Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 15 of 185
Found at i:4107765 original size:19 final size:19
Alignment explanation
Indices: 4107730--4107767 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
4107720 CCTAAATGAT
*
4107730 TTTAAATTGTTTTTAAAAC
1 TTTAAATTGTTTCTAAAAC
4107749 TTTAAATAT-TTTCTAAAAC
1 TTTAAAT-TGTTTCTAAAAC
4107768 ATATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (19 bp):
TTTAAATTGTTTCTAAAAC
Found at i:4109847 original size:19 final size:20
Alignment explanation
Indices: 4109825--4109866 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
4109815 TTATTTAGGA
4109825 ATTTATATT-ATTATAT-CAT
1 ATTTA-ATTAATTATATACAT
*
4109844 ATTTAATTAATTTTATACAT
1 ATTTAATTAATTATATACAT
4109864 ATT
1 ATT
4109867 AAAGCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 3 0.15
19 11 0.55
20 6 0.30
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTAATTAATTATATACAT
Found at i:4112211 original size:30 final size:30
Alignment explanation
Indices: 4112133--4112219 Score: 83
Period size: 30 Copynumber: 2.9 Consensus size: 30
4112123 TATTTATTTT
*
4112133 TATTTTTT-AAA-TTTTAAAATACTTTTAAAA
1 TATTTTTTAAAATTTTTTAAA-A-TTTTAAAA
*
4112163 TACTTTTTTTAAATTTTTT-AAATTTTAAAA
1 TA-TTTTTTAAAATTTTTTAAAATTTTAAAA
4112193 T-TTTTTTAAAATACTTTTTAAAATTTT
1 TATTTTTTAAAAT--TTTTTAAAATTTT
4112220 TTTAATTTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
28 10 0.20
30 16 0.33
31 14 0.29
32 5 0.10
33 4 0.08
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (30 bp):
TATTTTTTAAAATTTTTTAAAATTTTAAAA
Found at i:4112211 original size:40 final size:40
Alignment explanation
Indices: 4112134--4112260 Score: 200
Period size: 40 Copynumber: 3.1 Consensus size: 40
4112124 ATTTATTTTT
* *
4112134 ATTTTTTAAATTTTAAAATACTTTTAAAATACTTTTTTTAA
1 ATTTTTTAAATTTTAAAATATTTTTAAAATAC-TTTTTAAA
*
4112175 ATTTTTTAAATTTTAAAATTTTTTTAAAATACTTTTTAAA
1 ATTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTAAA
* *
4112215 ATTTTTTTAATTTTAAAATATTTTTAAAATGCTTTTTAAA
1 ATTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTAAA
4112255 ATTTTT
1 ATTTTT
4112261 ATTTTAATTT
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 50 0.62
41 30 0.38
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (40 bp):
ATTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTAAA
Found at i:4112229 original size:29 final size:29
Alignment explanation
Indices: 4112196--4112253 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
4112186 TTTAAAATTT
*
4112196 TTTTAAAATACTTTTTAAAAT-TTTTTTAA
1 TTTTAAAATA-TTTTTAAAATGCTTTTTAA
4112225 TTTTAAAATATTTTTAAAATGCTTTTTAA
1 TTTTAAAATATTTTTAAAATGCTTTTTAA
4112254 AATTTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTTAAAATATTTTTAAAATGCTTTTTAA
Found at i:4112252 original size:12 final size:11
Alignment explanation
Indices: 4112144--4112260 Score: 76
Period size: 11 Copynumber: 11.3 Consensus size: 11
4112134 ATTTTTTAAA
*
4112144 TTTTAAAATAC
1 TTTTAAAATAT
4112155 TTTTAAAATACTT
1 TTTTAAAATA--T
*
4112168 TTTTTAAAT-T
1 TTTTAAAATAT
4112178 TTTT--AA-A-
1 TTTTAAAATAT
*
4112185 TTTTAAAATTT
1 TTTTAAAATAT
4112196 TTTTAAAATACT
1 TTTTAAAATA-T
4112208 TTTTAAAAT-T
1 TTTTAAAATAT
*
4112218 TTTT----TAA
1 TTTTAAAATAT
4112225 TTTTAAAATAT
1 TTTTAAAATAT
*
4112236 TTTTAAAATGCT
1 TTTTAAAAT-AT
4112248 TTTTAAAAT-T
1 TTTTAAAATAT
4112258 TTT
1 TTT
4112261 ATTTTAATTT
Statistics
Matches: 85, Mismatches: 7, Indels: 29
0.70 0.06 0.24
Matches are distributed among these distances:
6 1 0.01
7 8 0.09
8 2 0.02
9 2 0.02
10 14 0.16
11 30 0.35
12 20 0.24
13 8 0.09
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:4113957 original size:152 final size:152
Alignment explanation
Indices: 4113700--4114290 Score: 1069
Period size: 152 Copynumber: 3.9 Consensus size: 152
4113690 TGTCATGGAT
* * *
4113700 GGTATTTTAAATGTGAAATATGGAGATGAGGGTTGATTTGGTTGGAGGATACTCTGAAGCTGAG-
1 GGTATCTTAAGTGTGAAATATGGAGATGAGGGTTGATTTGGTTGGAGGATACTATGAAGCTG-GT
* * *
4113764 CACAATGT-AAAGTTCGGATATCTTTTGGCCTTCACCACCTCCATGCTTTCGTGGAGTGTGATTG
65 GACAATGTGAAA-TTCGGATTTCCTTTGGCCTTCACCACCTCCATGCTTTCGTGGAGTGTGATTG
4113828 ATCTATTTCTTTGCTGTCATGTTC
129 ATCTATTTCTTTGCTGTCATGTTC
*
4113852 AGTATCTTAAGTGTGAAATATGGAGATGAGGGTTGATTTGGTTGGAGGATACTATGAAGCTGGTG
1 GGTATCTTAAGTGTGAAATATGGAGATGAGGGTTGATTTGGTTGGAGGATACTATGAAGCTGGTG
4113917 ACAATGTGAAATTCGGATTTCCTTTGGCCTTCACCACCTCCATGCTTTCGTGGAGTGTGATTGAT
66 ACAATGTGAAATTCGGATTTCCTTTGGCCTTCACCACCTCCATGCTTTCGTGGAGTGTGATTGAT
4113982 CTATTTCTTTGCTGTCATGTTC
131 CTATTTCTTTGCTGTCATGTTC
4114004 GGTATCTTAAGTGTGAAATATGGAGATGAGGGTTGATTTGGTTGGAGGATACTATGAAGCTGGTG
1 GGTATCTTAAGTGTGAAATATGGAGATGAGGGTTGATTTGGTTGGAGGATACTATGAAGCTGGTG
4114069 ACAATGTGAAATTCGGATTTCCTTTGGCCTTCACCACCTCCATGCTTTCGTGGAGTGTGATTGAT
66 ACAATGTGAAATTCGGATTTCCTTTGGCCTTCACCACCTCCATGCTTTCGTGGAGTGTGATTGAT
4114134 CTATTTCTTTGCTGTCATGTTC
131 CTATTTCTTTGCTGTCATGTTC
4114156 GGTATCTTAAGTGTGAAATATGGAGATGAGGGTTGATTTGGTTGGAGGATACTATGAAGCTGGTG
1 GGTATCTTAAGTGTGAAATATGGAGATGAGGGTTGATTTGGTTGGAGGATACTATGAAGCTGGTG
* *
4114221 ACAATGTGAAATTCGGATTTCCTTTGGCCTTTACCACCTCCATGCTTTCGTGGAATGTGATTGAT
66 ACAATGTGAAATTCGGATTTCCTTTGGCCTTCACCACCTCCATGCTTTCGTGGAGTGTGATTGAT
4114286 CTATT
131 CTATT
4114291 GCTAAAAAAT
Statistics
Matches: 427, Mismatches: 10, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
151 1 0.00
152 423 0.99
153 3 0.01
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.37
Consensus pattern (152 bp):
GGTATCTTAAGTGTGAAATATGGAGATGAGGGTTGATTTGGTTGGAGGATACTATGAAGCTGGTG
ACAATGTGAAATTCGGATTTCCTTTGGCCTTCACCACCTCCATGCTTTCGTGGAGTGTGATTGAT
CTATTTCTTTGCTGTCATGTTC
Found at i:4124026 original size:14 final size:15
Alignment explanation
Indices: 4124004--4124080 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
4123994 CAATCAAACA
4124004 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
4124018 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
4124033 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
4124053 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
4124067 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
4124081 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:4124045 original size:20 final size:20
Alignment explanation
Indices: 4124020--4124059 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4124010 AATATTTTCC
*
4124020 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
4124040 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
4124060 TCATTTTACG
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:4124065 original size:34 final size:35
Alignment explanation
Indices: 4124008--4124074 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
4123998 CAAACACCAG
*
4124008 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
4124043 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
4124075 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:4125989 original size:138 final size:138
Alignment explanation
Indices: 4125741--4126013 Score: 485
Period size: 138 Copynumber: 2.0 Consensus size: 138
4125731 GAGATGCGTT
* *
4125741 TTGCAGTTATGTCTTTTAAGTAGTTTCCTATAGAGTATTAATGGAGATGATTGGCATTTCTTAAT
1 TTGCAGTTATGTCTTTTAAGTAGTTCCCTATAGAGTATTAATGGAGATGATTGCCATTTCTTAAT
4125806 TCCATTGAGTGCAATTCAAGTGAATTCAATATTTTCTAGCTTGTACCAATGTGTCAAATTT-CTC
66 TCCATTGAGTGCAATTCAAGTGAATTCAATATTTTCTAGCTTGTACCAATGTGTCAAATTTCCT-
4125870 AAGAAACTA
130 AAGAAACTA
* *
4125879 TTGCAGTTATGTCTTTTAGGTAGTTCCCTGTAGAGTATTAATGGAGATGATTGCCATTTCTTAAT
1 TTGCAGTTATGTCTTTTAAGTAGTTCCCTATAGAGTATTAATGGAGATGATTGCCATTTCTTAAT
*
4125944 TCCATTGAGTGCAATTCGAGTGAATTCAATATTTTCTAGCTTGTACCAATGTGTCAAATTTCCTA
66 TCCATTGAGTGCAATTCAAGTGAATTCAATATTTTCTAGCTTGTACCAATGTGTCAAATTTCCTA
4126009 AGAAA
131 AGAAA
4126014 TTGTAAAAGA
Statistics
Matches: 129, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
138 127 0.98
139 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.40
Consensus pattern (138 bp):
TTGCAGTTATGTCTTTTAAGTAGTTCCCTATAGAGTATTAATGGAGATGATTGCCATTTCTTAAT
TCCATTGAGTGCAATTCAAGTGAATTCAATATTTTCTAGCTTGTACCAATGTGTCAAATTTCCTA
AGAAACTA
Found at i:4126327 original size:30 final size:28
Alignment explanation
Indices: 4126273--4126367 Score: 76
Period size: 28 Copynumber: 3.4 Consensus size: 28
4126263 AAATTATTAA
4126273 AATATTAATATAAA-ATAT-TATAATTTTT
1 AATATT-AT-TAAACATATATATAATTTTT
4126301 AATATTATTAAACATACATATATAATTATTT
1 AATATTATTAAACAT--ATATATAATT-TTT
*
4126332 -ATA-T-TTAATCATATA-ATAATTTATT
1 AATATTATTAAACATATATATAATTT-TT
*
4126357 AATATAATTAA
1 AATATTATTAA
4126368 TATAATTTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 18
0.74 0.03 0.24
Matches are distributed among these distances:
24 1 0.02
25 8 0.14
26 10 0.18
27 4 0.07
28 17 0.30
29 3 0.05
30 10 0.18
31 3 0.05
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (28 bp):
AATATTATTAAACATATATATAATTTTT
Found at i:4126370 original size:25 final size:25
Alignment explanation
Indices: 4126342--4126399 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
4126332 ATATTTAATC
4126342 ATATAATAATT-TATTAATATAATTA
1 ATATAATAATTATATTAATA-AATTA
* *
4126367 ATATAATTTATTATTTTAATAAATTA
1 ATATAA-TAATTATATTAATAAATTA
4126393 AT-TAATA
1 ATATAATA
4126400 TTTCAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 1 0.04
25 9 0.32
26 11 0.39
27 7 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
ATATAATAATTATATTAATAAATTA
