Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 37 of 47
Found at i:6029475 original size:25 final size:25
Alignment explanation
Indices: 6029423--6029478 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
6029413 TTATATTTAA
*
6029423 ATATATATATATATATGTGTAATAT
1 ATATATATATATATATGTGAAATAT
6029448 ATATATATATATATAT-TAGAAA-AT
1 ATATATATATATATATGT-GAAATAT
6029472 -TATATAT
1 ATATATAT
6029479 TTACTTGCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 7 0.24
24 3 0.10
25 19 0.66
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.46
Consensus pattern (25 bp):
ATATATATATATATATGTGAAATAT
Found at i:6029478 original size:2 final size:2
Alignment explanation
Indices: 6029423--6029463 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
6029413 TTATATTTAA
* *
6029423 AT AT AT AT AT AT AT AT GT GT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6029464 TAGAAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6032509 original size:74 final size:74
Alignment explanation
Indices: 6032410--6032553 Score: 270
Period size: 74 Copynumber: 1.9 Consensus size: 74
6032400 ATAAAAGTTA
*
6032410 AGTTTTTTTGTTGAAAAGTTTATAGTTTTATCTAAGCAAAATGTTTTTACTTTTTTAAAGTTGTG
1 AGTTTTTTTGTTGAAAAGTTTATAGTTTTATCTAAGCAAAATATTTTTACTTTTTTAAAGTTGTG
6032475 AATGTGTTG
66 AATGTGTTG
*
6032484 AGTTTTTTTGTTGAAAAGTTTATAGTTTTATCTAAGTAAAATATTTTTACTTTTTTAAAGTTGTG
1 AGTTTTTTTGTTGAAAAGTTTATAGTTTTATCTAAGCAAAATATTTTTACTTTTTTAAAGTTGTG
6032549 AATGT
66 AATGT
6032554 AAGCTAAAGA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.52
Consensus pattern (74 bp):
AGTTTTTTTGTTGAAAAGTTTATAGTTTTATCTAAGCAAAATATTTTTACTTTTTTAAAGTTGTG
AATGTGTTG
Found at i:6035246 original size:21 final size:21
Alignment explanation
Indices: 6035199--6035248 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
6035189 ATTTAAAATA
* * *
6035199 ATTTAATTTAATTATAATTATT
1 ATTT-ATTTAATAAAAATAATT
6035221 ATTTATTTAATAAAAATAATT
1 ATTTATTTAATAAAAATAATT
*
6035242 TTTTATT
1 ATTTATT
6035249 AAAATTTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTATTTAATAAAAATAATT
Found at i:6035274 original size:12 final size:12
Alignment explanation
Indices: 6035250--6035291 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
6035240 TTTTTTATTA
6035250 AAAT-TTAATTAT
1 AAATATTAA-TAT
6035262 AAATATTAATAT
1 AAATATTAATAT
6035274 AAATATTAA-AT
1 AAATATTAATAT
*
6035285 TAATATT
1 AAATATT
6035292 TTAATATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 8 0.29
12 16 0.57
13 4 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AAATATTAATAT
Found at i:6035294 original size:48 final size:48
Alignment explanation
Indices: 6035203--6035294 Score: 107
Period size: 48 Copynumber: 1.9 Consensus size: 48
6035193 AAAATAATTT
* * * *
6035203 AATTTAATTATAATTATTATTTATTTAATAAAAATAATTTTTTATTAA
1 AATTTAATTATAAATATTATATATTAAATAAAAATAATATTTTATTAA
*
6035251 AATTTAATTATAAATATTA-ATA-TAAATATTAAATTAATATTTTA
1 AATTTAATTATAAATATTATATATTAAATA--AAAATAATATTTTA
6035295 ATATTTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
46 5 0.14
47 2 0.05
48 30 0.81
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (48 bp):
AATTTAATTATAAATATTATATATTAAATAAAAATAATATTTTATTAA
Found at i:6035355 original size:23 final size:25
Alignment explanation
Indices: 6035329--6035378 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
6035319 TTTACGAGTA
6035329 AAATCAAAATAAATTTAA-TA-TAT
1 AAATCAAAATAAATTTAAGTATTAT
* *
6035352 AAATTAAAATAATTTTAAGTATTAT
1 AAATCAAAATAAATTTAAGTATTAT
6035377 AA
1 AA
6035379 TTCAGTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 16 0.70
24 2 0.09
25 5 0.22
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
AAATCAAAATAAATTTAAGTATTAT
Found at i:6037817 original size:29 final size:29
Alignment explanation
Indices: 6037775--6037855 Score: 162
Period size: 29 Copynumber: 2.8 Consensus size: 29
6037765 ATCTTATTCC
6037775 TACCTACAATAATGTTTACCAAGATTTGA
1 TACCTACAATAATGTTTACCAAGATTTGA
6037804 TACCTACAATAATGTTTACCAAGATTTGA
1 TACCTACAATAATGTTTACCAAGATTTGA
6037833 TACCTACAATAATGTTTACCAAG
1 TACCTACAATAATGTTTACCAAG
6037856 TTGATGGTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (29 bp):
TACCTACAATAATGTTTACCAAGATTTGA
Found at i:6043488 original size:14 final size:13
Alignment explanation
Indices: 6043469--6043498 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
6043459 AGTGCATATC
6043469 TTTTTCTTTTTCTT
1 TTTTTCTTTTT-TT
6043483 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
6043496 TTT
1 TTT
6043499 GTGAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:6046152 original size:6 final size:6
Alignment explanation
Indices: 6046143--6046179 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
6046133 TTGTTAGTGG
6046143 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA G
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA G
6046180 TGACCTCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:6046441 original size:3 final size:3
Alignment explanation
Indices: 6046435--6046468 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
6046425 CAACAACAAC
6046435 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6046469 TGGAAGGATT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6049394 original size:7 final size:7
Alignment explanation
Indices: 6049382--6049411 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
6049372 TTTCTTCTCC
6049382 TTTGCGA
1 TTTGCGA
6049389 TTTGCGA
1 TTTGCGA
6049396 TTTGCGA
1 TTTGCGA
*
6049403 TTTCCGA
1 TTTGCGA
6049410 TT
1 TT
6049412 CCAATGCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.13, C:0.17, G:0.23, T:0.47
Consensus pattern (7 bp):
TTTGCGA
Found at i:6049463 original size:4 final size:4
Alignment explanation
Indices: 6049454--6049480 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6049444 AGTCGCACTT
6049454 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
6049481 CCATTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:6049834 original size:21 final size:21
Alignment explanation
Indices: 6049808--6049852 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6049798 TCACTTAGTC
6049808 AATTTTATAATTACATATATT
1 AATTTTATAATTACATATATT
* **
6049829 AATTTTATATTTTTATATATT
1 AATTTTATAATTACATATATT
6049850 AAT
1 AAT
6049853 ATAATTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
AATTTTATAATTACATATATT
Found at i:6050376 original size:23 final size:23
Alignment explanation
Indices: 6050342--6050420 Score: 94
Period size: 23 Copynumber: 3.5 Consensus size: 23
6050332 CATTTTCACT
6050342 TATTT-AATATATATTATTTTTA
1 TATTTAAATATATATTATTTTTA
6050364 TATTTAAATATAT-TATATTTTTA
1 TATTTAAATATATAT-TATTTTTA
6050387 -ATTATATAATATATATTA-TTTTA
1 TATT-TA-AATATATATTATTTTTA
*
6050410 AATTTAAATAT
1 TATTTAAATAT
6050421 GTTATGTAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
22 14 0.27
23 24 0.47
24 12 0.24
25 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTTAAATATATATTATTTTTA
Found at i:6050402 original size:47 final size:48
Alignment explanation
Indices: 6050341--6050443 Score: 138
Period size: 46 Copynumber: 2.2 Consensus size: 48
6050331 TCATTTTCAC
* * *
6050341 TTATTTAATATATATTATTTTTATATTTAAATATATTATAT-TTTTA-A
1 TTATATAATATATATTA-TTTTAAATTTAAATATATTATATAATTTAGA
* *
6050388 TTATATAATATATATTATTTTAAATTTAAATATGTTATGTAATTTAGA
1 TTATATAATATATATTATTTTAAATTTAAATATATTATATAATTTAGA
6050436 TTATATAA
1 TTATATAA
6050444 ACAATAAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
46 20 0.41
47 20 0.41
48 9 0.18
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (48 bp):
TTATATAATATATATTATTTTAAATTTAAATATATTATATAATTTAGA
Found at i:6058667 original size:5 final size:6
Alignment explanation
Indices: 6058640--6058669 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
6058630 TGAATGGAGG
6058640 TGAATT TGAATT TGAATT TGAA-T TGAATT T
1 TGAATT TGAATT TGAATT TGAATT TGAATT T
6058670 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TGAATT
Found at i:6058860 original size:69 final size:70
Alignment explanation
Indices: 6058731--6058870 Score: 219
Period size: 70 Copynumber: 2.0 Consensus size: 70
6058721 TAAAAATGAG
* * *
6058731 AAAAAAGTTGTTACTTTTGGAATTACATAAAAAATACTAAGTAAATATTTATATATTGTTATGGT
1 AAAAAAGTTGTCACTTTTGAAATTACATAAAAAATACTAAGTAAATATTTATATATTGTTATGAT
6058796 CATTA
66 CATTA
* * *
6058801 AAAAAAGTTGTCACTTTTGAAATTACATAATAAATATTAA-TCAATATTTATATATTGTTATGAT
1 AAAAAAGTTGTCACTTTTGAAATTACATAAAAAATACTAAGTAAATATTTATATATTGTTATGAT
6058865 CATTA
66 CATTA
6058870 A
1 A
6058871 TAGTTTTATA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
69 28 0.44
70 36 0.56
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (70 bp):
AAAAAAGTTGTCACTTTTGAAATTACATAAAAAATACTAAGTAAATATTTATATATTGTTATGAT
CATTA
Found at i:6059606 original size:129 final size:130
Alignment explanation
Indices: 6059473--6059732 Score: 450
Period size: 130 Copynumber: 2.0 Consensus size: 130
6059463 TGTTTAAATA
6059473 AATTTTTTATCACTAAACTCTTTGAAATAA-TTTGTTAATATATTTCAAATAAAAAACATAATAT
1 AATTTTTTATCACTAAACTCTTTGAAATAATTTTGTTAATATATTTCAAATAAAAAACATAATAT
* *
6059537 ATTTATTTCAAAATTAATATATTTGATTAAAGATAAATTTAAAATATTTAGTACGCACTTGCATT
66 ATTTATTTCAAAATTAATATATTTGATTAAAGATAAATTTAAAATATTTAGCACACACTTGCATT
* *
6059602 AATTTTTTATCACTAAACTCTTTGAAATAATTTTGTTAATATATTTCAAATAAGAAATATAATAT
1 AATTTTTTATCACTAAACTCTTTGAAATAATTTTGTTAATATATTTCAAATAAAAAACATAATAT
* * *
6059667 ATTTATTTCAAAATTAATATATTTGATTATAGATAAATTTAAAATTTTTAGCATACACTTGCATT
66 ATTTATTTCAAAATTAATATATTTGATTAAAGATAAATTTAAAATATTTAGCACACACTTGCATT
6059732 A
1 A
6059733 GAATTCATTT
Statistics
Matches: 123, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
129 30 0.24
130 93 0.76
