137 113 0.11
138 5 0.01
140 6 0.01
141 9 0.01
142 8 0.01
143 93 0.09
144 121 0.12
145 127 0.13
146 79 0.08
147 111 0.11
148 27 0.03
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (138 bp):
CAAAATGAACACTAAAATTTTTCACCTAAATGACGAAATTTAGACAATTAAAGTAGCTAAATTAA
GCTTAATCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATATATACATATATTCATAAA
GAACCACA
Found at i:22032137 original size:120 final size:120
Alignment explanation
Indices: 22031924--22032163 Score: 399
Period size: 120 Copynumber: 2.0 Consensus size: 120
22031914 ACGAAATTGA
*
22031924 GACAATTAAAGTAGCTAAATTAAGCTTAATCCACTAAAATTTACTTTCTAAATAACCAAACAACA
1 GACAACTAAAGTAGCTAAATTAAGCTTAATCCACTAAAATTTACTTTCTAAATAACCAAACAACA
* *
22031989 AAATATATACTTATATTCATAAAGAACCACCAAAAATAACACCAAAATTTTTCAC
66 AAATATATACTTACATTCATAAAGAACCACCAAAAAGAACACCAAAATTTTTCAC
* * * *
22032044 GACAACTAAAGTAGCTATATTAAGCTTAATCCACTATAATTTACTTTCTAAGTAACCAAAGAACA
1 GACAACTAAAGTAGCTAAATTAAGCTTAATCCACTAAAATTTACTTTCTAAATAACCAAACAACA
* *
22032109 AAATATATACTTACATTCATAAAGAACCACCAAAAAGAACACTAAATTTTTTCAC
66 AAATATATACTTACATTCATAAAGAACCACCAAAAAGAACACCAAAATTTTTCAC
22032164 CTAAATTACG
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
120 111 1.00
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.28
Consensus pattern (120 bp):
GACAACTAAAGTAGCTAAATTAAGCTTAATCCACTAAAATTTACTTTCTAAATAACCAAACAACA
AAATATATACTTACATTCATAAAGAACCACCAAAAAGAACACCAAAATTTTTCAC
Found at i:22032249 original size:257 final size:257
Alignment explanation
Indices: 22031793--22032271 Score: 798
Period size: 257 Copynumber: 1.9 Consensus size: 257
22031783 ACTTAGAAAT
* *
22031793 TAAAGTAGCTAACTTAAGCTTATTCCACTATAATTTACTTTCTAAGTAACCCAACAACAAAATAT
1 TAAAGTAGCTAACTTAAGCTTAATCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATAT
* *
22031858 ATACTTATATTCATAAAGAACCACCAAAATGAACACTAAAATTTTTCACCTAAATGACGAAATTG
66 ATACTTACATTCATAAAGAACCACCAAAAAGAACACTAAAATTTTTCACCTAAATGACGAAATTG
* *
22031923 AGACAATTAAAGTAGCTAAATTAAGCTTAATCCACTAAAATTTACTTTCTAAATAACCAAACAAC
131 AGACAATTAAAATAGCTAAATTAAACTTAATCCACTAAAATTTACTTTCTAAATAACCAAACAAC
*
22031988 AAAATATATACTTATATTCATAAAGAACCACCAAAAATAACACCAAAATTTTTCACGACAAC
196 AAAATATATACATATATTCATAAAGAACCACCAAAAATAACACCAAAATTTTTCACGACAAC
*
22032050 TAAAGTAGCTATA-TTAAGCTTAATCCACTATAATTTACTTTCTAAGTAACCAAAGAACAAAATA
1 TAAAGTAGCTA-ACTTAAGCTTAATCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATA
* *
22032114 TATACTTACATTCATAAAGAACCACCAAAAAGAACACTAAATTTTTTCACCTAAATTACGAAATT
65 TATACTTACATTCATAAAGAACCACCAAAAAGAACACTAAAATTTTTCACCTAAATGACGAAATT
* * ** **
22032179 GAGACAATTAAAATGGTTAAATTAAACTTAATCCACTTCAATTTACTTTCTACGTAACCAAACAA
130 GAGACAATTAAAATAGCTAAATTAAACTTAATCCACTAAAATTTACTTTCTAAATAACCAAACAA
22032244 CAAAATATATACATATATTCATAAAGAA
195 CAAAATATATACATATATTCATAAAGAA
22032272 ACTTATTAAT
Statistics
Matches: 205, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
257 204 1.00
258 1 0.00
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (257 bp):
TAAAGTAGCTAACTTAAGCTTAATCCACTATAATTTACTTTCTAAGTAACCAAACAACAAAATAT
ATACTTACATTCATAAAGAACCACCAAAAAGAACACTAAAATTTTTCACCTAAATGACGAAATTG
AGACAATTAAAATAGCTAAATTAAACTTAATCCACTAAAATTTACTTTCTAAATAACCAAACAAC
AAAATATATACATATATTCATAAAGAACCACCAAAAATAACACCAAAATTTTTCACGACAAC
Found at i:22042277 original size:19 final size:19
Alignment explanation
Indices: 22042253--22042290 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
22042243 ATATGTTTTT
22042253 TATTTTTTATT-TTTTAAAA
1 TATTTTTT-TTATTTTAAAA
22042272 TATTTTTTTTATTTTAAAA
1 TATTTTTTTTATTTTAAAA
22042291 AAAAGGGCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTTTTTTTATTTTAAAA
Found at i:22042919 original size:37 final size:37
Alignment explanation
Indices: 22042869--22042950 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 37
22042859 CAAAATCAAC
22042869 CGATTCAAAACCCTTCTCT-AGAATCAATCTAAATATT
1 CGATTCAAAACCCTTCTCTGA-AATCAATCTAAATATT
*
22042906 CGATTCAAAACCCTTCTCTGAAATCAATCTAAGTATT
1 CGATTCAAAACCCTTCTCTGAAATCAATCTAAATATT
22042943 CGATTCAA
1 CGATTCAA
22042951 TCTTATTCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
37 42 0.98
38 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (37 bp):
CGATTCAAAACCCTTCTCTGAAATCAATCTAAATATT
Found at i:22048668 original size:2 final size:2
Alignment explanation
Indices: 22048663--22048687 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22048653 AAATTAAGGG
22048663 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22048688 TCCAATCAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22051387 original size:225 final size:226
Alignment explanation
Indices: 22050986--22051436 Score: 895
Period size: 225 Copynumber: 2.0 Consensus size: 226
22050976 GAATGTTGAT
22050986 GTGGTAATATTTTTCAAAGACATAAATTATTTAATTTTTAAAATTATTTATATATTTGAAAAATA
1 GTGGTAATATTTTTCAAAGACATAAATTATTTAATTTTTAAAATTATTTATATATTTGAAAAATA
22051051 CATATATGGAAAAAAAATAAAAAGTCCAGAGAAAATAACTTCAATTTACCCTTTGGTTGGGCTTG
66 CATATATGGAAAAAAAATAAAAAGTCCAGAGAAAATAACTTCAATTTACCCTTTGGTTGGGCTTG
22051116 TTTGGGAAACTAATCTTAATTTTTTGTGATTCAGACTAAGGGTGGGTTTGGATGGGCGATTGGGT
131 TTTGGGAAACTAATCTTAATTTTTTGTGATTCAGACTAAGGGTGGGTTTGGATGGGCGATTGGGT
22051181 GTAGTGCGGTGCGTTTAGTTTACTTTTTGTC
196 GTAGTGCGGTGCGTTTAGTTTACTTTTTGTC
22051212 GTGGTAATA-TTTTCAAAGACATAAATTATTTAATTTTTAAAATTATTTATATATTTGAAAAATA
1 GTGGTAATATTTTTCAAAGACATAAATTATTTAATTTTTAAAATTATTTATATATTTGAAAAATA
22051276 CATATATGGAAAAAAAATAAAAAGTCCAGAGAAAATAACTTCAATTTACCCTTTGGTTGGGCTTG
66 CATATATGGAAAAAAAATAAAAAGTCCAGAGAAAATAACTTCAATTTACCCTTTGGTTGGGCTTG
22051341 TTTGGGAAACTAATCTTAATTTTTTGTGATTCAGACTAAGGGTGGGTTTGGATGGGCGATTGGGT
131 TTTGGGAAACTAATCTTAATTTTTTGTGATTCAGACTAAGGGTGGGTTTGGATGGGCGATTGGGT
22051406 GTAGTGCGGTGCGTTTAGTTTACTTTTTGTC
196 GTAGTGCGGTGCGTTTAGTTTACTTTTTGTC
22051437 TCACGCTACA
Statistics
Matches: 225, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
225 216 0.96
226 9 0.04
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (226 bp):
GTGGTAATATTTTTCAAAGACATAAATTATTTAATTTTTAAAATTATTTATATATTTGAAAAATA
CATATATGGAAAAAAAATAAAAAGTCCAGAGAAAATAACTTCAATTTACCCTTTGGTTGGGCTTG
TTTGGGAAACTAATCTTAATTTTTTGTGATTCAGACTAAGGGTGGGTTTGGATGGGCGATTGGGT
GTAGTGCGGTGCGTTTAGTTTACTTTTTGTC
Found at i:22056932 original size:11 final size:11
Alignment explanation
Indices: 22056916--22056971 Score: 53
Period size: 12 Copynumber: 5.1 Consensus size: 11
22056906 CTTTTATTTT
22056916 AAAATTTTAAA
1 AAAATTTTAAA
22056927 AAAA--TTAAA
1 AAAATTTTAAA
*
22056936 AAAGTATTTAAA
1 AAAAT-TTTAAA
*
22056948 AAATATTTTTAA
1 AAA-ATTTTAAA
*
22056960 AATATTTTAAA
1 AAAATTTTAAA
22056971 A
1 A
22056972 TTAAAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
9 8 0.22
11 12 0.33
12 15 0.42
13 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
AAAATTTTAAA
Found at i:22056948 original size:12 final size:11
Alignment explanation
Indices: 22056916--22057013 Score: 63
Period size: 9 Copynumber: 9.6 Consensus size: 11
22056906 CTTTTATTTT
22056916 AAAAT-TTTAA
1 AAAATATTTAA
22056926 AAAA-A-TTAA
1 AAAATATTTAA
22056935 AAAAGTATTTAA
1 AAAA-TATTTAA
**
22056947 AAAATATTTTT
1 AAAATATTTAA
22056958 AAAATATTT--
1 AAAATATTTAA
*
22056967 TAAA-A-TTAA
1 AAAATATTTAA
22056976 AAAA-A-TTAA
1 AAAATATTTAA
*
22056985 AAAA-AATTAA
1 AAAATATTTAA
*
22056995 AAAAGTATTTTA
1 AAAA-TATTTAA
22057007 AAAATAT
1 AAAATAT
22057014 NNNNNNNNNN
Statistics
Matches: 73, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
7 2 0.03
8 1 0.01
9 24 0.33
10 12 0.16
11 18 0.25
12 16 0.22
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
AAAATATTTAA
Found at i:22056967 original size:10 final size:10
Alignment explanation
Indices: 22056910--22057013 Score: 54
Period size: 10 Copynumber: 10.3 Consensus size: 10
22056900 GGCCCACTTT
*
22056910 TATTTTAAAA
1 TATTTAAAAA
22056920 T-TTTAAAAA
1 TATTTAAAAA
* *
22056929 AATTAAAAAA
1 TATTTAAAAA