Found at i:4126386 original size:22 final size:22
Alignment explanation
Indices: 4126320--4126395 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
4126310 AAACATACAT
*
4126320 ATATAA-TTATTTATATTTAATCAT
1 ATATAATTTA-TTAT-TTTAAT-AA
* * *
4126344 ATAATAATTTATTAATATAATTA
1 AT-ATAATTTATTATTTTAATAA
4126367 ATATAATTTATTATTTTAATAA
1 ATATAATTTATTATTTTAATAA
4126389 AT-TAATT
1 ATATAATT
4126396 AATATTTCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
21 5 0.12
22 19 0.44
23 2 0.05
24 7 0.16
25 7 0.16
26 3 0.07
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATAATTTATTATTTTAATAA
Found at i:4131955 original size:18 final size:21
Alignment explanation
Indices: 4131908--4131966 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 21
4131898 TCTTTATAAT
4131908 ATTTTTAAAAATATAAATTTTGAA
1 ATTTTTAAAAAT-T--ATTTTGAA
*
4131932 ATTTTTATAAA-TATTTTG-A
1 ATTTTTAAAAATTATTTTGAA
4131951 A-TTTTAAAAATTATTT
1 ATTTTTAAAAATTATTT
4131967 AAATTTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 8 0.25
19 7 0.22
20 6 0.19
22 1 0.03
24 10 0.31
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTTTTAAAAATTATTTTGAA
Found at i:4141728 original size:22 final size:22
Alignment explanation
Indices: 4141701--4141753 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
4141691 GCAATATAAT
4141701 AACAAAATAG-CAACAAAACAAC
1 AACAAAATAGCCAAC-AAACAAC
* *
4141723 ATCAAAAT-GCCAACAAACGAC
1 AACAAAATAGCCAACAAACAAC
4141744 AACAAAATAG
1 AACAAAATAG
4141754 TAGTAAACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.62, C:0.23, G:0.08, T:0.08
Consensus pattern (22 bp):
AACAAAATAGCCAACAAACAAC
Found at i:4141749 original size:21 final size:22
Alignment explanation
Indices: 4141673--4141753 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 22
4141663 ACATCTAAAC
* * *
4141673 AACAATAACAAAATAGGAGCAA
1 AACAACAACAAAATAGCAACAA
* * *
4141695 TATAATAACAAAATAGCAACAA
1 AACAACAACAAAATAGCAACAA
*
4141717 AACAACATCAAAAT-GCCAAC-A
1 AACAACAACAAAATAG-CAACAA
*
4141738 AACGACAACAAAATAG
1 AACAACAACAAAATAG
4141754 TAGTAAACAA
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
21 14 0.30
22 33 0.70
ACGTcount: A:0.62, C:0.19, G:0.09, T:0.11
Consensus pattern (22 bp):
AACAACAACAAAATAGCAACAA
Found at i:4142484 original size:2 final size:2
Alignment explanation
Indices: 4142477--4142502 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4142467 GTGATTTCAG
4142477 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
4142503 CTTTACTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4151252 original size:3 final size:3
Alignment explanation
Indices: 4151244--4151281 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4151234 GTTTGCTCGT
4151244 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
4151282 TGAAAATGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4152660 original size:20 final size:19
Alignment explanation
Indices: 4152618--4152660 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
4152608 ATATTATTTG
**
4152618 ATAAAATTTTTAAAAAATT
1 ATAAAATTTTTAAAAAACA
*
4152637 ATAAATATTTTTAAAATACA
1 ATAAA-ATTTTTAAAAAACA
4152657 ATAA
1 ATAA
4152661 TTTTTCAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAAAATTTTTAAAAAACA
Found at i:4155677 original size:9 final size:9
Alignment explanation
Indices: 4155663--4155696 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
4155653 AAATTTCAAG
*
4155663 TCGAATAAC
1 TCGAATAAA
*
4155672 TCGAATAAT
1 TCGAATAAA
4155681 TCGAATAAA
1 TCGAATAAA
4155690 TCGAATA
1 TCGAATA
4155697 TCAAACTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAA
Found at i:4162617 original size:15 final size:15
Alignment explanation
Indices: 4162567--4162617 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
4162557 TATAATAATT
*
4162567 AATATTAATAATATA
1 AATATTAATATTATA
*
4162582 AATATAAATATTA-A
1 AATATTAATATTATA
* *
4162596 ATTTATTATTATTATA
1 A-ATATTAATATTATA
4162612 AATATT
1 AATATT
4162618 TTCTTTTTAG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTAATATTATA
Found at i:4166647 original size:26 final size:25
Alignment explanation
Indices: 4166609--4166673 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
4166599 CCCTTAACAT
*
4166609 ATTATATCAATTTAGTAATTAATATA
1 ATTATATCAATTTAAT-ATTAATATA
** *
4166635 ATTATATTTATTTAATATTAATATT
1 ATTATATCAATTTAATATTAATATA
*
4166660 ATTAATATAAATTT
1 ATT-ATATCAATTT
4166674 TAAATTTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTATATCAATTTAATATTAATATA
Found at i:4168905 original size:19 final size:19
Alignment explanation
Indices: 4168881--4168920 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
4168871 TCATGCAAGA
4168881 TTTAGATTTAGG-TTTTATT
1 TTTAGA-TTAGGATTTTATT
4168900 TTTAGATTAGGATTTTTATT
1 TTTAGATTAGGA-TTTTATT
4168920 T
1 T
4168921 ATGCAAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 6 0.32
20 8 0.42
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (19 bp):
TTTAGATTAGGATTTTATT
Found at i:4168910 original size:46 final size:47
Alignment explanation
Indices: 4168840--4168931 Score: 127
Period size: 46 Copynumber: 2.0 Consensus size: 47
4168830 AAAAAATTGG
4168840 GATTGTAGGTTTTTTTTAAATTAGGA-TTTT-TTCATGCAAGATTTA
1 GATTGTAGGTTTTTTTTAAATTAGGATTTTTATTCATGCAAGATTTA
* *
4168885 GATT-TAGGTTTTATTTTTAGATTAGGATTTTTATTTATGCAAGATTT
1 GATTGTAGG-TTT-TTTTTAAATTAGGATTTTTATTCATGCAAGATTT
4168932 GGCTAACCCC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
44 4 0.10
45 7 0.17
46 13 0.32
47 4 0.10
48 13 0.32
ACGTcount: A:0.26, C:0.03, G:0.17, T:0.53
Consensus pattern (47 bp):
GATTGTAGGTTTTTTTTAAATTAGGATTTTTATTCATGCAAGATTTA
Found at i:4171819 original size:44 final size:44
Alignment explanation
Indices: 4171756--4171844 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
4171746 TATTTCGTAT
4171756 ATTCGATTTTCGAATTAATTACAGCAAATAAATGAGTAAAGATA
1 ATTCGATTTTCGAATTAATTACAGCAAATAAATGAGTAAAGATA
4171800 ATTCGATTTTCGAATTAATTACAGCAAATAAATGAGTAAAGATA
1 ATTCGATTTTCGAATTAATTACAGCAAATAAATGAGTAAAGATA
4171844 A
1 A
4171845 AGTTCATCGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.31
Consensus pattern (44 bp):
ATTCGATTTTCGAATTAATTACAGCAAATAAATGAGTAAAGATA
Found at i:4175410 original size:26 final size:25
Alignment explanation
Indices: 4175372--4175436 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
4175362 CCCTTAACAT
*
4175372 ATTATATCAATTTAGTAATTAATATA
1 ATTATATCAATTTAAT-ATTAATATA
** *
4175398 ATTATATTTATTTAATATTAATATT
1 ATTATATCAATTTAATATTAATATA
*
4175423 ATTAATATAAATTT
1 ATT-ATATCAATTT
4175437 TAAATTTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTATATCAATTTAATATTAATATA
Found at i:4179915 original size:3 final size:3
Alignment explanation
Indices: 4179907--4179940 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4179897 CTTTTATGTA
4179907 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4179941 TACTTAATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4180065 original size:31 final size:32
Alignment explanation
Indices: 4180029--4180093 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
4180019 CTTAGATAAT
4180029 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
*
4180060 TTTAAAGAGTTTTTATTATGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
4180092 TT
1 TT
4180094 GTAATTTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:4180657 original size:12 final size:12
Alignment explanation
Indices: 4180640--4180690 Score: 60
Period size: 9 Copynumber: 4.8 Consensus size: 12
4180630 TTTAAATAAA
4180640 AGCAAAAAAAAC
1 AGCAAAAAAAAC
4180652 AGC---AAAAAC
1 AGCAAAAAAAAC
4180661 AGCAAAAAAAAC
1 AGCAAAAAAAAC
4180673 A--AAAAAAAA-
1 AGCAAAAAAAAC
4180682 AGCAAAAAA
1 AGCAAAAAA
4180691 GCGCAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
9 10 0.29
10 8 0.24
11 6 0.18
12 10 0.29
ACGTcount: A:0.78, C:0.14, G:0.08, T:0.00
Consensus pattern (12 bp):
AGCAAAAAAAAC
Found at i:4180664 original size:21 final size:21
Alignment explanation
Indices: 4180637--4180690 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
4180627 TTCTTTAAAT
**
4180637 AAAAGCAAAAAAAACAGCAAA
1 AAAAGCAAAAAAAACAAAAAA
*
4180658 AACAGCAAAAAAAACAAAAAA
1 AAAAGCAAAAAAAACAAAAAA
4180679 AAAAGCAAAAAA
1 AAAAGCAAAAAA
4180691 GCGCAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.80, C:0.13, G:0.07, T:0.00
Consensus pattern (21 bp):
AAAAGCAAAAAAAACAAAAAA
Found at i:4180699 original size:50 final size:49
Alignment explanation
Indices: 4180645--4180739 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 49
4180635 ATAAAAGCAA
4180645 AAAAAACAGCAAAAA-CAGCAAAAAAAACAAAAAAAAAAGCAAAAAAGCGC
1 AAAAAACAGCAAAAAGC-GCAAAAAAAA-AAAAAAAAAAGCAAAAAAGCGC
* * *
4180695 AAAAAAGAGTAAAAAGCGCAAAAAAAATAAAAAAAAAGCAAAAAA
1 AAAAAACAGCAAAAAGCGCAAAAAAAAAAAAAAAAAAGCAAAAAA
4180740 AAAGCGCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
49 17 0.41
50 23 0.56
51 1 0.02
ACGTcount: A:0.76, C:0.12, G:0.11, T:0.02
Consensus pattern (49 bp):
AAAAAACAGCAAAAAGCGCAAAAAAAAAAAAAAAAAAGCAAAAAAGCGC
Found at i:4180727 original size:19 final size:19
Alignment explanation
Indices: 4180675--4180728 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
4180665 AAAAAAACAA
*
4180675 AAAAAAAAGCAAAAAAGCGC
1 AAAAAAAA-TAAAAAAGCGC
*
4180695 AAAAAAGAGT-AAAAAGCGC
1 AAAAAA-AATAAAAAAGCGC
4180714 AAAAAAAATAAAAAA
1 AAAAAAAATAAAAAA
4180729 AAAGCAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 2 0.07
19 20 0.69
20 6 0.21
21 1 0.03