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (130 bp):
AATTTTTTATCACTAAACTCTTTGAAATAATTTTGTTAATATATTTCAAATAAAAAACATAATAT
ATTTATTTCAAAATTAATATATTTGATTAAAGATAAATTTAAAATATTTAGCACACACTTGCATT
Found at i:6059892 original size:147 final size:148
Alignment explanation
Indices: 6059626--6059893 Score: 353
Period size: 147 Copynumber: 1.8 Consensus size: 148
6059616 AAACTCTTTG
* * * *
6059626 AAATAATTTTGTTAATATATTTCAAATAAGAAATATAATATATTTATTTCAAAATTAATATATTT
1 AAATAATTTTATTAATATATTTCAAATAAAAAATATAATACATTTATCTCAAAATTAATATATTT
* * * * ** *
6059691 GATTATAGATAAATTTAAAATTTTTAGCATACACTTGCATTAGAATTCATTTTAATCAATTTCTT
66 GATTAAAGATAAAATTAAAATATTTAGCACACACTTAAATTAGAATTCAGTTTAATCAATTTCTT
6059756 TTAACAGTAAATTTTTTT
131 TTAACAGTAAATTTTTTT
* * *
6059774 AAATAATTTTATTAATTTATTT-AAATAAAAAATTTAATACATTTATCTCAAAGTTAATATA-TT
1 AAATAATTTTATTAATATATTTCAAATAAAAAATATAATACATTTATCTCAAAATTAATATATTT
**
6059837 GTATTAAAGATAAAATTAAAATATTTAGCACGTACTTAAATTAGAATAT-AGTTTAAT
66 G-ATTAAAGATAAAATTAAAATATTTAGCACACACTTAAATTAGAAT-TCAGTTTAAT
6059894 TAGAATTTAA
Statistics
Matches: 102, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
146 3 0.03
147 78 0.76
148 21 0.21
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (148 bp):
AAATAATTTTATTAATATATTTCAAATAAAAAATATAATACATTTATCTCAAAATTAATATATTT
GATTAAAGATAAAATTAAAATATTTAGCACACACTTAAATTAGAATTCAGTTTAATCAATTTCTT
TTAACAGTAAATTTTTTT
Found at i:6060819 original size:17 final size:15
Alignment explanation
Indices: 6060797--6060836 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 15
6060787 ATTATATAAA
6060797 TTATATTATTTTAATAT
1 TTATATTATTTT-A-AT
6060814 TTATATTA-TTTAAT
1 TTATATTATTTTAAT
6060828 TTATATTAT
1 TTATATTAT
6060837 ATAAAGAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.45
15 1 0.05
16 3 0.14
17 8 0.36
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTATTTTAAT
Found at i:6060820 original size:14 final size:14
Alignment explanation
Indices: 6060783--6060841 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 14
6060773 AAATCATATT
6060783 TTTA-ATTATATAAA
1 TTTATATTAT-TAAA
6060797 -TTATATTATTTTAATA
1 TTTATATTA--TTAA-A
*
6060813 TTTATATTATTTAA
1 TTTATATTATTAAA
6060827 TTTATATTATATAAA
1 TTTATATTAT-TAAA
6060842 GAGTAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
13 3 0.08
14 15 0.41
15 9 0.24
16 2 0.05
17 8 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTATATTATTAAA
Found at i:6060829 original size:22 final size:23
Alignment explanation
Indices: 6060782--6060841 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
6060772 TAAATCATAT
6060782 TTTTAATTATATAAATTATATTA
1 TTTTAATTATATAAATTATATTA
* *
6060805 TTTTAA-TATTTATATTAT-TTA
1 TTTTAATTATATAAATTATATTA
*
6060826 ATTTATATTATATAAA
1 TTTTA-ATTATATAAA
6060842 GAGTAAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 7 0.23
22 11 0.37
23 12 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTAATTATATAAATTATATTA
Found at i:6065116 original size:20 final size:21
Alignment explanation
Indices: 6065085--6065127 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6065075 TATTCGATTT
6065085 TTTTAAATAAT-ATTTTAAATA
1 TTTTAAATAATAATTTT-AATA
6065106 TTTTAAA-AATAATTTTAATA
1 TTTTAAATAATAATTTTAATA
6065126 TT
1 TT
6065128 AAATAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTAAATAATAATTTTAATA
Found at i:6065135 original size:20 final size:22
Alignment explanation
Indices: 6065086--6065151 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 22
6065076 ATTCGATTTT
6065086 TTTAAAT-AAT-ATTTTAAATA
1 TTTAAATAAATAATTTTAAATA
*
6065106 TTTTAA-AAATAATTTT-AATA
1 TTTAAATAAATAATTTTAAATA
6065126 -TTAAATAAAT-A--TTAAATA
1 TTTAAATAAATAATTTTAAATA
6065144 TATTAAAT
1 T-TTAAAT
6065152 TATTAATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
17 2 0.05
18 4 0.11
19 5 0.13
20 22 0.58
21 5 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTAAATAAATAATTTTAAATA
Found at i:6065150 original size:16 final size:18
Alignment explanation
Indices: 6065131--6065164 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6065121 TAATATTAAA
6065131 TAAA-TATTAA-ATATAT
1 TAAATTATTAATATATAT
6065147 TAAATTATTAATATATAT
1 TAAATTATTAATATATAT
6065165 ATATATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 6 0.38
18 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTATTAATATATAT
Found at i:6065171 original size:16 final size:16
Alignment explanation
Indices: 6065120--6065171 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
6065110 AAAAATAATT
*
6065120 TTAATATTAAATAAATA
1 TTAATA-TATATAAATA
6065137 TTAA-ATATATTAAATTA
1 TTAATATATA-TAAA-TA
*
6065154 TTAATATATATATATA
1 TTAATATATATAAATA
6065170 TT
1 TT
6065172 TGATTCCGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 3 0.10
16 9 0.30
17 13 0.43
18 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATATATATAAATA
Found at i:6065394 original size:20 final size:19
Alignment explanation
Indices: 6065347--6065394 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
6065337 TTTTACTAAT
* *
6065347 TTTTTATTAATTAAATTGA
1 TTTTAATTAATTAAATTAA
*
6065366 TTTTAAATTAATTCAATTAAA
1 TTTT-AATTAATTAAATT-AA
6065387 TTTTAATT
1 TTTTAATT
6065395 TTTTATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.17
20 15 0.62
21 5 0.21
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTTAATTAATTAAATTAA
Found at i:6065653 original size:26 final size:25
Alignment explanation
Indices: 6065627--6065674 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
6065617 TAAACAACTT
6065627 TTTAAAA-ATTAAATTTATTTTTGC
1 TTTAAAATATTAAATTTATTTTTGC
*
6065651 TTTAAAATTTTTAAATTTATTTTT
1 TTTAAAA-TATTAAATTTATTTTT
6065675 AATTCTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
26 14 0.67
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTAAAATATTAAATTTATTTTTGC
Found at i:6065693 original size:21 final size:19
Alignment explanation
Indices: 6065656--6065694 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
6065646 TTTGCTTTAA
6065656 AATTTTTAAATTTATTTTT
1 AATTTTTAAATTTATTTTT
*
6065675 AATTCTTTGAATTTGATTTT
1 AATT-TTTAAATTT-ATTTT
6065695 ATAAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (19 bp):
AATTTTTAAATTTATTTTT
Found at i:6065763 original size:31 final size:29
Alignment explanation
Indices: 6065720--6065829 Score: 89
Period size: 29 Copynumber: 3.7 Consensus size: 29
6065710 AATTTTTATT
*
6065720 TAAAAAAATTTAAATTATTTATTTAGTATAA
1 TAAATAAATTTAAATT-TTTA-TTAGTATAA
* *
6065751 TAAATAAATTTAAATTCTTATTATTATAA
1 TAAATAAATTTAAATTTTTATTAGTATAA
* * * * *
6065780 TTAATTAATTAAAATATTTAAATAG-AT-A
1 TAAATAAATTTAAAT-TTTTATTAGTATAA
6065808 TAAATATAATATTAAATTTTTA
1 TAAATA-AAT-TTAAATTTTTA
6065830 ATTATTAAAT
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
28 5 0.08
29 29 0.47
30 13 0.21
31 15 0.24
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (29 bp):
TAAATAAATTTAAATTTTTATTAGTATAA
Found at i:6065797 original size:22 final size:22
Alignment explanation
Indices: 6065772--6065844 Score: 53
Period size: 23 Copynumber: 3.3 Consensus size: 22
6065762 AAATTCTTAT
6065772 TATTATAATTAATTAATTAAAA
1 TATTATAATTAATTAATTAAAA
* * *
6065794 TATT-TAAATAGATATAAATATAA
1 TATTATAATTA-AT-TAATTAAAA
*
6065817 TATTA-AATT-TTTAATTATTAAA
1 TATTATAATTAATTAATTA--AAA
6065839 TATTAT
1 TATTAT
6065845 TAAATATGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 11
0.68 0.12 0.20
Matches are distributed among these distances:
20 5 0.13
21 6 0.16
22 13 0.34
23 14 0.37
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (22 bp):
TATTATAATTAATTAATTAAAA
Found at i:6065984 original size:22 final size:21
Alignment explanation
Indices: 6065959--6066003 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6065949 ATATTTTATC
*
6065959 ATAAAATTTTAATCTCATAATT
1 ATAAAA-TTTAATCCCATAATT
* *
6065981 ATAATATTTAATCCCATTATT
1 ATAAAATTTAATCCCATAATT
6066002 AT
1 AT
6066004 CGTTATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAAATTTAATCCCATAATT
Found at i:6070949 original size:21 final size:21
Alignment explanation
Indices: 6070935--6070977 Score: 65
Period size: 18 Copynumber: 2.2 Consensus size: 21
6070925 AAATTACAAT
6070935 TTTCATCCAACAAATATATCA
1 TTTCATCCAACAAATATATCA
6070956 TTTCAT-C--CAAATATATCA
1 TTTCATCCAACAAATATATCA
6070974 TTTC
1 TTTC
6070978 GTAAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 15 0.68
20 1 0.05
21 6 0.27
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTCATCCAACAAATATATCA
Found at i:6072462 original size:28 final size:30
Alignment explanation
Indices: 6072418--6072480 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
6072408 ATAAAATAAA
**
6072418 TAATT-TATGTAAGAATTA-AAAAATTATT
1 TAATTATATGTAAGAATTATAAAAAAAATT
*
6072446 TAATTATAT-TAATAATTATAAAAAAAATT
1 TAATTATATGTAAGAATTATAAAAAAAATT
6072475 TAATTA
1 TAATTA
6072481 ATTTAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 13 0.43
29 17 0.57
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (30 bp):
TAATTATATGTAAGAATTATAAAAAAAATT
Found at i:6072969 original size:3 final size:3
Alignment explanation
Indices: 6072963--6072997 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6072953 ATCGTATTTA
6072963 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
6072998 TATCATGGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:6082324 original size:25 final size:25
Alignment explanation
Indices: 6082291--6082340 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
6082281 AAAATTATTT
6082291 TTTTAACTA-ATTGTATTTATTTTTA
1 TTTTAACTACATT-TATTTATTTTTA
*
6082316 TTTTGACTACATTTATTTATTTTTA
1 TTTTAACTACATTTATTTATTTTTA
6082341 AATCAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (25 bp):
TTTTAACTACATTTATTTATTTTTA