22056939 GTATTTAAAAAA
1 -TATTT-AAAAA
*
22056951 TATTTTTAAAA
1 TA-TTTAAAAA
*
22056962 TATTT-TAAA
1 TATTTAAAAA
22056971 -A-TTAAAAA
1 TATTTAAAAA
* *
22056979 AATTAAAAAA
1 TATTTAAAAA
* *
22056989 AATTAAAAAA
1 TATTTAAAAA
22056999 GTATTTTAAAAA
1 -TA-TTTAAAAA
22057011 TAT
1 TAT
22057014 NNNNNNNNNN
Statistics
Matches: 74, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
7 2 0.03
8 4 0.05
9 11 0.15
10 28 0.38
11 14 0.19
12 15 0.20
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (10 bp):
TATTTAAAAA
Found at i:22059948 original size:31 final size:31
Alignment explanation
Indices: 22059911--22059969 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
22059901 TCATTTGATC
22059911 AATTTTAGTCCCAGTACTTTTCAAATTTGTT
1 AATTTTAGTCCCAGTACTTTTCAAATTTGTT
** *
22059942 AATTTTAGTCCTTGTACTTTTGAAATTT
1 AATTTTAGTCCCAGTACTTTTCAAATTT
22059970 TAGTCTAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (31 bp):
AATTTTAGTCCCAGTACTTTTCAAATTTGTT
Found at i:22060851 original size:1 final size:1
Alignment explanation
Indices: 22060847--22060872 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
22060837 TTTTTTTTTT
22060847 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
22060873 TGCATTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:22067995 original size:30 final size:31
Alignment explanation
Indices: 22067927--22067987 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
22067917 TTCGGGGTAC
*
22067927 TTAAAATTTTC-AAAGATTTTAGGGGGATAA
1 TTAAAATTTTCAAAAGATTTTAGGGGCATAA
*
22067957 TTAAAATTTTCAAAAGA-TTTAGGGGCTTAA
1 TTAAAATTTTCAAAAGATTTTAGGGGCATAA
22067987 T
1 T
22067988 AGGAATTTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (31 bp):
TTAAAATTTTCAAAAGATTTTAGGGGCATAA
Found at i:22070034 original size:29 final size:28
Alignment explanation
Indices: 22070013--22070079 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 28
22070003 ATTTAAAAGT
22070013 TATAAAAA-TATTCATAAAAATTCAAACAAA
1 TATAAAAAGT-TT-ATAAAAATTCAAA-AAA
22070043 TATAAAAAGTTTATAAAAATTCAAAAAA
1 TATAAAAAGTTTATAAAAATTCAAAAAA
22070071 -ATTAAAAAG
1 TA-TAAAAAG
22070080 AAGAAGAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
27 1 0.03
28 10 0.29
29 13 0.37
30 10 0.29
31 1 0.03
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (28 bp):
TATAAAAAGTTTATAAAAATTCAAAAAA
Found at i:22071283 original size:34 final size:34
Alignment explanation
Indices: 22071240--22071384 Score: 290
Period size: 34 Copynumber: 4.3 Consensus size: 34
22071230 GCACATTCTT
22071240 GGGATAAAAATTAGGGTTAGAAAGATTATGATTC
1 GGGATAAAAATTAGGGTTAGAAAGATTATGATTC
22071274 GGGATAAAAATTAGGGTTAGAAAGATTATGATTC
1 GGGATAAAAATTAGGGTTAGAAAGATTATGATTC
22071308 GGGATAAAAATTAGGGTTAGAAAGATTATGATTC
1 GGGATAAAAATTAGGGTTAGAAAGATTATGATTC
22071342 GGGATAAAAATTAGGGTTAGAAAGATTATGATTC
1 GGGATAAAAATTAGGGTTAGAAAGATTATGATTC
22071376 GGGATAAAA
1 GGGATAAAA
22071385 TAAGTAGCCA
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 111 1.00
ACGTcount: A:0.42, C:0.03, G:0.27, T:0.28
Consensus pattern (34 bp):
GGGATAAAAATTAGGGTTAGAAAGATTATGATTC
Found at i:22075642 original size:31 final size:31
Alignment explanation
Indices: 22075607--22075668 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
22075597 CAAAATAGTG
*
22075607 ATTGAATTATTCAAAAGTCTTCATTTAAGTT
1 ATTGAATTATTCAAAAGTATTCATTTAAGTT
* *
22075638 ATTGAATTCTTCAAAAGTATTTATTTAAGTT
1 ATTGAATTATTCAAAAGTATTCATTTAAGTT
22075669 TCTAGGTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (31 bp):
ATTGAATTATTCAAAAGTATTCATTTAAGTT
Found at i:22076654 original size:83 final size:82
Alignment explanation
Indices: 22076496--22076655 Score: 180
Period size: 83 Copynumber: 1.9 Consensus size: 82
22076486 AAATATTATT
** * * * *
22076496 TGGTACTTGATTTTTTTTTGTCCTAATTTTGTACTTGAGTTTGGCTTCAATGTTCAGTTTGGTAC
1 TGGTACTTGATTTTTTTTTGTCCTAATTTAATACTTGAGTTTAGCTTCAATATTCAATTTGATAC
* **
22076561 CTGAGTTTTTTTCAATC
66 CTAAACTTTTTTCAATC
*
22076578 TGGTACTTGATTTTTTCTTTGTTCT-ATTTAAATACTTGAGTTTAGCTTCAATATTCAATTTAGA
1 TGGTACTTGATTTTTT-TTTGTCCTAATTT-AATACTTGAGTTTAGCTTCAATATTCAATTT-GA
*
22076642 T-TCTAAACTTTTTT
63 TACCTAAACTTTTTT
22076656 GTCCTAATAA
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
82 20 0.31
83 42 0.66
84 2 0.03
ACGTcount: A:0.20, C:0.12, G:0.14, T:0.53
Consensus pattern (82 bp):
TGGTACTTGATTTTTTTTTGTCCTAATTTAATACTTGAGTTTAGCTTCAATATTCAATTTGATAC
CTAAACTTTTTTCAATC
Found at i:22077337 original size:31 final size:31
Alignment explanation
Indices: 22077302--22077368 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
22077292 ACTTAAAAAC
* * *
22077302 TCAATAACCTAAATAAAAATTTTTGAATAGT
1 TCAATAACCTAAATAAAAACTTTCGAATAAT
* * *
22077333 TCAATATCTTAAATGAAAACTTTCGAATAAT
1 TCAATAACCTAAATAAAAACTTTCGAATAAT
22077364 TCAAT
1 TCAAT
22077369 GACCATTTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (31 bp):
TCAATAACCTAAATAAAAACTTTCGAATAAT
Found at i:22078668 original size:21 final size:22
Alignment explanation
Indices: 22078630--22078678 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
22078620 ATCAAAGGGT
*
22078630 AAATTAGTTCTTTCTATTA-AA
1 AAATTAGTTATTTCTATTATAA
* *
22078651 AAATTATTTATTTGTATTATTAA
1 AAATTAGTTATTTCTATTA-TAA
22078674 AAATT
1 AAATT
22078679 GGTATGCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 16 0.70
23 7 0.30
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (22 bp):
AAATTAGTTATTTCTATTATAA
Found at i:22081858 original size:32 final size:32
Alignment explanation
Indices: 22081822--22081890 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
22081812 TAAAATCTTA
*
22081822 CATATAATCACGTAGCCTAAACATACTAAAAG
1 CATATAATCACGTAGCCGAAACATACTAAAAG
22081854 CATATAATCACGTAGCCGAAACATACTAAAAG
1 CATATAATCACGTAGCCGAAACATACTAAAAG
22081886 CATAT
1 CATAT
22081891 TTTTCTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.22
Consensus pattern (32 bp):
CATATAATCACGTAGCCGAAACATACTAAAAG
Found at i:22086335 original size:29 final size:27
Alignment explanation
Indices: 22086303--22086365 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
22086293 ACCAAAAATT
*
22086303 TATTTTAAAAATAAAAAAATTAAAAAAAG
1 TATTTTAAAAAT-AAAAAA-TAAAAAAAA
22086332 TATTTT-AAAATAAAAAATAAAAAAAA
1 TATTTTAAAAATAAAAAATAAAAAAAA
22086358 TATATTTA
1 TAT-TTTA
22086366 TTATATTCGG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 11 0.35
27 9 0.29
28 5 0.16
29 6 0.19
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (27 bp):
TATTTTAAAAATAAAAAATAAAAAAAA
Found at i:22092473 original size:11 final size:11
Alignment explanation
Indices: 22092457--22092481 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22092447 ATTTTTTAAC
22092457 TTTAAAATACT
1 TTTAAAATACT
22092468 TTTAAAATACT
1 TTTAAAATACT
22092479 TTT
1 TTT
22092482 TTTAATTTTT
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:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAAAATACT
Found at i:22092493 original size:10 final size:10
Alignment explanation
Indices: 22092478--22092550 Score: 53
Period size: 11 Copynumber: 7.3 Consensus size: 10
22092468 TTTAAAATAC
22092478 TTTTTTTAA-
1 TTTTTTTAAT
22092487 TTTTTTTAA-
1 TTTTTTTAAT
**
22092496 -TTTTAAAAT
1 TTTTTTTAAT
22092505 TTTTTTTAAAT
1 TTTTTTT-AAT
*
22092516 TTTTTTAAAAT
1 TTTTTT-TAAT
* *
22092527 ACTTTTTAAAT
1 -TTTTTTTAAT
22092538 TTTTTTTAAT
1 TTTTTTTAAT
22092548 TTT
1 TTT
22092551 AAAATATTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
8 6 0.12
9 9 0.18
10 15 0.29
11 16 0.31
12 5 0.10
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTTTAAT
Found at i:22092501 original size:40 final size:40
Alignment explanation
Indices: 22092448--22092591 Score: 128
Period size: 40 Copynumber: 3.4 Consensus size: 40
22092438 TTTATTTTTA
* *
22092448 TTTTTTAACTTTAAAATACTTTTAAAATACTTTTTTTAAT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
* * * *