ACGTcount: A:0.74, C:0.09, G:0.13, T:0.04
Consensus pattern (19 bp):
AAAAAAAATAAAAAAGCGC
Found at i:4180740 original size:10 final size:10
Alignment explanation
Indices: 4180637--4180741 Score: 72
Period size: 10 Copynumber: 10.4 Consensus size: 10
4180627 TTCTTTAAAT
4180637 AAAAGCAAAA
1 AAAAGCAAAA
4180647 AAAA-CAGCAAA
1 AAAAGCA--AAA
*
4180658 AACAGCAAAA
1 AAAAGCAAAA
4180668 AAAA-CAAAAAA
1 AAAAGC--AAAA
4180679 AAAAGCAAAA
1 AAAAGCAAAA
**
4180689 AAGCGCAAAA
1 AAAAGCAAAA
* *
4180699 AAGAG-TAAA
1 AAAAGCAAAA
**
4180708 AAGCGCAAAA
1 AAAAGCAAAA
**
4180718 AAAATAAAAA
1 AAAAGCAAAA
4180728 AAAAGCAAAA
1 AAAAGCAAAA
4180738 AAAA
1 AAAA
4180742 AGCGCAAAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
9 10 0.14
10 47 0.64
11 14 0.19
12 3 0.04
ACGTcount: A:0.76, C:0.11, G:0.10, T:0.02
Consensus pattern (10 bp):
AAAAGCAAAA
Found at i:4180777 original size:13 final size:13
Alignment explanation
Indices: 4180761--4180792 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4180751 AAGAGAGAGT
*
4180761 AAAAAGCGCAAAA
1 AAAAAGCACAAAA
4180774 AAAAAGCACAAAA
1 AAAAAGCACAAAA
4180787 AAAAAG
1 AAAAAG
4180793 TTGCCTACCT
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:0.75, C:0.12, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGCACAAAA
Found at i:4185221 original size:3 final size:3
Alignment explanation
Indices: 4185213--4185237 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4185203 CTTTTATGTA
4185213 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
4185238 TACTTAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4185362 original size:31 final size:32
Alignment explanation
Indices: 4185326--4185390 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
4185316 CTTAGATAAT
4185326 TTTAAAGAG-TTTTATTAGAATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGAATTCAATTACTC
*
4185357 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGAATTCAATTACTC
4185389 TT
1 TT
4185391 GTAATTTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGAATTCAATTACTC
Found at i:4195616 original size:19 final size:19
Alignment explanation
Indices: 4195592--4195629 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4195582 TGCTTCAATA
*
4195592 TGGTGTAGTACTAATTATG
1 TGGTGTAATACTAATTATG
*
4195611 TGGTGTAATACTAGTTATG
1 TGGTGTAATACTAATTATG
4195630 GACTTGGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.42
Consensus pattern (19 bp):
TGGTGTAATACTAATTATG
Found at i:4200284 original size:14 final size:14
Alignment explanation
Indices: 4200265--4200297 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4200255 TTTTCTTAAT
*
4200265 AATAATTATAAATA
1 AATAATAATAAATA
4200279 AATAATAATAAATA
1 AATAATAATAAATA
4200293 AATAA
1 AATAA
4200298 ATTAAAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAATAATAAATA
Found at i:4201184 original size:18 final size:18
Alignment explanation
Indices: 4201161--4201198 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4201151 TTCAATTAAG
*
4201161 TCTTTCATT-AAGTGTTTT
1 TCTTTC-TTCAAGTATTTT
4201179 TCTTTCTTCAAGTATTTT
1 TCTTTCTTCAAGTATTTT
4201197 TC
1 TC
4201199 ATTTAGTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.61
Consensus pattern (18 bp):
TCTTTCTTCAAGTATTTT
Found at i:4208509 original size:22 final size:22
Alignment explanation
Indices: 4208484--4208526 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4208474 AAACAAAAAC
4208484 CCTTACACCCATCAAATCCTAA
1 CCTTACACCCATCAAATCCTAA
* * *
4208506 CCTTTCACCTATCACATCCTA
1 CCTTACACCCATCAAATCCTA
4208527 GTTTTCTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.42, G:0.00, T:0.28
Consensus pattern (22 bp):
CCTTACACCCATCAAATCCTAA
Found at i:4210789 original size:18 final size:18
Alignment explanation
Indices: 4210766--4210803 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4210756 AGAACTAAAT
*
4210766 GAAAAATACTTGAA-GAAA
1 GAAAAACACTT-AATGAAA
4210784 GAAAAACACTTAATGAAA
1 GAAAAACACTTAATGAAA
4210802 GA
1 GA
4210804 CTTAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.61, C:0.08, G:0.16, T:0.16
Consensus pattern (18 bp):
GAAAAACACTTAATGAAA
Found at i:4222253 original size:16 final size:19
Alignment explanation
Indices: 4222223--4222282 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 19
4222213 AAAATAAAAT
4222223 TTAA-ATATTATATAATTTA
1 TTAATATATTA-ATAATTTA
4222242 TTAA-A-A-TAATAAATTATA
1 TTAATATATTAAT-AATT-TA
4222260 TTAATTATATTAATAATTTA
1 TTAA-TATATTAATAATTTA
4222280 TTA
1 TTA
4222283 TATGGCTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.06
17 6 0.17
18 7 0.20
19 5 0.14
20 6 0.17
21 5 0.14
22 4 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAATATATTAATAATTTA
Found at i:4222274 original size:25 final size:25
Alignment explanation
Indices: 4222229--4222285 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
4222219 AAATTTAAAT
4222229 ATTATA-TAATTTATTAAAATAATAA
1 ATTATATTAATTTATT-AAATAATAA
**
4222254 ATTATATTAATTATATT-AATAATTT
1 ATTATATTAATT-TATTAAATAATAA
4222279 ATTATAT
1 ATTATAT
4222286 GGCTAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 19 0.68
26 5 0.18
27 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTATATTAATTTATTAAATAATAA
Found at i:4224604 original size:21 final size:19
Alignment explanation
Indices: 4224562--4224605 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
4224552 TTTTGAAAAA
* *
4224562 TTTATGATTTTTAATTATT
1 TTTATGATTTTAAATAATT
4224581 TTTATAGATTTTAAAATAATT
1 TTTAT-GATTTT-AAATAATT
4224602 TTTA
1 TTTA
4224606 GCCTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 6 0.29
21 10 0.48
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
TTTATGATTTTAAATAATT
Found at i:4233923 original size:294 final size:294
Alignment explanation
Indices: 4233476--4234067 Score: 1132
Period size: 294 Copynumber: 2.0 Consensus size: 294
4233466 AAACGGGCTT
*
4233476 ATTTTTTTTTGTCTAAGCCTATTTTTTGGGCCTAATATTTTTGCCCAAACCCTCCCAAATTTCGG
1 ATTTTTTTTTGTCTAAGCCTATTTTTTGAGCCTAATATTTTTGCCCAAACCCTCCCAAATTTCGG
4233541 ACAAACCTTCGAGCCTGGACAAATAGCCTGACACTTGAATTGGTGTAGTGCTTAGTAAATGTCTA
66 ACAAACCTTCGAGCCTGGACAAATAGCCTGACACTTGAATTGGTGTAGTGCTTAGTAAATGTCTA
4233606 ACAGTTTCTTAGTTCTCAACCCATTTTAATTTCCAGAAATTAATCACTTTCAACAATCTTTGATG
131 ACAGTTTCTTAGTTCTCAACCCATTTTAATTTCCAGAAATTAATCACTTTCAACAATCTTTGATG
**
4233671 TTTAGATGGGTGTCTGAACATGTTTTACTTCCAATCCCGACAAAGAAAAGGGATCATTCGTATTC
196 TTTAGATAAGTGTCTGAACATGTTTTACTTCCAATCCCGACAAAGAAAAGGGATCATTCGTATTC
4233736 AAAGTTTTCATGTTTACGCTTTTCATATACTGGC
261 AAAGTTTTCATGTTTACGCTTTTCATATACTGGC
4233770 ATTTTTTTTTGTCTAAGCCTATTTTTTGAGCCTAATATTTTTGCCCAAACCCTCCCAAATTTCGG
1 ATTTTTTTTTGTCTAAGCCTATTTTTTGAGCCTAATATTTTTGCCCAAACCCTCCCAAATTTCGG
4233835 ACAAACCTTCGAGCCTGGACAAATAGCCTGACACTTGAATTGGTGTAGTGCTTAGTAAATGTC-A
66 ACAAACCTTCGAGCCTGGACAAATAGCCTGACACTTGAATTGGTGTAGTGCTTAGTAAATGTCTA
4233899 ACAGTTTCTTAGTTCTCTAACCCATTTTAATTTCCAGAAATTAATCACTTTCAACAATCTTTGAT
131 ACAGTTTCTTAGTTCTC-AACCCATTTTAATTTCCAGAAATTAATCACTTTCAACAATCTTTGAT
4233964 GTTTAGATAAGTGTCTGAACATGTTTTACTTCCAATCCCGACAAAGAAAAGGGATCATTCGTATT
195 GTTTAGATAAGTGTCTGAACATGTTTTACTTCCAATCCCGACAAAGAAAAGGGATCATTCGTATT
*
4234029 TAAAGTTTTCATGTTTACGCTTTTCATATACTGGC
260 CAAAGTTTTCATGTTTACGCTTTTCATATACTGGC
4234064 ATTT
1 ATTT
4234068 CTGATAATTT
Statistics
Matches: 293, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
293 18 0.06
294 275 0.94
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (294 bp):
ATTTTTTTTTGTCTAAGCCTATTTTTTGAGCCTAATATTTTTGCCCAAACCCTCCCAAATTTCGG
ACAAACCTTCGAGCCTGGACAAATAGCCTGACACTTGAATTGGTGTAGTGCTTAGTAAATGTCTA
ACAGTTTCTTAGTTCTCAACCCATTTTAATTTCCAGAAATTAATCACTTTCAACAATCTTTGATG
TTTAGATAAGTGTCTGAACATGTTTTACTTCCAATCCCGACAAAGAAAAGGGATCATTCGTATTC
AAAGTTTTCATGTTTACGCTTTTCATATACTGGC
Found at i:4234777 original size:13 final size:13
Alignment explanation
Indices: 4234761--4234790 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4234751 TTGTATTGCA
*
4234761 TGTTTGATTTTCT
1 TGTTTGATTTCCT
4234774 TGTTTGATTTCCT
1 TGTTTGATTTCCT
4234787 TGTT
1 TGTT
4234791 AACCCCTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.10, G:0.17, T:0.67
Consensus pattern (13 bp):
TGTTTGATTTCCT
Found at i:4238424 original size:23 final size:21
Alignment explanation
Indices: 4238398--4238438 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
4238388 AATTAAATTA
4238398 TATATATTATGATTTTAGTAT
1 TATATATTATGATTTTAGTAT
4238419 TATATATTATGATTTTAGTA
1 TATATATTATGATTTTAGTA
4238439 AATTCATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (21 bp):
TATATATTATGATTTTAGTAT
Found at i:4238771 original size:16 final size:16
Alignment explanation
Indices: 4238752--4238795 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
4238742 TCTATTCCAT
*
4238752 TATTCCATTACGCATC
1 TATTCCATTACACATC
*
4238768 TATTCCATTCCACATC
1 TATTCCATTACACATC
4238784 TATTCCATTACA
1 TATTCCATTACA
4238796 GCGAACCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.27, C:0.32, G:0.02, T:0.39
Consensus pattern (16 bp):
TATTCCATTACACATC
Found at i:4239292 original size:18 final size:16
Alignment explanation
Indices: 4239267--4239309 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
4239257 AGGCCTTTTT
*
4239267 ATTAAATTATTTATGTA
1 ATTAAATTATTT-TATA
4239284 ATATAAATTATTTTATA
1 AT-TAAATTATTTTATA
4239301 ATTAAATTA
1 ATTAAATTA
4239310 ATTGTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 7 0.29
18 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTAAATTATTTTATA
Found at i:4252265 original size:31 final size:31
Alignment explanation
Indices: 4252230--4252299 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
4252220 ATTATAAAAT
* *
4252230 AGTCATTAAACTTTTTAAAAGTTGTCATTTA
1 AGTCATTAAACTATTGAAAAGTTGTCATTTA
** * *
4252261 AGTCATTAAACTATTGAAATTTTTTTATTTA
1 AGTCATTAAACTATTGAAAAGTTGTCATTTA
4252292 AGTCATTA
1 AGTCATTA
4252300 CGCTATTAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (31 bp):
AGTCATTAAACTATTGAAAAGTTGTCATTTA
Found at i:4252318 original size:31 final size:31
Alignment explanation
Indices: 4252256--4252316 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
4252246 AAAAGTTGTC
4252256 ATTTAAGTCATTAAACTATTGAAATTTTTTT
1 ATTTAAGTCATTAAACTATTGAAATTTTTTT
** *
4252287 ATTTAAGTCATTACGCTATT-AAGTTTTTTT
1 ATTTAAGTCATTAAACTATTGAAATTTTTTT
4252317 TAAGTTCAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.52
Consensus pattern (31 bp):
ATTTAAGTCATTAAACTATTGAAATTTTTTT
Found at i:4255728 original size:62 final size:62
Alignment explanation
Indices: 4255657--4255782 Score: 218
Period size: 62 Copynumber: 2.0 Consensus size: 62
4255647 TTGAAGTTTA
* *
4255657 TTTTGAAAAATAGACAAATAAATATTAGGTTGAATCAAATTATAAAGTATTTA-AGTTAAAAG
1 TTTTGAAAAATAGAAAAATAAATATTAGGTTGAATCAAATTATAAAGCA-TTACAGTTAAAAG
4255719 TTTTGAAAAATAGAAAAATAAATATTAGGTTGAATCAAATTATAAAGCATTACAGTTAAAAG
1 TTTTGAAAAATAGAAAAATAAATATTAGGTTGAATCAAATTATAAAGCATTACAGTTAAAAG
4255781 TT
1 TT
4255783 CGGGAAGTAC
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
61 3 0.05
62 58 0.95
ACGTcount: A:0.50, C:0.04, G:0.13, T:0.33
Consensus pattern (62 bp):
TTTTGAAAAATAGAAAAATAAATATTAGGTTGAATCAAATTATAAAGCATTACAGTTAAAAG
Found at i:4256624 original size:23 final size:23
Alignment explanation
Indices: 4256597--4256650 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
4256587 TTTAATATGT
* *
4256597 TATTTAA-AAAAATATTTTTATTA
1 TATTTAATAAAAA-AATTTAATTA
4256620 TATTTGAATAAAAAAATTTAATTA
1 TATTT-AATAAAAAAATTTAATTA
4256644 TATTTAA
1 TATTTAA
4256651 CAAATTGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.26
24 15 0.56
25 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TATTTAATAAAAAAATTTAATTA
Found at i:4264350 original size:29 final size:29
Alignment explanation
Indices: 4264287--4264351 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
4264277 GAGAAGAAGT
* *
4264287 ATAAACATATTGGGTCATTTACGTAAAAA
1 ATAAAAATATTGGGCCATTTACGTAAAAA
* *
4264316 GTAAAAATATTGGGCCATTTA-TTAAAAA
1 ATAAAAATATTGGGCCATTTACGTAAAAA
4264344 ATGAAAAA
1 AT-AAAAA
4264352 GAAAGGATGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (29 bp):
ATAAAAATATTGGGCCATTTACGTAAAAA
Found at i:4267354 original size:114 final size:113
Alignment explanation
Indices: 4267227--4267646 Score: 606
Period size: 114 Copynumber: 3.7 Consensus size: 113
4267217 ATCGCAACTG
* * * * ** *
4267227 AAAAAACCTAAGCCTAACGACGCTGTTTTGTGAGCTTTTGTTGATTTAGCGGCGTTTTTAAGAAA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTATGAAA
* *
4267292 GCGCCGCTAATGCTCAGGGCTTTAGCAGCGTTTTAGAGGAAGCGCCGCA
66 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG-GGAAGCGCCGCA
* * * *
4267341 AAAAAACCTAAGCCCAACGATGCCGTTTTGTGAACTTTCGGGGATTTAGCGGCGTTTTTAGGAAA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTATGAAA
4267406 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGGAAGCGCCGCA
66 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTT-GGGAAGCGCCGCA
* *
4267455 AAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTTTCGGGGATTTTGCGGCGTTTTTATGAAA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTATGAAA
* *
4267520 GCGCAGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCT
66 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGG-AAGCGCCGCA
** * * * *
4267569 AAATCACCTTAGTCAAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTATGAAA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTATGAAA
4267634 GCGCCGCTAATGC
66 GCGCCGCTAATGC
4267647 GCGCTAAAAA
Statistics
Matches: 277, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
113 3 0.01
114 273 0.99
115 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (113 bp):
AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTATGAAA
GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAGCGCCGCA
Found at i:4267921 original size:15 final size:15
Alignment explanation
Indices: 4267901--4267931 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4267891 CATATTTTAA
4267901 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
4267916 GGTTTAGGGATTATG
1 GGTTTAGGGAGTATG
4267931 G
1 G
4267932 ATTAGGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:4268190 original size:15 final size:15
Alignment explanation
Indices: 4268170--4268216 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
4268160 ATATTTAAGG
*
4268170 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
4268185 TTTAGGGATTAT-GA
1 TTTAGGGATTATGGA
*
4268199 ATTAGGGATTATGG-
1 TTTAGGGATTATGGA
4268213 TTTA
1 TTTA
4268217 AGGGTTGGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:4268249 original size:15 final size:15
Alignment explanation
Indices: 4268231--4268297 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
4268221 TTGGGATGTA
*
4268231 AGGTTTTGGGGTTAG
1 AGGTTTAGGGGTTAG
4268246 AGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
*
4268261 ATG-TTA-GGGTTA-
1 AGGTTTAGGGGTTAG
*
4268273 AGAG-TTAGGGATTTA-
1 AG-GTTTAGGG-GTTAG
4268288 AGGTTTAGGG
1 AGGTTTAGGG
4268298 ATTCAGGGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
12 1 0.02
13 10 0.23
14 6 0.14
15 27 0.61
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (15 bp):
AGGTTTAGGGGTTAG
Found at i:4269015 original size:105 final size:105
Alignment explanation
Indices: 4268906--4269095 Score: 301
Period size: 105 Copynumber: 1.8 Consensus size: 105
4268896 GTTCAAAATG
* *
4268906 AAAAACGCCGCAAAAAATAAATCAATATATAAAAAAAAAA-ATAAAAAATTTTAGCATAGCAAAA
1 AAAAACGCCGCAAAAAATAAACCAATATATAAAAAAAAAATA-AAAAAATTTTAGAATAGCAAAA
4268970 CGGCGCCATTTTGTTCAAAATAAAATAGCGGCGTTTTTTAT
65 CGGCGCCATTTTGTTCAAAATAAAATAGCGGCGTTTTTTAT
* * * *
4269011 AAAAAGGCTGCAAAAAATAAACCAATATATAAAAAACAGATAAAAAAATTTTAGAATAGCAAAAC
1 AAAAACGCCGCAAAAAATAAACCAATATATAAAAAAAAAATAAAAAAATTTTAGAATAGCAAAAC
*
4269076 GGCGTCATTTTGTTCAAAAT
66 GGCGCCATTTTGTTCAAAAT
4269096 GGAAAAAATT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
105 76 0.99
106 1 0.01
ACGTcount: A:0.52, C:0.13, G:0.12, T:0.24
Consensus pattern (105 bp):
AAAAACGCCGCAAAAAATAAACCAATATATAAAAAAAAAATAAAAAAATTTTAGAATAGCAAAAC
GGCGCCATTTTGTTCAAAATAAAATAGCGGCGTTTTTTAT
Found at i:4269197 original size:255 final size:254
Alignment explanation
Indices: 4268913--4269856 Score: 989
Period size: 255 Copynumber: 3.8 Consensus size: 254
4268903 ATGAAAAACG
*
4268913 CCGCAAAAAATAAATCAATATATAAAAAAA-AAAATAAAAAA-TTTTAGCATAGCAAAACGGCGC
1 CCGCAAAAAATAAATCAATTTATAAAAAAATAAAATAAAAAATTTTTAGCATAGCAAAACGGCGC
* * * *
4268976 CATTTTGTTCAAAATAAAATAGCGGCG-TTTTTTATAAAAAGGCTGCAAAAAATAAACCAATATA
66 CATTTTGTTCAAAATGAAATAGCGGCGTTTTTTTACAAAAACGCCGC-AAAAATAAACCAATATA
4269040 TAAAAAACAGATAAAAAAATTTTAGAATAGCAAAACGGCGTCATTTTGTTCAAAATGGAAAAAA-
130 TAAAAAACA-A-AAAAAAA-TTTAGAATAGCAAAACGGCGTCATTTTGTTCAAAAT-GAAAAAAT
* *
4269104 TTTTGCGGCTTTTTTC-AAAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGCTTTTATAAAAGCA
191 TTTTGCGGCGTTTTTCAAAAAAAACGCCGCTAAAGG-AAGCAATAGCGGCACTTTTATAAAAGCA
4269168 CCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTTTAGCATAGCAAAACGGCG
1 CCGCAAAAAATAAATCAATTTATAAAAAAA-TAAAATAAAAAATTTTTAGCATAGCAAAACGGCG
* *
4269233 CCATTTTGTTCAAAATGAAATAGCGGCGTTTTTTTACAAAAACGCCGCAAAAATAAATCAATTTA
65 CCATTTTGTTCAAAATGAAATAGCGGCGTTTTTTTACAAAAACGCCGCAAAAATAAACCAATATA
*
4269298 TAAAAAACAAAAAAAAATTTAGAATAGCAAAACGGCGTCATTTTGTTCCAAATGAAAAAATTTTT
130 TAAAAAACAAAAAAAAATTTAGAATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAAAATTTTT
*
4269363 GCGGCGTTTTTCAAAAAAAACGCCGCTAAAGGAAGCAATAGCGGCACTTTTATAAAAGCG
195 GCGGCGTTTTTCAAAAAAAACGCCGCTAAAGGAAGCAATAGCGGCACTTTTATAAAAGCA
*
4269423 CCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTTTAGCACAGCAAAACGGCG
1 CCGCAAAAAATAAATCAATTTATAAAAAAA-TAAAATAAAAAATTTTTAGCATAGCAAAACGGCG
* ***** ** *
4269488 TCATTTTGTTCAAAATGAAATAGC--CG--------CAAAAATAAATCAATTTATAAA-AAATAA
65 CCATTTTGTTCAAAATGAAATAGCGGCGTTTTTTTACAAAAACGCCGCAA-AAATAAACCAAT-A
* **** * * *
4269542 AATAAAAAA-ATTTTAGAA--TAGCAA-A--A---TGGCGTCATTTTGTTCCAAATGAAAAAATT
128 TATAAAAAACAAAAAAAAATTTAG-AATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAAAATT
* *** * * *
4269598 TTTGCGGCATTTTTTTGAAAAAA-GCCGCTAAAGGTGAGAAATA---G-------A-AAAA-CG
192 TTTGCGGCGTTTTTCAAAAAAAACGCCGCTAAAGG-AAGCAATAGCGGCACTTTTATAAAAGCA
* *
4269649 CCGCAAAAAATAAATCAATTTATTAAAAAAATAAAATAAAAAA-TTTCATGCATAACAAAACGGC
1 CCGCAAAAAATAAATCAATTTA-TAAAAAAATAAAATAAAAAATTTTTA-GCATAGCAAAACGGC
** * * * * * *
4269713 ATCATTTTGTTCAAAGTGAAATGGCGGCGGTTTTATA-AAAAACGCCGCAAAAAATAAATCAATT
64 GCCATTTTGTTCAAAATGAAATAGCGGCGTTTTTTTACAAAAACGCCGC-AAAAATAAACCAATA
4269777 TATAAAAAAACAAAATAAAAAAAATTTTAGAATAGCAAAACGGCGTCATTTTGTTCAAAATG-AA
128 TAT-AAAAAAC---A-AAAAAAAA-TTTAGAATAGCAAAACGGCGTCATTTTGTTCAAAATGAAA
4269841 AAATTATTTGCGGCGT
187 AAATT-TTTGCGGCGT
4269857 CATAAAAACG
Statistics
Matches: 590, Mismatches: 59, Indels: 86
0.80 0.08 0.12
Matches are distributed among these distances:
225 4 0.01
226 71 0.12
227 12 0.02
228 3 0.01
235 14 0.02