Found at i:6085446 original size:10 final size:10
Alignment explanation
Indices: 6085431--6085464 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
6085421 TTTTTTTAAT
6085431 TATAAAAATA
1 TATAAAAATA
6085441 TATAAAAATAAA
1 TATAAAAAT--A
6085453 TATAAAAATA
1 TATAAAAATA
6085463 TA
1 TA
6085465 ATGAGCAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 12 0.55
12 10 0.45
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
TATAAAAATA
Found at i:6086273 original size:21 final size:21
Alignment explanation
Indices: 6086249--6086289 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6086239 TTAAAATTAT
* *
6086249 TTAAAAATATTTTAAATAATA
1 TTAAAAATAATATAAATAATA
*
6086270 TTAATAATAATATAAATAAT
1 TTAAAAATAATATAAATAAT
6086290 TATATTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAAAATAATATAAATAATA
Found at i:6086793 original size:19 final size:20
Alignment explanation
Indices: 6086750--6086802 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
6086740 ATTTCAACGA
6086750 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATAAAGT
* *
6086770 GTTGTATCAATACAT-AAGT
1 TTTGTATCGATACATAAAGT
6086789 TTTGTATCGATACA
1 TTTGTATCGATACA
6086803 ATTTAAGCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (20 bp):
TTTGTATCGATACATAAAGT
Found at i:6086863 original size:13 final size:13
Alignment explanation
Indices: 6086845--6086869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6086835 ATTACTCAAA
6086845 TGTATCGATACAT
1 TGTATCGATACAT
6086858 TGTATCGATACA
1 TGTATCGATACA
6086870 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6086934 original size:52 final size:52
Alignment explanation
Indices: 6086878--6087006 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
6086868 CACTGATCTT
*
6086878 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
6086930 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
6086982 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
6087007 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:6091485 original size:20 final size:20
Alignment explanation
Indices: 6091462--6091534 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
6091452 ACAATTCAAA
6091462 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
6091482 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
6091503 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
6091523 GTATCGATACAT
1 GTATCGATACAT
6091535 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:6091506 original size:21 final size:21
Alignment explanation
Indices: 6091480--6091555 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
6091470 ACATGTTGCA
6091480 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
6091501 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
6091521 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
6091542 TTGTATCGATACAT
1 ATGTATCGATACAT
6091556 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:6091513 original size:41 final size:41
Alignment explanation
Indices: 6091462--6091555 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
6091452 ACAATTCAAA
*
6091462 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
6091503 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
6091544 GTATCGATACAT
1 GTATCGATACAT
6091556 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:6091612 original size:13 final size:13
Alignment explanation
Indices: 6091594--6091619 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6091584 TACAGCAAGT
6091594 ATGTATCGATACA
1 ATGTATCGATACA
6091607 ATGTATCGATACA
1 ATGTATCGATACA
6091620 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:6096747 original size:20 final size:20
Alignment explanation
Indices: 6096724--6096796 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
6096714 ACAATTCAAA
6096724 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
6096744 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
6096765 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
6096785 GTATCGATACAT
1 GTATCGATACAT
6096797 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:6096768 original size:21 final size:21
Alignment explanation
Indices: 6096742--6096817 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
6096732 ACATGTTGCA
6096742 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
6096763 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
6096783 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
6096804 TTGTATCGATACAT
1 ATGTATCGATACAT
6096818 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:6096775 original size:41 final size:41
Alignment explanation
Indices: 6096724--6096817 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
6096714 ACAATTCAAA
*
6096724 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
6096765 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
6096806 GTATCGATACAT
1 GTATCGATACAT
6096818 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:6096874 original size:13 final size:13
Alignment explanation
Indices: 6096856--6096881 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6096846 TACAGCAAGT
6096856 ATGTATCGATACA
1 ATGTATCGATACA
6096869 ATGTATCGATACA
1 ATGTATCGATACA
6096882 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:6101042 original size:20 final size:20
Alignment explanation
Indices: 6100995--6101069 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
6100985 AAAAAGACAT
*
6100995 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
6101014 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
6101035 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
6101055 AATGTATCGATACAT
1 AATGTATCGATACAT
6101070 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:6101063 original size:40 final size:39
Alignment explanation
Indices: 6100992--6101069 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
6100982 GGTAAAAAGA
* *
6100992 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
6101031 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
6101070 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:6101777 original size:28 final size:28
Alignment explanation
Indices: 6101677--6102459 Score: 827
Period size: 28 Copynumber: 27.3 Consensus size: 28
6101667 CACTGACACA
* **
6101677 TGTGGGCTTTGAAAAGAGTGTTACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
6101706 TGCGTGGGCTTTAAAAGGGTGCCACTAACT
1 T--GTGGGCTTTGAAAGGATGCCACTGACT
6101736 TGCGTGGGCTTTGAAAGGATGCCACTGACT
1 T--GTGGGCTTTGAAAGGATGCCACTGACT
*
6101766 CGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
6101794 TGTGGGCTTTGAAAGG-TGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
6101821 CGTGGGCTTTGAAAAGG-TACCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * *
6101849 CGTGGGC-TTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
6101876 TGTGGGCTTT-AAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
6101904 CGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
6101932 TGCGTGGGCTTTGAAAGGAGTGCCACTGACTT
1 T--GTGGGCTTTGAAAGGA-TGCCACTGAC-T
* *
6101964 GTGTGGGCTTTGAAAGGGTGCCACTAACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
*
6101993 CGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
6102021 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
** *
6102049 CATGGGCTTTGAAAAGG-TACCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * *
6102077 TGCGTGAGCTTTAAAAGGAGTGTCACTGACTT
1 T--GTGGGCTTTGAAAGGA-TGCCACTGAC-T
*
6102109 GTGTGGGCTTT-AAAGGGGTGCCACTGACT
1 -TGTGGGCTTTGAAA-GGATGCCACTGACT
*
6102138 TGTGGGCTTTGAAA-GAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
6102166 TGTGGGCTTCGCAATGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
6102194 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
6102222 TGTGGGCTCTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
6102250 TGTGGGCTTTGAAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
6102278 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
6102307 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
6102336 TGTGGGCTTTGAAAGGAGTGCCACTGACTT
1 TGTGGGCTTTGAAAGGA-TGCCACTGAC-T
* *
6102366 GTGTGGGCTTTAAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
*
6102395 TGTGGGCTTTGAAA-GAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
6102423 TGTGGGCTTCGCAATGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
6102451 TGTGGGCTT
1 TGTGGGCTT
6102460 GCGTGGGCTT
Statistics
Matches: 652, Mismatches: 65, Indels: 75
0.82 0.08 0.09
Matches are distributed among these distances:
26 5 0.01
27 53 0.08
28 339 0.52
29 89 0.14
30 91 0.14
31 71 0.11
32 2 0.00
33 2 0.00
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:6102044 original size:145 final size:141
Alignment explanation
Indices: 6101677--6103116 Score: 1120
Period size: 145 Copynumber: 10.0 Consensus size: 141
6101667 CACTGACACA
* ** * * *
6101677 TGTGGGCTTTGAAAAGAGTGTTACTGACTTGCGTGGGCTTTAAAAGGGTGCCACTAACTTGCGTG
1 TGTGGGCTTTG-AAAGGGTGCCACTGAC-T-CGTGGGCTTTGAAAGGATGCCACTGACTT--GTG
*
6101742 GGCTTTGAAAG-GATGCCACTGACTCGTGGGCTTTG-AAAGAGTGCCACTGACTT-GTGGGCTTT
61 GGCTTTGAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGGTGGGCTTT
6101804 GAAA-GGTGCCACTGACT
124 GAAAGGGTGCCACTGACT
* * * * *
6101821 CGTGGGCTTTGAAAAGGTACCACTGACTCGTGGGC-TTAAAAGGGTGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
* *
6101885 TAAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTGACTTGCGTGGGCTTTGAAAGG
66 TGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTG-GTGGGCTTTGAAAGG
6101950 AGTGCCACTGACTT
130 -GTGCCACTGAC-T
*
6101964 GTGTGGGCTTTGAAAGGGTGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