22092488 TTTTTTAATTTTAAAATTTTTTTTAAATTTTTTTAAAATACTTTTTAAATT
1 TTTTTTAATTTTAAAA-TATTTTTAAA-------ATACT--TTTTTTAA-T
22092539 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
22092579 TTTTTT-ATTTTAA
1 TTTTTTAATTTTAA
22092592 TTTAAAATAA
Statistics
Matches: 83, Mismatches: 10, Indels: 23
0.72 0.09 0.20
Matches are distributed among these distances:
39 7 0.08
40 22 0.27
41 15 0.18
43 3 0.04
48 3 0.04
50 16 0.19
51 17 0.20
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (40 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
Found at i:22092518 original size:28 final size:28
Alignment explanation
Indices: 22092467--22092561 Score: 103
Period size: 29 Copynumber: 3.5 Consensus size: 28
22092457 TTTAAAATAC
22092467 TTTTAAAATACTTTTTTTAATTTTTTTAA
1 TTTTAAAATA-TTTTTTTAATTTTTTTAA
*
22092496 TTTTAAAAT-TTTTTTTAA---ATTT--
1 TTTTAAAATATTTTTTTAATTTTTTTAA
* *
22092518 TTTTAAAATACTTTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTTTAA-TTTTTTTAA
22092547 TTTTAAAATATTTTT
1 TTTTAAAATATTTTT
22092562 AAAATACTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
22 9 0.17
23 7 0.13
24 3 0.06
27 12 0.22
29 23 0.43
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (28 bp):
TTTTAAAATATTTTTTTAATTTTTTTAA
Found at i:22092522 original size:51 final size:51
Alignment explanation
Indices: 22092457--22092566 Score: 159
Period size: 51 Copynumber: 2.2 Consensus size: 51
22092447 ATTTTTTAAC
** * *
22092457 TTTAAAATACTTTTAAAATACTTTTTTTAA-TTTTTTTAATTTTAAAATTTT
1 TTTAAAATTTTTTTAAAATAC-TTTTTAAATTTTTTTTAATTTTAAAATATT
*
22092508 TTTTAAATTTTTTTAAAATACTTTTTAAATTTTTTTTAATTTTAAAATATT
1 TTTAAAATTTTTTTAAAATACTTTTTAAATTTTTTTTAATTTTAAAATATT
22092559 TTTAAAAT
1 TTTAAAAT
22092567 ACTTTTTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 7 0.13
51 45 0.87
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (51 bp):
TTTAAAATTTTTTTAAAATACTTTTTAAATTTTTTTTAATTTTAAAATATT
Found at i:22092532 original size:12 final size:11
Alignment explanation
Indices: 22092496--22092546 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
22092486 ATTTTTTTAA
22092496 TTTTAAAATTT
1 TTTTAAAATTT
*
22092507 TTTTTAAATTT
1 TTTTAAAATTT
*
22092518 TTTTAAAATACT
1 TTTTAAAAT-TT
*
22092530 TTTTAAATTTT
1 TTTTAAAATTT
22092541 TTTTAA
1 TTTTAA
22092547 TTTTAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
11 25 0.74
12 9 0.26
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:22092552 original size:17 final size:17
Alignment explanation
Indices: 22092530--22092563 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22092520 TTAAAATACT
* *
22092530 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
22092547 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
22092564 AATACTTTTT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:22092561 original size:11 final size:11
Alignment explanation
Indices: 22092496--22092573 Score: 58
Period size: 11 Copynumber: 7.4 Consensus size: 11
22092486 ATTTTTTTAA
*
22092496 TTTTAAAATTT
1 TTTTAAAATAT
* *
22092507 TTTTTAAATTT
1 TTTTAAAATAT
22092518 TTTTAAAATACT
1 TTTTAAAATA-T
22092530 TTTT-AAAT-T
1 TTTTAAAATAT
* *
22092539 TTTT---TTAA
1 TTTTAAAATAT
22092547 TTTTAAAATAT
1 TTTTAAAATAT
22092558 TTTTAAAATACT
1 TTTTAAAATA-T
22092570 TTTT
1 TTTT
22092574 TTAATTTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
7 1 0.02
8 4 0.07
9 5 0.09
11 34 0.63
12 10 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:22095742 original size:3 final size:3
Alignment explanation
Indices: 22095734--22095775 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
22095724 ACAATATCAA
*
22095734 AAT AAT AAT AAT AAT AAT AA- AAT AAT AGT AAT -AT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22095776 AATTATAGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22095757 original size:14 final size:14
Alignment explanation
Indices: 22095734--22095775 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
22095724 ACAATATCAA
22095734 AATAATAATAATAAT
1 AATAA-AATAATAAT
*
22095749 AATAAAATAATAGT
1 AATAAAATAATAAT
*
22095763 AATATAATAATAA
1 AATAAAATAATAA
22095776 AATTATAGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:22095793 original size:22 final size:22
Alignment explanation
Indices: 22095732--22095793 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
22095722 ATACAATATC
22095732 AAAATAATA--ATAATAATAAT
1 AAAATAATAGCATAATAATAAT
*
22095752 AAAATAATAGTA-ATATAATAAT
1 AAAATAATAGCATA-ATAATAAT
* *
22095774 AAAATTATAGCATAACAATA
1 AAAATAATAGCATAATAATA
22095794 GAAAATCAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 9 0.26
21 1 0.03
22 24 0.69
23 1 0.03
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (22 bp):
AAAATAATAGCATAATAATAAT
Found at i:22103883 original size:23 final size:22
Alignment explanation
Indices: 22103848--22103891 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
22103838 AAAATAAATT
*
22103848 AATAAAATAAAAAAACAATTTTG
1 AATAAAA-GAAAAAACAATTTTG
* *
22103871 AATAAAAGCAAAATCAATTTT
1 AATAAAAGAAAAAACAATTTT
22103892 TATTTTTTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (22 bp):
AATAAAAGAAAAAACAATTTTG
Found at i:22106250 original size:24 final size:24
Alignment explanation
Indices: 22106214--22106265 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
22106204 ATCATTATTC
*
22106214 TAAATATTAAAAAA-AGTATAATTA
1 TAAATATTAAAAAATA-TAAAATTA
22106238 TAAACTATT-AAAAATATAAAATTA
1 TAAA-TATTAAAAAATATAAAATTA
22106262 TAAA
1 TAAA
22106266 AATAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
TAAATATTAAAAAATATAAAATTA
Found at i:22117859 original size:17 final size:18
Alignment explanation
Indices: 22117827--22117860 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22117817 ACTTAATGTT
*
22117827 AATTTTTTTAATTTTTAA
1 AATTATTTTAATTTTTAA
22117845 AATTATTTT-ATTTTTA
1 AATTATTTTAATTTTTA
22117861 CTATGAAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
AATTATTTTAATTTTTAA
Found at i:22122764 original size:2 final size:2
Alignment explanation
Indices: 22122759--22122803 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
22122749 ATATATATAA
22122759 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
22122801 AG A
1 AG A
22122804 ACCTGATCAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22123407 original size:20 final size:21
Alignment explanation
Indices: 22123372--22123412 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
22123362 GAATGCAATC
* *
22123372 TGCACAAACATTACATTGCCT
1 TGCACAAACATCACATGGCCT
22123393 TGCAC-AACATCACATGGCCT
1 TGCACAAACATCACATGGCCT
22123413 GCCAAGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.24
Consensus pattern (21 bp):
TGCACAAACATCACATGGCCT
Found at i:22132148 original size:15 final size:15
Alignment explanation
Indices: 22132111--22132149 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
22132101 ACCACCACTG
*
22132111 TCACCACCATCATTA
1 TCACCACCATCATCA
*
22132126 TCATCACCATCATCA
1 TCACCACCATCATCA
*
22132141 TCGCCACCA
1 TCACCACCA
22132150 CCACTGCCAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.44, G:0.03, T:0.23
Consensus pattern (15 bp):
TCACCACCATCATCA
Found at i:22135328 original size:59 final size:59
Alignment explanation
Indices: 22135265--22135379 Score: 151
Period size: 59 Copynumber: 1.9 Consensus size: 59
22135255 GTAGTACCTG
* * *
22135265 AACTTGGCAATTGTTCCCACATTAGGGC-CGAAACTTTTTTTTGTCCAATTTAGTCCTTA
1 AACTTGGCAATTATTCCCACATTAGGGCTCG-AACTCTTTTTTGTCCAAGTTAGTCCTTA
* ** *
22135324 AACTTGTCAATTATTCTTACATTAGGGCTTGAACTCTTTTTTGTCCAAGTTAGTCC
1 AACTTGGCAATTATTCCCACATTAGGGCTCGAACTCTTTTTTGTCCAAGTTAGTCC
22135380 CTAATGTTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
59 47 0.98
60 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (59 bp):
AACTTGGCAATTATTCCCACATTAGGGCTCGAACTCTTTTTTGTCCAAGTTAGTCCTTA
Found at i:22136087 original size:20 final size:22
