Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold121
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: 1176681
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.32
Warning! 78447 characters in sequence are not A, C, G, or T
File 4 of 4
Found at i:860612 original size:33 final size:33
Alignment explanation
Indices: 860569--860631 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
860559 GGCTCCTCTG
860569 GTCTTCTGCTTCGCTGCTTCTGCTGTCTCCATT
1 GTCTTCTGCTTCGCTGCTTCTGCTGTCTCCATT
* *
860602 GTCTTTTGCTTCGCTGCTTCTGCTTTCTCC
1 GTCTTCTGCTTCGCTGCTTCTGCTGTCTCC
860632 TTCATGCTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.02, C:0.33, G:0.17, T:0.48
Consensus pattern (33 bp):
GTCTTCTGCTTCGCTGCTTCTGCTGTCTCCATT
Found at i:861381 original size:118 final size:119
Alignment explanation
Indices: 861236--861475 Score: 473
Period size: 118 Copynumber: 2.0 Consensus size: 119
861226 GTTTAATTTA
861236 ATATTCAGTGGTTATTTTTTTAATAATATTGTTTTTAAATTTTATTATCTACAATCAAATTTCAT
1 ATATTCAGTGGTTATTTTTTTAATAATATTGTTTTTAAATTTTATTATCTACAATCAAATTTCAT
861301 ACATTATCCAAATTTATAAATAATTCTAGGATTTATTTTTAAAAAAAATATATT
66 ACATTATCCAAATTTATAAATAATTCTAGGATTTATTTTTAAAAAAAATATATT
861355 ATATTCAGTGG-TATTTTTTTAATAATATTGTTTTTAAATTTTATTATCTACAATCAAATTTCAT
1 ATATTCAGTGGTTATTTTTTTAATAATATTGTTTTTAAATTTTATTATCTACAATCAAATTTCAT
861419 ACATTATCCAAATTTATAAATAATTCTAGGATTTATTTTTAAAAAAAATATATT
66 ACATTATCCAAATTTATAAATAATTCTAGGATTTATTTTTAAAAAAAATATATT
861473 ATA
1 ATA
861476 AAGAGAATGA
Statistics
Matches: 121, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
118 110 0.91
119 11 0.09
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.48
Consensus pattern (119 bp):
ATATTCAGTGGTTATTTTTTTAATAATATTGTTTTTAAATTTTATTATCTACAATCAAATTTCAT
ACATTATCCAAATTTATAAATAATTCTAGGATTTATTTTTAAAAAAAATATATT
Found at i:866919 original size:21 final size:20
Alignment explanation
Indices: 866894--866945 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
866884 ATTTAAGTAT
866894 ATTTAAATTTTATATAATATA
1 ATTTAAATTTTATATAATA-A
* ** *
866915 ATTTACATAATATATTATAA
1 ATTTAAATTTTATATAATAA
*
866935 ATTTGAATTTT
1 ATTTAAATTTT
866946 CTTCTTATGA
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
ATTTAAATTTTATATAATAA
Found at i:870259 original size:7 final size:7
Alignment explanation
Indices: 870247--870278 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
870237 TGATCTGATC
870247 AGTGACA
1 AGTGACA
870254 AGTGACA
1 AGTGACA
870261 AGTGACA
1 AGTGACA
*
870268 AGTGATA
1 AGTGACA
870275 AGTG
1 AGTG
870279 GTAGCTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (7 bp):
AGTGACA
Found at i:873014 original size:33 final size:34
Alignment explanation
Indices: 872967--873034 Score: 129
Period size: 33 Copynumber: 2.0 Consensus size: 34
872957 TGTACATGTC
872967 ATTCTTTCAAAATAAGTCATTTTCAAATACCAAA
1 ATTCTTTCAAAATAAGTCATTTTCAAATACCAAA
873001 ATTCTTT-AAAATAAGTCATTTTCAAATACCAAA
1 ATTCTTTCAAAATAAGTCATTTTCAAATACCAAA
873034 A
1 A
873035 GATATGGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 27 0.79
34 7 0.21
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (34 bp):
ATTCTTTCAAAATAAGTCATTTTCAAATACCAAA
Found at i:892688 original size:21 final size:21
Alignment explanation
Indices: 892664--892710 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
892654 TATTATAATA
892664 ATTT-GATTTTACATTATATGT
1 ATTTAGATTTTA-ATTATATGT
* *
892685 ATTTATATTTTAATTATATTT
1 ATTTAGATTTTAATTATATGT
892706 ATTTA
1 ATTTA
892711 TAAATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (21 bp):
ATTTAGATTTTAATTATATGT
Found at i:892711 original size:21 final size:22
Alignment explanation
Indices: 892669--892712 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
892659 TAATAATTTG
892669 ATTTTACATTATATGTATTTAT
1 ATTTTACATTATATGTATTTAT
*
892691 ATTTTA-ATTATATTTATTTAT
1 ATTTTACATTATATGTATTTAT
892712 A
1 A
892713 AATTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTTTACATTATATGTATTTAT
Found at i:893519 original size:24 final size:24
Alignment explanation
Indices: 893492--893562 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 24
893482 AAAAATACTA
*
893492 AAATTTCTCTTTTTTAT-TTTTAGT
1 AAATTT-TATTTTTTATATTTTAGT
893516 AAATTTTATTTTTTATATTTTA-T
1 AAATTTTATTTTTTATATTTTAGT
*
893539 AAGTTTT-TTGTTTTAATAATTTTA
1 AAATTTTATT-TTTT-AT-ATTTTA
893563 ATAATTTGGA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
22 2 0.05
23 20 0.49
24 13 0.32
25 6 0.15
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (24 bp):
AAATTTTATTTTTTATATTTTAGT
Found at i:900157 original size:42 final size:40
Alignment explanation
Indices: 900093--900196 Score: 127
Period size: 40 Copynumber: 2.5 Consensus size: 40
900083 CTTTTCCCCT
* * * *
900093 AAATTGTGTCCACGTCAACGCGATGTCAGGGGACGTGTCAGC
1 AAATCGTGTCCACGTCAGCGCGAT-T-AGAGGACGTGGCAGC
* *
900135 AAATCGTGTCCACGTCAGCGCGATTTGATGACGTGGCAGC
1 AAATCGTGTCCACGTCAGCGCGATTAGAGGACGTGGCAGC
*
900175 AAATCGCGTCCACGTCAGCGCG
1 AAATCGTGTCCACGTCAGCGCG
900197 CTTTGTGTCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 32 0.58
41 1 0.02
42 22 0.40
ACGTcount: A:0.23, C:0.27, G:0.30, T:0.20
Consensus pattern (40 bp):
AAATCGTGTCCACGTCAGCGCGATTAGAGGACGTGGCAGC
Found at i:900179 original size:40 final size:40
Alignment explanation
Indices: 900124--900201 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
900114 GATGTCAGGG
* *
900124 GACGTGTCAGCAAATCGTGTCCACGTCAGCGCGATTTGAT
1 GACGTGGCAGCAAATCGCGTCCACGTCAGCGCGATTTGAT
*
900164 GACGTGGCAGCAAATCGCGTCCACGTCAGCGCGCTTTG
1 GACGTGGCAGCAAATCGCGTCCACGTCAGCGCGATTTG
900202 TGTCCACGTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.21, C:0.28, G:0.29, T:0.22
Consensus pattern (40 bp):
GACGTGGCAGCAAATCGCGTCCACGTCAGCGCGATTTGAT
Found at i:900311 original size:9 final size:9
Alignment explanation
Indices: 900297--900328 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
900287 CAGGTTAAGA
900297 TTTTTAGGG
1 TTTTTAGGG
*
900306 TTTTTAGGA
1 TTTTTAGGG
900315 TTTTTAGGG
1 TTTTTAGGG
900324 TTTTT
1 TTTTT
900329 GGAGAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.12, C:0.00, G:0.25, T:0.62
Consensus pattern (9 bp):
TTTTTAGGG
Found at i:900864 original size:126 final size:124
Alignment explanation
Indices: 900437--901006 Score: 759
Period size: 126 Copynumber: 4.5 Consensus size: 124
900427 AATAAAATCA
* * * * * * * *
900437 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCATGTGTACGCGTTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCG-CCACGTGGACGCGCTTTTGCTACAGT
* * * *
900502 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTCAGCAAATAGTTTAAAAAACACTTC
65 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
*
900562 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCG-CCACGTGGACGCGCTTTTGCTACAGT
* * * *
900627 TGGTTCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAAACGCTTC
65 AGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAG--TATAAAAAACGCTTC
* * *
900690 AAGCATGATGCTTTATGAGAAGAATTTGTGAAATCACGGCCACTTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGC-GCCACGTGGACGCGCTTTTGCTACAGT
* *
900755 AAGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTAC
65 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTTC
* *
900816 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGTGTCATCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCA-CGTGGACGCGCTTTTGCTACAG
* * * *
900880 TAGGTCCTGGAAAAATAA-TTCTGACTTGACGTTTCTAAGCAAATAGTAT-AAAATCGCTTC
64 TAGGTCCTGAAAAAATAATTTC-GAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
*
900940 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCG-CCACGTGGACGCGCTTTTGCTACAGT
901005 AG
65 AG
901007 CATGTTTGGG
Statistics
Matches: 394, Mismatches: 41, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
123 2 0.01
124 64 0.16
125 78 0.20
126 135 0.34
127 39 0.10
128 75 0.19
129 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (124 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCACGTGGACGCGCTTTTGCTACAGTA
GGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:900898 original size:253 final size:250
Alignment explanation
Indices: 900437--901005 Score: 802
Period size: 253 Copynumber: 2.3 Consensus size: 250
900427 AATAAAATCA
* * * * * * * * *
900437 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCATGTGTACGCGTTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
900502 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTCAGCAAATAGTTTAAAAAACACTTCAAGCA
66 AAGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTCAGCAAATAGTATAAAAAACACTACAAGCA
* * *
900567 GGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTT
131 GGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCATCGTGGACGCGCTTTTGCTACAGTAGGTC
* *
900632 CTGGAAGAAATAATT-TCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAAACGCTTC
196 CTGGAAGAAATAATTCT-GACTTGACGTTTCTAAGCAAATAG--T-AAAAAAACGCTTC
* * *
900690 AAGCATGATGCTTTATGAGAAGAATTTGTGAAATCACGGCCACTTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