** * * *
6102029 TTGAAAGAGTGCCACTGACTCATGGGCTTTGAAAAGGTACCACTGACTTGCGTGAGCTTTAAAAG
65 TTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTG-GTGGGCTTTGAAAG
*
6102094 GAGTGTCACTGACTT
129 G-GTGCCACTGAC-T
* *
6102109 GTGTGGGCTTT-AAAGGGGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGAATTGTGGG
1 -TGTGGGCTTTGAAA-GGGTGCCACTGACTCGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGG
* * * *
6102172 CTTCGCAATG-GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT-GTGGGCTCTGAA
63 CTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGGTGGGCTTTGAA
*
6102235 AGGGTGCCACTAACT
127 AGGGTGCCACTGACT
* * * *
6102250 TGTGGGCTTTGAAAGGGTGTCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCT
* *
6102315 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTAAA
65 TTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTG-GTGGGCTTTGAA
6102380 AGGGTGCCACTGACT
127 AGGGTGCCACTGACT
* * * * *
6102395 TGTGGGCTTTGAAAGAGTGCCACTGAATTGTGGGCTTCGCAATGG-TGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTG-AAAGGATGCCACTGA--------CT
* * *
6102459 TGCGTGGGCTTTGAAAAGGGTGCCGCTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT-GTGG
57 T--GTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGGTGG
* *
6102523 GCTTTGAAAAGAGTGCCACTAACT
119 GCTTTG-AAAGGGTGCCACTGACT
* *
6102547 TGTGGGCTTTAAAAGGGTGCCACT-ATCTTGCGTGGGCTTTGAAAGGGGTGCCACTGACTTGTGG
1 TGTGGGCTTTGAAAGGGTGCCACTGA-C-T-CGTGGGCTTTGAAA-GGATGCCACTGACTTGTGG
* * *
6102611 GCTTTGAAAGGGTGCCACCGACTTGTGTGGGCTTTGAAAAGTGTTGCCACCGACTTGTGTGGGCT
62 GCTTTGAAAGAGTGCCACTGAC-T-TGTGGGCTTTGAAAAG-G-TGCCACTGACTTG-GTGGGCT
*
6102676 TTGAAATGGGTTGCCACCGACTT
122 TTGAAA-GGG-TGCCACTGAC-T
* * * * * * * * *
6102699 GTGTGGGCTTTGAAATGGGTGCCACAGAGTTGT-GGATTTTAAAAGAGTGCCACAGAGTTGTGGA
1 -TGTGGGCTTTGAAA-GGGTGCCACTGACTCGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGG
* * * * * * * * * * **
6102763 TTTTAAAAGGGTGCCACGGAGTTGT-GGATTTTAAAAGGGTGCCACAGAGTT-GTGGAC-TCAAA
63 CTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACTTGGTGGGCTTTGAA
* * *
6102825 AGAGATGCCACGGAGT
127 AG-GGTGCCACTGACT
* * * * * * * * * * *
6102841 TATGGAC-TTAAAAGGGTGCCACGGAGTTGTGGTC-TTAAAAGGATGCCACGGAGTTGTGGAC-T
1 TGTGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
* * * * * * * * *
6102903 TAAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGGTGCCACAGAGTT-GTGGAC-TTAAAAGG
66 TGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACTTGGTGGGCTTTGAAAGG
* *
6102964 GTGCCACAGAGT
130 GTGCCACTGACT
* * * * * * * * ** * *
6102976 TGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAAAGTTGTGGACTT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
* * * * * * * * *
6103039 T-AAAGGGTGCCACGGAGTTGTGGAC--TAAAAAGGGTGCCACGGAGTT-GTGGACTTTAAAAGG
66 TGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACTTGGTGGGCTTTGAAAGG
* *
6103100 GTGCCACAGAGT
130 GTGCCACTGACT
6103112 TGTGG
1 TGTGG
6103117 ACTTAAAAGA
Statistics
Matches: 1128, Mismatches: 113, Indels: 118
0.83 0.08 0.09
Matches are distributed among these distances:
134 1 0.00
135 115 0.10
136 58 0.05
137 25 0.02
138 65 0.06
139 28 0.02
140 76 0.07
141 43 0.04
142 50 0.04
143 46 0.04
144 74 0.07
145 269 0.24
146 21 0.02
147 14 0.01
148 21 0.02
149 7 0.01
150 14 0.01
151 57 0.05
152 42 0.04
153 30 0.03
154 62 0.05
155 10 0.01
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.27
Consensus pattern (141 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
TGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGGTGGGCTTTGAAAGGG
TGCCACTGACT
Found at i:6102289 original size:257 final size:256
Alignment explanation
Indices: 6101678--6103061 Score: 1324
Period size: 257 Copynumber: 5.3 Consensus size: 256
6101668 ACTGACACAT
* ** *
6101678 GTGGGCTTTGAAAAGAGTGTTACTGACTTGCGTGGGCTTTAAAAGGGTGCCACTAACTTGCGTGG
1 GTGGGCTTTGAAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAGGGTGCCACTAACTT--GTGG
* *
6101743 GCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AA
62 GCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAA
* * *
6101807 AGGTGCCACTGACTCGTGGGCTTTGAAAA-GGTACCACTGAC-T-CGTGGGC-TTAAAAGGGTGC
127 AGGTGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGTGGGCTTTAAAAGGGTGC
* * * * * *
6101868 CACTGACTTGTGGGCTTTAAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTGACTT
191 CACTGACTTGTGGGCTTTGAAAGAGTGCCACTGAATTGTGGGCTTCGCAATGGTGCCACTGACTT
6101933 GC
256 -C
*
6101935 GTGGGCTTTG-AAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTAACTCGTGGG
1 GTGGGCTTTGAAAAGG-GTGCCACTGAC-T-TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGG
*
6101999 CTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCATGGGCTTTGAAAA
63 CTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAA
* * * *
6102064 GGTACCACTGACTTGCGTGAGCTTTAAAAGGAGTGTCACTGACTTGTGTGGGCTTTAAAGGGGTG
128 GGTGCCACTGACTT--GTGGGCTTTAAAAGG-GTGCCACTGACTTGTGTGGGCTTTAAAAGGGTG
6102129 CCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGAATTGTGGGCTTCGCAATGGTGCCACTGACT
190 CCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGAATTGTGGGCTTCGCAATGGTGCCACTGACT
6102194 T-
255 TC
*
6102195 GTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTCTGAAAGGGTGCCACTAACTTGTGGGCTT
1 GTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTT
* * * *
6102259 TGAAAGGGTGTCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGA
66 TGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTCGTGGGCTTTGAAAAG-
*
6102324 GTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTAAAAGGGTGCCA
129 GTGCCACTGACTTGTGGGCTTTAAAAGG-GTGCCACTGACTTGTGTGGGCTTTAAAAGGGTGCCA
6102389 CTGACTTGTGGGCTTTGAAAGAGTGCCACTGAATTGTGGGCTTCGCAATGGTGCCACTGACTTGT
193 CTGACTTGTGGGCTTTGAAAGAGTGCCACTGAATTGTGGGCTTCGCAATGGTGCCACTGA-----
6102454 GGGCTTGC
253 ---CTT-C
* *
6102462 GTGGGCTTTGAAAAGGGTGCCGCTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
1 GTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTT
* * * *
6102527 TGAAAAGAGTGCCACTAACTTGTGGGCTTTAAAAGGGTGCCACT-ATCTTGCGTGGGCTTTGAAA
66 TGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGA-C-T-CGTGGGCTTTGAAA
* * * *
6102591 GGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGACTTGTGTGGGCTTTGAAAAGTGTT
127 -AGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGTGGGCTTT-AAAAG-GGT
* * * * * *
6102656 GCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTGC
189 GCCACTGAC-T-TGTGGGCTTTGAAA-GAG-TGCCACTGA-AT-TGTGGGCTTCGCAAT-GGTGC
* *
6102721 CACAGAGTT-
247 CACTGACTTC
* * * * * ** * ** * **
6102730 GT-GGATTTTAAAAGAGTGCCACAGAGTTGTGGATTTTAAAAGGGTGCCACGGAGTTGTGGATTT
1 GTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTT
* * * * * ** * * ** *
6102794 TAAAAGGGTGCCACAGAGTTGTGGAC-TCAAAAGAGATGCCACGGAGTTATGGAC-TT-AAAAGG
66 TGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAG-TGCCACTGACTCGTGGGCTTTGAAAA-G
* * * * * * *
6102856 GTGCCACGGAGTTGTGGTC-TTAAAAGGATGCCACGGA-GT-TGTGGAC-TTAAAAGGGTGCCAC
129 GTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGTGGGCTTTAAAAGGGTGCCAC
* * * * * * * * ** * * *
6102917 GGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTT-AAAAGGGTGCCACAGAGTT-
194 TGACTTGTGGGCTTTGAAAGAGTGCCACTGAATTGTGGGCTTCGCAATGGTGCCACTGACTTC
* * * * * * * *
6102977 GTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAAAGTTGTGGACTT
1 GTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTT
* * *
6103039 T-AAAGGGTGCCACGGAGTTGTGG
66 TGAAAGGATGCCACTGACTTGTGG
6103062 ACTAAAAAGG
Statistics
Matches: 975, Mismatches: 110, Indels: 97
0.82 0.09 0.08
Matches are distributed among these distances:
244 21 0.02
245 27 0.03
246 22 0.02
247 18 0.02
248 4 0.00
249 8 0.01
250 1 0.00
251 8 0.01
252 3 0.00
253 5 0.01
254 6 0.01
255 64 0.07
256 28 0.03
257 225 0.23
258 43 0.04
259 39 0.04
260 17 0.02
261 21 0.02
262 90 0.09
263 2 0.00
264 4 0.00
265 11 0.01
266 20 0.02
267 66 0.07
268 71 0.07
269 43 0.04
270 48 0.05
271 11 0.01
272 1 0.00
273 14 0.01
274 2 0.00
275 8 0.01
276 1 0.00
277 13 0.01
278 10 0.01
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.27
Consensus pattern (256 bp):
GTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTT
TGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGGT
GCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGTGGGCTTTAAAAGGGTGCCACTG
ACTTGTGGGCTTTGAAAGAGTGCCACTGAATTGTGGGCTTCGCAATGGTGCCACTGACTTC
Found at i:6102576 original size:28 final size:27
Alignment explanation
Indices: 6102462--6103452 Score: 899
Period size: 27 Copynumber: 35.4 Consensus size: 27
6102452 GTGGGCTTGC
* * *
6102462 GTGGGCTTTGAAAAGGGTGCCGCTGACTT
1 GTGGACTTT-AAAAGGGTGCCAC-GAGTT
* * *
6102491 GTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
* * * *
6102519 GTGGGCTTTGAAAAGAGTGCCACTAACTT
1 GTGGACTTT-AAAAGGGTGCCAC-GAGTT
* * *
6102548 GTGGGCTTTAAAAGGGTGCCACTATCTT
1 GTGGACTTTAAAAGGGTGCCACGA-GTT
* * *
6102576 GCGTGGGCTTTGAAAGGGGTGCCACTGACTT
1 --GTGGACTTT-AAAAGGGTGCCAC-GAGTT
* * *
6102607 GTGGGCTTTGAAAGGGTGCCACCGACTTGT
1 GTGGACTTTAAAAGGGTGCCA-CGA-GT-T
* * *
6102637 GTGGGCTTTGAAAAGTGTTGCCACCGACTTGT
1 GTGGACTTT-AAAAG-GGTGCCA-CGA-GT-T
* * *
6102669 GTGGGCTTTGAAATGGGTTGCCACCGACTTGT
1 GTGGACTTT-AAAAGGG-TGCCA-CGA-GT-T
* *
6102701 GTGGGCTTTGAAATGGGTGCCACAGAGTT
1 GTGGACTTT-AAAAGGGTGCCAC-GAGTT
* *
6102730 GTGGATTTTAAAAGAGTGCCACAGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
*
6102758 GTGGATTTTAAAAGGGTGCCACGGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
*
6102786 GTGGATTTTAAAAGGGTGCCACAGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
* *
6102814 GTGGAC-TCAAAAGAGATGCCACGGAGTT
1 GTGGACTTTAAAAG-GGTGCCAC-GAGTT
*
6102842 ATGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
* *
6102869 GTGGTC-TTAAAAGGATGCCACGGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