Alignment explanation
Indices: 22136062--22136101 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
22136052 TGAAAATTTA
22136062 TTTCTTTTC-A-CTTTCACTCT
1 TTTCTTTTCAACCTTTCACTCT
22136082 TTTCTTTTCAACCTTTCACT
1 TTTCTTTTCAACCTTTCACT
22136102 TTTCCATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.12, C:0.30, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTCTTTTCAACCTTTCACTCT
Found at i:22145125 original size:13 final size:13
Alignment explanation
Indices: 22145107--22145131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22145097 AATATCTTTA
22145107 ATTTTTTAAAAAC
1 ATTTTTTAAAAAC
22145120 ATTTTTTAAAAA
1 ATTTTTTAAAAA
22145132 TTTCACATGG
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:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTTTAAAAAC
Found at i:22152607 original size:31 final size:32
Alignment explanation
Indices: 22152572--22152716 Score: 120
Period size: 31 Copynumber: 4.7 Consensus size: 32
22152562 ACCTTTCAAA
*
22152572 TTTTTTAAAAATTTTAATTAAATC-TTTATTT
1 TTTTTTAAAAATTTTAATTAAATCTTTTAATT
* *
22152603 TTTTTTAAAAATTATCATTAAATCTTTTAATT
1 TTTTTTAAAAATTTTAATTAAATCTTTTAATT
** * ** *
22152635 TTTTAAAAAAATTTTAATTAGA-C-CCTAATC
1 TTTTTTAAAAATTTTAATTAAATCTTTTAATT
* * *
22152665 TTTTTAAAAAATTCTT-ATTAAACCTCTTAA-T
1 TTTTTTAAAAATT-TTAATTAAATCTTTTAATT
* *
22152696 TTTTTTAAAAATCTCAATTAA
1 TTTTTTAAAAATTTTAATTAA
22152717 GCATCCAAAA
Statistics
Matches: 91, Mismatches: 18, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
30 22 0.24
31 42 0.46
32 27 0.30
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.51
Consensus pattern (32 bp):
TTTTTTAAAAATTTTAATTAAATCTTTTAATT
Found at i:22152669 original size:62 final size:62
Alignment explanation
Indices: 22152555--22152716 Score: 166
Period size: 62 Copynumber: 2.6 Consensus size: 62
22152545 TTACAACTTT
* ** * * *
22152555 TCATTAAACCTTTCAAATTTTTT-AAAAATTTTAATTAAATCTTTATTTTTTTTTAAAAATTA
1 TCATTAAACCTTT-TAATTTTTTAAAAAATTTTAATTAAATCCCTAATCTTTTTAAAAAATTA
* * *
22152617 TCATTAAATCTTTTAATTTTTTAAAAAAATTTTAATTAGA-CCCTAATCTTTTTAAAAAATTC
1 TCATTAAACCTTTTAATTTTTT-AAAAAATTTTAATTAAATCCCTAATCTTTTTAAAAAATTA
* * * * *
22152679 TTATTAAACCTCTTAATTTTTTTAAAAATCTCAATTAA
1 TCATTAAACCTTTTAATTTTTTAAAAAATTTTAATTAA
22152717 GCATCCAAAA
Statistics
Matches: 82, Mismatches: 16, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
61 20 0.24
62 47 0.57
63 15 0.18
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.49
Consensus pattern (62 bp):
TCATTAAACCTTTTAATTTTTTAAAAAATTTTAATTAAATCCCTAATCTTTTTAAAAAATTA
Found at i:22159141 original size:197 final size:198
Alignment explanation
Indices: 22158789--22159189 Score: 777
Period size: 197 Copynumber: 2.0 Consensus size: 198
22158779 AATTTATAAT
*
22158789 TTAATTTAATATTAATTAAAATAATTTTATAACTTATTGATTTTTTTACTATTTTAATTAATAAT
1 TTAAATTAATATTAA-TAAAATAATTTTATAACTTATTGATTTTTTTACTATTTTAATTAATAAT
22158854 TATTGAATATGAGAATTGAAGATGATAAAAATAAATAGAATAATGATTAATAAAAGATAAAATTA
65 TATTGAATATGAGAATTGAAGATGATAAAAATAAATAGAATAATGATTAATAAAAGATAAAATTA
22158919 TCATTATATTTAAAAATTATTTAATGTATAAACTTCAAGTAAATATTTTTCGATTTAACTTAAAA
130 TCATTATATTTAAAAATTATTTAATGTATAAACTTCAAGTAAATATTTTTCGATTTAACTTAAAA
22158984 TATG
195 TATG
22158988 TTAAATTAATATTAA-AAAATAATTTTATAACTTATTGATTTTTTTACTATTTTAATTAATAATT
1 TTAAATTAATATTAATAAAATAATTTTATAACTTATTGATTTTTTTACTATTTTAATTAATAATT
22159052 ATTGAATATGAGAATTGAAGATGATAAAAATAAATAGAATAATGATTAATAAAAGATAAAATTAT
66 ATTGAATATGAGAATTGAAGATGATAAAAATAAATAGAATAATGATTAATAAAAGATAAAATTAT
22159117 CATTATATTTAAAAATTATTTAATGTATAAACTTCAAGTAAATATTTTTCGATTTAACTTAAAAT
131 CATTATATTTAAAAATTATTTAATGTATAAACTTCAAGTAAATATTTTTCGATTTAACTTAAAAT
22159182 ATG
196 ATG
22159185 TTAAA
1 TTAAA
22159190 AGGAATTTAA
Statistics
Matches: 201, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
197 187 0.93
199 14 0.07
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (198 bp):
TTAAATTAATATTAATAAAATAATTTTATAACTTATTGATTTTTTTACTATTTTAATTAATAATT
ATTGAATATGAGAATTGAAGATGATAAAAATAAATAGAATAATGATTAATAAAAGATAAAATTAT
CATTATATTTAAAAATTATTTAATGTATAAACTTCAAGTAAATATTTTTCGATTTAACTTAAAAT
ATG
Found at i:22160610 original size:19 final size:19
Alignment explanation
Indices: 22160569--22160611 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
22160559 TTTTTGAGTT
**
22160569 AATTATTTTATTAAAATTG
1 AATTATTTTATTAAAATAA
*
22160588 AATTATTTTATTAACATAA
1 AATTATTTTATTAAAATAA
22160607 AATTA
1 AATTA
22160612 ATATTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
AATTATTTTATTAAAATAA
Found at i:22167445 original size:13 final size:14
Alignment explanation
Indices: 22167412--22167449 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
22167402 AATCAGACTC
*
22167412 GTAAATATTAATAA
1 GTAAATATTTATAA
*
22167426 GTAAATATTTATTA
1 GTAAATATTTATAA
22167440 -TAAATATTTA
1 GTAAATATTTA
22167450 CGAAGCTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (14 bp):
GTAAATATTTATAA
Found at i:22167734 original size:26 final size:26
Alignment explanation
Indices: 22167665--22167739 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 26
22167655 TTTAAATATA
* * *
22167665 TAAA-TATATTATTTA-ATGATAATG
1 TAAATTATATTAATTATATTATATTG
* *
22167689 TATATTATTATT-ATTTTATTATATTG
1 TAAATTA-TATTAATTATATTATATTG
22167715 TAAATTATATTAATTATATTATATT
1 TAAATTATATTAATTATATTATATT
22167740 ATTATATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
24 3 0.08
25 8 0.20
26 29 0.73
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (26 bp):
TAAATTATATTAATTATATTATATTG
Found at i:22169427 original size:23 final size:23
Alignment explanation
Indices: 22169396--22169485 Score: 89
Period size: 23 Copynumber: 4.0 Consensus size: 23
22169386 GGCTTTGCCG
22169396 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* *
22169419 ATCAAGCACTTTATTTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* * **
22169442 TTCAGGCACCTCGTGTGTC--AT
1 ATCAGGCACTTTATGTGTCGTAT
22169463 -TCCAGGCAC-TTATGTGTCGTAT
1 AT-CAGGCACTTTATGTGTCGTAT
22169485 A
1 A
22169486 CTGATCAGAT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
20 8 0.15
21 9 0.17
22 2 0.04
23 34 0.64
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:22170099 original size:19 final size:19
Alignment explanation
Indices: 22170061--22170099 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22170051 ATTAGTTGAC
*
22170061 TTTAATTTTTATTTTATTT
1 TTTAATTTGTATTTTATTT
22170080 TTTAATTTGGTATTTT-TTT
1 TTTAATTT-GTATTTTATTT
22170099 T
1 T
22170100 GAGTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (19 bp):
TTTAATTTGTATTTTATTT
Found at i:22173404 original size:140 final size:141
Alignment explanation
Indices: 22173158--22173422 Score: 387
Period size: 140 Copynumber: 1.9 Consensus size: 141
22173148 ACTATTCTCA
* *
22173158 TTTTATTTACGTAAATAAAATAACGTATGTTAAAGTTTGAAATAAATTAAAATTTTTAATTGTTT
1 TTTTATTGACGTAAATAAAATAACGTATGTTAAAGTTTGAAATAAATTAAAATTTTTAATTATTT
* *
22173223 ATTTTATGTAAAAATTGTAACCATTAAAAATATAATGATATAAACAGTATTTTAAATTAATATAA
66 ATTTTATGTAAAAATTGCAACCATTAAAAATATAATGATATAAACAATATTTTAAATTAATATAA
22173288 AATTTTATTTG
131 AATTTTATTTG
* * *
22173299 TTTTATTGACGTAAATTAAATAATGTATG-TCAAGTTTGAAAT-AA-TAAATTATTTTTTTAATT
1 TTTTATTGACGTAAATAAAATAACGTATGTTAAAGTTTGAAATAAATTAAA--A--TTTTTAATT
*
22173361 ATTTA-TTTATGTAAAAGTT-CAACCATTAAAAATATAATGATATAAACAATATTTTAAATTAA
62 ATTTATTTTATGTAAAAATTGCAACCATTAAAAATATAATGATATAAACAATATTTTAAATTAA
22173423 CATGATAGAA
Statistics
Matches: 112, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
138 4 0.04
139 2 0.02
140 54 0.48
141 39 0.35
142 13 0.12
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.44
Consensus pattern (141 bp):
TTTTATTGACGTAAATAAAATAACGTATGTTAAAGTTTGAAATAAATTAAAATTTTTAATTATTT
ATTTTATGTAAAAATTGCAACCATTAAAAATATAATGATATAAACAATATTTTAAATTAATATAA
AATTTTATTTG
Found at i:22175771 original size:14 final size:12