* *
900755 AAGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTACAAGC
66 AAGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTCAGCAAATAGTATAAAA-AACACTACAAGC
* *
900820 AGGATGCTATT-TGAGAAGAATTTGTGAAATCGTGTCATCGTGGACGCGCTTTTGCTACAGTAGG
130 AGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCATCGTGGACGCGCTTTTGCTACAGTAGG
* *
900884 TCCTGGAA-AAATAATTCTGACTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTC
194 TCCTGGAAGAAATAATTCTGACTTGACGTTTCTAAGCAAATAGTAAAAAAACGCTTC
* *
900940 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
901005 A
66 A
901006 GCATGTTTGG
Statistics
Matches: 281, Mismatches: 32, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
250 72 0.26
251 1 0.00
253 131 0.47
254 75 0.27
255 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (250 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCACGCCCACGTGGACGCGCTTTTGCTACAGT
AAGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTCAGCAAATAGTATAAAAAACACTACAAGCA
GGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCATCGTGGACGCGCTTTTGCTACAGTAGGTC
CTGGAAGAAATAATTCTGACTTGACGTTTCTAAGCAAATAGTAAAAAAACGCTTC
Found at i:913477 original size:41 final size:41
Alignment explanation
Indices: 913432--913534 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
913422 GTGATAATCG
* * * ** *
913432 GGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCA
1 GGCTTTAAGCCTAGCAGGCTTAATACCGGTGAACCATAACA
*
913473 GGCTTTAAGCCTAGCAGGCTTAATACCGGTGTACCATAACA
1 GGCTTTAAGCCTAGCAGGCTTAATACCGGTGAACCATAACA
913514 GGCTTTACA-CCTAGCAGGCTT
1 GGCTTTA-AGCCTAGCAGGCTT
913535 CGTGCCAGTG
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 53 0.98
42 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (41 bp):
GGCTTTAAGCCTAGCAGGCTTAATACCGGTGAACCATAACA
Found at i:918692 original size:35 final size:33
Alignment explanation
Indices: 918653--918727 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 33
918643 CATATCTATG
*
918653 TATATAAATTATAAAGCATGAAGATAAAAG-ATATA
1 TATATAAA-TATAAAGCAT-AAAATAAAAGTA-ATA
* * *
918688 TATATATATATAAAGTATAAAATACAAGTAATA
1 TATATAAATATAAAGCATAAAATAAAAGTAATA
918721 TATATAA
1 TATATAA
918728 GTAGGCATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
33 17 0.50
34 10 0.29
35 7 0.21
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (33 bp):
TATATAAATATAAAGCATAAAATAAAAGTAATA
Found at i:931066 original size:24 final size:23
Alignment explanation
Indices: 931039--931090 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
931029 AATTTTTTTA
* *
931039 ATTTTCAAAATTAAATATAAAAAT
1 ATTTTCAAAAAT-AAGATAAAAAT
* *
931063 ATTTTTAAAAATAAGATACAAAT
1 ATTTTCAAAAATAAGATAAAAAT
931086 ATTTT
1 ATTTT
931091 TAGTAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (23 bp):
ATTTTCAAAAATAAGATAAAAAT
Found at i:932794 original size:2 final size:2
Alignment explanation
Indices: 932789--932813 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
932779 GTGTGTATAA
932789 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
932814 CTTTATTAGT
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:933606 original size:63 final size:63
Alignment explanation
Indices: 933528--933653 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
933518 TAGGGTATAG
933528 TTGGCATTCCATAAGATTCGTATATGTTGTTCGTGGGAGCATTTGGGCACTTTAATGCGATTC
1 TTGGCATTCCATAAGATTCGTATATGTTGTTCGTGGGAGCATTTGGGCACTTTAATGCGATTC
*
933591 TTGGCATTCCATAAGATTCGTATATGTTGTTGGTGGGAGCATTTGGGCACTTTAATGCGATTC
1 TTGGCATTCCATAAGATTCGTATATGTTGTTCGTGGGAGCATTTGGGCACTTTAATGCGATTC
933654 ATTCTGACAC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (63 bp):
TTGGCATTCCATAAGATTCGTATATGTTGTTCGTGGGAGCATTTGGGCACTTTAATGCGATTC
Found at i:933679 original size:23 final size:23
Alignment explanation
Indices: 933653--933704 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
933643 TAATGCGATT
*
933653 CATTCTGACA-CTTCGGTGTGATC
1 CATTCTGACATCTT-GGTGGGATC
* *
933676 CATTCTGGCATCTTGGTGGGATT
1 CATTCTGACATCTTGGTGGGATC
933699 CATTCT
1 CATTCT
933705 ATGGAGTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (23 bp):
CATTCTGACATCTTGGTGGGATC
Found at i:934390 original size:117 final size:117
Alignment explanation
Indices: 934229--934462 Score: 405
Period size: 117 Copynumber: 2.0 Consensus size: 117
934219 ATGTGCTTAC
* * *
934229 CTTGATAGGTCATATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTTTTAGTGACGTT
1 CTTGATAGGTCACATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
*
934294 TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTATTACATATCGTATGGT
66 TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTAGTACATATCGTATGGT
*
934346 CTTGATAGGTTACATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
1 CTTGATAGGTCACATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
* *
934411 TTGAACATGTCTTGGATGTTTTGGATGATTTTAGTAGTACATATCGTATGGT
66 TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTAGTACATATCGTATGGT
934463 TAATGACTAA
Statistics
Matches: 110, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 110 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (117 bp):
CTTGATAGGTCACATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTAGTACATATCGTATGGT
Found at i:935583 original size:51 final size:51
Alignment explanation
Indices: 935528--935625 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
935518 ACATTGTCTA
* *
935528 ATCATGTTTATGTTATAGTTCTAAGCGTATGGGAATTATTATTATTGTTTG
1 ATCATGTTTATGTTATAGTTCTAAACGTATGGGAATTATTATGATTGTTTG
*
935579 ATCATGTTTATGTTATAGTTCTAAATGTATGGGAATTATTATGATTG
1 ATCATGTTTATGTTATAGTTCTAAACGTATGGGAATTATTATGATTG
935626 AATGCTAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.28, C:0.05, G:0.19, T:0.48
Consensus pattern (51 bp):
ATCATGTTTATGTTATAGTTCTAAACGTATGGGAATTATTATGATTGTTTG
Found at i:940607 original size:24 final size:24
Alignment explanation
Indices: 940562--940608 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
940552 TAACCTCAGT
* ** *
940562 TTTTCTGAAAAATTAAACTAAAAG
1 TTTTATGAAAAACAAAAATAAAAG
940586 TTTTATGAAAAACAAAAATAAAA
1 TTTTATGAAAAACAAAAATAAAA
940609 TAAAGGATTT
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:0.57, C:0.06, G:0.06, T:0.30
Consensus pattern (24 bp):
TTTTATGAAAAACAAAAATAAAAG
Found at i:947511 original size:24 final size:24
Alignment explanation
Indices: 947484--947531 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
947474 TAGTCTTTAT
947484 TACCATAAAAAGGACATGAAACTA
1 TACCATAAAAAGGACATGAAACTA
947508 TACCATAAAAAGGACATGAAACTA
1 TACCATAAAAAGGACATGAAACTA
947532 CCTTACTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.17, G:0.12, T:0.17
Consensus pattern (24 bp):
TACCATAAAAAGGACATGAAACTA
Found at i:957333 original size:20 final size:20
Alignment explanation
Indices: 957308--957347 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
957298 AATATTTTCC
*
957308 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
957328 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
957348 TTATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:957362 original size:34 final size:35
Alignment explanation
Indices: 957296--957362 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
957286 CAAACACCAG
*
957296 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
957331 AAAACATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
957363 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:960417 original size:20 final size:20
Alignment explanation
Indices: 960394--960440 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
960384 TTATTTTTAC
960394 TTTTTTATTAACTTTTGTCT
1 TTTTTTATTAACTTTTGTCT
* *
960414 TTTTCTT-TTAATTTTTTTCT
1 TTTT-TTATTAACTTTTGTCT
960434 TTTTTTA
1 TTTTTTA
960441 AGTTTTAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.09
20 19 0.83
21 2 0.09
ACGTcount: A:0.13, C:0.09, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTTATTAACTTTTGTCT
Found at i:960459 original size:25 final size:24
Alignment explanation
Indices: 960419--960465 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
960409 TGTCTTTTTC
*
960419 TTTTAATTTTTTTCTTTTTTTAAG
1 TTTTAATTTTTTTCTTATTTTAAG
960443 TTTTAAGTTTTTTTCTTATTTTA
1 TTTTAA-TTTTTTTCTTATTTTA
960466 TTTTGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTTAATTTTTTTCTTATTTTAAG
Found at i:960478 original size:13 final size:14
Alignment explanation
Indices: 960458--960503 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
960448 AGTTTTTTTC
960458 TTATTTTATTT-TGT
1 TTATTTTATTTAT-T
960472 TTA-TTTATTTA-T
1 TTATTTTATTTATT
960484 TTATTTTATTTATT
1 TTATTTTATTTATT
960498 GTTATT
1 -TTATT
960504 AATTTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.14
13 15 0.54
14 4 0.14
15 5 0.18
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (14 bp):
TTATTTTATTTATT
Found at i:960484 original size:17 final size:17
Alignment explanation
Indices: 960462--960497 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