6102896 GTGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
6102923 GTGGAC-TTAAAAGGGTGCCACAGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
6102950 GTGGAC-TTAAAAGGGTGCCACAGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
6102977 GTGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
*
6103004 GTGGAC-TTAAAAGGGTGCCACAAAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
6103031 GTGGACTTT-AAAGGGTGCCACGGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
*
6103058 GTGGAC-TAAAAAGGGTGCCACGGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
6103085 GTGGACTTTAAAAGGGTGCCACAGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
*
6103113 GTGGAC-TTAAAAGAGATGCCACAGAGTT
1 GTGGACTTTAAAAG-GGTGCCAC-GAGTT
* *
6103141 ATGGAC-TTAAAAGGGTACCACGGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
6103168 GTGGAC-TTAAAAGGGTGCCACGAAGTT
1 GTGGACTTTAAAAGGGTGCCACG-AGTT
*
6103195 GTGGTC-TTAAAAGGGATGCCACGGAGTT
1 GTGGACTTTAAAAGGG-TGCCAC-GAGTT
6103223 GTGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
6103250 GTGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
**
6103277 GTGGAC-TTAAAAGAATGCCACGGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
* *
6103304 GTGGACTTTAAAAGGATGCCACGAAATT
1 GTGGACTTTAAAAGGGTGCCACG-AGTT
6103332 GTGGAC-TTAAAAGGGATGCCACGGAGTT
1 GTGGACTTTAAAAGGG-TGCCAC-GAGTT
6103360 GTGGAC-TTAAAAGGGTGCCACGGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
*
6103387 GTGGAC-TTAAAAGGGTGCTACGGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
*
6103414 GTGGAC-TTAAAAGGGTGCTACGGAGTT
1 GTGGACTTTAAAAGGGTGCCAC-GAGTT
*
6103441 GTGGGCTTTAAA
1 GTGGACTTTAAA
6103453 GAGGTCACAC
Statistics
Matches: 874, Mismatches: 62, Indels: 53
0.88 0.06 0.05
Matches are distributed among these distances:
26 2 0.00
27 429 0.49
28 279 0.32
29 55 0.06
30 21 0.02
31 27 0.03
32 61 0.07
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.25
Consensus pattern (27 bp):
GTGGACTTTAAAAGGGTGCCACGAGTT
Found at i:6102868 original size:27 final size:27
Alignment explanation
Indices: 6102715--6103453 Score: 1091
Period size: 27 Copynumber: 27.0 Consensus size: 27
6102705 GCTTTGAAAT
* *
6102715 GGGTGCCACAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
* * *
6102743 GAGTGCCACAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
*
6102771 GGGTGCCACGGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
* *
6102799 GGGTGCCACAGAGTTGTGGACTCAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
6102826 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
6102854 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
6102881 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
6102908 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
6102935 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
6102962 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
6102989 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
** *
6103016 GGGTGCCACAAAGTTGTGGACTTTAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
6103043 GGGTGCCACGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
6103070 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
6103098 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
6103125 GAGATGCCACAGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
6103153 GGGTACCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
6103180 GGGTGCCACGAAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
6103207 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
6103235 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
6103262 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
6103289 GAATGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
6103317 GGATGCCACGAAATTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
6103344 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
6103372 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
6103399 GGGTGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
6103426 GGGTGCTACGGAGTTGTGGGCTTTAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
6103453 G
1 G
6103454 AGGTCACACT
Statistics
Matches: 656, Mismatches: 49, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
27 437 0.67
28 219 0.33
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.24
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:6103189 original size:137 final size:135
Alignment explanation
Indices: 6102715--6103453 Score: 1091
Period size: 137 Copynumber: 5.4 Consensus size: 135
6102705 GCTTTGAAAT
* * * * *
6102715 GGGTGCCACAGAGTTGTGGATTTTAAAAGAGTGCCACAGAGTTGTGGATTTTAAAAGGGTGCCAC
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCAC
* * * * *
6102780 GGAGTTGTGGATTTTAAAAGGGTGCCACAGAGTTGTGGACTCAAAAGAGATGCCACGGAGTTATG
64 GGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTG
6102845 GACTTAAAA
127 GACTTAAAA
* *
6102854 GGGTGCCACGGAGTTGTGGTCTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
6102919 AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACT
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
6102984 TAAAA
131 TAAAA
** *
6102989 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTGTGGACTTTAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
6103054 AGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGAC
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC
6103119 TTAAAA
130 TTAAAA
* * * *
6103125 GAGATGCCACAGAGTTATGGACTTAAAAGGGTACCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
* *
6103190 AAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
65 GAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
6103255 CTTAAAA
129 CTTAAAA
** *
6103262 GGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
* *
6103327 AAATTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
65 GAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
6103392 CTTAAAA
129 CTTAAAA
* * * *
6103399 GGGTGCTACGGAGTTGTGGACTTAAAAGGGTGCTACGGAGTTGTGGGCTTTAAAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
6103454 AGGTCACACT
Statistics
Matches: 551, Mismatches: 45, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
135 118 0.21
136 114 0.21
137 260 0.47
138 41 0.07
139 18 0.03
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.24
Consensus pattern (135 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
TAAAA
Found at i:6110949 original size:22 final size:22
Alignment explanation
Indices: 6110921--6110975 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
6110911 TGGACATGTT
6110921 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
6110943 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
6110965 AAAAATGCATG
1 AAAAATGCATG
6110976 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:6111937 original size:20 final size:20
Alignment explanation
Indices: 6111890--6111964 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
6111880 AAAAAGACAT
*
6111890 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
6111909 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
6111930 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
6111950 AATGTATCGATACAT
1 AATGTATCGATACAT
6111965 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:6111958 original size:40 final size:39
Alignment explanation
Indices: 6111887--6111964 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
6111877 GGTAAAAAGA
* *
6111887 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
6111926 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
6111965 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:6112315 original size:75 final size:74
Alignment explanation
Indices: 6112180--6112320 Score: 203
Period size: 75 Copynumber: 1.9 Consensus size: 74
6112170 TAGATCTAGT
* ** *
6112180 AGCTAAAGTGAGAGTTGGCTATCAGGATCCGCCTTTCTGGCCACCAGGATTTATGTGGCGAGCAC
1 AGCTAAAGTGAGAGTTGACTATCAAAATCCGCCTTTCTGGCCACCAGAATTTATGTGGCGAGCAC
6112245 AGGTGTCGG
66 AGGTGTCGG
* *
6112254 AGCTAGAGTGAGAGTTGACTATCAAAAATCCGCCTTTCTGGCGACCAGAATTTATAG-GGCGAGC
1 AGCTAAAGTGAGAGTTGACTATC-AAAATCCGCCTTTCTGGCCACCAGAATTTAT-GTGGCGAGC
6112318 ACA
64 ACA
6112321 AATCTGGCAG
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
74 21 0.36
75 37 0.63
76 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (74 bp):
AGCTAAAGTGAGAGTTGACTATCAAAATCCGCCTTTCTGGCCACCAGAATTTATGTGGCGAGCAC
AGGTGTCGG
Found at i:6112336 original size:75 final size:75
Alignment explanation
Indices: 6112180--6112353 Score: 201
Period size: 75 Copynumber: 2.3 Consensus size: 75
6112170 TAGATCTAGT
* ** *
6112180 AGCTAAAGTGAGAGTTGGCTATC-AGGATCCGCCTTTCTGGCCACCAGGATTTATGTGGCGAGCA
1 AGCTAGAGTGAGAGTTGGCTATCAAAAATCCGCCTTTCTGGCCACCAGAATTTATGTGGCGAGCA
** *
6112244 CAGGTGTCGG
66 CAAATCTCGG
* *
6112254 AGCTAGAGTGAGAGTTGACTATCAAAAATCCGCCTTTCTGGCGACCAGAATTTATAG-GGCGAGC
1 AGCTAGAGTGAGAGTTGGCTATCAAAAATCCGCCTTTCTGGCCACCAGAATTTAT-GTGGCGAGC
6112318 ACAAATCT-GG
65 ACAAATCTCGG
* **
6112328 CAGTTAGAGTGACTGTTGGCTATCAA
1 -AGCTAGAGTGAGAGTTGGCTATCAA
6112354 GATTTTGCTT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
74 23 0.27
75 60 0.71
76 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (75 bp):
AGCTAGAGTGAGAGTTGGCTATCAAAAATCCGCCTTTCTGGCCACCAGAATTTATGTGGCGAGCA
CAAATCTCGG
Found at i:6113075 original size:52 final size:51
Alignment explanation
Indices: 6113019--6113139 Score: 134
Period size: 51 Copynumber: 2.4 Consensus size: 51
6113009 GATAATGATA
** * * ** *
6113019 ATGCCATGGTGGTGATTAAGATCTAAGTGACTTTGGGTCACTGATAGCATTG
1 ATGCCATGGTGGCAATCAAGAT-GAAGTGACTTCAGATCACTGATAGCATTG
* * *
6113071 ATGCCATGGTGACAATCAAGATGAAGTGACTTCATATCATTGATAGCATTG