236 11 0.02
237 11 0.02
238 54 0.09
240 1 0.00
241 4 0.01
243 6 0.01
244 6 0.01
245 16 0.03
246 14 0.02
248 7 0.01
249 29 0.05
253 2 0.00
254 7 0.01
255 192 0.33
256 26 0.04
257 12 0.02
258 72 0.12
259 16 0.03
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (254 bp):
CCGCAAAAAATAAATCAATTTATAAAAAAATAAAATAAAAAATTTTTAGCATAGCAAAACGGCGC
CATTTTGTTCAAAATGAAATAGCGGCGTTTTTTTACAAAAACGCCGCAAAAATAAACCAATATAT
AAAAAACAAAAAAAAATTTAGAATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAAAATTTTTG
CGGCGTTTTTCAAAAAAAACGCCGCTAAAGGAAGCAATAGCGGCACTTTTATAAAAGCA
Found at i:4269255 original size:107 final size:101
Alignment explanation
Indices: 4269144--4269354 Score: 271
Period size: 102 Copynumber: 2.0 Consensus size: 101
4269134 AAAGGTAAGC
* *
4269144 AATAGCGGCG-CTTTTATAAAAGCACCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAA
1 AATAGCGGCGTCTTTTACAAAAACACCGC-AAAAATAAATCAATTTAT-AAAAAA--AAAA-AAA
*
4269208 AAATTTTTAGCATAGCAAAACGGCGCCATTTTGTTCAAAATGA
61 AAA--TTTAGAATAGCAAAACGGCGCCATTTTGTTCAAAATGA
* * *
4269251 AATAGCGGCGTTTTTTTACAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAAAAAAAT
1 AATAGCGGCG-TCTTTTACAAAAACACCGCAAAAATAAATCAATTTATAAAAAAAAAAAAAAAAT
* *
4269316 TTAGAATAGCAAAACGGCGTCATTTTGTTCCAAATGA
65 TTAGAATAGCAAAACGGCGCCATTTTGTTCAAAATGA
4269353 AA
1 AA
4269355 AAATTTTTGC
Statistics
Matches: 94, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
102 37 0.39
104 6 0.06
105 3 0.03
107 16 0.17
108 18 0.19
109 14 0.15
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (101 bp):
AATAGCGGCGTCTTTTACAAAAACACCGCAAAAATAAATCAATTTATAAAAAAAAAAAAAAAATT
TAGAATAGCAAAACGGCGCCATTTTGTTCAAAATGA
Found at i:4269573 original size:85 final size:88
Alignment explanation
Indices: 4269422--4269592 Score: 276
Period size: 85 Copynumber: 2.0 Consensus size: 88
4269412 TTATAAAAGC
* *
4269422 GCCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTTTAGCACAGCAAAACGGC
1 GCCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAAATTTTAGAACAGCAAAACGGC
4269487 GTCATTTTGTTCAAAATGAAATA
66 GTCATTTTGTTCAAAATGAAATA
* *
4269510 GCCGC-AAAAATAAATCAATTTAT-AAAAAA-TAAAATAAAAAAATTTTAGAATAGCAAAATGGC
1 GCCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAAATTTTAGAACAGCAAAACGGC
*
4269572 GTCATTTTGTTCCAAATGAAA
66 GTCATTTTGTTCAAAATGAAA
4269593 AAATTTTTGC
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
85 49 0.63
86 6 0.08
87 18 0.23
88 5 0.06
ACGTcount: A:0.51, C:0.12, G:0.11, T:0.26
Consensus pattern (88 bp):
GCCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAAATTTTAGAACAGCAAAACGGC
GTCATTTTGTTCAAAATGAAATA
Found at i:4269686 original size:226 final size:226
Alignment explanation
Indices: 4269276--4269734 Score: 617
Period size: 226 Copynumber: 2.0 Consensus size: 226
4269266 TTACAAAAAC
*
4269276 GCCGCAAAAATAAATCAATTTATAAAAAACAAAAAAAAATTTAGAATAGCAAAACGGCGTCATTT
1 GCCGCAAAAATAAATCAATTTATAAAAAAAAAAAAAAAATTTAGAATAGCAAAACGGCGTCATTT
* *
4269341 TGTTCCAAATGAAAAAATTTTTGCGGCGTTTTTCAAAAAAAACGCCGCTAAAGGAAGCAATAGCG
66 TGTTCCAAATGAAAAAATTTTTGCGGCATTTTTCAAAAAAAACGCCGCTAAAGGAAGAAATA--G
*
4269406 GCACTTTTATAAAAGCGCCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTT-T
129 G------TATAAAAGCGCCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTCA
* *
4269470 TAGCACAGCAAAACGGCGTCATTTTGTTCAAAATGAAATA
188 T-GCACAACAAAACGGCATCATTTTGTTCAAAATGAAATA
*
4269510 GCCGCAAAAATAAATCAATTTATAAAAAATAAAATAAAAAAATTTTAGAATAGCAAAATGGCGTC
1 GCCGCAAAAATAAATCAATTTAT-AAAAA-AAAA-AAAAAAA-TTTAGAATAGCAAAACGGCGTC
*** *
4269575 ATTTTGTTCCAAATGAAAAAATTTTTGCGGCATTTTTTTGAAAAAA-GCCGCTAAAGGTGAGAAA
62 ATTTTGTTCCAAATGAAAAAATTTTTGCGGCATTTTTCAAAAAAAACGCCGCTAAAGG-AAGAAA
4269639 TA-G-A-AAAA-CGCCGCAAAAAATAAATCAATTTATTAAAAAAA-TAAAATAAAAAATTTCATG
126 TAGGTATAAAAGCGCCGCAAAAAATAAATCAATTTA-TAAAAAAATTAAAATAAAAAATTTCATG
* *
4269699 CATAACAAAACGGCATCATTTTGTTCAAAGTGAAAT
190 CACAACAAAACGGCATCATTTTGTTCAAAATGAAAT
4269735 GGCGGCGGTT
Statistics
Matches: 205, Mismatches: 13, Indels: 22
0.85 0.05 0.09
Matches are distributed among these distances:
226 72 0.35
227 13 0.06
228 1 0.00
234 23 0.11
235 6 0.03
236 3 0.01
237 18 0.09
238 69 0.34
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (226 bp):
GCCGCAAAAATAAATCAATTTATAAAAAAAAAAAAAAAATTTAGAATAGCAAAACGGCGTCATTT
TGTTCCAAATGAAAAAATTTTTGCGGCATTTTTCAAAAAAAACGCCGCTAAAGGAAGAAATAGGT
ATAAAAGCGCCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTCATGCACAAC
AAAACGGCATCATTTTGTTCAAAATGAAATA
Found at i:4269770 original size:108 final size:107
Alignment explanation
Indices: 4269642--4269841 Score: 312
Period size: 108 Copynumber: 1.9 Consensus size: 107
4269632 TGAGAAATAG
* *
4269642 AAAAACGCCGCAAAAAATAAATCAATTTATTAAAAAAATAAAAT-AAAAAATTTCATGCATAACA
1 AAAAACGCCGCAAAAAATAAATCAATTTA-TAAAAAAACAAAATAAAAAAATTTCA-GAATAACA
*
4269706 AAACGGCATCATTTTGTTCAAAGTGAAATGGCGGCGGTTTTATA
64 AAACGGCATCATTTTGTTCAAAATGAAATGGCGGCGGTTTTATA
* *
4269750 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAACAAAATAAAAAAAATTTTAGAATAGCAA
1 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAACAAAAT-AAAAAAATTTCAGAATAACAA
*
4269815 AACGGCGTCATTTTGTTCAAAATGAAA
65 AACGGCATCATTTTGTTCAAAATGAAA
4269842 AATTATTTGC
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 13 0.15
108 61 0.73
109 10 0.12
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (107 bp):
AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAACAAAATAAAAAAATTTCAGAATAACAAA
ACGGCATCATTTTGTTCAAAATGAAATGGCGGCGGTTTTATA
Found at i:4269935 original size:481 final size:481
Alignment explanation
Indices: 4269023--4269918 Score: 1204
Period size: 481 Copynumber: 1.8 Consensus size: 481
4269013 AAAGGCTGCA
* *
4269023 AAAAATAAACCAATATATAAAAAACAGATAAAAAAATTTTAGAATAGCAAAACGGCGTCATTTTG
1 AAAAATAAACCAATATATAAAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCATTTTG
*
4269088 TTCAAAATGGAAAAAATTTTGCGGCTTTTTTCAAAAAAACGCCGCTAAAGGTAAGCAATAGCGGC
66 TTCAAAATGGAAAAAATTTTGCGGCTTTTTTCAAAAAAACGCCGCTAAAGGTAAGAAATA---G-
*
4269153 GCTTTTATAAAAGCACCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTTTAG
127 G----TATAAAAGCACCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTATAG
* * * *
4269218 CATAGCAAAACGGCGCCATTTTGTTCAAAATGAAATAGCGGCGTTTTTTTACAAAAACGCCGCAA
188 CATAACAAAACGGCACCATTTTGTTCAAAATGAAATAGCGGCGGTTTTATACAAAAACGCCGCAA
*
4269283 AAATAAATCAATTTATAAAAAACAAAAAAAAATTTAGAATAGCAAAACGGCGTCATTTTGTTCCA
253 AAATAAATCAATTTATAAAAAACAAAAAAAAATTTAGAATAGCAAAACGGCGTCATTTTGTTCAA
*
4269348 AATGAAAAAATTTTTGCGGCGTTTTTCAAAAAAAACGCCGCTAAAGGAAGCAATAGCGGCACTTT
318 AATGAAAAAATTTTTGCGGCG---TTCAAAAAAAACGCCGCTAAAGGAAGCAATAGCAGCACTTT
* * * *
4269413 TATAAAAGCGCCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTTTAGCACAG
380 TATAAAAACGCCACAAAAAACAAATCAACTTATAAAAAAATTAAAATAAAAAATTTTTAGCACAG
4269478 CAAAACGGCGTCATTTTGTTCAAAATGAAATAGCCGC
445 CAAAACGGCGTCATTTTGTTCAAAATGAAATAGCCGC
* * *
4269515 AAAAATAAATCAATTTATAAAAAATAAAATAAAAAAATTTTAGAATAGCAAAATGGCGTCATTTT
1 AAAAATAAACCAATATATAAAAAA-AAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCATTTT
* ** *
4269580 GTTCCAAAT-GAAAAAATTTTTGCGGCATTTTTTTGAAAAAA-GCCGCTAAAGGTGAGAAATA-G
65 GTTCAAAATGGAAAAAA-TTTTGCGGC-TTTTTTCAAAAAAACGCCGCTAAAGGTAAGAAATAGG
*
4269642 -A-AAAA-CGCCGCAAAAAATAAATCAATTTATTAAAAAAA-TAAAATAAAAAATTTCAT-GCAT
128 TATAAAAGCACCGCAAAAAATAAATCAATTTA-TAAAAAAATTAAAATAAAAAATTT-ATAGCAT
* * *
4269702 AACAAAACGGCATCATTTTGTTCAAAGTGAAATGGCGGCGGTTTTATA-AAAAACGCCGCAAAAA
191 AACAAAACGGCACCATTTTGTTCAAAATGAAATAGCGGCGGTTTTATACAAAAACGCCGC-AAAA
4269766 ATAAATCAATTTATAAAAAAACAAAATAAAAAAAATTTTAGAATAGCAAAACGGCGTCATTTTGT
255 ATAAATCAATTTAT-AAAAAAC---A-AAAAAAAA-TTTAGAATAGCAAAACGGCGTCATTTTGT
* * * **
4269831 TCAAAATG-AAAAATTATTTGCGGCG-TC-ATAAAAACGCTGCTAAAAGTAAGCAATAGCAGCGT
314 TCAAAATGAAAAAATT-TTTGCGGCGTTCAAAAAAAACGCCGCT-AAAGGAAGCAATAGCAGCAC
4269893 TTTTATAAAAAACGCCACAAAAAACA
377 TTTTAT-AAAAACGCCACAAAAAACA
4269919 TTTCACTTTA
Statistics
Matches: 360, Mismatches: 29, Indels: 38
0.84 0.07 0.09
Matches are distributed among these distances:
480 11 0.03
481 101 0.28
482 32 0.09
483 25 0.07
484 16 0.04
485 1 0.00
486 15 0.04
487 45 0.12
488 1 0.00
492 29 0.08
493 72 0.20
494 12 0.03
ACGTcount: A:0.48, C:0.14, G:0.13, T:0.25
Consensus pattern (481 bp):
AAAAATAAACCAATATATAAAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCATTTTG
TTCAAAATGGAAAAAATTTTGCGGCTTTTTTCAAAAAAACGCCGCTAAAGGTAAGAAATAGGTAT
AAAAGCACCGCAAAAAATAAATCAATTTATAAAAAAATTAAAATAAAAAATTTATAGCATAACAA
AACGGCACCATTTTGTTCAAAATGAAATAGCGGCGGTTTTATACAAAAACGCCGCAAAAATAAAT
CAATTTATAAAAAACAAAAAAAAATTTAGAATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAA
AATTTTTGCGGCGTTCAAAAAAAACGCCGCTAAAGGAAGCAATAGCAGCACTTTTATAAAAACGC
CACAAAAAACAAATCAACTTATAAAAAAATTAAAATAAAAAATTTTTAGCACAGCAAAACGGCGT
CATTTTGTTCAAAATGAAATAGCCGC
Found at i:4269998 original size:21 final size:22
Alignment explanation
Indices: 4269967--4270008 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
4269957 CCCCCCTCCG
4269967 AAATCCCCAACTTTCCACCCTA
1 AAATCCCCAACTTTCCACCCTA
*
4269989 AAAT-CCCAACTTTCCCCCCT
1 AAATCCCCAACTTTCCACCCT
4270009 CCTAAACGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.29, C:0.48, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATCCCCAACTTTCCACCCTA
Found at i:4271650 original size:66 final size:66
Alignment explanation
Indices: 4271544--4271669 Score: 243
Period size: 66 Copynumber: 1.9 Consensus size: 66
4271534 CATTTCAGAG