Alignment explanation
Indices: 22175733--22175763 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
22175723 TTAATTTTAA
22175733 AAAAAATTATTT
1 AAAAAATTATTT
22175745 -AAAAATTATTT
1 AAAAAATTATTT
22175756 AAAAAATT
1 AAAAAATT
22175764 TCATTTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAAAATTATTT
Found at i:22177758 original size:138 final size:141
Alignment explanation
Indices: 22177510--22177841 Score: 359
Period size: 138 Copynumber: 2.4 Consensus size: 141
22177500 TCTATACCCA
* * ** ** *
22177510 TCTAGCACCAATAACTAAAATCTAAATAGCCCGGATTCAGTACTACCACACCCAAACCATCACGA
1 TCTAGCATCAATAACTAAAGTCTAAATAGCCCGGATTCAACACTAAAACACCCAAACCATCACAA
22177575 TACCATTCAACTTTAGTAAGCCACATTACAAGCTATAATCAAGAACCCGGATAAATCCCTG-AAA
66 TACCATTCAACTTTAGTAAGCCACATTACAAGCTATAATCAAGAACCCGGA-AAATCCCTGAAAA
22177639 AT-TC-CCA-TT
130 ATCTCTCCACTT
* * * * * *
22177648 TCTAGCATCAATAATTAAAGTCCAAATAGCCCGGATTCAACACTAAAACACCCTAGCCCTTACAA
1 TCTAGCATCAATAACTAAAGTCTAAATAGCCCGGATTCAACACTAAAACACCCAAACCATCACAA
* * * * * * * * *
22177713 TGCCTTTCAACTTTTGTAGGCTACATTTCAAGTTATAATCAAGAACCTGGAAAATTCCTGAAAAA
66 TACCATTCAACTTTAGTAAGCCACATTACAAGCTATAATCAAGAACCCGGAAAATCCCTGAAAAA
22177778 TCTCATTATCCACTT
131 TCTC----TCCACTT
* * *
22177793 TC-ATCATCAATAGCTAAAGTCTAAATAGCCCGAATTCAACACTAAAACA
1 TCTAGCATCAATAACTAAAGTCTAAATAGCCCGGATTCAACACTAAAACA
22177842 ATTCCAACTT
Statistics
Matches: 159, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
137 8 0.05
138 100 0.63
139 2 0.01
144 45 0.28
145 4 0.03
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.25
Consensus pattern (141 bp):
TCTAGCATCAATAACTAAAGTCTAAATAGCCCGGATTCAACACTAAAACACCCAAACCATCACAA
TACCATTCAACTTTAGTAAGCCACATTACAAGCTATAATCAAGAACCCGGAAAATCCCTGAAAAA
TCTCTCCACTT
Found at i:22179092 original size:24 final size:24
Alignment explanation
Indices: 22179047--22179093 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
22179037 TCTAATTTTT
* ** *
22179047 ATGATTAGAAAATATTTTTTTTAA
1 ATGATGAGAAAATAAATATTTTAA
22179071 ATGATGAGAAAATAAATATTTTA
1 ATGATGAGAAAATAAATATTTTA
22179094 TATTGAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.43
Consensus pattern (24 bp):
ATGATGAGAAAATAAATATTTTAA
Found at i:22179385 original size:17 final size:16
Alignment explanation
Indices: 22179363--22179397 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
22179353 GAATGAAATG
22179363 TTTTAATTTCATAATTT
1 TTTTAATTTCAT-ATTT
*
22179380 TTTTAATTTTATATTT
1 TTTTAATTTCATATTT
22179396 TT
1 TT
22179398 AAAATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTAATTTCATATTT
Found at i:22179599 original size:25 final size:25
Alignment explanation
Indices: 22179571--22179618 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
22179561 CAGCTTCAAA
22179571 ATAACATAATATATGATTTAAAAGT
1 ATAACATAATATATGATTTAAAAGT
22179596 ATAACATAATATATGATTTAAAA
1 ATAACATAATATATGATTTAAAA
22179619 CTACTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.35
Consensus pattern (25 bp):
ATAACATAATATATGATTTAAAAGT
Found at i:22186997 original size:27 final size:27
Alignment explanation
Indices: 22186967--22187019 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
22186957 ACCTAATGAA
22186967 TTAAATGAAAA-TTTCTAAATAGTTTAC
1 TTAAATGAAAACTTT-TAAATAGTTTAC
*
22186994 TTAAATGAAAACTTTTGAATAGTTTA
1 TTAAATGAAAACTTTTAAATAGTTTA
22187020 ATAATCGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (27 bp):
TTAAATGAAAACTTTTAAATAGTTTAC
Found at i:22187165 original size:16 final size:16
Alignment explanation
Indices: 22187132--22187180 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
22187122 CATTAACTTA
22187132 ATTAATGTAATATTTTTC
1 ATTAAT-TAAT-TTTTTC
22187150 -TTGAATTAATTTTTTC
1 ATT-AATTAATTTTTTC
22187166 ATTAATTATATTTTT
1 ATTAATTA-ATTTTT
22187181 AAATATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 11 0.39
17 14 0.50
18 3 0.11
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (16 bp):
ATTAATTAATTTTTTC
Found at i:22188616 original size:14 final size:15
Alignment explanation
Indices: 22188599--22188627 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
22188589 ATTTGATAAG
22188599 TTTAATT-TTTTTAT
1 TTTAATTATTTTTAT
22188613 TTTAATTATTTTTAT
1 TTTAATTATTTTTAT
22188628 CAAATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTAATTATTTTTAT
Found at i:22205824 original size:22 final size:21
Alignment explanation
Indices: 22205789--22205839 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
22205779 AAATAAAGTT
* *
22205789 TTAATATTAAAAATATAAAAA
1 TTAAAATTAAAAATACAAAAA
22205810 TTAAAATTAATAAATACAAAAA
1 TTAAAATTAA-AAATACAAAAA
22205832 TTAAAATT
1 TTAAAATT
22205840 GATCAAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TTAAAATTAAAAATACAAAAA
Found at i:22205999 original size:16 final size:16
Alignment explanation
Indices: 22205978--22206014 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
22205968 TTGGTTCGCT
22205978 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
22205994 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
22206010 GTAAT
1 GTAAT
22206015 AGGTAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:22206083 original size:44 final size:46
Alignment explanation
Indices: 22205994--22206084 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
22205984 GAATAGAGGC
*
22205994 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
22206040 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
22206084 G
1 G
22206085 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:22206085 original size:39 final size:44
Alignment explanation
Indices: 22205994--22206101 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 44
22205984 GAATAGAGGC
*
22205994 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
22206040 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
22206080 G-AATGGAATAGAGGTGTAATAG
1 GTAATGGAATAGAGGCGTAATAG
22206102 CATAAGGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
39 18 0.31
40 3 0.05
43 1 0.02
44 13 0.22
45 3 0.05
46 21 0.36
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:22213389 original size:13 final size:13
Alignment explanation
Indices: 22213371--22213395 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22213361 AACATTCGGC
22213371 CGGTGGGAATAAT
1 CGGTGGGAATAAT
22213384 CGGTGGGAATAA
1 CGGTGGGAATAA
22213396 ACAAATAAAA
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:0.32, C:0.08, G:0.40, T:0.20
Consensus pattern (13 bp):
CGGTGGGAATAAT
Found at i:22214117 original size:42 final size:42
Alignment explanation
Indices: 22214067--22214202 Score: 126
Period size: 42 Copynumber: 3.4 Consensus size: 42
22214057 CGTCAGTAAC
*
22214067 TCGCGCTGACGTGGACGCGATCTCCTGGCGCGTACCCTGACA
1 TCGCGCTGACGTGGACGCGATCTCCTGGCGCGTACCATGACA
* * * ** *
22214109 TCGCGCTGACGTTGACGTGAT-T--T--CGCGGAAAAGGACCA
1 TCGCGCTGACGTGGACGCGATCTCCTGGCGCGTACCATGA-CA
*
22214147 T---GCTGACGTGGACGCGATCTCCTGGCGCGTACCTTGACA
1 TCGCGCTGACGTGGACGCGATCTCCTGGCGCGTACCATGACA
*
22214186 TCGCGCTAACGTGGACG
1 TCGCGCTGACGTGGACG
22214203 TGATTTCGCG
Statistics
Matches: 70, Mismatches: 15, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
35 15 0.21
36 1 0.01
37 7 0.10
38 4 0.06
39 4 0.06
40 7 0.10
41 1 0.01
42 31 0.44
ACGTcount: A:0.18, C:0.30, G:0.32, T:0.21
Consensus pattern (42 bp):
TCGCGCTGACGTGGACGCGATCTCCTGGCGCGTACCATGACA
Found at i:22214159 original size:77 final size:77
Alignment explanation
Indices: 22214071--22214224 Score: 281
Period size: 77 Copynumber: 2.0 Consensus size: 77
22214061 AGTAACTCGC
* *
22214071 GCTGACGTGGACGCGATCTCCTGGCGCGTACCCTGACATCGCGCTGACGTTGACGTGATTTCGCG
1 GCTGACGTGGACGCGATCTCCTGGCGCGTACCCTGACATCGCGCTAACGTGGACGTGATTTCGCG
22214136 GAAAAGGACCAT
66 GAAAAGGACCAT
*
22214148 GCTGACGTGGACGCGATCTCCTGGCGCGTACCTTGACATCGCGCTAACGTGGACGTGATTTCGCG
1 GCTGACGTGGACGCGATCTCCTGGCGCGTACCCTGACATCGCGCTAACGTGGACGTGATTTCGCG