960452 TTTTTCTTAT
960462 TTTATTT-TGTTTATTTA
1 TTTATTTAT-TTTATTTA
960479 TTTATTTATTTTATTTA
1 TTTATTTATTTTATTTA
960496 TT
1 TT
960498 GTTATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.94
18 1 0.06
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTATTTATTTTATTTA
Found at i:960495 original size:9 final size:9
Alignment explanation
Indices: 960458--960510 Score: 65
Period size: 9 Copynumber: 5.9 Consensus size: 9
960448 AGTTTTTTTC
960458 TTATTTTAT
1 TTATTTTAT
960467 TT-TGTTTAT
1 TTAT-TTTAT
960476 TTA-TTTAT
1 TTATTTTAT
960484 TTATTTTAT
1 TTATTTTAT
960493 TTATTGTTAT
1 TTATT-TTAT
*
960503 TAATTTTA
1 TTATTTTA
960511 AAAAATTTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
8 9 0.23
9 22 0.56
10 8 0.21
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (9 bp):
TTATTTTAT
Found at i:962230 original size:7 final size:7
Alignment explanation
Indices: 962202--962251 Score: 57
Period size: 7 Copynumber: 7.1 Consensus size: 7
962192 ATAAATTTAT
962202 TTAAAAA
1 TTAAAAA
* *
962209 TATATATA
1 T-TAAAAA
962217 TTAAAAA
1 TTAAAAA
*
962224 GTAAAAA
1 TTAAAAA
962231 TT-AAAA
1 TTAAAAA
962237 TTAAAAA
1 TTAAAAA
962244 TTAAAAA
1 TTAAAAA
962251 T
1 T
962252 ATATATTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 6 0.17
7 24 0.69
8 5 0.14
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (7 bp):
TTAAAAA
Found at i:962259 original size:13 final size:13
Alignment explanation
Indices: 962202--962252 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
962192 ATAAATTTAT
*
962202 TTAAAAATATATATA
1 TTAAAAATA-A-AAA
962217 TTAAAAAGTAAAAA
1 TTAAAAA-TAAAAA
*
962231 TTAAAATTAAAAA
1 TTAAAAATAAAAA
962244 TTAAAAATA
1 TTAAAAATA
962253 TATATTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 14 0.44
14 8 0.25
15 8 0.25
16 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (13 bp):
TTAAAAATAAAAA
Found at i:962259 original size:20 final size:20
Alignment explanation
Indices: 962205--962259 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
962195 AATTTATTTA
962205 AAAATATATATATTAAAAAGT
1 AAAA-ATATATATTAAAAAGT
* *
962226 AAAAAT-TAAAATTAAAAATT
1 AAAAATAT-ATATTAAAAAGT
962246 AAAAATATATATTA
1 AAAAATATATATTA
962260 TAAGATCACA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 1 0.03
20 23 0.79
21 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAATATATATTAAAAAGT
Found at i:962727 original size:20 final size:20
Alignment explanation
Indices: 962704--962768 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
962694 ATAATTTTTT
962704 AATTTTAGTACACATTTATA
1 AATTTTAGTACACATTTATA
* * *
962724 AATTTATA-TATTA-ATTTTTT
1 AATTT-TAGTA-CACATTTATA
*
962744 TATTTTAGTACACATTTATA
1 AATTTTAGTACACATTTATA
962764 AATTT
1 AATTT
962769 ATGTACTTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (20 bp):
AATTTTAGTACACATTTATA
Found at i:962739 original size:40 final size:41
Alignment explanation
Indices: 962695--962779 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 41
962685 GTGTTGGTTA
962695 TAATTTTTTAATTTTAGTACACATTTATAAATTTATATA-T
1 TAATTTTTTAATTTTAGTACACATTTATAAATTTATATACT
* *
962735 TAATTTTTTTATTTTAGTACACATTTATAAATTTATGTACT
1 TAATTTTTTAATTTTAGTACACATTTATAAATTTATATACT
962776 TAAT
1 TAAT
962780 ATATATTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
40 37 0.88
41 5 0.12
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (41 bp):
TAATTTTTTAATTTTAGTACACATTTATAAATTTATATACT
Found at i:963030 original size:62 final size:63
Alignment explanation
Indices: 962952--963075 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 63
962942 CTTTAAAAAC
* ** *
962952 TTAAAGAAATTAAATATATTAAAAAATGTTATGTATAGTCAATTTTAAAATTTTAATATATTT
1 TTAAAGAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTTTAATATATTT
963015 TTAAA-AAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTTTAATATATT
1 TTAAAGAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTTTAATATATT
963076 CAATATATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
62 52 0.91
63 5 0.09
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (63 bp):
TTAAAGAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTTTAATATATTT
Found at i:966029 original size:12 final size:13
Alignment explanation
Indices: 965975--966029 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 13
965965 AAACGTTTGA
965975 ATATCTTTAAAATT
1 ATAT-TTTAAAATT
965989 A-ATTTTAAAATT
1 ATATTTTAAAATT
966001 AATAATTTATAAAAATT
1 -AT-ATTT-T-AAAATT
966018 ATA-TTTAAAATT
1 ATATTTTAAAATT
966030 TAAAATNNNN
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
12 15 0.42
13 4 0.11
14 3 0.08
15 5 0.14
16 3 0.08
17 6 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTTTAAAATT
Found at i:966790 original size:9 final size:9
Alignment explanation
Indices: 966776--966808 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
966766 TAATAACAAT
966776 AAATAAATA
1 AAATAAATA
966785 AAATAAATA
1 AAATAAATA
966794 AACA-AAATA
1 AA-ATAAATA
966803 AAATAA
1 AAATAA
966809 GAAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.05
9 20 0.91
10 1 0.05
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAATAAATA
Found at i:966791 original size:13 final size:13
Alignment explanation
Indices: 966762--966804 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
966752 AAATTTTTTA
*
966762 AAATTAATAACAAT
1 AAATAAATAA-AAT
966776 AAATAAATAAAAT
1 AAATAAATAAAAT
*
966789 AAATAAACAAAAT
1 AAATAAATAAAAT
966802 AAA
1 AAA
966805 ATAAGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 18 0.67
14 9 0.33
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:966823 original size:9 final size:8
Alignment explanation
Indices: 966773--966841 Score: 57
Period size: 8 Copynumber: 8.2 Consensus size: 8
966763 AATTAATAAC
*
966773 AATAAATA
1 AATAAAAA
966781 AATAAAATA
1 AATAAAA-A
966790 AATAAACAA
1 AATAAA-AA
*
966799 AATAAAAT
1 AATAAAAA
*
966807 AAGAAAAA
1 AATAAAAA
966815 AATATAAAA
1 AATA-AAAA
**
966824 CTTAAAAA
1 AATAAAAA
*
966832 AAGAAAAA
1 AATAAAAA
966840 AA
1 AA
966842 ATTAAAGAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
8 27 0.56
9 20 0.42
10 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (8 bp):
AATAAAAA
Found at i:970204 original size:5 final size:5
Alignment explanation
Indices: 970194--970234 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
970184 AATTCAATTT
* * *
970194 AACTC AGCTC AGCTC AGCTC AACTC AACTC AACTC AACTC A
1 AACTC AACTC AACTC AACTC AACTC AACTC AACTC AACTC A
970235 CTTCACTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.34, C:0.39, G:0.07, T:0.20
Consensus pattern (5 bp):
AACTC
Found at i:995499 original size:31 final size:30
Alignment explanation
Indices: 995460--995519 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
995450 TTTTTTGTCA
*
995460 CAAGTGGTACTTAAACTATATTTTATTACT
1 CAAGTGGTACTTAAACTATATTTCATTACT
*
995490 CAAGATGGTACTTAAACTATGTTTCATTAC
1 CAAG-TGGTACTTAAACTATATTTCATTAC
995520 CCAAATGACC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (30 bp):
CAAGTGGTACTTAAACTATATTTCATTACT
Found at i:997375 original size:31 final size:31
Alignment explanation
Indices: 997323--997383 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
997313 GCCGAAGTAA
* *
997323 TTTGGGTAATAAAGTACAGTTTAGGTACCAC
1 TTTGAGTAACAAAGTACAGTTTAGGTACCAC
*
997354 TTTGAGTAACAAAGTATAGTTTAGGTACCA
1 TTTGAGTAACAAAGTACAGTTTAGGTACCA
997384 ACTTAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (31 bp):
TTTGAGTAACAAAGTACAGTTTAGGTACCAC
Found at i:999756 original size:32 final size:32
Alignment explanation
Indices: 999715--999778 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
999705 TGTCTTGAGA
999715 CATAGCCTCCCAATGACTATATAATAACTATG
1 CATAGCCTCCCAATGACTATATAATAACTATG
999747 CATAGCCTCCCAATGACTATATAATAACTATG
1 CATAGCCTCCCAATGACTATATAATAACTATG
999779 TTTCAACCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (32 bp):
CATAGCCTCCCAATGACTATATAATAACTATG
Found at i:1004818 original size:26 final size:26
Alignment explanation
Indices: 1004762--1004819 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
1004752 ACATACCGCA
* *
1004762 GCTCTTTATGAGCTTCCCGATATAAG
1 GCTCTTAATGAGCTTCCCGATATAAC
* *
1004788 GCTCTTAATGAGCTTCCTGATATGAC
1 GCTCTTAATGAGCTTCCCGATATAAC
*
1004814 TCTCTT
1 GCTCTT
1004820 GAACTTCTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (26 bp):
GCTCTTAATGAGCTTCCCGATATAAC
Found at i:1015925 original size:20 final size:20
Alignment explanation
Indices: 1015884--1015925 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
1015874 TAAAACTATT
* *
1015884 TTTCATTTTTATTAATTAAA
1 TTTCATTTTTAGTAAGTAAA
1015904 TTTCA-TTTTAGTAAGTACAA
1 TTTCATTTTTAGTAAGTA-AA
1015924 TT
1 TT
1015926 ATTTTATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTCATTTTTAGTAAGTAAA
Found at i:1018413 original size:18 final size:19
Alignment explanation
Indices: 1018376--1018415 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
1018366 CGGAAAATAA
1018376 TTTTTAAAAAATAACTTATT
1 TTTTTAAAAAATAAC-TATT