*
4271544 AGCACACTCCCGCGAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAAGA
1 AGCACACTCCCGCGAACCTCATCCTTACAGCGGGACTACCAGTCCAGGCTAAATCCCCTGCAAGA
4271609 T
66 T
4271610 AGCACACTCCCGCGAACCTCATCCTTACAGCGGGACTACCAGTCCAGGCTAAATCCCCTG
1 AGCACACTCCCGCGAACCTCATCCTTACAGCGGGACTACCAGTCCAGGCTAAATCCCCTG
4271670 TAATATAAAC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.26, C:0.38, G:0.18, T:0.17
Consensus pattern (66 bp):
AGCACACTCCCGCGAACCTCATCCTTACAGCGGGACTACCAGTCCAGGCTAAATCCCCTGCAAGA
T
Found at i:4271884 original size:57 final size:60
Alignment explanation
Indices: 4271791--4271938 Score: 214
Period size: 57 Copynumber: 2.5 Consensus size: 60
4271781 ACCCTAATTC
* * *
4271791 GGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATA
4271849 -GATCACCCGTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGCTATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGGGAGGGCTATATC--GATA
4271910 GGATCACCCGTCCGGGCTAGATCCTTTTT
1 GGATCACCCGTCCGGGCTAGATCCTTTTT
4271939 ACCGTCAATT
Statistics
Matches: 80, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
56 6 0.08
57 45 0.56
60 1 0.01
61 1 0.01
62 21 0.26
63 6 0.08
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (60 bp):
GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATA
Found at i:4276256 original size:24 final size:23
Alignment explanation
Indices: 4276228--4276275 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 23
4276218 AATTTTAAAA
4276228 ATAAAACATAATATAATATTT-ATT
1 ATAAAA-ATAA-ATAATATTTGATT
*
4276252 ATAAAAATAAATATTATTTGATT
1 ATAAAAATAAATAATATTTGATT
4276275 A
1 A
4276276 AAATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 8 0.36
24 6 0.27
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
ATAAAAATAAATAATATTTGATT
Found at i:4276368 original size:43 final size:43
Alignment explanation
Indices: 4276303--4276550 Score: 336
Period size: 43 Copynumber: 5.8 Consensus size: 43
4276293 GTTATGTTTT
* * * ** *
4276303 TAGCGGCGTTTTTGCGAGAAGCGCCGCTAAATATCATGGTCTT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTA
* * *
4276346 TAGCGGCATTTGTGATAAAAGCGCCGATAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTA
*
4276389 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTA
* * *
4276432 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAGGGTCATGGTTTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTA
* *
4276475 TAGCGGCGTTTGTGGGAAAATCGCCGCTAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTA
* *
4276518 TAGCGGCGCTTGTG-GGAAAGCGCCGCTAAAGGT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGT
4276551 ATTTGTTTCT
Statistics
Matches: 183, Mismatches: 22, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
42 17 0.09
43 166 0.91
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTA
Found at i:4277131 original size:6 final size:6
Alignment explanation
Indices: 4277106--4277168 Score: 56
Period size: 6 Copynumber: 10.2 Consensus size: 6
4277096 CATTCTTCTC
* ** *
4277106 CCCTTT CCCCTT CTCC-TT CCCTTT CCCCTAC CCCTTT CCCTTA CCCTTT
1 CCCTTT CCCTTT C-CCTTT CCCTTT -CCCTTT CCCTTT CCCTTT CCCTTT
4277155 CCCTTT CCCGTTT C
1 CCCTTT CCC-TTT C
4277169 GAAGCCTACA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
5 2 0.04
6 34 0.74
7 10 0.22
ACGTcount: A:0.03, C:0.54, G:0.02, T:0.41
Consensus pattern (6 bp):
CCCTTT
Found at i:4277140 original size:13 final size:12
Alignment explanation
Indices: 4277124--4277157 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
4277114 CCTTCTCCTT
4277124 CCCTTTCCCCTA
1 CCCTTTCCCCTA
*
4277136 CCCCTTTCCCTTA
1 -CCCTTTCCCCTA
4277149 CCCTTTCCC
1 CCCTTTCCC
4277158 TTTCCCGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.06, C:0.59, G:0.00, T:0.35
Consensus pattern (12 bp):
CCCTTTCCCCTA
Found at i:4279703 original size:20 final size:20
Alignment explanation
Indices: 4279678--4279717 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4279668 AATATTTTCT
*
4279678 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
4279698 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
4279718 TCATTTTACG
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:4279720 original size:34 final size:35
Alignment explanation
Indices: 4279666--4279732 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
4279656 CAAACACCAG
* *
4279666 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
4279701 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
4279733 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:4279724 original size:14 final size:14
Alignment explanation
Indices: 4279701--4279740 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4279691 ACAGAAAAGT
*
4279701 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
4279715 AAATCATTTTACGG
1 AAAACATTTTACAG
4279729 AAAACATTTTAC
1 AAAACATTTTAC
4279741 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:4280821 original size:25 final size:24
Alignment explanation
Indices: 4280785--4280868 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 24
4280775 ACAGCTTTAT
*
4280785 GAGCTT-CTCGATTTGCAGCTCGTGA
1 GAGCTTAC-CGATTT-CAGCTTGTGA
4280810 GAGCTTACCGATTCTCAGCTTGT-A
1 GAGCTTACCGATT-TCAGCTTGTGA
*
4280834 TGAGCTTACCGATTCACAGCTTGTGA
1 -GAGCTTACCGATT-TCAGCTTGTGA
*
4280860 GAGCATACC
1 GAGCTTACC
4280869 AATTCATAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
24 1 0.02
25 48 0.92
26 3 0.06
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.30
Consensus pattern (24 bp):
GAGCTTACCGATTTCAGCTTGTGA
Found at i:4280854 original size:50 final size:49
Alignment explanation
Indices: 4280776--4280873 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 49
4280766 GGACACACCA
** * *
4280776 CAGCTTTATGAGCTTCTCGATTTGCAGCTCGTGAGAGCTTACCGATTCT
1 CAGCTTTATGAGCTTCTCGATTCACAGCTCGTGAGAGCATACCAATTCT
*
4280825 CAGCTTGTATGAGCTTAC-CGATTCACAGCTTGTGAGAGCATACCAATTC
1 CAGCTT-TATGAGCTT-CTCGATTCACAGCTCGTGAGAGCATACCAATTC
4280874 ATAGCTCATA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 6 0.14
50 35 0.83
51 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (49 bp):
CAGCTTTATGAGCTTCTCGATTCACAGCTCGTGAGAGCATACCAATTCT
Found at i:4280873 original size:25 final size:25
Alignment explanation
Indices: 4280800--4280879 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
4280790 TCTCGATTTG
* *
4280800 CAGCTCGTGAGAGCTTACCGATTCT
1 CAGCTTGTGAGAGCTTACCGATTCA
4280825 CAGCTTGT-ATGAGCTTACCGATTCA
1 CAGCTTGTGA-GAGCTTACCGATTCA
* *
4280850 CAGCTTGTGAGAGCATACCAATTCA
1 CAGCTTGTGAGAGCTTACCGATTCA
*
4280875 TAGCT
1 CAGCT
4280880 CATATAAGCA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 1 0.02
25 46 0.96
26 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (25 bp):
CAGCTTGTGAGAGCTTACCGATTCA
Found at i:4287750 original size:4 final size:4
Alignment explanation
Indices: 4287741--4287781 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
4287731 TACAAAATTC
* *
4287741 TAAA TAAA TAAA TAAA TAAA TAAA TTTAA TAAA TTAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA -TAAA TAAA TAAA TAAA
4287782 AAAACTCATG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 29 0.91
5 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (4 bp):
TAAA
Found at i:4294547 original size:31 final size:30
Alignment explanation
Indices: 4294512--4294606 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 30
4294502 AATTTATCAT
4294512 ATTAATAAAATCATATTTAGATAAATATTAA
1 ATTAATAAAAT-ATATTTAGATAAATATTAA
* * * *
4294543 ATTAAATTAAATAT-CTTATATTAATATTAA
1 ATT-AATAAAATATATTTAGATAAATATTAA
* *
4294573 ATTAATAAAATACTATCTGGATAAATATTAA
1 ATTAATAAAATA-TATTTAGATAAATATTAA
4294604 ATT
1 ATT
4294607 CATTAAAACA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
29 8 0.16
30 17 0.33
31 19 0.37
32 7 0.14
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (30 bp):
ATTAATAAAATATATTTAGATAAATATTAA
Found at i:4298600 original size:34 final size:35
Alignment explanation
Indices: 4298524--4298604 Score: 98
Period size: 34 Copynumber: 2.3 Consensus size: 35
4298514 ATAAAAATTG
4298524 AATTAATTATAAATAAATAAATTTAAAATATTTATC
1 AATTAA-TATAAATAAATAAATTTAAAATATTTATC
*
4298560 ATTTAATAT-AATAAAT-AATTTAAAATGATTATAT-
1 AATTAATATAAATAAATAAATTTAAAAT-ATT-TATC
4298594 AATTAAT-TAAA
1 AATTAATATAAA
4298605 ATATTTATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
33 11 0.28
34 18 0.45
35 6 0.15
36 5 0.12
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (35 bp):
AATTAATATAAATAAATAAATTTAAAATATTTATC
Found at i:4298605 original size:21 final size:20
Alignment explanation
Indices: 4298570--4298615 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
4298560 ATTTAATATA
4298570 ATAAATAATTTAAAATGATTAT
1 ATAAATAATTTAAAAT-ATT-T
*
4298592 ATAATTAA-TTAAAATATTT
1 ATAAATAATTTAAAATATTT
4298611 ATAAA
1 ATAAA
4298616 AATGTCATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 5 0.23
20 3 0.14
21 7 0.32
22 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
ATAAATAATTTAAAATATTT
Found at i:4301868 original size:22 final size:21
Alignment explanation
Indices: 4301833--4301966 Score: 77
Period size: 19 Copynumber: 6.7 Consensus size: 21
4301823 AAATGGTATC
* *
4301833 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
4301854 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
4301877 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
4301896 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