22214213 GAAAAGGACCAT
66 GAAAAGGACCAT
22214225 TCCGATAAAT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.20, C:0.28, G:0.31, T:0.21
Consensus pattern (77 bp):
GCTGACGTGGACGCGATCTCCTGGCGCGTACCCTGACATCGCGCTAACGTGGACGTGATTTCGCG
GAAAAGGACCAT
Found at i:22221298 original size:3 final size:3
Alignment explanation
Indices: 22221290--22221323 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
22221280 AGAATTTAAA
*
22221290 AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
22221324 TGTACAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:22221304 original size:12 final size:12
Alignment explanation
Indices: 22221287--22221323 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
22221277 GACAGAATTT
22221287 AAAAAGAAGAAG
1 AAAAAGAAGAAG
22221299 AAAAAGAAGAAG
1 AAAAAGAAGAAG
*
22221311 AAGAAGAAGAAG
1 AAAAAGAAGAAG
22221323 A
1 A
22221324 TGTACAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
AAAAAGAAGAAG
Found at i:22225443 original size:18 final size:19
Alignment explanation
Indices: 22225415--22225450 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22225405 TTTTGTCATA
22225415 AAATATGATAAAAATAATT
1 AAATATGATAAAAATAATT
*
22225434 AAAT-TGATAAATATAAT
1 AAATATGATAAAAATAAT
22225451 AAAAATAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (19 bp):
AAATATGATAAAAATAATT
Found at i:22225887 original size:38 final size:38
Alignment explanation
Indices: 22225829--22225958 Score: 133
Period size: 38 Copynumber: 3.5 Consensus size: 38
22225819 AGAAGGAGAG
* * *
22225829 GGAAAGGAGAAGAAATAAAGAAAGAAAAAGAAAGAAAA
1 GGAAAGGAGAGGGAAGAAAGAAAGAAAAAGAAAGAAAA
*
22225867 GGAAAGGAGAGGGAAGAAAGAAA-AAGAAGGAAAGAAAA
1 GGAAAGGAGAGGGAAGAAAGAAAGAA-AAAGAAAGAAAA
* * * *
22225905 TGAAAGGAGA-AGAAAAAAGAAAGAAAAAGAATG-AAA
1 GGAAAGGAGAGGGAAGAAAGAAAGAAAAAGAAAGAAAA
*
22225941 GAAAAGGA-AGGAGAAGAA
1 GGAAAGGAGAGG-GAAGAA
22225959 GAAGAGGGAA
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
35 1 0.01
36 9 0.12
37 23 0.31
38 42 0.56
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (38 bp):
GGAAAGGAGAGGGAAGAAAGAAAGAAAAAGAAAGAAAA
Found at i:22225889 original size:34 final size:35
Alignment explanation
Indices: 22225846--22225958 Score: 106
Period size: 34 Copynumber: 3.1 Consensus size: 35
22225836 AGAAGAAATA
* *
22225846 AAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAGG-G
1 AAGAAAGAAAAAGAAAGAAAAGAAAAGGAAAGGAG
* *
22225880 AAGAAAGAAAAAG-AAGGAAAGAAAATGAAAGGAG
1 AAGAAAGAAAAAGAAAGAAAAGAAAAGGAAAGGAG
*
22225914 AAGAAAAAAGAAAGAAAAAGAATGAAAGAAAAGG-AAGGAG
1 AAGAAAGAA-AAAG--AAAG-A--AAAGAAAAGGAAAGGAG
22225954 AAGAA
1 AAGAA
22225959 GAAGAGGGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
33 15 0.23
34 22 0.34
35 4 0.06
38 3 0.05
40 11 0.17
41 9 0.14
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (35 bp):
AAGAAAGAAAAAGAAAGAAAAGAAAAGGAAAGGAG
Found at i:22225957 original size:23 final size:22
Alignment explanation
Indices: 22225890--22225961 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 22
22225880 AAGAAAGAAA
*
22225890 AAGAAGGAAAGAAAATGAAAGGAG
1 AAGAA-GAAAGAAAA-GGAAGGAG
*
22225914 AAGAAAAAAG-AAA-GAA--A-
1 AAGAAGAAAGAAAAGGAAGGAG
22225931 AAGAATGAAAGAAAAGGAAGGAG
1 AAGAA-GAAAGAAAAGGAAGGAG
22225954 AAGAAGAA
1 AAGAAGAA
22225962 GAGGGAAGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
17 5 0.13
18 5 0.13
19 3 0.08
20 5 0.13
22 7 0.18
23 9 0.23
24 5 0.13
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (22 bp):
AAGAAGAAAGAAAAGGAAGGAG
Found at i:22225984 original size:10 final size:10
Alignment explanation
Indices: 22225845--22225940 Score: 61
Period size: 10 Copynumber: 9.1 Consensus size: 10
22225835 GAGAAGAAAT
22225845 AAAGAAAGAA
1 AAAGAAAGAA
22225855 AAAGAAAGAA
1 AAAGAAAGAA
*
22225865 AAGGAAAGGAGA
1 AAAGAAA-GA-A
*
22225877 GGGAAGAAAGAA
1 --AAAGAAAGAA
*
22225889 AAAGAAGGAA
1 AAAGAAAGAA
*
22225899 AGAA-AATG-A
1 A-AAGAAAGAA
*
22225908 AAGGAGAAGAAA
1 AAAGA-AAG-AA
22225920 AAAGAAAGAA
1 AAAGAAAGAA
*
22225930 AAAGAATGAA
1 AAAGAAAGAA
22225940 A
1 A
22225941 GAAAAGGAAG
Statistics
Matches: 67, Mismatches: 10, Indels: 18
0.71 0.11 0.19
Matches are distributed among these distances:
8 1 0.01
9 3 0.04
10 42 0.63
11 7 0.10
12 7 0.10
13 2 0.03
14 5 0.07
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:22226903 original size:315 final size:315
Alignment explanation
Indices: 22226316--22227518 Score: 1615
Period size: 315 Copynumber: 3.9 Consensus size: 315
22226306 AAAATGATAT
* * *
22226316 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
1 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAA
* * * *
22226381 AATTAAAAATTATGGTATTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGA
66 AATTAGAAATTATGATTTTTTTAAAGTAATAAAATGCGGAG-AAAAAATACGAACAAAGGGCCGA
* * * * *
22226446 AGTAAGAGTGTTTTACTAATTTTTTTTTAAAATTTAGAAATAATTAATACAAATATTTCAAACAA
130 AGTAAGAGTATTTTACTAA-ATTTTTTAAAAATTCAGAAATAATGAATACAAATATTTCAAACAA
*
22226511 AATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGTAAGTAATAAA
194 AATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAA
*
22226576 ATTC-AGGAAAATAATACGAGTAAATGGCAGGAATAAAGATTTTTTTACACTAAATTA
259 ATTCGA-GAAAATAATACGAGCAAATGGCAGGAATAAAGATTTTTTTACACTAAATTA
* *
22226633 ATTTAAAAAATACACTAAATTAATAAATTTCAAACATAATGCACTGAAGTAATGTAAAATTATAA
1 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAA
22226698 AATTAGAAATTATGATATTTTTTAAAGTAAT-AAATGCGGAGAAAAAATACGAACAAAGGGCCGA
66 AATTAGAAATTATGAT-TTTTTTAAAGTAATAAAATGCGGAGAAAAAATACGAACAAAGGGCCGA
*
22226762 AGTAAGAGTATTGTACTAAATTTTTTAAAAATTCAGAAATAATGAATACAAATATTTCAAACAAA
130 AGTAAGAGTATTTTACTAAATTTTTTAAAAATTCAGAAATAATGAATACAAATATTTCAAACAAA
*
22226827 ATGTACTGAAATAATATAAAATAATAATATACGAAAATAATATATTTTTATTGAAAGTAATAAAA
195 ATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAA
* * *
22226892 TTTGAGAAAATAATACGAGCAAAGGGCAGGAAT-AAGAGTTTTTTACACTAAATTA
260 TTCGAGAAAATAATACGAGCAAATGGCAGGAATAAAGATTTTTTTACACTAAATTA
*
22226947 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTGAAATAATGCAAAATTATAA
1 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAA
22227012 AATTAGAAATTATGATTTTTTTAAAGTAATAAAATGCGGAGACAAAAATACGAACAAAGGGCCGA
66 AATTAGAAATTATGATTTTTTTAAAGTAATAAAATGCGGAGA-AAAAATACGAACAAAGGGCCGA
* *
22227077 AGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATGAATACAAATATTTCAAAAAAA
130 AGTAAGAGTATTTTACTAAATTTTTTAAAAATTCAGAAATAATGAATACAAATATTTCAAACAAA
*
22227142 ATGTACTGAAATAATATAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAA
195 ATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAA
* * *
22227207 TTCGAGAAAATTATACGAGCAAA-GGACAGGAATAAGGGTTTTTTTACACTAAATT-
260 TTCGAGAAAATAATACGAGCAAATGG-CAGGAATAAAGATTTTTTTACACTAAATTA
** * * * * *
22227262 -TTTAAAAATTTATATTGAAAGTAATAAAATTCAGAA-ATAAT----T----T--T-TAAAAATA
1 ATTTAAAAA-ACACACT-AAATTAATAAATTTCA-AACATAATGCACTGAAATAATGTAAAATTA
* * * * *
22227314 CAAAA--A-TAA-TAT-ATTTTTATTGAAAGTAATAAAATTCGG-G-AAAAATACGAACAAATGT
63 TAAAATTAGAAATTATGATTTTT-TT-AAAGTAATAAAATGCGGAGAAAAAATACGAACAAAGGG
* * * * *
22227372 CCGAAATAAG-GTTTTTTACTAAATTTTTTTAGAAAA--AAGAAATAATTAATAC----ACTTCA
126 CCGAAGTAAGAGTATTTTACTAAA-TTTTTTA-AAAATTCAGAAATAATGAATACAAATATTTCA
* * * * *
22227430 AACATAATTTACTAAAATAATGTAAAATAATAAAATACGAAAATAATATATTTTTATTTAAAGTA
189 AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTA
22227495 ATAAAATTCGAGAAAATAATACGA
254 ATAAAATTCGAGAAAATAATACGA
22227519 ATAAATGGTC
Statistics
Matches: 813, Mismatches: 60, Indels: 49
0.88 0.07 0.05
Matches are distributed among these distances:
294 86 0.11
298 26 0.03
299 32 0.04
300 10 0.01
301 6 0.01
302 18 0.02
303 1 0.00
305 10 0.01
306 1 0.00
308 1 0.00
312 1 0.00
313 14 0.02
314 120 0.15
315 311 0.38
316 77 0.09
317 86 0.11
318 13 0.02
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.31
Consensus pattern (315 bp):
ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAA
AATTAGAAATTATGATTTTTTTAAAGTAATAAAATGCGGAGAAAAAATACGAACAAAGGGCCGAA
GTAAGAGTATTTTACTAAATTTTTTAAAAATTCAGAAATAATGAATACAAATATTTCAAACAAAA
TGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAT
TCGAGAAAATAATACGAGCAAATGGCAGGAATAAAGATTTTTTTACACTAAATTA
Found at i:22227321 original size:157 final size:155
Alignment explanation
Indices: 22226331--22227518 Score: 681
Period size: 158 Copynumber: 7.7 Consensus size: 155
22226321 AAAAACACAC
* * * ** *
22226331 TAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT-TAAAAAT--TA
1 TAAAGTAATAAAATTCAAA-ATAATGT-CTGAAATAATACAAAATAATAAAATACAAAAATAATA
* * * * * * *
22226393 TGGTATTT-TT-AAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGC-CGAAGTAAGAGT
64 T-ATTTTTATTGAAAGTAATAAAATTC-GAGAAAATAATACGAGCAAAGGGCAGGAA-TAAGAGT
* * * *
22226455 GTTTT--ACTAATTTTTTTTTAAAATTTAGAAA
126 TTTTTACACTAA--ATTTTTAAAAATTCA-AAA
* * * *
22226486 T-AATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAAT
1 TAAAGTAAT--AAA-A-TTCAAA-ATAATGT-CTGAAATAATACAAAATAATAAAATACAAAAAT
* * *
22226550 AATATATTTTTATTGTAAGTAATAAAATTC-AGGAAAATAATACGAGTAAATGGCAGGAATAAAG
60 AATATATTTTTATTGAAAGTAATAAAATTCGA-GAAAATAATACGAGCAAAGGGCAGGAAT-AAG
* * * *
22226614 ATTTTTTTACACTAAATTAATTTAAAAAAT-ACAC
123 AGTTTTTTACACTAAATT--TTTAAAAATTCAAAA
* * * * ** * * * *
22226648 TAAATTAATAAATTTCAAACATAATGCACTGAAGTAATGTAAAATTATAAAAT-TAGAAATTATG
1 TAAAGTAATAAAATTCAAA-ATAATG-TCTGAAATAATACAAAATAATAAAATACAAAAATAAT-
* * *
22226712 ATA-TTTT-TT-AAAGTAAT-AAATGCGGAGAAAA-AATACGAACAAAGGGC-CGAAGTAAGAGT
63 ATATTTTTATTGAAAGTAATAAAATTC-GAGAAAATAATACGAGCAAAGGGCAGGAA-TAAGAGT
* *
22226771 ATTGT--ACTAAATTTTTTAAAAATTCAGAAA
126 TTTTTACACTAAA-TTTTTAAAAATTCA-AAA
* * * * *
22226801 TAATG-AATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAATAATAATATACGAAAAT
1 TAAAGTAAT--AAA-A-TTCAAA-ATAATGT-CTGAAATAATACAAAATAATAAAATACAAAAAT
*
22226865 AATATATTTTTATTGAAAGTAATAAAATTTGAGAAAATAATACGAGCAAAGGGCAGGAATAAGAG
60 AATATATTTTTATTGAAAGTAATAAAATTCGAGAAAATAATACGAGCAAAGGGCAGGAATAAGAG
* * *
22226930 TTTTTTACACTAAATTAATTTAAAAA-ACACAC
125 TTTTTTACACTAAATT--TTTAAAAATTCAAAA
* * * * * * *
22226962 TAAATTAATAAATTTCAAACATAATGCACTGAAATAATGCAAAATTATAAAAT-TAGAAAT--TA
1 TAAAGTAATAAAATTCAAA-ATAATG-TCTGAAATAATACAAAATAATAAAATACAAAAATAATA
* * *
22227024 TGATTTTT-TT-AAAGTAATAAAATGCGGAGACAAA-AATACGAACAAAGGGC-CGAAGTAAGAG
64 T-ATTTTTATTGAAAGTAATAAAATTC-GAGA-AAATAATACGAGCAAAGGGCAGGAA-TAAGAG
*
22227085 TCTTTT--ACTAAATTTTTTAAAAATTCAGAAA
125 TTTTTTACACTAAA-TTTTTAAAAATTCA-AAA
* * *
22227116 TAATG-AATACAAATATTTCAAAAAAAATGTACTGAAATAATATAAAATAATAAAATACAAAAAT
1 TAAAGTAAT--AAA-A-TTC-AAAATAATGT-CTGAAATAATACAAAATAATAAAATACAAAAAT
* * *
22227180 AATATATTTTTATTGAAAGTAATAAAATTCGAGAAAATTATACGAGCAAAGGACAGGAATAAGGG
60 AATATATTTTTATTGAAAGTAATAAAATTCGAGAAAATAATACGAGCAAAGGGCAGGAATAAGAG
* * *
22227245 TTTTTTTACACTAAATTTTTAAAAATTTATAT
125 -TTTTTTACACTAAATTTTTAAAAATTCAAAA
22227277 TGAAAGTAATAAAATTCAGAAATAA--T-T----T--T------T-A-AAAATACAAAAATAATA
1 T-AAAGTAATAAAATTCA-AAATAATGTCTGAAATAATACAAAATAATAAAATACAAAAATAATA
* * * * * *
22227325 TATTTTTATTGAAAGTAATAAAATTCG-GGAAA-AATACGAACAAATGTCCGAAATAAG-GTTTT
64 TATTTTTATTGAAAGTAATAAAATTCGAGAAAATAATACGAGCAAAGGGCAGGAATAAGAGTTTT
*
22227387 TT--ACTAAATTTTTTTAGAAAA--AAGAAA
129 TTACACTAAA--TTTTTA-AAAATTCA-AAA
* * * * * ** *
22227414 T-AATTAATACACTTCAAACATAATTTACTAAAATAATGTAAAATAATAAAATACGAAAATAATA
1 TAAAGTAATAAAATTCAAA-ATAATGT-CTGAAATAATACAAAATAATAAAATACAAAAATAATA
*
22227478 TATTTTTATTTAAAGTAATAAAATTCGAGAAAATAATACGA
64 TATTTTTATTGAAAGTAATAAAATTCGAGAAAATAATACGA
22227519 ATAAATGGTC
Statistics
Matches: 816, Mismatches: 123, Indels: 188
0.72 0.11 0.17
Matches are distributed among these distances:
134 2 0.00
135 22 0.03
136 1 0.00
137 15 0.02
138 5 0.01
139 20 0.02
140 4 0.00
141 44 0.05
142 1 0.00
143 2 0.00
145 1 0.00
149 1 0.00
151 11 0.01
152 19 0.02
153 59 0.07
154 47 0.06
155 66 0.08
156 60 0.07
157 48 0.06
158 91 0.11
159 74 0.09
160 65 0.08
161 64 0.08
162 56 0.07
163 25 0.03
164 13 0.02
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (155 bp):
TAAAGTAATAAAATTCAAAATAATGTCTGAAATAATACAAAATAATAAAATACAAAAATAATATA
TTTTTATTGAAAGTAATAAAATTCGAGAAAATAATACGAGCAAAGGGCAGGAATAAGAGTTTTTT
ACACTAAATTTTTAAAAATTCAAAA
Found at i:22238555 original size:3 final size:3
Alignment explanation
Indices: 22238547--22238577 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
22238537 GCGTTAAGCT
22238547 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
22238578 ACTGGTTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:22257412 original size:13 final size:13
Alignment explanation
Indices: 22257391--22257433 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
22257381 TTTTCATTAC
*
22257391 TTTTAAAAAGTAT
1 TTTTGAAAAGTAT
*
22257404 TTTTGAAAAGTGT
1 TTTTGAAAAGTAT
* *
22257417 TGTAGAAAAGTAT
1 TTTTGAAAAGTAT
22257430 TTTT
1 TTTT
22257434 CAGAAGTACT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (13 bp):
TTTTGAAAAGTAT
Found at i:22257451 original size:26 final size:26
Alignment explanation
Indices: 22257388--22257451 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
22257378 AGTTTTTCAT
*
22257388 TACTTTTAAAAAGTATTTTTGAAAAG
1 TACTTTTAAAAAGTATTTTTCAAAAG
* * *
22257414 T-GTTGTAGAAAAGTATTTTTCAGAAG
1 TACTTTTA-AAAAGTATTTTTCAAAAG
22257440 TACTTTTAAAAA
1 TACTTTTAAAAA
22257452 ATTTGGTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
25 4 0.13
26 22 0.73
27 4 0.13
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (26 bp):
TACTTTTAAAAAGTATTTTTCAAAAG
Found at i:22259201 original size:31 final size:31
Alignment explanation
Indices: 22259150--22259225 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
22259140 AATAGCCTAA
* *
22259150 TGACTTAAATAAAAATTTTCGAATAATTTAG
1 TGACTTAAATTAAAACTTTCGAATAATTTAG
*
22259181 TGACTTCAATTAAAACTTTCGAATAATTTAG
1 TGACTTAAATTAAAACTTTCGAATAATTTAG
*
22259212 TAACTTAAATTAAA
1 TGACTTAAATTAAA
22259226 CGTACACTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (31 bp):
TGACTTAAATTAAAACTTTCGAATAATTTAG
Found at i:22261056 original size:23 final size:23
Alignment explanation
Indices: 22261030--22261075 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
22261020 TGTGGACTAG
22261030 ACATAAGAGGTTAAGTGATCTAT
1 ACATAAGAGGTTAAGTGATCTAT
22261053 ACATAAGAGGTTAAGTGATCTAT
1 ACATAAGAGGTTAAGTGATCTAT
22261076 CACCATAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (23 bp):
ACATAAGAGGTTAAGTGATCTAT
Found at i:22262558 original size:194 final size:195
Alignment explanation
Indices: 22262208--22262674 Score: 592
Period size: 196 Copynumber: 2.4 Consensus size: 195
22262198 AACCGTAAGC
22262208 TTATAAAATTTATAGGGGTC-AAAGTACAATTTTATCTTTTATATGCTTGTTATTTTAGAATTTT
1 TTATAAAATTTA-AGGGGTCAAAAGTACAATTTTATCTTTTATATGCTTGTTATTTTAGAATTTT
* * * * *
22262272 AAAGGGATTAAACTGAATTTTTTTATCTTTGGGGATGCCAAAGTGTATTTTTACCATTTAAATTA
65 AAAGGGATTAAACTGAATATTTTCATCTCTAGGGAGGCCAAAGTGTATTTTTACCATTTAAATTA
** * *
22262337 ACTTATAATTTTAAAAACTTAAAGGGACTAAAATGATAATTTCCCCTTTTG-GGG-CTAAAAATA
130 AAATATAATATTAAAAACTTAAAGGGACTAAAATGATAATTT-CCCTTTTGAGGGCCCAAAAATA
22262400 AA
194 AA
* ** *
22262402 TTATAAAACTTTAATGGGTCAAAAGTGTAATTTTATCTTTGTATATGCTTGTTATTTTCGAATTT
1 TTATAAAA-TTTAAGGGGTCAAAAGTACAATTTTATCTTT-TATATGCTTGTTATTTTAGAATTT
* * * *
22262467 TAAGGGGATTAAACTGAA-ATTTTCATCTCTATGGAGGTCAAAGTGTATTTTTACTA-TTAAATT
64 TAAAGGGATTAAACTGAATATTTTCATCTCTAGGGAGGCCAAAGTGTATTTTTACCATTTAAATT
* * * * *
22262530 AAAATGTAATATTAAAAACTTCAAGGGACTAAATTGATAATTTGCCTTTTGAGGGCCCAAAAGTA
129 AAAATATAATATTAAAAACTTAAAGGGACTAAAATGATAATTTCCCTTTTGAGGGCCCAAAAATA
*
22262595 TA
194 AA
*
22262597 TTATGAAAATTTTAAGGGGTCAAAAGTACAATTTTAT-TTTTATAT--AT-TTATTTTAGAATTT
1 TTAT-AAAA-TTTAAGGGGTCAAAAGTACAATTTTATCTTTTATATGCTTGTTATTTTAGAATTT
*
22262658 TAAAAGGATTAAACTGA