1018396 TTTTTAAAAAATAA-TATT
1 TTTTTAAAAAATAACTATT
1018414 TT
1 TT
1018416 CTGGTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
20 14 0.70
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTTAAAAAATAACTATT
Found at i:1018987 original size:18 final size:18
Alignment explanation
Indices: 1018964--1019003 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1018954 TTATTATTTT
*
1018964 TAAAATTT-ACTATTAAAA
1 TAAAATTTAAATATT-AAA
1018982 TAAAATTTAAATATTAAA
1 TAAAATTTAAATATTAAA
1019000 TAAA
1 TAAA
1019004 TTATTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAATTTAAATATTAAA
Found at i:1019010 original size:19 final size:19
Alignment explanation
Indices: 1018974--1019024 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 19
1018964 TAAAATTTAC
*
1018974 TATTAAAATAAAAT-TTAAA
1 TATT-AAATAAATTATTAAA
1018993 TATTAAATAAATTATTAAA
1 TATTAAATAAATTATTAAA
*
1019012 -AAT-AATAAATTAT
1 TATTAAATAAATTAT
1019025 ATTAATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 10 0.34
18 10 0.34
19 9 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TATTAAATAAATTATTAAA
Found at i:1023533 original size:31 final size:30
Alignment explanation
Indices: 1023457--1023533 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
1023447 GGAGAACTGG
* *
1023457 CCCGTGTGGCTCCACACGATCTGACACACT
1 CCCGTGTGTCTCCACACGATCTGACACACA
* *
1023487 TCCGTATGTC-CCACAC-AGTCTGACACACA
1 CCCGTGTGTCTCCACACGA-TCTGACACACA
1023516 CCCGTGTGTCTCACACAC
1 CCCGTGTGTCTC-CACAC
1023534 CCATGTCACT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 1 0.03
29 24 0.63
30 8 0.21
31 5 0.13
ACGTcount: A:0.22, C:0.40, G:0.17, T:0.21
Consensus pattern (30 bp):
CCCGTGTGTCTCCACACGATCTGACACACA
Found at i:1026907 original size:43 final size:41
Alignment explanation
Indices: 1026854--1026983 Score: 98
Period size: 45 Copynumber: 3.0 Consensus size: 41
1026844 ATCCAAAAAT
*
1026854 TACTGGCAACTTTTAGCTGCAAATATGTTGTGCATCCACAACC
1 TACTGACAACTTTTA-CT-CAAATATGTTGTGCATCCACAACC
* * * * * * * **
1026897 TATTGACAACTTAATAATCTATAACACTGGTGTTCATCCATAAAT
1 TACTGACAACTT-TTACTC-A-AATA-TGTTGTGCATCCACAACC
1026942 TACTGACAACTTTTATCTACAAATATGTTGTGCATCCACAAC
1 TACTGACAACTTTTA-CT-CAAATATGTTGTGCATCCACAAC
1026984 AAGTGGCAAC
Statistics
Matches: 63, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
42 1 0.02
43 25 0.40
44 10 0.16
45 26 0.41
46 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (41 bp):
TACTGACAACTTTTACTCAAATATGTTGTGCATCCACAACC
Found at i:1026965 original size:88 final size:89
Alignment explanation
Indices: 1026808--1026983 Score: 282
Period size: 88 Copynumber: 2.0 Consensus size: 89
1026798 AAGGAGGAAG
* * *
1026808 TATTGACAATTTAATAATCTACAACACTAGTGGTTCATCCAAAAATTACTGGCAACTTTTAGCTG
1 TATTGACAACTTAATAATCTACAACACTAGTGGTTCATCCAAAAATTACTGACAACTTTTAGCTA
1026873 CAAATATGTTGTGCATCCACAACC
66 CAAATATGTTGTGCATCCACAACC
* * * *
1026897 TATTGACAACTTAATAATCTATAACACTGGT-GTTCATCCATAAATTACTGACAACTTTTATCTA
1 TATTGACAACTTAATAATCTACAACACTAGTGGTTCATCCAAAAATTACTGACAACTTTTAGCTA
1026961 CAAATATGTTGTGCATCCACAAC
66 CAAATATGTTGTGCATCCACAAC
1026984 AAGTGGCAAC
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.65
89 28 0.35
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (89 bp):
TATTGACAACTTAATAATCTACAACACTAGTGGTTCATCCAAAAATTACTGACAACTTTTAGCTA
CAAATATGTTGTGCATCCACAACC
Found at i:1027112 original size:100 final size:99
Alignment explanation
Indices: 1026924--1027112 Score: 254
Period size: 100 Copynumber: 1.9 Consensus size: 99
1026914 TCTATAACAC
1026924 TGGTGTTCATCCATAAATTACTGACAACTTTTATCTACAAATATGTTGTGCATCCACAACAAGTG
1 TGGTGTTCATCCATAAATTACTGACAACTTTTATCTACAAATATGTTGTGCATCCACAACAAGTG
**
1026989 GCAACTTGTCTGTGAACTATTTTTTTTTAAATAT
66 GCAACTTGTCTGCAAACTATTTTTTTTTAAATAT
***** * *
1027023 TGGTGGTTCATCCATAAATTACTGGTTGTTTTTATCTGCAGATATGTTGTGCA-CCTACAACAAG
1 TGGT-GTTCATCCATAAATTACTGACAACTTTTATCTACAAATATGTTGTGCATCC-ACAACAAG
* *
1027087 TGGCAGCTTGTCTGCAAACTGTTTTT
64 TGGCAACTTGTCTGCAAACTATTTTT
1027113 AAAATACTGG
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
99 6 0.08
100 71 0.92
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.39
Consensus pattern (99 bp):
TGGTGTTCATCCATAAATTACTGACAACTTTTATCTACAAATATGTTGTGCATCCACAACAAGTG
GCAACTTGTCTGCAAACTATTTTTTTTTAAATAT
Found at i:1027157 original size:100 final size:99
Alignment explanation
Indices: 1026922--1027184 Score: 223
Period size: 100 Copynumber: 2.6 Consensus size: 99
1026912 AATCTATAAC
* * *
1026922 ACTGGT-GTTCATCCATAAATTACTGAC--AACTTTTATCTACAAATATGTTGTGCATCCACAAC
1 ACTGGTGGTTCATCCATAAATTACTG-CTGGA-GTTTATCTGCAAATATGTTGTGCATCCACAAC
* * * *
1026984 AAGTGGCAACTTGTCTGTGAACTATTTTTTTTTAAAT
64 AAGTGGCAACTTGTCTGTCAAC-ACTGTTTTTAAAAT
* * * ** *
1027021 ATTGGTGGTTCATCCATAAATTACTGGTTGTTTTTATCTGCAGATATGTTGTGCA-CCTACAACA
1 ACTGGTGGTTCATCCATAAATTACTGCTGGAGTTTATCTGCAAATATGTTGTGCATCC-ACAACA
*
1027085 AGTGGCAGCTTGTCTG-CAA-ACTGTTTTTAAAAT
65 AGTGGCAACTTGTCTGTCAACACTGTTTTTAAAAT
* * * * * *
1027118 ACTGGTTGTTTATCCATAATTTTGACTGCTGGGAGTTTATTTGCAAATACTGGTGGTTCATCCAC
1 ACTGGTGGTTCATCCATAA-ATT-ACTGCT-GGAGTTTATCTGCAAATA-T-GTTGTGCATCCAC
1027183 AA
61 AA
1027185 ACTAGAGTGT
Statistics
Matches: 131, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
97 27 0.21
98 2 0.02
99 14 0.11
100 75 0.57
101 1 0.01
102 10 0.08
103 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (99 bp):
ACTGGTGGTTCATCCATAAATTACTGCTGGAGTTTATCTGCAAATATGTTGTGCATCCACAACAA
GTGGCAACTTGTCTGTCAACACTGTTTTTAAAAT
Found at i:1033660 original size:37 final size:37
Alignment explanation
Indices: 1033583--1033653 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
1033573 ATTCACAATA
* ** *
1033583 ATTAGTTTAAAAAGTTGTGCTAATTTAATTTATAACT
1 ATTAGTTTAAAAAATTGTGCTAATTTAAAATAGAACT
1033620 ATTAG-TTAAAAAATTGTGCTAATTTTAAAATAGA
1 ATTAGTTTAAAAAATTGTGCTAA-TTTAAAATAGA
1033654 GTTATTACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 16 0.55
37 13 0.45
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.42
Consensus pattern (37 bp):
ATTAGTTTAAAAAATTGTGCTAATTTAAAATAGAACT
Found at i:1033717 original size:12 final size:13
Alignment explanation
Indices: 1033702--1033734 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1033692 GAAAAATTTG
1033702 ATAATTAT-AATT
1 ATAATTATAAATT
1033714 ATAATTATAAATT
1 ATAATTATAAATT
*
1033727 AAAATTAT
1 ATAATTAT
1033735 TAGTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATAATTATAAATT
Found at i:1035707 original size:13 final size:13
Alignment explanation
Indices: 1035686--1035717 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1035676 GCTTAGATCA
*
1035686 TCATCAAATAAAT
1 TCATAAAATAAAT
1035699 TCATAAAATAAAT
1 TCATAAAATAAAT
1035712 TCATAA
1 TCATAA
1035718 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1051079 original size:6 final size:6
Alignment explanation
Indices: 1051070--1051097 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1051060 TACCATCATC
1051070 TTCTGA TTCTGA TTCTGA TTCTGA TTCT
1 TTCTGA TTCTGA TTCTGA TTCTGA TTCT
1051098 TCCGACACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.18, G:0.14, T:0.54
Consensus pattern (6 bp):
TTCTGA
Found at i:1055157 original size:432 final size:434
Alignment explanation
Indices: 1054333--1055195 Score: 1451
Period size: 432 Copynumber: 2.0 Consensus size: 434
1054323 TTTGCCATTG
1054333 AAGTATATGAAGGCGGTGAGAAGGAGTAAGAAGAGTATAAACACGGCAAAGACGACGCATTTAAG
1 AAGTATATGAAGGCGGT-AGAAGGAGTAAGAAGAGTATAAACACGGCAAAGACGACGCATTTAAG
* *
1054398 CTCCAAGGGGAAGGGGATTGCTATGGTGTGACAAAATGCAGCAGCAGCTACAAGGACCCCAACTT
65 CTCCAAGGGGAAGGGGATTGCTATGGCGTAACAAAATGCAGCAGCAGCTACAAGGACCCCAACTT
* * *
1054463 TTTCTAATGTTTCTGAAGTTTGGGTAGAAATTGGTTTGATAAACAAAGCCAGTAAGAAAAGATTG
130 TTTCTAACGTTTCTGAAGTTTGGGTAGAAACTGGTTTGATAAACAAAGCCAATAAGAAAAGATTG
*
1054528 AAAGTAAGTAGGACGAGAAAGGAAAGCACAATCAAAGAAACATTGGATTGATTTTGATCGGTTTG
195 AAAGTAAGTAGGACGAGAAAGGAAAGCACAACCAAAGAAACATTGGATTGATTTTGATCGGTTTG
* * *
1054593 GGCGTACTGGAATTGGAGCACGGTAATGGGATACGAAAAACAAAATGACAGGACTGCGTTTATCC
260 GACGTACTGGAACTGGAGCACGGTAATGGGATACGAAAAACAAAATGACAGGACTGCGCTTATCC
* * *
1054658 ATTGCAGATGCTGCTGAGCTGCTGCAAGTTTCCGATGGGATGGAGTTGGTGGCAGCGGTTGTTGT
325 ATTGCAGATGCTGCTGAGCTGCTGCAAGTTTCCGATGGGAGGGAATTGGTGGCAGCGATTGTTGT
* **
1054723 TGGGGAAGCGGTGGTGTATGTGGTGGTGGTGATTGAAAGTCAACA
390 TGGGGAAGCGGCGGTGTATGTGGTGGCAGTGATTGAAAGTCAACA
1054768 AAGTATATGAAGGCGGT-G-AGGAGTAAGAAGAGTATAAACACGGCAAAGACGACGCATTTAAGC
1 AAGTATATGAAGGCGGTAGAAGGAGTAAGAAGAGTATAAACACGGCAAAGACGACGCATTTAAGC
* * *
1054831 TCCAAGGGGAAGGGGATTGCTATGGCGTAACAAATTGCAGTAGCAGCTACAAGGACTCCAACTTT
66 TCCAAGGGGAAGGGGATTGCTATGGCGTAACAAAATGCAGCAGCAGCTACAAGGACCCCAACTTT
*
1054896 TTCTAACGTTTCTGAAGTTTGGGTAGAAACTGGTTTGATAAACAAAGCCAATAAGAAAAGTTTGA
131 TTCTAACGTTTCTGAAGTTTGGGTAGAAACTGGTTTGATAAACAAAGCCAATAAGAAAAGATTGA
* *
1054961 AAGTAAGTAGGATGAGAAAGGAAAGCACAACCAAAGAAACATTGGGTTGATTTTGATCGGTTTGG
196 AAGTAAGTAGGACGAGAAAGGAAAGCACAACCAAAGAAACATTGGATTGATTTTGATCGGTTTGG
* * * *