1 ATGCCATGGTGGCAATCAAGATGAAGTGACTTCAGATCACTGATAGCATTG
*
6113122 ATGCCATGGTGGCGATCA
1 ATGCCATGGTGGCAATCA
6113140 GGATTGGAAT
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
51 39 0.68
52 18 0.32
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (51 bp):
ATGCCATGGTGGCAATCAAGATGAAGTGACTTCAGATCACTGATAGCATTG
Found at i:6113179 original size:52 final size:52
Alignment explanation
Indices: 6113064--6113195 Score: 146
Period size: 52 Copynumber: 2.6 Consensus size: 52
6113054 GGTCACTGAT
* * * * *
6113064 AGCATTGATGCCATGGTGACAATCAAGA-TGAAGTGACTTCATATCATTGAT
1 AGCATTGATGCCATGGTGGCGATCAGGATTGAAGTGACTTCATATCAATGAC
*
6113115 AGCATTGATGCCATGGTGGCGATCAGGATTGGAA-TGACTT-AGTGTCAATGAC
1 AGCATTGATGCCATGGTGGCGATCAGGATT-GAAGTGACTTCA-TATCAATGAC
*
6113167 AGTATTGATGCCAAT-GTGGCGATCAGGAT
1 AGCATTGATGCC-ATGGTGGCGATCAGGAT
6113196 GGGAGTGCAT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
51 26 0.37
52 39 0.56
53 5 0.07
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (52 bp):
AGCATTGATGCCATGGTGGCGATCAGGATTGAAGTGACTTCATATCAATGAC
Found at i:6113279 original size:26 final size:26
Alignment explanation
Indices: 6113257--6113380 Score: 94
Period size: 26 Copynumber: 4.8 Consensus size: 26
6113247 TGATGCCAAG
*
6113257 GTGGCGATTAGGATCGGAGTGCCATA
1 GTGGCGATCAGGATCGGAGTGCCATA
6113283 GTGGCGATCAGGATCGGAGTGACTCGAT-
1 GTGGCGATCAGGATCGGAGTG-C-C-ATA
** * * * * *
6113311 GTCACTAACAGTAT-TGA-TGCCAAA
1 GTGGCGATCAGGATCGGAGTGCCATA
*
6113335 GTGGCGATCAGGATCAGAGTGCCAT-
1 GTGGCGATCAGGATCGGAGTGCCATA
*
6113360 GATGGCGATCAGGATGGGAGT
1 G-TGGCGATCAGGATCGGAGT
6113381 AACATGGTGT
Statistics
Matches: 74, Mismatches: 17, Indels: 14
0.70 0.16 0.13
Matches are distributed among these distances:
23 1 0.01
24 10 0.14
25 4 0.05
26 44 0.59
27 3 0.04
28 10 0.14
29 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.35, T:0.22
Consensus pattern (26 bp):
GTGGCGATCAGGATCGGAGTGCCATA
Found at i:6113342 original size:78 final size:77
Alignment explanation
Indices: 6113123--6113519 Score: 435
Period size: 78 Copynumber: 5.1 Consensus size: 77
6113113 ATAGCATTGA
* * * * * *
6113123 TGCCATGGTGGCGATCAGGATTGGAATGACTTAGTGTCAATGACAGTATTGATGCCAATGTGGCG
1 TGCCATGGTGGCGATCAGGATGGGAGTGAC-TGGTGTCACTAACAGTATTGATGCCAAGGTGGCG
*
6113188 ATCAGGATGGGAG
65 ATCAGGATCGGAG
* *
6113201 TG-CATGGTGGCGATCAAGATGGGAGT-ACTATGGTGTCACT--GAGTATTGATGCCAAGGTGGC
1 TGCCATGGTGGCGATCAGGATGGGAGTGAC--TGGTGTCACTAACAGTATTGATGCCAAGGTGGC
*
6113262 GATTAGGATCGGAG
64 GATCAGGATCGGAG
* * * *
6113276 TGCCATAGTGGCGATCAGGATCGGAGTGACTCGATGTCACTAACAGTATTGATGCCAAAGTGGCG
1 TGCCATGGTGGCGATCAGGATGGGAGTGACT-GGTGTCACTAACAGTATTGATGCCAAGGTGGCG
*
6113341 ATCAGGATCAGAG
65 ATCAGGATCGGAG
* * * * *
6113354 TGCCATGATGGCGATCAGGATGGGAGTAACATGGTGTCATTAATAGTATTTGATGCTAAGGTGGC
1 TGCCATGGTGGCGATCAGGATGGGAGTGAC-TGGTGTCACTAACAGTA-TTGATGCCAAGGTGGC
6113419 GATCA-GATCGGAG
64 GATCAGGATCGGAG
* * * * **
6113432 TGCCACGGTGGCGATCAGGATGGGAGTGACTTGGCGACACTAACAGTATTAATGCCCTGGTGGCG
1 TGCCATGGTGGCGATCAGGATGGGAGTGAC-TGGTGTCACTAACAGTATTGATGCCAAGGTGGCG
*
6113497 ATCAGGATGGGAG
65 ATCAGGATCGGAG
**
6113510 TATCATGGTG
1 TGCCATGGTG
6113520 TCACTGACAG
Statistics
Matches: 266, Mismatches: 44, Indels: 18
0.81 0.13 0.05
Matches are distributed among these distances:
75 34 0.13
76 31 0.12
77 48 0.18
78 133 0.50
79 20 0.08
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (77 bp):
TGCCATGGTGGCGATCAGGATGGGAGTGACTGGTGTCACTAACAGTATTGATGCCAAGGTGGCGA
TCAGGATCGGAG
Found at i:6113386 original size:26 final size:26
Alignment explanation
Indices: 6113336--6113386 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
6113326 GATGCCAAAG
**
6113336 TGGCGATCAGGATCAGAGTGCCATGA
1 TGGCGATCAGGATCAGAGTAACATGA
**
6113362 TGGCGATCAGGATGGGAGTAACATG
1 TGGCGATCAGGATCAGAGTAACATG
6113387 GTGTCATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.37, T:0.20
Consensus pattern (26 bp):
TGGCGATCAGGATCAGAGTAACATGA
Found at i:6113499 original size:52 final size:53
Alignment explanation
Indices: 6113432--6113554 Score: 151
Period size: 52 Copynumber: 2.3 Consensus size: 53
6113422 CAGATCGGAG
* *
6113432 TGCCACGGTGGCGATCAGGATGGGAGTGA-CTTGGCGACACTAACAGTAT-TAA
1 TGCCAAGGTGGCGATCAGGATGGGAGT-ATCATGGCGACACTAACAGTATCTAA
** * * * *
6113484 TGCCCTGGTGGCGATCAGGATGGGAGTATCATGGTGTCACTGACAGTATCTGA
1 TGCCAAGGTGGCGATCAGGATGGGAGTATCATGGCGACACTAACAGTATCTAA
6113537 TGCCAAGGTGGCGATCAG
1 TGCCAAGGTGGCGATCAG
6113555 ATCAGAGTGC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
51 1 0.02
52 41 0.68
53 18 0.30
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.23
Consensus pattern (53 bp):
TGCCAAGGTGGCGATCAGGATGGGAGTATCATGGCGACACTAACAGTATCTAA
Found at i:6113532 original size:130 final size:130
Alignment explanation
Indices: 6113354--6113649 Score: 403
Period size: 130 Copynumber: 2.3 Consensus size: 130
6113344 AGGATCAGAG
* * * * * *
6113354 TGCCATGATGGCGATCAGGATGGGAGTAACATGGTGTCATTAATAGTATTTGATGCTAAGGTGGC
1 TGCCATGGTGGCGATCAGGATGGGAGTATCATGGTGTCACTAACAGTATCTGATGCCAAGGTGGC
* * * * *
6113419 GATCAGATCGGAGTGCCACGGTGGCGATCAGGATGGGAGTGACTTGGCGACACTAACAGTATTAA
66 GATCAGATCAGAGTGCCACGATGGCGATCAAGATGGGAGTGACTCGGCGACACTAACAATATTAA
* *
6113484 TGCCCTGGTGGCGATCAGGATGGGAGTATCATGGTGTCACTGACAGTATCTGATGCCAAGGTGGC
1 TGCCATGGTGGCGATCAGGATGGGAGTATCATGGTGTCACTAACAGTATCTGATGCCAAGGTGGC
* * ** *
6113549 GATCAGATCAGAGTGCCATGATGGCGATTAAGATGGGAGTGACTCGGCGTTACTAACAATATTGA
66 GATCAGATCAGAGTGCCACGATGGCGATCAAGATGGGAGTGACTCGGCGACACTAACAATATTAA
* * *
6113614 TGCCATGGTGGCGATCAGGATCGGAATGTCATGGTG
1 TGCCATGGTGGCGATCAGGATGGGAGTATCATGGTG
6113650 GCAATCAAGA
Statistics
Matches: 144, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
130 144 1.00
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (130 bp):
TGCCATGGTGGCGATCAGGATGGGAGTATCATGGTGTCACTAACAGTATCTGATGCCAAGGTGGC
GATCAGATCAGAGTGCCACGATGGCGATCAAGATGGGAGTGACTCGGCGACACTAACAATATTAA
Found at i:6113532 original size:208 final size:208
Alignment explanation
Indices: 6113283--6113783 Score: 618
Period size: 208 Copynumber: 2.4 Consensus size: 208
6113273 GAGTGCCATA
* *
6113283 GTGGCGATCAGGATCGGAGTGACTCGATGTCACTAACAGTATTGATGCCAAAGTGGCGATCAGGA
1 GTGGCGATCAGGATCGGAGTGACTCGATGTCACTGACAGTATTGATGCCAAGGTGGCGATCAGGA
* * * * * *
6113348 TCAGAGTGCCATGATGGCGATCAGGATGGGAGTAACAT-GGTGTCATTAATAGTATTTGATGCTA
66 TCAGAGTGCCATGATGGCGATCAAGATGGGAGTAAC-TCGGCGTCACTAACAATA-TTGATGCCA
* * * * * *
6113412 AGGTGGCGATCA-GATCGGAGTGCCACGGTGGCGATCAGGATGGGAGTGACTTGGCGACACTAAC
129 AGGTGGCGATCAGGATCGGAATGCCACGGTGGCAATCAAGATCGAAATGACTTGGCGACACTAAC
**
6113476 AGTATTAATGCCCTG
194 AGTATTAATGCCAAG
* *
6113491 GTGGCGATCAGGATGGGAGT-A-TCATGGTGTCACTGACAGTATCTGATGCCAAGGTGGCGATCA
1 GTGGCGATCAGGATCGGAGTGACTC--GATGTCACTGACAGTAT-TGATGCCAAGGTGGCGATCA
* * *
6113554 -GATCAGAGTGCCATGATGGCGATTAAGATGGGAGTGACTCGGCGTTACTAACAATATTGATGCC
63 GGATCAGAGTGCCATGATGGCGATCAAGATGGGAGTAACTCGGCGTCACTAACAATATTGATGCC
* * * *
6113618 ATGGTGGCGATCAGGATCGGAATGTCATGGTGGCAATCAAGATCGAAATGACTTGGCGTCACTAA
128 AAGGTGGCGATCAGGATCGGAATGCCACGGTGGCAATCAAGATCGAAATGACTTGGCGACACTAA
* *
6113683 TAGTATTGATGCCAAG
193 CAGTATTAATGCCAAG
* * *
6113699 GTGGCGATCAGGATCGAAGTGACTCGACGTCACTGACAGGATTGATGCCAAGGTGGCGATCAGGA
1 GTGGCGATCAGGATCGGAGTGACTCGATGTCACTGACAGTATTGATGCCAAGGTGGCGATCAGGA
* *
6113764 T-TGTAGTGCCATGGTGGCGA
66 TCAG-AGTGCCATGATGGCGA
6113784 GCATGATCAA
Statistics
Matches: 250, Mismatches: 34, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
206 2 0.01
207 42 0.17
208 184 0.74
209 20 0.08
210 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (208 bp):
GTGGCGATCAGGATCGGAGTGACTCGATGTCACTGACAGTATTGATGCCAAGGTGGCGATCAGGA
TCAGAGTGCCATGATGGCGATCAAGATGGGAGTAACTCGGCGTCACTAACAATATTGATGCCAAG
GTGGCGATCAGGATCGGAATGCCACGGTGGCAATCAAGATCGAAATGACTTGGCGACACTAACAG
TATTAATGCCAAG
Found at i:6113576 original size:78 final size:76
Alignment explanation
Indices: 6113482--6113709 Score: 233
Period size: 78 Copynumber: 2.9 Consensus size: 76
6113472 TAACAGTATT
* * * * *
6113482 AATGCCCTGGTGGCGATCAGGATGGGAGT-ATCATGGTGTCACTGACAGTATCTGATGCCAAGGT
1 AATGCCATGATGGCGATCAAGATGGGAGTGA-C-TGGCGTCACTAACAGTAT-TGATGCCAAGGT
6113546 GGCGATCAGATCAG
63 GGCGATCAGATCAG
* * * * *
6113560 AGTGCCATGATGGCGATTAAGATGGGAGTGACTCGGCGTTACTAACAATATTGATGCCATGGTGG
1 AATGCCATGATGGCGATCAAGATGGGAGTGACT-GGCGTCACTAACAGTATTGATGCCAAGGTGG
*
6113625 CGATCAGGATCGG
65 CGATCA-GATCAG
* * * * * * *
6113638 AATGTCATGGTGGCAATCAAGATCGAAATGACTTGGCGTCACTAATAGTATTGATGCCAAGGTGG
1 AATGCCATGATGGCGATCAAGATGGGAGTGAC-TGGCGTCACTAACAGTATTGATGCCAAGGTGG
6113703 CGATCAG
65 CGATCAG
6113710 GATCGAAGTG
Statistics
Matches: 123, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
77 21 0.17
78 100 0.81
79 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.24
Consensus pattern (76 bp):
AATGCCATGATGGCGATCAAGATGGGAGTGACTGGCGTCACTAACAGTATTGATGCCAAGGTGGC
GATCAGATCAG
Found at i:6113646 original size:26 final size:26
Alignment explanation
Indices: 6113617--6113667 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
6113607 ATATTGATGC
* * *
6113617 CATGGTGGCGATCAGGATCGGAATGT
1 CATGGTGGCAATCAAGATCGAAATGT
6113643 CATGGTGGCAATCAAGATCGAAATG
1 CATGGTGGCAATCAAGATCGAAATG
6113668 ACTTGGCGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.16, G:0.33, T:0.22
Consensus pattern (26 bp):
CATGGTGGCAATCAAGATCGAAATGT
Found at i:6113710 original size:78 final size:78
Alignment explanation
Indices: 6113519--6113714 Score: 241
Period size: 78 Copynumber: 2.5 Consensus size: 78
6113509 GTATCATGGT
* * * * *
6113519 GTCACTGACAGTATCTGATGCCAAGGTGGCGATCA-GATCAGAGTGCCATGATGGCGATTAAGAT
1 GTCACTAACAGTAT-TGATGCCAAGGTGGCGATCAGGATCGGAATGCCATGATGGCAATCAAGAT
* * *
6113583 GGGAGTGACTCGGC
65 CGAAATGACTCGGC