4301915 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
4301934 TATATAT--TATTTCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
4301953 TGCATATCATATCT
1 TACAAATCATATCT
4301967 AAGATTGCAT
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
17 2 0.02
19 60 0.64
21 7 0.07
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:4301876 original size:23 final size:22
Alignment explanation
Indices: 4301833--4301890 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
4301823 AAATGGTATC
* *
4301833 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
4301854 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
4301877 TGCATATCATATCT
1 TACAAATCATATCT
4301891 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:4301893 original size:19 final size:19
Alignment explanation
Indices: 4301869--4301979 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
4301859 AATCATATCT
4301869 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
4301888 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
4301907 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** * *
4301926 TCTAAGATTATATATTATT
1 TCTAAGATTGCATATCATA
4301945 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
4301964 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
4301980 CCTGAAGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:4301916 original size:38 final size:38
Alignment explanation
Indices: 4301869--4301972 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
4301859 AATCATATCT
4301869 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
* *
4301907 TCTAAGATTGCATATCATATCTAAGATTATATATTATT
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
4301945 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
4301973 GCATATCCCT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:4305381 original size:39 final size:39
Alignment explanation
Indices: 4305338--4305414 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
4305328 CTGTTCTCAC
*
4305338 CAGATTCGGCAGCAACAGAACTTGAGCCTCTAAATGAAT
1 CAGATTCGGCAGCAACAGAACCTGAGCCTCTAAATGAAT
4305377 CAGATTCGGCAGCAACAGAACCTGAGCCTCTAAATGAA
1 CAGATTCGGCAGCAACAGAACCTGAGCCTCTAAATGAA
4305415 CACTTGGCCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (39 bp):
CAGATTCGGCAGCAACAGAACCTGAGCCTCTAAATGAAT
Found at i:4307233 original size:21 final size:21
Alignment explanation
Indices: 4307208--4307256 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
4307198 TAGCGGTGGA
*
4307208 GGTGAGAATAGTTACTGTAGC
1 GGTGAGAATAGATACTGTAGC
* *
4307229 GGTGAGATTGGATACTGTAGC
1 GGTGAGAATAGATACTGTAGC
4307250 GGTGAGA
1 GGTGAGA
4307257 TTAAAAACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.39, T:0.27
Consensus pattern (21 bp):
GGTGAGAATAGATACTGTAGC
Found at i:4314411 original size:34 final size:32
Alignment explanation
Indices: 4314337--4314411 Score: 82
Period size: 34 Copynumber: 2.3 Consensus size: 32
4314327 AAAAATTGAA
*
4314337 ATAATT-ATAAATAAATAAATTTAAAATATTT
1 ATAATTAATAAATAAATAAATTTAAAAGATTT
*
4314368 ATCATTTAATATAATAAAT-AATTTAAAACGATTTT
1 AT-AATTAATA-AATAAATAAATTTAAAA-GA-TTT
4314403 ATAATTAAT
1 ATAATTAAT
4314412 TAAAATATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
31 2 0.06
32 3 0.08
33 12 0.33
34 14 0.39
35 5 0.14
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (32 bp):
ATAATTAATAAATAAATAAATTTAAAAGATTT
Found at i:4321830 original size:5 final size:5
Alignment explanation
Indices: 4321820--4321868 Score: 71
Period size: 5 Copynumber: 9.8 Consensus size: 5
4321810 TTATTTTGGT
* * *
4321820 ATCAG ATCAG ATCAA ATCAG ATCAG ATGAG ATGAG ATCAG ATCAG ATCA
1 ATCAG ATCAG ATCAG ATCAG ATCAG ATCAG ATCAG ATCAG ATCAG ATCA
4321869 TTATCTTTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (5 bp):
ATCAG
Found at i:4327420 original size:15 final size:15
Alignment explanation
Indices: 4327397--4327427 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4327387 AAATTAGGAT
4327397 AACAACAAGACATAA
1 AACAACAAGACATAA
*
4327412 AACATCAAGACATAA
1 AACAACAAGACATAA
4327427 A
1 A
4327428 GAAACTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.19, G:0.06, T:0.10
Consensus pattern (15 bp):
AACAACAAGACATAA
Found at i:4329530 original size:28 final size:29
Alignment explanation
Indices: 4329501--4329614 Score: 81
Period size: 29 Copynumber: 3.8 Consensus size: 29
4329491 TATTTAAGTT
4329501 AAATTATAATTAAAAATATTTTTATATTA
1 AAATTATAATTAAAAATATTTTTATATTA
* * *
4329530 AAATTTTATTATTAAAAAAATTATATCATATT-
1 AAA--TTATAATTAAAAATATT-T-TTATATTA
* * * *
4329562 AAATAACAA-TAAAAATCGTTATTATATTA
1 AAATTATAATTAAAAAT-ATTTTTATATTA
*
4329591 AAATTATAA-TAAAATTAATTTTTA
1 AAATTATAATTAAAAAT-ATTTTTA
4329615 AAAAAAAATT
Statistics
Matches: 63, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
28 6 0.10
29 27 0.43
30 5 0.08
31 15 0.24
32 4 0.06
33 6 0.10
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (29 bp):
AAATTATAATTAAAAATATTTTTATATTA
Found at i:4329914 original size:26 final size:26
Alignment explanation
Indices: 4329884--4329937 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
4329874 ATTCTTTTAA
4329884 AAATATGATGTGACATATTTTTATTG
1 AAATATGATGTGACATATTTTTATTG
4329910 AAATATGATGTGACATATTTTTATTG
1 AAATATGATGTGACATATTTTTATTG
4329936 AA
1 AA
4329938 TACATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (26 bp):
AAATATGATGTGACATATTTTTATTG
Found at i:4331835 original size:23 final size:23
Alignment explanation
Indices: 4331809--4331860 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
4331799 TTTTATACTT
4331809 TTTCAAATATATATCATATCAAA
1 TTTCAAATATATATCATATCAAA
4331832 TTTCAAATATATATCATATCAAA
1 TTTCAAATATATATCATATCAAA
*
4331855 TCTCAA
1 TTTCAA
4331861 CTAGTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (23 bp):
TTTCAAATATATATCATATCAAA
Found at i:4333394 original size:27 final size:26
Alignment explanation
Indices: 4333334--4333394 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
4333324 AGAAAAAAGG
* *
4333334 TTATAAAATATATACATGTACATATA
1 TTATAAAATATATACATATACATAGA
* * *
4333360 TAAAAAAATTATATACATATATATAGA
1 TTATAAAA-TATATACATATACATAGA
4333387 TTATAAAA
1 TTATAAAA
4333395 AAGATAATTA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (26 bp):
TTATAAAATATATACATATACATAGA
Found at i:4333394 original size:30 final size:30
Alignment explanation
Indices: 4333358--4333414 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4333348 CATGTACATA
*
4333358 TATAAAAAA-ATTATATACATATATATAGAT
1 TATAAAAAAGATAAT-TACATATATATAGAT
4333388 TATAAAAAAGATAATTACATATATATA
1 TATAAAAAAGATAATTACATATATATA
4333415 TAAACAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (30 bp):
TATAAAAAAGATAATTACATATATATAGAT
Found at i:4333598 original size:17 final size:17
Alignment explanation
Indices: 4333576--4333619 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
4333566 TAGGAAATAA
4333576 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
4333593 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
4333610 -ATATGTATAT
1 AAAATGTATAT
4333620 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:4333755 original size:3 final size:3
Alignment explanation
Indices: 4333747--4333771 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4333737 ATATATAGTT
4333747 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
4333772 CTTAATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4333814 original size:7 final size:7
Alignment explanation
Indices: 4333795--4333824 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
4333785 AAATCAAATT
4333795 TAATAAA
1 TAATAAA
4333802 -AATAAA
1 TAATAAA
4333808 TAATAAA
1 TAATAAA
4333815 TAATAAA
1 TAATAAA
4333822 TAA
1 TAA
4333825 AAAAAGACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAATAAA
Found at i:4334168 original size:14 final size:12
Alignment explanation
Indices: 4334135--4334160 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4334125 GATTGCATAT
4334135 ATCATATCTAAG
1 ATCATATCTAAG
4334147 ATCATATCTAAG
1 ATCATATCTAAG
4334159 AT
1 AT
4334161 TACATATCCT
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:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCATATCTAAG
Found at i:4334757 original size:37 final size:37
Alignment explanation
Indices: 4334705--4334777 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
4334695 TTGCTTTCTC
* * *
4334705 AGTCTGCTCCTCTGCAACTTCAGGGAGATAAGACTAG
1 AGTCTGCTCCACTGCAACTTCAGGAAAATAAGACTAG
4334742 AGTCTGCTCCACTGCAACTTCAGGAAAATAAGACTA
1 AGTCTGCTCCACTGCAACTTCAGGAAAATAAGACTA
4334778 TATACGATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (37 bp):
AGTCTGCTCCACTGCAACTTCAGGAAAATAAGACTAG
Found at i:4335301 original size:35 final size:35
Alignment explanation
Indices: 4335252--4335321 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
4335242 ATCTGCTATT
*
4335252 TTCAACCTACTCCACTATTG-CTCAGGGAGATAGGA
1 TTCAACCTACTCCACTACTGAC-CAGGGAGATAGGA
* *
4335287 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA
1 TTCAACCTACTCCACTACTGACCAGGGAGATAGGA
4335322 CCTACAATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (35 bp):
TTCAACCTACTCCACTACTGACCAGGGAGATAGGA
Found at i:4335341 original size:44 final size:43
Alignment explanation
Indices: 4335287--4335452 Score: 208
Period size: 44 Copynumber: 3.8 Consensus size: 43
4335277 GGAGATAGGA
4335287 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-CTACAATC
* * * *