1055026 ACGTATTGGAACTGGAGCACGGTCATGGGATACGAAAAACAAAATGAGAGGACTGCGCTTCTCCA
261 ACGTACTGGAACTGGAGCACGGTAATGGGATACGAAAAACAAAATGACAGGACTGCGCTTATCCA
* * *
1055091 TTGTAGATGCTGCTGAGCTGTTGCAAGTTTCTGATGGGAGGGAATTGGTGGCAGCGATTGTTGTT
326 TTGCAGATGCTGCTGAGCTGCTGCAAGTTTCCGATGGGAGGGAATTGGTGGCAGCGATTGTTGTT
1055156 GGGGAAGCGGCGGTGTATGTGGTGGCAGTGATTGAAAGTC
391 GGGGAAGCGGCGGTGTATGTGGTGGCAGTGATTGAAAGTC
1055196 GGAGTGATTG
Statistics
Matches: 400, Mismatches: 28, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
432 382 0.95
433 1 0.00
435 17 0.04
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.24
Consensus pattern (434 bp):
AAGTATATGAAGGCGGTAGAAGGAGTAAGAAGAGTATAAACACGGCAAAGACGACGCATTTAAGC
TCCAAGGGGAAGGGGATTGCTATGGCGTAACAAAATGCAGCAGCAGCTACAAGGACCCCAACTTT
TTCTAACGTTTCTGAAGTTTGGGTAGAAACTGGTTTGATAAACAAAGCCAATAAGAAAAGATTGA
AAGTAAGTAGGACGAGAAAGGAAAGCACAACCAAAGAAACATTGGATTGATTTTGATCGGTTTGG
ACGTACTGGAACTGGAGCACGGTAATGGGATACGAAAAACAAAATGACAGGACTGCGCTTATCCA
TTGCAGATGCTGCTGAGCTGCTGCAAGTTTCCGATGGGAGGGAATTGGTGGCAGCGATTGTTGTT
GGGGAAGCGGCGGTGTATGTGGTGGCAGTGATTGAAAGTCAACA
Found at i:1063225 original size:31 final size:29
Alignment explanation
Indices: 1063179--1063264 Score: 82
Period size: 31 Copynumber: 2.9 Consensus size: 29
1063169 GGATAAATCT
* * *
1063179 CAAAATTATAGATGAACTTTGGTTTAATGTG
1 CAAATTTATACATGAACTTTGATTT--TGTG
* *
1063210 TAAATTTATACATGAATTTTGATTTTGTG
1 CAAATTTATACATGAACTTTGATTTTGTG
* *
1063239 CAATTTTATACATGAAATCTTGATTT
1 CAAATTTATACATGAACT-TTGATTT
1063265 GATGCAATTC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 19 0.41
30 7 0.15
31 20 0.43
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (29 bp):
CAAATTTATACATGAACTTTGATTTTGTG
Found at i:1063248 original size:29 final size:30
Alignment explanation
Indices: 1063214--1063273 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
1063204 AATGTGTAAA
*
1063214 TTTATACATG-AATTTTGATTTTG-TGCAAT
1 TTTATACATGAAATCTTGA-TTTGATGCAAT
1063243 TTTATACATGAAATCTTGATTTGATGCAAT
1 TTTATACATGAAATCTTGATTTGATGCAAT
1063273 T
1 T
1063274 CTCACAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.48
Consensus pattern (30 bp):
TTTATACATGAAATCTTGATTTGATGCAAT
Found at i:1069985 original size:27 final size:26
Alignment explanation
Indices: 1069946--1070002 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
1069936 AAATCCTAAA
* * *
1069946 TTTTCTTTGTTTCCTTCCCT-TTTTCT
1 TTTTCTTTCTTT-CTCCCCTGTTTTCG
1069972 TTTTCTTTCCTTTCTCCCCTGTTTTCG
1 TTTTCTTT-CTTTCTCCCCTGTTTTCG
1069999 TTTT
1 TTTT
1070003 GCTATTCTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.00, C:0.28, G:0.05, T:0.67
Consensus pattern (26 bp):
TTTTCTTTCTTTCTCCCCTGTTTTCG
Found at i:1073330 original size:12 final size:12
Alignment explanation
Indices: 1073313--1073338 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1073303 AACATTGGCC
1073313 GGTGATGATGAT
1 GGTGATGATGAT
1073325 GGTGATGATGAT
1 GGTGATGATGAT
1073337 GG
1 GG
1073339 AGGGAGGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (12 bp):
GGTGATGATGAT
Found at i:1077202 original size:14 final size:14
Alignment explanation
Indices: 1077165--1077202 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
1077155 ATTCCTTAAC
*
1077165 ATAATAATGGTTTT
1 ATAATAATGATTTT
1077179 ATAA-ACATGATTTT
1 ATAATA-ATGATTTT
1077193 ATAATAATGA
1 ATAATAATGA
1077203 GTTGCTTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.05
14 19 0.90
15 1 0.05
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (14 bp):
ATAATAATGATTTT
Found at i:1084462 original size:4 final size:4
Alignment explanation
Indices: 1084453--1084543 Score: 53
Period size: 4 Copynumber: 22.8 Consensus size: 4
1084443 ATTAAAATAA
* * * ** *
1084453 AAAT AAAT AAAT GAAT -AAT ATAT AAAT AAAT AAGT AAAT AAGC AATT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* **
1084500 AAAT GAAT AAAAT AAA- AGGAAT -AAT AAAT AAAT ATGT AAAT AAA
1 AAAT AAAT -AAAT AAAT A--AAT AAAT AAAT AAAT AAAT AAAT AAA
1084544 AAAACTAAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
3 7 0.11
4 53 0.82
5 5 0.08
ACGTcount: A:0.66, C:0.01, G:0.08, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:1084483 original size:23 final size:24
Alignment explanation
Indices: 1084434--1084485 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
1084424 CAAATAAAGG
1084434 AATAAAGGAATTAAAATAAAAATA
1 AATAAAGGAATTAAAATAAAAATA
* * *
1084458 AATAAATGAA-TAATATATAAATA
1 AATAAAGGAATTAAAATAAAAATA
1084481 AATAA
1 AATAA
1084486 GTAAATAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (24 bp):
AATAAAGGAATTAAAATAAAAATA
Found at i:1086438 original size:51 final size:51
Alignment explanation
Indices: 1086358--1086455 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
1086348 AGAATAAGAT
*
1086358 TTGTAACTTTAATATGTTCCACTGCAACTTCAAGG-AGATAAGATTCGTACC
1 TTGTAACTTTAATATGTTCCACTGCAACTT-AAGGAAAATAAGATTCGTACC
* * *
1086409 TTGTAGCTTTAATATGTTCCACTGTAACTTTAGGAAAATAAGATTCG
1 TTGTAACTTTAATATGTTCCACTGCAACTTAAGGAAAATAAGATTCG
1086456 CTATGGTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 3 0.07
51 39 0.93
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (51 bp):
TTGTAACTTTAATATGTTCCACTGCAACTTAAGGAAAATAAGATTCGTACC
Found at i:1086528 original size:44 final size:44
Alignment explanation
Indices: 1086477--1087043 Score: 231
Period size: 44 Copynumber: 12.5 Consensus size: 44
1086467 TTAATCCAAC
* * * *
1086477 CCACTGCAATTTCAGGGAGATTAGACTTGTAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATGAGACTTGTAGCTTCAATCTACT
* * * *
1086521 CCGCTGCAACTTCAGGGCGATGAGACTCGTATCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATGAGACTTGTAGCTTCAATCTACT
* * * * **
1086565 CCACAGCAACTTCTGGGAGATGAGATTTGTAACTTGTAGCTTTAATTTGTT
1 CCACTGCAACTTCAGGGAGAT--GA---G--ACTTGTAGCTTCAATCTACT
* * * * * *
1086616 CCACTACAACTTCAGGGAAATAAGATTTGTATCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATGAGACTTGTAGCTTCAATCTACT
* * * ***
1086660 CCACTGCTACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCCGTT
1 CCACTGCAACTTCAGGGAGAT--GA---G--ACTTGTAGCTTCAATCTACT
* * * * *
1086711 CCACTGCAACTTCAGGGAAATAAGA-TTCACTATCTTCAATCTATT
1 CCACTGCAACTTCAGGGAGATGAGACTT--GTAGCTTCAATCTACT
* * * ** * * *
1086756 CCATTGCAACTTCAGGGAAATAAGGTTTGCTATCTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATGAGACTTG-TAGCTTCAATCTACT
* * * **
1086801 CCACTACAACTTCGGGGAGATAAGTTTTGTAGCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATGAGACTTGTAGCTTCAATCTACT
* * * * * * * * *
1086845 CTACTGCAACTTCAGAGATATAAGATTTGTTATCTAT-GATTTGCT
1 CCACTGCAACTTCAGGGAGATGAGACTTG-TAGCT-TCAATCTACT
* * * * * *
1086890 TCACTGCAACTTCAGGGAGATAATATTTGTAGTTTTAATCTACT
1 CCACTGCAACTTCAGGGAGATGAGACTTGTAGCTTCAATCTACT
* * * * * * ** *
1086934 CTACTACAACTTTAGAGAGATAAGATTTGCTATATTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATGAGACTTG-TAGCTTCAATCTACT
* * * * * * *
1086979 TCACCGCAACTTCAGGGAGATAAGA-TTTTTGCCTTTAATATACT
1 CCACTGCAACTTCAGGGAGATGAGACTTGTAG-CTTCAATCTACT
* *
1087023 CCTCTACAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGGAGAT
1087044 AAGATTCACC
Statistics
Matches: 392, Mismatches: 108, Indels: 46
0.72 0.20 0.08
Matches are distributed among these distances:
43 4 0.01
44 179 0.46
45 133 0.34
46 8 0.02
49 4 0.01
51 64 0.16
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATGAGACTTGTAGCTTCAATCTACT
Found at i:1086609 original size:95 final size:95
Alignment explanation
Indices: 1086272--1086874 Score: 462
Period size: 95 Copynumber: 6.4 Consensus size: 95
1086262 TTGTCGCTTA
* * * * * *
1086272 AATCTGCTCCACTACAACTTCAGGAAGATAAGATTTGTAACTTGTAGTTTTCATCTGTTCCACTG
1 AATCTACTCCACTGCAACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
* * * *
1086337 CAATGTTCA-GGAGAATAAGATTTGTAACTTT
66 CAA-CTTCAGGGA-AATAAGATTCGTATCTTC
* ** ** * * *
1086368 AATATGTTCCACTGCAACTTCAAGGAGATAAGATTCGTACCTTGTAGCTTTAATATGTTCCACTG
1 AATCTACTCCACTGCAACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
* * * * *
1086433 TAACTTTAGGAAAATAAGATTCGCTATGGTAAATTT
66 CAACTTCAGGGAAATAAGATTCG-TA---T--CTTC
* * * * * *
1086469 AATCCAAC-CCACTGCAATTTC-AGG-G---AGATTAG--ACTTGTAGCTTTAATCTGCTCCGCT
1 AAT-CTACTCCACTGCAACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACT
** * *
1086526 GCAACTTCAGGGCGATGAGACTCGTATCTTC
65 GCAACTTCAGGGAAATAAGATTCGTATCTTC
* * * *
1086557 AATCTACTCCACAGCAACTTCTGGGAGATGAGATTTGTAACTTGTAGCTTTAATTTGTTCCACTA
1 AATCTACTCCACTGCAACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
*
1086622 CAACTTCAGGGAAATAAGATTTGTATCTTC
66 CAACTTCAGGGAAATAAGATTCGTATCTTC
* * *
1086652 AATCTGCTCCACTGCTACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCCGTTCCACTG
1 AATCTACTCCACTGCAACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
*
1086717 CAACTTCAGGGAAATAAGATTCACTATCTTC
66 CAACTTCAGGGAAATAAGATTC-GTATCTTC
* * * * * * * * * *
1086748 AATCTATTCCATTGCAACTTCAGGGAAATAAGGTTTG---C---TATCTTCAATTTGCTCCACTA
1 AATCTACTCCACTGCAACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
* * * * *
1086807 CAACTTCGGGGAGATAAGTTTTGTAGCTTC