* * * * *
6113597 GTTACTAACAATATTGATGCCATGGTGGCGATCAGGATCGGAATGTCATGGTGGCAATCAAGATC
1 GTCACTAACAGTATTGATGCCAAGGTGGCGATCAGGATCGGAATGCCATGATGGCAATCAAGATC
*
6113662 GAAATGACTTGGC
66 GAAATGACTCGGC
*
6113675 GTCACTAATAGTATTGATGCCAAGGTGGCGATCAGGATCG
1 GTCACTAACAGTATTGATGCCAAGGTGGCGATCAGGATCG
6113715 AAGTGACTCG
Statistics
Matches: 99, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
77 19 0.19
78 80 0.81
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.24
Consensus pattern (78 bp):
GTCACTAACAGTATTGATGCCAAGGTGGCGATCAGGATCGGAATGCCATGATGGCAATCAAGATC
GAAATGACTCGGC
Found at i:6113714 original size:52 final size:52
Alignment explanation
Indices: 6113646--6113764 Score: 166
Period size: 52 Copynumber: 2.3 Consensus size: 52
6113636 GGAATGTCAT
* * * * * *
6113646 GGTGGCAATCAAGATCGAAATGACTTGGCGTCACTAATAGTATTGATGCCAA
1 GGTGGCGATCAGGATCGAAATGACTCGACGTCACTAACAGGATTGATGCCAA
* *
6113698 GGTGGCGATCAGGATCGAAGTGACTCGACGTCACTGACAGGATTGATGCCAA
1 GGTGGCGATCAGGATCGAAATGACTCGACGTCACTAACAGGATTGATGCCAA
6113750 GGTGGCGATCAGGAT
1 GGTGGCGATCAGGAT
6113765 TGTAGTGCCA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (52 bp):
GGTGGCGATCAGGATCGAAATGACTCGACGTCACTAACAGGATTGATGCCAA
Found at i:6113779 original size:26 final size:24
Alignment explanation
Indices: 6113735--6113783 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
6113725 ACGTCACTGA
6113735 CAGGATTGATGCCAAGGTGGCGAT
1 CAGGATTGATGCCAAGGTGGCGAT
*
6113759 CAGGATTGTAGTGCCATGGTGGCGA
1 CAGGATTG-A-TGCCAAGGTGGCGA
6113784 GCATGATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
25 1 0.05
26 13 0.59
ACGTcount: A:0.22, C:0.16, G:0.39, T:0.22
Consensus pattern (24 bp):
CAGGATTGATGCCAAGGTGGCGAT
Found at i:6113798 original size:26 final size:26
Alignment explanation
Indices: 6113769--6113818 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
6113759 CAGGATTGTA
*
6113769 GTGCCATGGTGGCGAGCATGATCAAG
1 GTGCCATGGTGGCGAGCAGGATCAAG
* * *
6113795 GTGCTATTGTTGCGAGCAGGATCA
1 GTGCCATGGTGGCGAGCAGGATCA
6113819 GAGTGACTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.22, C:0.18, G:0.36, T:0.24
Consensus pattern (26 bp):
GTGCCATGGTGGCGAGCAGGATCAAG
Found at i:6115330 original size:74 final size:75
Alignment explanation
Indices: 6115165--6115338 Score: 233
Period size: 74 Copynumber: 2.3 Consensus size: 75
6115155 TGGCGAGTAC
* * * *
6115165 AGATCTGGCAGCCAGAGTGAGCGTTGGCTATCAAGATTTTGTCCTTCTGGCGACTAAGATTTATG
1 AGATCTGACAGCCAGAGTGAGAGTTGGATATCAAGATTTTGTCCTTCTAGCGACTAAGATTTATG
*
6115230 TGACGAGCAT
66 TGACAAGCAT
* *
6115240 AGATCTGACAGCCAGAGTAAGAGTTGGAT-TCAAGATTTTGTCCTTCTAGCGACTAGGATTTATG
1 AGATCTGACAGCCAGAGTGAGAGTTGGATATCAAGATTTTGTCCTTCTAGCGACTAAGATTTATG
*
6115304 TGGCAAGCAT
66 TGACAAGCAT
* * * *
6115314 AGATTTGGCGGTCAGAGTGAGAGTT
1 AGATCTGACAGCCAGAGTGAGAGTT
6115339 AGCTATTAGG
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
74 61 0.71
75 25 0.29
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (75 bp):
AGATCTGACAGCCAGAGTGAGAGTTGGATATCAAGATTTTGTCCTTCTAGCGACTAAGATTTATG
TGACAAGCAT
Found at i:6115432 original size:74 final size:75
Alignment explanation
Indices: 6115354--6115496 Score: 164
Period size: 75 Copynumber: 1.9 Consensus size: 75
6115344 TTAGGATCTG
* * * *
6115354 CCTTTCTGACGA-TCACGATTTATGGA-CGAGCACAAGTCTGACAGCTAAAGTGAGTGTTGGCTA
1 CCTTTCTCACGACT-ACGATTTATGGAGCGAGCACAAGTCTGACAGCCAAAGTGAGTGTTGACAA
6115417 TCAAGATTTTA
65 TCAAGATTTTA
* * * * * * *
6115428 CCTTTCTCATGACTAGGATTTATGTAGTGAGCACAGGTCTGGCAGCCAGAGTGAGTGTTGACAAT
1 CCTTTCTCACGACTACGATTTATGGAGCGAGCACAAGTCTGACAGCCAAAGTGAGTGTTGACAAT
6115493 CAAG
66 CAAG
6115497 GTATAATAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
74 20 0.36
75 36 0.64
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (75 bp):
CCTTTCTCACGACTACGATTTATGGAGCGAGCACAAGTCTGACAGCCAAAGTGAGTGTTGACAAT
CAAGATTTTA
Found at i:6115478 original size:148 final size:149
Alignment explanation
Indices: 6115163--6115482 Score: 330
Period size: 148 Copynumber: 2.2 Consensus size: 149
6115153 AATGGCGAGT
* * * *
6115163 ACAGATCTGGCAGCCAGAGTGAGCGTTGGCTATCAAGATTTTGTCCTTCTGGCGACTAAGATTTA
1 ACAGATCTGGCAGCCAGAGTGAGAGTTAGCTATCAAGATTCTGTCCTTCTGACGACTAAGATTTA
* * *
6115228 TGTGACGAGCATAGATCTGACAGCCAGAGTAAGAGTTGGATTCAAGATTTTGTCCTTCTAGCGAC
66 TGTGACGAGCAAAGATCTGACAGCCAAAGTAAGAGTTGGATTCAAGATTTTGACCTTCTAGCGAC
*
6115293 TAGGATTTATGTGGCAAGC
131 TAGGATTTATGTAGCAAGC
* * * * * * *
6115312 ATAGATTTGGCGGTCAGAGTGAGAGTTAGCTATTAGGA-TCTG-CCTTTCTGACGA-TCACGATT
1 ACAGATCTGGCAGCCAGAGTGAGAGTTAGCTATCAAGATTCTGTCC-TTCTGACGACT-AAGATT
* * * *
6115374 TATG-GACGAGCACAAG-TCTGACAGCTAAAGTGAGTGTTGGCTATCAAGATTTT-ACCTTTCTC
64 TATGTGACGAGCA-AAGATCTGACAGCCAAAGTAAGAGTTGGAT-TCAAGATTTTGACC-TTCT-
* **
6115436 A-TGACTAGGATTTATGTAGTGAGC
125 AGCGACTAGGATTTATGTAGCAAGC
*
6115460 ACAGGTCTGGCAGCCAGAGTGAG
1 ACAGATCTGGCAGCCAGAGTGAG
6115483 TGTTGACAAT
Statistics
Matches: 138, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
147 34 0.25
148 73 0.53
149 31 0.22
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (149 bp):
ACAGATCTGGCAGCCAGAGTGAGAGTTAGCTATCAAGATTCTGTCCTTCTGACGACTAAGATTTA
TGTGACGAGCAAAGATCTGACAGCCAAAGTAAGAGTTGGATTCAAGATTTTGACCTTCTAGCGAC
TAGGATTTATGTAGCAAGC
Found at i:6115539 original size:22 final size:19
Alignment explanation
Indices: 6115500--6115551 Score: 54
Period size: 22 Copynumber: 2.7 Consensus size: 19
6115490 AATCAAGGTA
*
6115500 TAAT-AAAAA-TATATTTT
1 TAATAAAAAATTATAATTT
6115517 TATATTAAAATAATTATAATTT
1 TA-A-TAAAA-AATTATAATTT
6115539 TAATAAAAAATTA
1 TAATAAAAAATTA
6115552 AATATTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 2 0.07
18 1 0.03
19 6 0.21
20 8 0.28
21 3 0.10
22 9 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAATAAAAAATTATAATTT
Found at i:6117228 original size:18 final size:18
Alignment explanation
Indices: 6117191--6117228 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6117181 TATTGATTTT
*
6117191 ATTTTTATATATTAAGTA
1 ATTTTTATATATTAAATA
6117209 ATTTTTAT-TATATAAATA
1 ATTTTTATATAT-TAAATA
6117227 AT
1 AT
6117229 GTATATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
ATTTTTATATATTAAATA
Found at i:6121863 original size:19 final size:19
Alignment explanation
Indices: 6121808--6121863 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
6121798 TAAAATAATC
* *
6121808 ATAAATATTTTTA-TTATTA
1 ATAAA-ATTTTAATTTATAA
6121827 ATAAAATTTATCTAATTTATAA
1 ATAAAA-TT-T-TAATTTATAA
6121849 ATAAAATTTTAATTT
1 ATAAAATTTTAATTT
6121864 CATTAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 1 0.03
19 13 0.42
20 2 0.06
21 4 0.13
22 11 0.35
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
ATAAAATTTTAATTTATAA
Found at i:6122170 original size:23 final size:25
Alignment explanation
Indices: 6122117--6122170 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
6122107 TAATTTCAAT
6122117 TATTTATAAAAAATATAATAAT--A
1 TATTTATAAAAAATATAATAATAAA
* *
6122140 TATTTTTAAAATAA-ATAAAAATAAA
1 TATTTATAAAA-AATATAATAATAAA
6122165 TATTTA
1 TATTTA
6122171 CTTATGACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 17 0.68
24 2 0.08
25 6 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
TATTTATAAAAAATATAATAATAAA
Found at i:6122704 original size:23 final size:25
Alignment explanation
Indices: 6122678--6122743 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 25
6122668 TAATATTTAA
*
6122678 TAATTAAAAAAAT-TATTTAAAT-T
1 TAATTAAAAAAATATATATAAATAT
*
6122701 TAATT-ATAAAATATATATAAATAT
1 TAATTAAAAAAATATATATAAATAT
*
6122725 TAA-TATAAATAATATATAT
1 TAATTA-AAAAAATATATAT
6122744 TTTTATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 6 0.17
23 14 0.40
24 4 0.11
25 11 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
TAATTAAAAAAATATATATAAATAT
Found at i:6123295 original size:17 final size:17
Alignment explanation
Indices: 6123273--6123306 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6123263 CATTTTTACC
6123273 TTTGCATATAGACATGT
1 TTTGCATATAGACATGT
*
6123290 TTTGCATGTAGACATGT
1 TTTGCATATAGACATGT
6123307 AAATAACAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (17 bp):
TTTGCATATAGACATGT
Found at i:6126734 original size:23 final size:23
Alignment explanation
Indices: 6126705--6126754 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
6126695 CCCTGATTTT
6126705 ATTGCCAATCTGTGTATTTTATG
1 ATTGCCAATCTGTGTATTTTATG
6126728 ATTGCCAATCTGTGTATTTTATG
1 ATTGCCAATCTGTGTATTTTATG
6126751 -TTGC
1 ATTGC
6126755 TTTTACTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (23 bp):
ATTGCCAATCTGTGTATTTTATG
Found at i:6130163 original size:20 final size:21
Alignment explanation
Indices: 6130140--6130180 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
6130130 TTAAAATAAA
6130140 AATTTA-TTTTTAAATTTTAT
1 AATTTACTTTTTAAATTTTAT
6130160 AATTTACTTTTTAAATTTTAT
1 AATTTACTTTTTAAATTTTAT
6130181 TATATTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
AATTTACTTTTTAAATTTTAT
Found at i:6130209 original size:23 final size:23
Alignment explanation
Indices: 6130175--6130235 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
6130165 ACTTTTTAAA
*
6130175 TTTTA-TTATATTTAAATAAATT
1 TTTTATTTTTATTTAAATAAATT
6130197 TTTTATTTTTATTTAAATAAATT
1 TTTTATTTTTATTTAAATAAATT
*
6130220 TTTAATTTTTAATTTA
1 TTTTATTTTT-ATTTA
6130236 TACTTAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.14
23 25 0.71
24 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTATTTTTATTTAAATAAATT
Found at i:6130228 original size:22 final size:22
Alignment explanation
Indices: 6130171--6130228 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
6130161 ATTTACTTTT
*
6130171 TAAA-TTTT-ATTATATTTAAA
1 TAAATTTTTAATTTTATTTAAA
*
6130191 TAAATTTTTTATTTTTATTTAAA