4335331 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCT-CAATT
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA--CTACAATC
* * *
4335375 TTCAACCTATTCCACTGTTGACCAGGGAGATAGGATTCACCATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACT-ACAATC
* *
4335419 TTTAACCTATTCCACTGCTGACCAGGGGGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
4335453 GTTGGGGTCA
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.01
44 101 0.97
45 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (43 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTACAATC
Found at i:4335436 original size:88 final size:88
Alignment explanation
Indices: 4335287--4335451 Score: 251
Period size: 88 Copynumber: 1.9 Consensus size: 88
4335277 GGAGATAGGA
* *
4335287 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAATCTTCAATCTATTCCACTGCTGC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAATCTTCAACCTATTCCACTGCTGA
4335352 CCAGGGAGATAGAATTCTCAATT
66 CCAGGGAGATAGAATTCTCAATT
* * * *
4335375 TTCAACCTATTCCACTGTTGACCAGGGAGATAGGA-TTCACCATCTTTAACCTATTCCACTGCTG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCT-ACAATCTTCAACCTATTCCACTGCTG
*
4335439 ACCAGGGGGATAG
65 ACCAGGGAGATAG
4335452 GGTTGGGGTC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
87 1 0.01
88 68 0.99
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (88 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACCTACAATCTTCAACCTATTCCACTGCTGA
CCAGGGAGATAGAATTCTCAATT
Found at i:4335514 original size:88 final size:88
Alignment explanation
Indices: 4335463--4336117 Score: 1049
Period size: 88 Copynumber: 7.4 Consensus size: 88
4335453 GTTGGGGTCA
* *
4335463 TCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
4335528 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
4335551 TCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAATATCTGCTATTTTTAACCTACTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
4335616 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
4335639 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGAAAGATCTGCTATTTTTAACCTGCTTCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
4335704 CCAGGGAGGTAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
4335727 TCGATCTGCTTCGCTATCAGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
4335792 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
4335815 TCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTACAATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
4335880 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * * * *
4335903 TCAATCTGTTTCGCTGTCGGTGCAGAAAAGCAAGATCTGCTTTTTTTAACCTGCTCCACTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
* *
4335968 CTAGGGAGGCAAGGCTAGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
4335991 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
* * *
4336056 CCAGAGAAGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
4336079 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
4336118 TTATCTTCAC
Statistics
Matches: 516, Mismatches: 51, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 516 1.00
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:4338309 original size:25 final size:26
Alignment explanation
Indices: 4338258--4338311 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
4338248 AAGAAAATCC
* **
4338258 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
4338284 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
4338309 AAA
1 AAA
4338312 TTGAATGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.59, C:0.06, G:0.13, T:0.22
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:4342214 original size:25 final size:23
Alignment explanation
Indices: 4342187--4342237 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
4342177 GGTACAACAT
* *
4342187 ATATACATGTACATATATAAAAA
1 ATATATATATACATATATAAAAA
* *
4342210 ATATATATATACATATATATAGA
1 ATATATATATACATATATAAAAA
4342233 ATATA
1 ATATA
4342238 AAAAAGATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (23 bp):
ATATATATATACATATATAAAAA
Found at i:4342242 original size:32 final size:30
Alignment explanation
Indices: 4342201--4342286 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 30
4342191 ACATGTACAT
*
4342201 ATATAAAAAATATATATATACATATATATAGA
1 ATATAAAAAAGATA-AT-TACATATATATAGA
4342233 ATATAAAAAAGATAATTACATATATAT---
1 ATATAAAAAAGATAATTACATATATATAGA
*
4342260 ATATAAACAAATAATAATTACATATAT
1 ATATAAA-AAA-GATAATTACATATAT
4342287 TAAAATTAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
27 7 0.14
28 3 0.06
29 14 0.28
30 11 0.22
31 2 0.04
32 13 0.26
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (30 bp):
ATATAAAAAAGATAATTACATATATATAGA
Found at i:4342598 original size:3 final size:3
Alignment explanation
Indices: 4342590--4342631 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
4342580 GTATATATAG
* *
4342590 TAA TAA TAA TAA TAA TGA TAA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4342632 CTTAATAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:4349151 original size:19 final size:19
Alignment explanation
Indices: 4349124--4349161 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4349114 AAATATATAT
*
4349124 TTTTTATTTTTAATTTTAA
1 TTTTAATTTTTAATTTTAA
4349143 TTTTAATTTTTAATTTTAA
1 TTTTAATTTTTAATTTTAA
4349162 AATACTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTAATTTTTAATTTTAA
Found at i:4349153 original size:7 final size:7
Alignment explanation
Indices: 4349122--4349159 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
4349112 ATAAATATAT
*
4349122 ATTTTTT
1 ATTTTTA
4349129 ATTTTTA
1 ATTTTTA
4349136 A-TTTTA
1 ATTTTTA
4349142 A-TTTTA
1 ATTTTTA
4349148 ATTTTTA
1 ATTTTTA
4349155 ATTTT
1 ATTTT
4349160 AAAATACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 12 0.41
7 17 0.59
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
ATTTTTA
Found at i:4349160 original size:13 final size:13
Alignment explanation
Indices: 4349124--4349161 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
4349114 AAATATATAT
*
4349124 TTTTTATTTTTAA
1 TTTTTAATTTTAA
4349137 -TTTTAATTTTAA
1 TTTTTAATTTTAA
4349149 TTTTTAATTTTAA
1 TTTTTAATTTTAA
4349162 AATACTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTAATTTTAA
Found at i:4349161 original size:6 final size:6
Alignment explanation
Indices: 4349125--4349161 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
4349115 AATATATATT
*
4349125 TTTTAT TTTTAA TTTTAA TTTTAA TTTTTAA TTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA -TTTTAA TTTTAA
4349162 AATACTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:4349219 original size:26 final size:27
Alignment explanation
Indices: 4349167--4349229 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
4349157 TTTAAAATAC
* *
4349167 TTTTAAAATAAATTTTTCTATTTTTTAT
1 TTTTAAAAT-AATTTTTCTAATGTTTAT
*
4349195 TTTTAAAAT-ATTTTTTTAATGTTTAT
1 TTTTAAAATAATTTTTCTAATGTTTAT
*
4349221 TTTAAAAAT
1 TTTTAAAAT
4349230 GGGCTGGGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.71
28 9 0.29
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTAAAATAATTTTTCTAATGTTTAT
Found at i:4350257 original size:9 final size:9
Alignment explanation
Indices: 4350243--4350271 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
4350233 TGAACAATTC
4350243 AATAATATA
1 AATAATATA
4350252 AATAATATA
1 AATAATATA
4350261 AATAATATA
1 AATAATATA
4350270 AA
1 AA
4350272 ATGTGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:4350812 original size:9 final size:9
Alignment explanation
Indices: 4350798--4350835 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
4350788 TTATAGTTTG
4350798 TTATTCGAA
1 TTATTCGAA
4350807 TTATTCGAA
1 TTATTCGAA
*
4350816 TTATTCGAG
1 TTATTCGAA
4350825 TTATTCGAA
1 TTATTCGAA
4350834 TT
1 TT
4350836 TGAAAACTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATTCGAA
Found at i:4356046 original size:35 final size:34
Alignment explanation
Indices: 4355997--4356076 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 34
4355987 TGTTTAATAA
* *
4355997 TATATAATTAATGATATTTAAA-TATAATTTATAT
1 TATATAATTAATGATAATTAAATTATAA-TGATAT
*
4356031 TATATGAATTTATGATAATTAAATTATAATGATAT
1 TATAT-AATTAATGATAATTAAATTATAATGATAT
*
4356066 TATATTATTAA
1 TATATAATTAA
4356077 ATGAATTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
34 9 0.23
35 25 0.64
36 5 0.13
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (34 bp):
TATATAATTAATGATAATTAAATTATAATGATAT
Found at i:4356062 original size:25 final size:23
Alignment explanation
Indices: 4356018--4356078 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
4356008 TGATATTTAA
*
4356018 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
4356042 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
4356067 ATATTATTAAAT
1 ATATAATTAAAT
4356079 GAATTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:4356447 original size:35 final size:35
Alignment explanation
Indices: 4356403--4356471 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
4356393 TTTGTTTAAT
* *
4356403 AATTAATGATATTTAAA-TATAATTTATATTATATG
1 AATTAATGATAATTAAATTATAA-TGATATTATATG
*
4356438 AATTTATGATAATTAAATTATAATGATATTATAT
1 AATTAATGATAATTAAATTATAATGATATTATAT
4356472 TATTAAATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 25 0.83
36 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (35 bp):
AATTAATGATAATTAAATTATAATGATATTATATG
Done.