66 CAACTTCAGGGAAATAAGATTCGTATCTTC
* * * *
1086837 AATCTACTCTACTGCAACTTCAGAGATATAAGATTTGT
1 AATCTACTCCACTGCAACTTCTGGGAGATAAGATTTGT
1086875 TATCTATGAT
Statistics
Matches: 405, Mismatches: 84, Indels: 42
0.76 0.16 0.08
Matches are distributed among these distances:
87 3 0.01
88 16 0.04
89 39 0.10
90 35 0.09
93 9 0.02
94 38 0.09
95 139 0.34
96 104 0.26
99 1 0.00
100 3 0.01
101 18 0.04
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (95 bp):
AATCTACTCCACTGCAACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
CAACTTCAGGGAAATAAGATTCGTATCTTC
Found at i:1086642 original size:51 final size:51
Alignment explanation
Indices: 1086564--1086737 Score: 191
Period size: 51 Copynumber: 3.5 Consensus size: 51
1086554 TTCAATCTAC
* * * * *
1086564 TCCACAGCAACTTCTGGGAGATGAGATTTGTAACTTGTAGCTTTAATTTGT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGT
* * *
1086615 TCCACTACAACTTCAGGGAAATAAGATTTGT-A----T--CTTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGT
* * * *
1086659 TCCACTGCTACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCCGT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGT
1086710 TCCACTGCAACTTCAGGGAAATAAGATT
1 TCCACTGCAACTTCAGGGAAATAAGATT
1086738 CACTATCTTC
Statistics
Matches: 98, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
44 35 0.36
45 1 0.01
46 1 0.01
49 1 0.01
50 1 0.01
51 59 0.60
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (51 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGT
Found at i:1086773 original size:45 final size:45
Alignment explanation
Indices: 1086615--1087089 Score: 253
Period size: 45 Copynumber: 10.4 Consensus size: 45
1086605 TTTAATTTGT
* * *
1086615 TCCACTACAACTTCAGGGAAATAAGATTT-GTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTACTATCTTCAATCTAC
* * * * * ***
1086659 TCCACTGCTACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCCGT
1 TCCACTGCAACTTCAGGGAAATAAGA-TT-T-AC---TATCTTCAATCTAC
* *
1086710 TCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAATCTAT
1 TCCACTGCAACTTCAGGGAAATAAGATTTACTATCTTCAATCTAC
* * * * *
1086755 TCCATTGCAACTTCAGGGAAATAAGGTTTGCTATCTTCAATTTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTACTATCTTCAATCTAC
* * * ** *
1086800 TCCACTACAACTTCGGGGAGATAAG-TTTTGTAGCTTCAATCTAC
1 TCCACTGCAACTTCAGGGAAATAAGATTTACTATCTTCAATCTAC
* * * ** * * *
1086844 TCTACTGCAACTTCAGAGATATAAGATTTGTTATCTAT-GATTTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTACTATCT-TCAATCTAC
* * * * *
1086889 TTCACTGCAACTTCAGGGAGATAATATTT-GTAGT-TTTAATCTAC
1 TCCACTGCAACTTCAGGGAAATAAGATTTACTA-TCTTCAATCTAC
* * * * * * * *
1086933 TCTACTACAACTTTAGAGAGATAAGATTTGCTATATTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTACTATCTTCAATCTAC
* * * * ** * *
1086978 TTCACCGCAACTTCAGGGAGATAAGATTT-TTGCCTTTAATATAC
1 TCCACTGCAACTTCAGGGAAATAAGATTTACTATCTTCAATCTAC
* * * * *
1087022 TCCTCTACAACTTCAGGGAGATAAGATTCACCGTGATAACTTCAATCCA-
1 TCCACTGCAACTTCAGGGAAATAAGATTTA-C-T-AT--CTTCAATCTAC
1087071 TCCCACTGCAACTTCAGGG
1 T-CCACTGCAACTTCAGGG
1087090 GTATAGGATT
Statistics
Matches: 323, Mismatches: 88, Indels: 34
0.73 0.20 0.08
Matches are distributed among these distances:
43 1 0.00
44 119 0.37
45 140 0.43
46 2 0.01
47 1 0.00
48 2 0.01
49 1 0.00
50 24 0.07
51 33 0.10
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTACTATCTTCAATCTAC
Found at i:1086868 original size:89 final size:89
Alignment explanation
Indices: 1086712--1087049 Score: 326
Period size: 89 Copynumber: 3.8 Consensus size: 89
1086702 TAATCCGTTC
* *** * * * * *
1086712 CACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAATCTATTCCATTGCAACTTCAGGGAAAT
1 CACTGCAACTTCAGGGAGATAAG-TTTTGTAGCTTCAATCTACTCTACTGCAACTTCAGAGAAAT
* *
1086777 AAGGTTTGCTATCTTCAATTTGCTC
65 AAGATTTGCTATCTTCAATTTGCTT
* * *
1086802 CACTACAACTTCGGGGAGATAAGTTTTGTAGCTTCAATCTACTCTACTGCAACTTCAGAGATATA
1 CACTGCAACTTCAGGGAGATAAGTTTTGTAGCTTCAATCTACTCTACTGCAACTTCAGAGAAATA
* *
1086867 AGATTTGTTATCTAT-GATTTGCTT
66 AGATTTGCTATCT-TCAATTTGCTT
* * * * *
1086891 CACTGCAACTTCAGGGAGATAA-TATTTGTAGTTTTAATCTACTCTACTACAACTTTAGAGAGAT
1 CACTGCAACTTCAGGGAGATAAGT-TTTGTAGCTTCAATCTACTCTACTGCAACTTCAGAGAAAT
* *
1086955 AAGATTTGCTATATTCAATCTGCTT
65 AAGATTTGCTATCTTCAATTTGCTT
* * * * * *
1086980 CACCGCAACTTCAGGGAGATAAGATTTT-T-GCCTTTAATATACTCCT-CTACAACTTCAGGGAG
1 CACTGCAACTTCAGGGAGATAAG-TTTTGTAG-CTTCAATCTACT-CTACTGCAACTTCAGAGAA
1087042 ATAAGATT
63 ATAAGATT
1087050 CACCGTGATA
Statistics
Matches: 209, Mismatches: 32, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
88 3 0.01
89 179 0.86
90 26 0.12
91 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (89 bp):
CACTGCAACTTCAGGGAGATAAGTTTTGTAGCTTCAATCTACTCTACTGCAACTTCAGAGAAATA
AGATTTGCTATCTTCAATTTGCTT
Found at i:1086870 original size:185 final size:186
Alignment explanation
Indices: 1086501--1086874 Score: 437
Period size: 185 Copynumber: 2.0 Consensus size: 186
1086491 GGGAGATTAG
* * ** * *
1086501 ACTTGTAGCTTTAATCTGCTCCGCTGCAACTTCAGGGCGATGAGACTCGTATCTTCAATCTACTC
1 ACTTGTAGCTTTAATCCGCTCCACTGCAACTTCAGGGAAATAAGACTCCTATCTTCAATCTACTC
* * * * *
1086566 CACAGCAACTTCTGGGAGATGAGATTTGTAACTTGTAGCTTTAATTTGTTCCACTACAACTTCAG
66 CACAGCAACTTCAGGGAAATAAGATTTG--AC-T-TAGCTTCAATTTGCTCCACTACAACTTCAG
* * * * *
1086631 GGAAATAAGATTTGTATCTTCAATCTGCTCCACTGCTACTTCTGGGAGATAAGATTTGTA
127 GGAAATAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTA
* * *
1086691 ACTTGTAGCTTTAATCCGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAATCTATT
1 ACTTGTAGCTTTAATCCGCTCCACTGCAACTTCAGGGAAATAAGACTC-CTATCTTCAATCTACT
** * * *
1086756 CCATTGCAACTTCAGGGAAATAAGGTTTG-C-TATCTTCAATTTGCTCCACTACAACTTCGGGGA
65 CCACAGCAACTTCAGGGAAATAAGATTTGACTTAGCTTCAATTTGCTCCACTACAACTTCAGGGA
* * * *
1086819 GATAAGTTTTGTAGCTTCAATCTACTCTACTGCAACTTCAGAGATATAAGATTTGT
130 AATAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGT
1086875 TATCTATGAT
Statistics
Matches: 155, Mismatches: 28, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
185 76 0.49
188 1 0.01
190 41 0.26
191 37 0.24
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (186 bp):
ACTTGTAGCTTTAATCCGCTCCACTGCAACTTCAGGGAAATAAGACTCCTATCTTCAATCTACTC
CACAGCAACTTCAGGGAAATAAGATTTGACTTAGCTTCAATTTGCTCCACTACAACTTCAGGGAA
ATAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTA
Found at i:1093843 original size:23 final size:22
Alignment explanation
Indices: 1093764--1093846 Score: 62
Period size: 23 Copynumber: 3.7 Consensus size: 22
1093754 GAAAATTTTA
1093764 AATAT-TAAA-AAATGAAGCAAT
1 AATATATAAATAAATGAAG-AAT
* * * *
1093785 AACAAATAAATGAATAAAGGAATT
1 AATATATAAATAAATGAA-GAA-T
* *
1093809 AAAATAAAAATAAATGAATGAAT
1 AATATATAAATAAATGAA-GAAT
1093832 AATATATAAATAAAT
1 AATATATAAATAAAT
1093847 AAGTAAATAA
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
21 3 0.07
22 4 0.09
23 21 0.46
24 18 0.39
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.24
Consensus pattern (22 bp):
AATATATAAATAAATGAAGAAT
Found at i:1093844 original size:4 final size:4
Alignment explanation
Indices: 1093816--1093914 Score: 51
Period size: 4 Copynumber: 24.8 Consensus size: 4
1093806 ATTAAAATAA
* * * * ** *
1093816 AAAT AAAT GAAT GAAT -AAT ATAT AAAT AAAT AAGT AAAT AAGC AATT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* ** *
1093863 AAAT GAAT AAAAT AAA- AGGAAT -AAT AAAT AAAT ATGT AAAT AAAA AAAT
1 AAAT AAAT -AAAT AAAT A--AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1093912 AAA
1 AAA
1093915 AGGAAAGAGT
Statistics
Matches: 71, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
3 7 0.10
4 59 0.83
5 5 0.07
ACGTcount: A:0.67, C:0.01, G:0.08, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1093847 original size:15 final size:15
Alignment explanation
Indices: 1093810--1093896 Score: 52
Period size: 15 Copynumber: 5.3 Consensus size: 15
1093800 AAAGGAATTA
1093810 AAATAAA-AATAAAT
1 AAATAAATAATAAAT
* * *
1093824 GAATGAATAATATAT
1 AAATAAATAATAAAT
1093839 AAATAAATAAGTAAAT
1 AAATAAATAA-TAAAT
1093855 AAGCAATTAAATGAATAAAAT
1 -A--AA-TAAAT-AAT-AAAT
1093876 AAA-AGGAATAATAAAT
1 AAATA--AATAATAAAT
1093892 AAATA
1 AAATA
1093897 TGTAAATAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
14 5 0.09
15 14 0.25
16 12 0.21
17 5 0.09
18 5 0.09
19 2 0.04
20 7 0.12
21 6 0.11
ACGTcount: A:0.67, C:0.01, G:0.08, T:0.24
Consensus pattern (15 bp):
AAATAAATAATAAAT
Found at i:1095455 original size:7 final size:7
Alignment explanation
Indices: 1095443--1095469 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1095433 TTCTTATGCT
1095443 TTTTAAA
1 TTTTAAA
1095450 TTTTAAA
1 TTTTAAA
1095457 TTTTAAA
1 TTTTAAA
1095464 TTTTAA
1 TTTTAA
1095470 TGTAAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTTAAA
Found at i:1102023 original size:100 final size:101
Alignment explanation
Indices: 1101832--1102034 Score: 399
Period size: 100 Copynumber: 2.0 Consensus size: 101
1101822 ATATAATCTT
1101832 TTATGATTTATAATATAAGAATCATCCCAAATAATTTTAAGTCACCATGCTTAAGATATATTTTT