64 TAAAGGGATTAAACTGA
22262675 TTTTTTTTTC
Statistics
Matches: 236, Mismatches: 31, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
191 28 0.12
192 1 0.00
193 7 0.03
194 66 0.28
195 66 0.28
196 68 0.29
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.41
Consensus pattern (195 bp):
TTATAAAATTTAAGGGGTCAAAAGTACAATTTTATCTTTTATATGCTTGTTATTTTAGAATTTTA
AAGGGATTAAACTGAATATTTTCATCTCTAGGGAGGCCAAAGTGTATTTTTACCATTTAAATTAA
AATATAATATTAAAAACTTAAAGGGACTAAAATGATAATTTCCCTTTTGAGGGCCCAAAAATAAA
Found at i:22262688 original size:194 final size:193
Alignment explanation
Indices: 22262208--22262681 Score: 577
Period size: 194 Copynumber: 2.4 Consensus size: 193
22262198 AACCGTAAGC
22262208 TTATAAAATTTATAGGGGTC-AAAGTACAATTTTATCTTTTATATGCTTGTTATTTTAGAATTTT
1 TTATAAAATTTA-AGGGGTCAAAAGTACAATTTTATCTTTTATAT-CTTGTTATTTTAGAATTTT
* * *
22262272 AAAGGGATTAAACTGAATTTTTTT-ATCTTTGGGGATGCCAAAGTGTATTTTTACCATTTAAATT
64 AAAGGGATTAAACTG-ATTTTTTTCATCTCTAGGGAGGCCAAAGTGTATTTTTACCATTTAAATT
** * *
22262336 AACTTATAATTTTAAAAACTTAAAGGGACTAAAATGATAATTTCCCCTTTTGGGGCTAAAAATAA
128 AAAATATAATATTAAAAACTTAAAGGGACTAAAATGATAATTTCCCCTTTTGGGGCCAAAAATAA
22262401 A
193 A
* ** *
22262402 TTATAAAACTTTAATGGGTCAAAAGTGTAATTTTATCTTTGTATATGCTTGTTATTTTCGAATTT
1 TTATAAAA-TTTAAGGGGTCAAAAGTACAATTTTATCTTT-TATAT-CTTGTTATTTTAGAATTT
* ** * * *
22262467 TAAGGGGATTAAACTGA-AATTTTCATCTCTATGGAGGTCAAAGTGTATTTTTACTA-TTAAATT
63 TAAAGGGATTAAACTGATTTTTTTCATCTCTAGGGAGGCCAAAGTGTATTTTTACCATTTAAATT
* * * * *
22262530 AAAATGTAATATTAAAAACTTCAAGGGACTAAATTGATAATTT-GCCTTTTGAGGGCCCAAAAGT
128 AAAATATAATATTAAAAACTTAAAGGGACTAAAATGATAATTTCCCCTTTTG-GGG-CCAAAAAT
*
22262594 ATA
191 AAA
*
22262597 TTATGAAAATTTTAAGGGGTCAAAAGTACAATTTTAT-TTTTATAT-AT-TTATTTTAGAATTTT
1 TTAT-AAAA-TTTAAGGGGTCAAAAGTACAATTTTATCTTTTATATCTTGTTATTTTAGAATTTT
*
22262659 AAAAGGATTAAACTGATTTTTTT
64 AAAGGGATTAAACTGATTTTTTT
22262682 TTCATCTTTG
Statistics
Matches: 239, Mismatches: 33, Indels: 18
0.82 0.11 0.06
Matches are distributed among these distances:
191 28 0.12
192 5 0.02
193 7 0.03
194 70 0.29
195 63 0.26
196 66 0.28
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.42
Consensus pattern (193 bp):
TTATAAAATTTAAGGGGTCAAAAGTACAATTTTATCTTTTATATCTTGTTATTTTAGAATTTTAA
AGGGATTAAACTGATTTTTTTCATCTCTAGGGAGGCCAAAGTGTATTTTTACCATTTAAATTAAA
ATATAATATTAAAAACTTAAAGGGACTAAAATGATAATTTCCCCTTTTGGGGCCAAAAATAAA
Found at i:22263035 original size:67 final size:71
Alignment explanation
Indices: 22262962--22263145 Score: 234
Period size: 67 Copynumber: 2.6 Consensus size: 71
22262952 ACTTCCCTTT
22262962 GAGTTCACCATTGTTGCAGCACTAAATCAAACAAAGGCTATGCATACATTA-TCTGCAA-T-TTC
1 GAGTTCACCATTGTTGCAGCACTAAATCAAACAAAGGCTATGCATACATTACT-TGCAATTCTTC
22263024 CC-TA-A
65 CCTTACA
* *
22263029 GAGTTCACCATTGTTGCAGCACTAAATCAAAAAAAGGCTATACATACATTACTTGCAATTTCTTC
1 GAGTTCACCATTGTTGCAGCACTAAATCAAACAAAGGCTATGCATACATTACTTGCAA-TTCTTC
*
22263094 CCTTTACTT
65 CC-TTAC-A
* * **
22263103 TAGTTCACCATTGTTGCAGCACCAGGTCAAACAAAGGCTATGC
1 GAGTTCACCATTGTTGCAGCACTAAATCAAACAAAGGCTATGC
22263146 TTTTGTAAAC
Statistics
Matches: 100, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
67 54 0.54
68 1 0.01
69 1 0.01
70 5 0.05
72 2 0.02
74 37 0.37
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (71 bp):
GAGTTCACCATTGTTGCAGCACTAAATCAAACAAAGGCTATGCATACATTACTTGCAATTCTTCC
CTTACA
Found at i:22264029 original size:104 final size:104
Alignment explanation
Indices: 22263849--22264056 Score: 416
Period size: 104 Copynumber: 2.0 Consensus size: 104
22263839 GATTGTTTAA
22263849 ACTCTGAGTTTCACTTGTTTGTCCCATTTTTGGATTTTCTTTTTTGCTTTAAACCACTGGTTGTT
1 ACTCTGAGTTTCACTTGTTTGTCCCATTTTTGGATTTTCTTTTTTGCTTTAAACCACTGGTTGTT
22263914 TCACCGTGCCCATGAAAAAGCCTAATGAAATGAAACTAT
66 TCACCGTGCCCATGAAAAAGCCTAATGAAATGAAACTAT
22263953 ACTCTGAGTTTCACTTGTTTGTCCCATTTTTGGATTTTCTTTTTTGCTTTAAACCACTGGTTGTT
1 ACTCTGAGTTTCACTTGTTTGTCCCATTTTTGGATTTTCTTTTTTGCTTTAAACCACTGGTTGTT
22264018 TCACCGTGCCCATGAAAAAGCCTAATGAAATGAAACTAT
66 TCACCGTGCCCATGAAAAAGCCTAATGAAATGAAACTAT
22264057 CTTTTTATAA
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.40
Consensus pattern (104 bp):
ACTCTGAGTTTCACTTGTTTGTCCCATTTTTGGATTTTCTTTTTTGCTTTAAACCACTGGTTGTT
TCACCGTGCCCATGAAAAAGCCTAATGAAATGAAACTAT
Found at i:22264505 original size:125 final size:126
Alignment explanation
Indices: 22264341--22264598 Score: 491
Period size: 125 Copynumber: 2.0 Consensus size: 126
22264331 CATATAATAA
*
22264341 AAAATAACATTATCGTCAACTTGAAATTAATAGGGAATTCTAATTGTGTTCATAATTTTTTAAAA
1 AAAAGAACATTATCGT-AACTTGAAATTAATAGGGAATTCTAATTGTGTTCATAATTTTTTAAAA
22264406 ATCATTTCAATATTTTAAAATGAATAAAAATTTAACTAATGACATTGTAAGAAAAATTATAT
65 ATCATTTCAATATTTTAAAATGAATAAAAATTTAACTAATGACATTGTAAGAAAAATTATAT
22264468 AAAAGAACATTATCGT-ACTTGAAATTAATAGGGAATTCTAATTGTGTTCATAATTTTTTAAAAA
1 AAAAGAACATTATCGTAACTTGAAATTAATAGGGAATTCTAATTGTGTTCATAATTTTTTAAAAA
22264532 TCATTTCAATATTTTAAAATGAATAAAAATTTAACTAATGACATTGTAAGAAAAATTATAT
66 TCATTTCAATATTTTAAAATGAATAAAAATTTAACTAATGACATTGTAAGAAAAATTATAT
22264593 AAAAGA
1 AAAAGA
22264599 TTACAAATCA
Statistics
Matches: 130, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
125 115 0.88
127 15 0.12
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (126 bp):
AAAAGAACATTATCGTAACTTGAAATTAATAGGGAATTCTAATTGTGTTCATAATTTTTTAAAAA
TCATTTCAATATTTTAAAATGAATAAAAATTTAACTAATGACATTGTAAGAAAAATTATAT
Found at i:22264655 original size:125 final size:123
Alignment explanation
Indices: 22264401--22264657 Score: 272
Period size: 125 Copynumber: 2.1 Consensus size: 123
22264391 CATAATTTTT
22264401 TAAAAATCATTTCAATATTTTAAAATGAATAAAAATTTAACTAATGACATTGTAAGAAAAATTAT
1 TAAAAATCATTTCAATATTTTAAAATGAATAAAAATTTAACTAATGACATTGTAAGAAAAATTAT
* * * ***** * * **
22264466 ATAAAAGAACATTATCGTACTTGAAATTAATAGGGAATTCTAATTGTGTTCATAATTTTT
66 ATAAAAGAACATAATCATACTTGAAATT-ATA-GAAATTCTAACCAAATTAAAAATTTAC
22264526 TAAAAATCATTTCAATATTTTAAAATGAATAAAAATTTAACTAATGACATTGTAAGAAAAATTAT
1 TAAAAATCATTTCAATATTTTAAAATGAATAAAAATTTAACTAATGACATTGTAAGAAAAATTAT
* *
22264591 ATAAAAGATTACA-AATCAAATA-TTTAACTT-TA-AAATT-TAACCAAATATAAAAATTAATAC
66 ATAAAAGA--ACATAATC--ATACTTGAAATTATAGAAATTCTAACCAAAT-TAAAAATT--TAC
22264651 TAAAAAT
1 TAAAAAT
22264658 TAACTTTTGT
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
122 4 0.04
123 10 0.09
125 83 0.75
126 3 0.03
127 9 0.08
128 2 0.02
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (123 bp):
TAAAAATCATTTCAATATTTTAAAATGAATAAAAATTTAACTAATGACATTGTAAGAAAAATTAT
ATAAAAGAACATAATCATACTTGAAATTATAGAAATTCTAACCAAATTAAAAATTTAC
Found at i:22265516 original size:7 final size:7
Alignment explanation
Indices: 22265506--22265536 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
22265496 GGGCGAAGGG
22265506 AGGAGGT
1 AGGAGGT
22265513 AGGAGGT
1 AGGAGGT
22265520 AGGAGGT
1 AGGAGGT
22265527 AGGAGGT
1 AGGAGGT
22265534 AGG
1 AGG
22265537 GGCTTGACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.58, T:0.13
Consensus pattern (7 bp):
AGGAGGT
Found at i:22269939 original size:67 final size:67
Alignment explanation
Indices: 22269844--22270040 Score: 394
Period size: 67 Copynumber: 2.9 Consensus size: 67
22269834 TCATATTCAT
22269844 TTATTTAGTTGATAAACGAACAGGACCAGAATGATTTATGAACTGTTTATCAATATATTCACGAA
1 TTATTTAGTTGATAAACGAACAGGACCAGAATGATTTATGAACTGTTTATCAATATATTCACGAA
22269909 TA
66 TA
22269911 TTATTTAGTTGATAAACGAACAGGACCAGAATGATTTATGAACTGTTTATCAATATATTCACGAA
1 TTATTTAGTTGATAAACGAACAGGACCAGAATGATTTATGAACTGTTTATCAATATATTCACGAA
22269976 TA
66 TA
22269978 TTATTTAGTTGATAAACGAACAGGACCAGAATGATTTATGAACTGTTTATCAATATATTCACG
1 TTATTTAGTTGATAAACGAACAGGACCAGAATGATTTATGAACTGTTTATCAATATATTCACG
22270041 GCTGTGAATG
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 130 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (67 bp):
TTATTTAGTTGATAAACGAACAGGACCAGAATGATTTATGAACTGTTTATCAATATATTCACGAA
TA
Done.