1 TTATGATTTATAATATAAGAATCATCCCAAATAATTTTAAGTCACCATGCTTAAGATATATTTTT
1101897 TAACTTGTTTAAAAAAATTTTAAAATTTGATTGGGG
66 TAACTTGTTTAAAAAAATTTTAAAATTTGATTGGGG
1101933 TTATGATTTAT-ATATAAGAATCATCCCAAATAATTTTAAGTCACCATGCTTAAGATATATTTTT
1 TTATGATTTATAATATAAGAATCATCCCAAATAATTTTAAGTCACCATGCTTAAGATATATTTTT
1101997 TAACTTGTTTAAAAAAATTTTAAAATTTGATTGGGG
66 TAACTTGTTTAAAAAAATTTTAAAATTTGATTGGGG
1102033 TT
1 TT
1102035 TAATTACGTA
Statistics
Matches: 102, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
100 91 0.89
101 11 0.11
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (101 bp):
TTATGATTTATAATATAAGAATCATCCCAAATAATTTTAAGTCACCATGCTTAAGATATATTTTT
TAACTTGTTTAAAAAAATTTTAAAATTTGATTGGGG
Found at i:1125763 original size:3 final size:3
Alignment explanation
Indices: 1125755--1125816 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
1125745 NNNNNNNNNN
*
1125755 TAA TAA TAA TAA GAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1125803 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
1125817 CTATAAAATT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1126155 original size:27 final size:27
Alignment explanation
Indices: 1126125--1126205 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
1126115 TGGTTGGTAG
*
1126125 GACTGGTGCCGCCAACCTGGTTCCCTC
1 GACTGGTGCCGCCAACCTGCTTCCCTC
*
1126152 GACTGGTGCCGCCAACCTGCTTCCCTT
1 GACTGGTGCCGCCAACCTGCTTCCCTC
** **
1126179 GTTTGGTGCCGCCAACCTATTTCCCTC
1 GACTGGTGCCGCCAACCTGCTTCCCTC
1126206 CACCCAGGGA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.11, C:0.40, G:0.22, T:0.27
Consensus pattern (27 bp):
GACTGGTGCCGCCAACCTGCTTCCCTC
Found at i:1144640 original size:529 final size:529
Alignment explanation
Indices: 1143642--1144699 Score: 2100
Period size: 529 Copynumber: 2.0 Consensus size: 529
1143632 GTTATCTTAA
1143642 TTCATTTGAGAATTGTAAATTCTGTAGGTTGGGGGGCGAAATACTGTGCTGAACGATGCTATTTT
1 TTCATTTGAGAATTGTAAATTCTGTAGGTTGGGGGGCGAAATACTGTGCTGAACGATGCTATTTT
1143707 AAGGAGAATTCCGCTTGTGACTGATGTCCCTACAATCATTTTTGGGGCAGATGTCACTCATCCGC
66 AAGGAGAATTCCGCTTGTGACTGATGTCCCTACAATCATTTTTGGGGCAGATGTCACTCATCCGC
1143772 CGCCTGGCGAAGACTCTAGTTCTTCTATAGCTGCAGTAAGCATATTCATTGTTCTCTACATCCCC
131 CGCCTGGCGAAGACTCTAGTTCTTCTATAGCTGCAGTAAGCATATTCATTGTTCTCTACATCCCC
1143837 ATTTTGTTACTTGATCATATTTAAAGAGGTTATGGCTGGATGCAGGTCGTTGCTTCAATGGATTG
196 ATTTTGTTACTTGATCATATTTAAAGAGGTTATGGCTGGATGCAGGTCGTTGCTTCAATGGATTG
1143902 GCCTGAGGTAACCAAGTATCGTGGAATTGTCTCTGCACAGACTCACCGGATGGAAATAATCCAGG
261 GCCTGAGGTAACCAAGTATCGTGGAATTGTCTCTGCACAGACTCACCGGATGGAAATAATCCAGG
1143967 ATCTTTATAAACAAACAAAGGATCCACAGAAGGGTTTAGTTGAGGGTGGAATGGTTAGGTAGGGA
326 ATCTTTATAAACAAACAAAGGATCCACAGAAGGGTTTAGTTGAGGGTGGAATGGTTAGGTAGGGA
1144032 GATAGATTTATTTCGGGCTTAATTTTTTAGTTTCTTCTGGACGTGCTCTACTTTCTTAACATTTC
391 GATAGATTTATTTCGGGCTTAATTTTTTAGTTTCTTCTGGACGTGCTCTACTTTCTTAACATTTC
1144097 AAGTTCTCTGCAGGGAATTGCTTGTTGCTTTCTTCAAGTCAACAAGACAAAAGCCTTCTAGAATT
456 AAGTTCTCTGCAGGGAATTGCTTGTTGCTTTCTTCAAGTCAACAAGACAAAAGCCTTCTAGAATT
1144162 ATCTTCTAT
521 ATCTTCTAT
1144171 TTCATTTGAGAATTGTAAATTCTGTAGGTTGGGGGGCGAAATACTGTGCTGAACGATGCTATTTT
1 TTCATTTGAGAATTGTAAATTCTGTAGGTTGGGGGGCGAAATACTGTGCTGAACGATGCTATTTT
1144236 AAGGAGAATTCCGCTTGTGACTGATGTCCCTACAATCATTTTTGGGGCAGATGTCACTCATCCGC
66 AAGGAGAATTCCGCTTGTGACTGATGTCCCTACAATCATTTTTGGGGCAGATGTCACTCATCCGC
1144301 CGCCTGGCGAAGACTCTAGTTCTTCTATAGCTGCAGTAAGCATATTCATTGTTCTCTACATCCCC
131 CGCCTGGCGAAGACTCTAGTTCTTCTATAGCTGCAGTAAGCATATTCATTGTTCTCTACATCCCC
1144366 ATTTTGTTACTTGATCATATTT-AAGAGGTTATTGGCTGGATGCAGGTCGTTGCTTCAATGGATT
196 ATTTTGTTACTTGATCATATTTAAAGAGGTTA-TGGCTGGATGCAGGTCGTTGCTTCAATGGATT
1144430 GGCCTGAGGTAACCAAGTATCGTGGAATTGTCTCTGCACAGACTCACCGGATGGAAATAATCCAG
260 GGCCTGAGGTAACCAAGTATCGTGGAATTGTCTCTGCACAGACTCACCGGATGGAAATAATCCAG
1144495 GATCTTTATAAACAAACAAAGGATCCACAGAAGGGTTTAGTTGAGGGTGGAATGGTTAGGTAGGG
325 GATCTTTATAAACAAACAAAGGATCCACAGAAGGGTTTAGTTGAGGGTGGAATGGTTAGGTAGGG
1144560 AGATAGATTTATTTCGGGCTTAATTTTTTAGTTTCTTCTGGACGTGCTCTACTTTCTTAACATTT
390 AGATAGATTTATTTCGGGCTTAATTTTTTAGTTTCTTCTGGACGTGCTCTACTTTCTTAACATTT
1144625 CAAGTTCTCTGCAGGGAATTGCTTGTTGCTTTCTTCAAGTCAACAAGACAAAAGCCTTCTAGAAT
455 CAAGTTCTCTGCAGGGAATTGCTTGTTGCTTTCTTCAAGTCAACAAGACAAAAGCCTTCTAGAAT
1144690 TATCTTCTAT
520 TATCTTCTAT
1144700 AGGTAATGTT
Statistics
Matches: 528, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
528 9 0.02
529 519 0.98
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (529 bp):
TTCATTTGAGAATTGTAAATTCTGTAGGTTGGGGGGCGAAATACTGTGCTGAACGATGCTATTTT
AAGGAGAATTCCGCTTGTGACTGATGTCCCTACAATCATTTTTGGGGCAGATGTCACTCATCCGC
CGCCTGGCGAAGACTCTAGTTCTTCTATAGCTGCAGTAAGCATATTCATTGTTCTCTACATCCCC
ATTTTGTTACTTGATCATATTTAAAGAGGTTATGGCTGGATGCAGGTCGTTGCTTCAATGGATTG
GCCTGAGGTAACCAAGTATCGTGGAATTGTCTCTGCACAGACTCACCGGATGGAAATAATCCAGG
ATCTTTATAAACAAACAAAGGATCCACAGAAGGGTTTAGTTGAGGGTGGAATGGTTAGGTAGGGA
GATAGATTTATTTCGGGCTTAATTTTTTAGTTTCTTCTGGACGTGCTCTACTTTCTTAACATTTC
AAGTTCTCTGCAGGGAATTGCTTGTTGCTTTCTTCAAGTCAACAAGACAAAAGCCTTCTAGAATT
ATCTTCTAT
Found at i:1146304 original size:18 final size:17
Alignment explanation
Indices: 1146272--1146309 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
1146262 ATTTTATTAA
1146272 ATATTTTTATAAATTTAC
1 ATATTTTTATAAATTT-C
1146290 ATATTTTTA-ATAATTTC
1 ATATTTTTATA-AATTTC
1146307 ATA
1 ATA
1146310 AGAGTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (17 bp):
ATATTTTTATAAATTTC
Found at i:1146954 original size:15 final size:16
Alignment explanation
Indices: 1146934--1146970 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
1146924 TTTGTTTAAG
1146934 TTATA-TATATAAATA
1 TTATAGTATATAAATA
1146949 TTATATGTATATAAATA
1 TTATA-GTATATAAATA
1146966 TTATA
1 TTATA
1146971 ATTATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
17 15 0.75
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
TTATAGTATATAAATA
Found at i:1147544 original size:11 final size:11
Alignment explanation
Indices: 1147528--1147553 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1147518 TAGAAGAGAC
1147528 GAAACAGGGGA
1 GAAACAGGGGA
1147539 GAAACAGGGGA
1 GAAACAGGGGA
1147550 GAAA
1 GAAA
1147554 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:1148317 original size:39 final size:40
Alignment explanation
Indices: 1148274--1148361 Score: 108
Period size: 39 Copynumber: 2.2 Consensus size: 40
1148264 CGAGTTATGG
* * *
1148274 AATACTGGATATTGTTTTG-ATTACTG-AGTGAATTGTGAA
1 AATACTGAATATTGTTATGTA-TAATGCAGTGAATTGTGAA
*
1148313 AATACTGAATATTGTTATGTATAATGCATTGAATTGTGAA
1 AATACTGAATATTGTTATGTATAATGCAGTGAATTGTGAA
*
1148353 ATTACTGAA
1 AATACTGAA
1148362 GTAAAGAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 21 0.50
40 21 0.50
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (40 bp):
AATACTGAATATTGTTATGTATAATGCAGTGAATTGTGAA
Found at i:1148577 original size:38 final size:39
Alignment explanation
Indices: 1148535--1148617 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 39
1148525 ATTTGCCGGC
* * *
1148535 TTACTGA-TCAGGCAC-TTATGTGCCGACTGCTGTTACTG
1 TTACTGATTC-GGCACTTTATGTGCCGAATACTGTTACCG
* *
1148573 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACCG
1 TTACTGATTCGGCACTTTATGTGCCGAATACTGTTACCG
1148612 TTACTG
1 TTACTG
1148618 TTACAGATTC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
38 12 0.32
39 26 0.68
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (39 bp):
TTACTGATTCGGCACTTTATGTGCCGAATACTGTTACCG
Found at i:1148633 original size:45 final size:45
Alignment explanation
Indices: 1148566--1148666 Score: 166
Period size: 45 Copynumber: 2.2 Consensus size: 45
1148556 GCCGACTGCT
* *
1148566 GTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGTTACC
* *
1148611 GTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGTTACT
1 GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGTTACC
1148656 GTTACTGTTAC
1 GTTACTGTTAC
1148667 TTTTACCGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.42
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGTTACC
Found at i:1148657 original size:6 final size:6
Alignment explanation
Indices: 1148646--1148694 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
1148636 GTGTGTTGAA
* *
1148646 TACTGT TACTGT TACTGT TACTTT TACCGT TACTGAT TACTGT ATACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT -TACTG
1148695 GTGTGTTTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
6 26 0.70
7 11 0.30
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.47
Consensus pattern (6 bp):
TACTGT
Found at i:1149202 original size:12 final size:13
Alignment explanation
Indices: 1149178--1149203 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1149168 AATGTTGCCG
1149178 AAATTTAAAAAAA
1 AAATTTAAAAAAA
1149191 AAATTTAAAAAAA
1 AAATTTAAAAAAA
1149204 TGAATGAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATTTAAAAAAA
Found at i:1151420 original size:27 final size:27
Alignment explanation
Indices: 1151380--1151431 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
1151370 AGGCAATGTC
*
1151380 TGGTCGAGGCGGTGGTGGACGTGGCAG
1 TGGTCGAGGCGGTGGTCGACGTGGCAG
* *
1151407 TGGTCGGGGTGGTGGTCGACGTGGC
1 TGGTCGAGGCGGTGGTCGACGTGGC
1151432 CGGGGGCAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.08, C:0.15, G:0.56, T:0.21
Consensus pattern (27 bp):
TGGTCGAGGCGGTGGTCGACGTGGCAG
Found at i:1151852 original size:21 final size:21
Alignment explanation
Indices: 1151826--1151870 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
1151816 GATGTTGCTA
*
1151826 ATGCCGATCTTTATCACTACG
1 ATGCCGATCTTCATCACTACG
1151847 ATGCCGATCTTCATCACTACG
1 ATGCCGATCTTCATCACTACG
1151868 ATG
1 ATG
1151871 TAACTTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (21 bp):
ATGCCGATCTTCATCACTACG
Found at i:1157385 original size:18 final size:17
Alignment explanation
Indices: 1157364--1157397 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1157354 CATTAAATAA
*
1157364 TTTTATTAATTTACATAT
1 TTTTAATAATTT-CATAT
1157382 TTTTAATAATTTCATA
1 TTTTAATAATTTCATA
1157398 AAAGTGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTAATAATTTCATAT
Found at i:1158514 original size:26 final size:28
Alignment explanation
Indices: 1158459--1158520 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 28
1158449 TCTATTTACC
1158459 AAATATTTCATAAATTTAAAAAAATAAAG
1 AAATATTTCAT-AATTTAAAAAAATAAAG
* *
1158488 AAATATTTCAT-GTTTTAAAAAA-AAAG
1 AAATATTTCATAATTTAAAAAAATAAAG
1158514 AAATATT
1 AAATATT
1158521 ACCAAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 11 0.35
27 9 0.29
29 11 0.35
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (28 bp):
AAATATTTCATAATTTAAAAAAATAAAG
Found at i:1163654 original size:19 final size:21
Alignment explanation
Indices: 1163627--1163671 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
1163617 NNNNNNNNNN
*
1163627 AAAATTTTATAAAAT-CAT-A
1 AAAAATTTATAAAATGCATCA
1163646 AAAAATTTATAAAATGCATCA
1 AAAAATTTATAAAATGCATCA
1163667 AAAAA
1 AAAAA
1163672 CCTTTAACCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.61
20 3 0.13
21 6 0.26
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAATTTATAAAATGCATCA
Found at i:1163777 original size:17 final size:17
Alignment explanation
Indices: 1163757--1163790 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1163747 ACATATGATG
1163757 AAAAATGATAGAAAAAT
1 AAAAATGATAGAAAAAT
* *
1163774 AAAAGTTATAGAAAAAT
1 AAAAATGATAGAAAAAT
1163791 CATAAATGCT
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:0.68, C:0.00, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAAATGATAGAAAAAT
Found at i:1163928 original size:10 final size:10
Alignment explanation
Indices: 1163915--1163962 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
1163905 TTTCTACATA
1163915 TTTTATAATT
1 TTTTATAATT
*
1163925 TTTTACAA-T
1 TTTTATAATT
1163934 TTTTATAATCT
1 TTTTATAAT-T
*
1163945 TTTTCTAATT
1 TTTTATAATT
*
1163955 TTTAATAA
1 TTTTATAA
1163963 AAATTAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
9 8 0.26
10 14 0.45
11 9 0.29
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTATAATT
Found at i:1163931 original size:19 final size:19
Alignment explanation
Indices: 1163818--1163948 Score: 56
Period size: 19 Copynumber: 6.7 Consensus size: 19
1163808 GTATGATAAT
*
1163818 TTTTATAATTCTTTTACAAA
1 TTTTATAATT-TTTTACATA
* *
1163838 TTTTAT-ATTTCTTAACATT
1 TTTTATAATTT-TTTACATA
*
1163857 TTTTATCATTTTCTT--ATGA
1 TTTTATAATTTT-TTACAT-A
* ** * *
1163876 CTTTATAAAATTATATATA
1 TTTTATAATTTTTTACATA
* *
1163895 TTTT-TCTATATTTCTACATA
1 TTTTAT-AAT-TTTTTACATA
1163915 TTTTATAATTTTTTACA-A
1 TTTTATAATTTTTTACATA
1163933 TTTTTATAATCTTTTT
1 -TTTTATAAT-TTTTT
1163949 CTAATTTTTA
Statistics
Matches: 82, Mismatches: 18, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
18 6 0.07
19 44 0.54
20 31 0.38
21 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.01, T:0.60
Consensus pattern (19 bp):
TTTTATAATTTTTTACATA
Found at i:1163956 original size:19 final size:18
Alignment explanation
Indices: 1163909--1163960 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
1163899 TCTATATTTC
1163909 TACATATTTTATAATTTTT
1 TACA-ATTTTATAATTTTT
1163928 TACAATTTTTATAATCTTTT
1 TACAA-TTTTATAAT-TTTT
1163948 T-CTAATTTT-TAAT
1 TAC-AATTTTATAAT
1163961 AAAAATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.17
19 18 0.60
20 7 0.23
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (18 bp):
TACAATTTTATAATTTTT
Found at i:1166664 original size:3 final size:3
Alignment explanation
Indices: 1166656--1166688 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1166646 CCTATTAAAA
1166656 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1166689 CATGAAATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1167367 original size:95 final size:95
Alignment explanation
Indices: 1167191--1167374 Score: 323
Period size: 96 Copynumber: 1.9 Consensus size: 95
1167181 GTAATCTATA
*
1167191 CCGAAAATATTAAACATGTCCATTCATTTTGAAACCTTTTTTTAGATAATTACGTTTATCTTTAA
1 CCGAAAATATTAAACATCTCCATTCATTTTGAAACCTTTTTTTAGATAATTACGTTTATCTTTAA
1167256 ATTAAGAGTTATTTTTTTAACTTATTATTG
66 ATTAAGAGTTATTTTTTTAACTTATTATTG
* * *
1167286 CCGAAAATATTAAACATCTGCATTCATTTTGAAACTTTTTTTTTAGATAATTATGTTTATCTTTA
1 CCGAAAATATTAAACATCTCCATTCATTTTGAAAC-CTTTTTTTAGATAATTACGTTTATCTTTA
1167351 AATTAAGAGTTATTTTTTTAACTT
65 AATTAAGAGTTATTTTTTTAACTT
1167375 CATGAATTAT
Statistics
Matches: 84, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
95 33 0.39
96 51 0.61
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (95 bp):
CCGAAAATATTAAACATCTCCATTCATTTTGAAACCTTTTTTTAGATAATTACGTTTATCTTTAA
ATTAAGAGTTATTTTTTTAACTTATTATTG
Found at i:1169059 original size:27 final size:27
Alignment explanation
Indices: 1168991--1169061 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
1168981 AAGTACCCTA
* **
1168991 ATAGGTTAAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGATTGAAATACCCCC
* *
1169018 ATAGAGTAGAATGATTGAAATACCCCC
1 ATAGGGTAAAATGATTGAAATACCCCC
1169045 ATAGGGTAAAATGATTG
1 ATAGGGTAAAATGATTG
1169062 TTATACCCTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.23
Consensus pattern (27 bp):
ATAGGGTAAAATGATTGAAATACCCCC
Found at i:1169495 original size:29 final size:32
Alignment explanation
Indices: 1169460--1169519 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 32
1169450 TATCTGCACT
*
1169460 GATTAATGATA-TA-GTACTGTT-ACTGCATC
1 GATTAATGATATTACATACTGTTCACTGCATC
1169489 GATTAATGATATTACATACTGTTCACTGCAT
1 GATTAATGATATTACATACTGTTCACTGCAT
1169520 GACTAATATC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.41
30 2 0.07
31 7 0.26
32 7 0.26
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
GATTAATGATATTACATACTGTTCACTGCATC
Found at i:1171284 original size:60 final size:61
Alignment explanation
Indices: 1171189--1171309 Score: 190
Period size: 60 Copynumber: 2.0 Consensus size: 61
1171179 TTAGTCGAGG
* * **
1171189 GTAAAAATGTAATCGTACTTTATATCTTAAAATGTATTAATGACCATATATTTATAATTTT
1 GTAAAAATATAATCGTACTTAATATCTTAAAATGTATTAACAACCATATATTTATAATTTT
*
1171250 GTAAAAATATAATCGT-CTTAATATCTTAAAATGTATTAACAATCATATATTTATAATTTT
1 GTAAAAATATAATCGTACTTAATATCTTAAAATGTATTAACAACCATATATTTATAATTTT
1171310 CAATTACATT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
60 40 0.73
61 15 0.27
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (61 bp):
GTAAAAATATAATCGTACTTAATATCTTAAAATGTATTAACAACCATATATTTATAATTTT
Found at i:1175173 original size:115 final size:110
Alignment explanation
Indices: 1174813--1175235 Score: 429
Period size: 114 Copynumber: 3.7 Consensus size: 110
1174803 TAATCATTCC
* * *
1174813 CGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAGCGCAACGACGCCGTTTCCCCAGCATTC-GGT
1 CGGCGTTTTTG-GAAAGCGCCGCAAAAAA-CTAGCGCAACGACGTCGTTTCCCGAGCTTTCAGG-
* * * *
1174877 GATTTAGCGGCGTTTTTCAGTAAGCGTCGCTAATGCTCAAGGCTTTAG
63 GATTTAGCGGCGCTTTTCAGAAAGCGCCGCTAATGCTCAAGTCTTTAG
* * * *
1174925 CGGCGTTTCTAGGAAAGCGCTGCAAAAATAACTAAGCCCAACGATGTCGTTTCCCGAGCTTTCAG
1 CGGCGTTT-TTGGAAAGCGCCGC-AAAA-AACT-AGCGCAACGACGTCGTTTCCCGAGCTTTCAG
* * * *
1174990 GGATTTAGCGGCGC-TTTCTATAAAGCGCCGCTAATGGTTAGGTCTTTAG
62 GGATTTAGCGGCGCTTTTC-AGAAAGCGCCGCTAATGCTCAAGTCTTTAG
* * * *
1175039 CAGCGTTTCTGGAAAAGCGCCGCTACGTAAAACTAGCGCAACGACGTCGTCTCCCGAGCTTTCAG
1 CGGCGTTTTTGG-AAAGCGCCGC-A--AAAAACTAGCGCAACGACGTCGTTTCCCGAGCTTTCAG
*
1175104 GGATTTAGCGGCGCTTTTACAGAAAGCGCCGCTAATGCTGAAGTCTTTAG
62 GGATTTAGCGGCGCTTTT-CAGAAAGCGCCGCTAATGCTCAAGTCTTTAG
* * * * * *
1175154 CGGCGTTTTTGTTAAAGCGCCGCAAAAAATCTAAGCCCAACGACGCCGTTTTCTG-GCTTTCGGG
1 CGGCGTTTTTG-GAAAGCGCCGCAAAAAA-CT-AGCGCAACGACGTCGTTTCCCGAGCTTTCAGG
*
1175218 GATTTTAGCGGCGTTTTT
63 GA-TTTAGCGGCGCTTTT
1175236 GTTAAAGCGC
Statistics
Matches: 257, Mismatches: 39, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
112 22 0.09
113 26 0.10
114 152 0.59
115 54 0.21
116 3 0.01
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (110 bp):
CGGCGTTTTTGGAAAGCGCCGCAAAAAACTAGCGCAACGACGTCGTTTCCCGAGCTTTCAGGGAT
TTAGCGGCGCTTTTCAGAAAGCGCCGCTAATGCTCAAGTCTTTAG
Done.