1 TAAA-TTTTTAATTTTATTTAAA
6130214 TAAATTTTTAATTTT
1 TAAATTTTTAATTTT
6130229 TAATTTATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 4 0.12
22 14 0.44
23 14 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TAAATTTTTAATTTTATTTAAA
Found at i:6130229 original size:30 final size:30
Alignment explanation
Indices: 6130193--6130257 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
6130183 TATTTAAATA
* * *
6130193 AATTTTTTATTTTTATTTAAATAAATTTTT
1 AATTTTTAATTTATACTTAAATAAATTTTT
6130223 AATTTTTAATTTATACTTAAATAAATTTTT
1 AATTTTTAATTTATACTTAAATAAATTTTT
6130253 AATTT
1 AATTT
6130258 AAATTAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (30 bp):
AATTTTTAATTTATACTTAAATAAATTTTT
Found at i:6130253 original size:18 final size:19
Alignment explanation
Indices: 6130232--6130272 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
6130222 TAATTTTTAA
6130232 TTTATACTTAAATAAAT-T
1 TTTATACTTAAATAAATAT
* *
6130250 TTTA-ATTTAAATTAATAT
1 TTTATACTTAAATAAATAT
6130268 TTTAT
1 TTTAT
6130273 TTAATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTATACTTAAATAAATAT
Found at i:6130275 original size:22 final size:22
Alignment explanation
Indices: 6130170--6130282 Score: 63
Period size: 22 Copynumber: 5.0 Consensus size: 22
6130160 AATTTACTTT
6130170 TTAA-ATTTTA-TTATATTTAAA
1 TTAATATTTTATTTA-ATTTAAA
* * *
6130191 TAAATTTTTTATTTTTATTTAAA
1 TTAATATTTTA-TTTAATTTAAA
* *
6130214 TAAAT-TTTTAATTTTTAATTTATAC
1 TTAATATTTT-A--TTTAATTTA-AA
**
6130239 TTAAATAAATT-TTTAATTTAAA
1 TT-AATATTTTATTTAATTTAAA
*
6130261 TTAATATTTTATTTAATATAAA
1 TTAATATTTTATTTAATTTAAA
6130283 AATTTAATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
21 9 0.13
22 22 0.31
23 22 0.31
24 11 0.15
25 2 0.03
26 3 0.04
27 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAATATTTTATTTAATTTAAA
Found at i:6130287 original size:18 final size:18
Alignment explanation
Indices: 6130250--6130300 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
6130240 TAAATAAATT
* *
6130250 TTTAATTTAA-ATTAATA
1 TTTAATTTAATATAAAAA
*
6130267 TTTTATTTAATATAAAAA
1 TTTAATTTAATATAAAAA
6130285 TTTAATTTAATATAAA
1 TTTAATTTAATATAAA
6130301 TTAAAAGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 9 0.31
18 20 0.69
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTAATTTAATATAAAAA
Found at i:6130527 original size:1 final size:1
Alignment explanation
Indices: 6130521--6130545 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
6130511 TTGGGATTGT
6130521 GGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGG
6130546 ATTGGGTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:6130756 original size:13 final size:13
Alignment explanation
Indices: 6130740--6130776 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
6130730 ATCAATATTT
*
6130740 AAATATATATTAA
1 AAATAAATATTAA
6130753 AAATAAATATTAA
1 AAATAAATATTAA
*
6130766 ATATAAATATT
1 AAATAAATATT
6130777 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATAAATATTAA
Found at i:6132101 original size:22 final size:21
Alignment explanation
Indices: 6132073--6132116 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
6132063 CAAAGATTTT
6132073 TTTATA-TTTATAATTATAATTA
1 TTTATATTTTAT-ATTA-AATTA
6132095 TTTATATTTTATATTAAATTA
1 TTTATATTTTATATTAAATTA
6132116 T
1 T
6132117 ACAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
22 10 0.48
23 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTATATTTTATATTAAATTA
Found at i:6132374 original size:2 final size:2
Alignment explanation
Indices: 6132367--6132402 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6132357 AAGCCATGGC
6132367 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6132403 CCTACAATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6132880 original size:3 final size:3
Alignment explanation
Indices: 6132872--6132903 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6132862 GTTCAAAGTC
6132872 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6132904 TAATGCCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6133390 original size:2 final size:2
Alignment explanation
Indices: 6133385--6133417 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6133375 TGGGGAGAAG
6133385 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6133418 GTCATGCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6133684 original size:24 final size:24
Alignment explanation
Indices: 6133641--6133689 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
6133631 GGTATTAATT
**
6133641 AAAATAATTAATTATTTTTTTTAAA
1 AAAATAATTAATTA-ACTTTTTAAA
6133666 AAAAT-ATTAATTAACTTTTTAAA
1 AAAATAATTAATTAACTTTTTAAA
6133689 A
1 A
6133690 GTACTCTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 9 0.41
24 8 0.36
25 5 0.23
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
AAAATAATTAATTAACTTTTTAAA
Found at i:6134711 original size:16 final size:16
Alignment explanation
Indices: 6134664--6134719 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
6134654 TAAACCTGAT
6134664 TGATCCGAATCTGAAA
1 TGATCCGAATCTGAAA
* *
6134680 TAATCTGAA-CTCGAAA
1 TGATCCGAATCT-GAAA
6134696 TGATCCGAATCTGAAA
1 TGATCCGAATCTGAAA
6134712 TGA-CCGAA
1 TGATCCGAA
6134720 CTCAAAACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
15 7 0.21
16 25 0.74
17 2 0.06
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (16 bp):
TGATCCGAATCTGAAA
Found at i:6137986 original size:22 final size:23
Alignment explanation
Indices: 6137961--6138025 Score: 89
Period size: 23 Copynumber: 2.8 Consensus size: 23
6137951 GAATGATTCA
6137961 TTTTAAAAAAGA-GATTGA-TTTT
1 TTTTAAAAAAGATGATT-ATTTTT
*
6137983 TTTTAAAAAAAATGATTATTTTT
1 TTTTAAAAAAGATGATTATTTTT
6138006 TTTTAAAAAAGATCGATTAT
1 TTTTAAAAAAGAT-GATTAT
6138026 ATTTAATAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.32
23 20 0.53
24 6 0.16
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (23 bp):
TTTTAAAAAAGATGATTATTTTT
Found at i:6137999 original size:23 final size:21
Alignment explanation
Indices: 6137961--6138015 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
6137951 GAATGATTCA
*
6137961 TTTTAAAAAAGAGATTGATTTT
1 TTTTAAAAAAAAGATT-ATTTT
6137983 TTTTAAAAAAAATGATTATTTT
1 TTTTAAAAAAAA-GATTATTTT
*
6138005 TTTTTAAAAAA
1 TTTTAAAAAAA
6138016 GATCGATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (21 bp):
TTTTAAAAAAAAGATTATTTT
Found at i:6138075 original size:21 final size:21
Alignment explanation
Indices: 6138049--6138088 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6138039 AATAATTTTT
6138049 TTTTAA-AAATGATCAATCTCC
1 TTTTAAGAAAT-ATCAATCTCC
*
6138070 TTTTAAGAAATATCGATCT
1 TTTTAAGAAATATCAATCT
6138089 TTTTTACGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (21 bp):
TTTTAAGAAATATCAATCTCC
Found at i:6139626 original size:53 final size:53
Alignment explanation
Indices: 6139563--6139673 Score: 195
Period size: 53 Copynumber: 2.1 Consensus size: 53
6139553 TTTTCCCAAG
* **
6139563 AAAATGCCCAGAGCAAGAAAACTAACCTAATGTCTTGTGGATTTTATACTTCA
1 AAAAGGCCCAGAGCAAGAAAACTAACCTAATGTCTTAAGGATTTTATACTTCA
6139616 AAAAGGCCCAGAGCAAGAAAACTAACCTAATGTCTTAAGGATTTTATACTTCA
1 AAAAGGCCCAGAGCAAGAAAACTAACCTAATGTCTTAAGGATTTTATACTTCA
6139669 AAAAG
1 AAAAG
6139674 AAAGAAAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.25
Consensus pattern (53 bp):
AAAAGGCCCAGAGCAAGAAAACTAACCTAATGTCTTAAGGATTTTATACTTCA
Found at i:6140474 original size:22 final size:23
Alignment explanation
Indices: 6140422--6140475 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
6140412 AATTAAACTC
6140422 AATAATTTAAATAAATCAAGTTT
1 AATAATTTAAATAAATCAAGTTT
* * *
6140445 AA-ATATTTTAAT-GATCAATTTT
1 AATA-ATTTAAATAAATCAAGTTT
6140467 AATAATTTA
1 AATAATTTA
6140476 TAAATTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (23 bp):
AATAATTTAAATAAATCAAGTTT
Found at i:6143905 original size:3 final size:3
Alignment explanation
Indices: 6143897--6143922 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6143887 TACTCGTGAG
6143897 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
6143923 TAAAAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6144394 original size:13 final size:13
Alignment explanation
Indices: 6144376--6144401 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6144366 ATTAAAAATT
6144376 TTAAAAAAATTAA
1 TTAAAAAAATTAA
6144389 TTAAAAAAATTAA
1 TTAAAAAAATTAA
6144402 AAGCAAATAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAAAAAATTAA
Found at i:6148155 original size:31 final size:31
Alignment explanation
Indices: 6148111--6148173 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
6148101 TTGTCCCTAA
6148111 ATCATAAAAAACT-CTCAAGCAAAGGTAAGAG
1 ATCATAAAAAACTCCT-AAGCAAAGGTAAGAG
** * *
6148142 ATCATAACTAACTCCTAAGTAATGGTAAGAG
1 ATCATAAAAAACTCCTAAGCAAAGGTAAGAG
6148173 A
1 A
6148174 GTGGATGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.21
Consensus pattern (31 bp):
ATCATAAAAAACTCCTAAGCAAAGGTAAGAG
Found at i:6150150 original size:58 final size:58
Alignment explanation
Indices: 6150086--6150294 Score: 206
Period size: 58 Copynumber: 3.6 Consensus size: 58
6150076 CATAAAATAT
* *
6150086 CTAGATCATGAAAAATGACCTAAATGACATCAAAATGCATGAAATGACATAGAAGTCC
1 CTAGATCAAGAAAAATGACCTAAATGACATCAAAATGCATGAAATGACATAAAAGTCC
* * * ** * **
6150144 CTAGATCACGAAAAATGACCTAAATGGCATTAAAAT-CACAAAATTG-TATCCAAGTCC
1 CTAGATCAAGAAAAATGACCTAAATGACATCAAAATGCATGAAA-TGACATAAAAGTCC
* * * * **
6150201 CTAGATTAAGAAAAATTACCTAAATGACATCAAAATGTATGATATGACATAAAAGTTA
1 CTAGATCAAGAAAAATGACCTAAATGACATCAAAATGCATGAAATGACATAAAAGTCC
* * * * *
6150259 CTAGATTAAGTAGAATGGCCTAAATGGCATCAAAAT
1 CTAGATCAAGAAAAATGACCTAAATGACATCAAAAT
6150295 TCACAAAATT
Statistics
Matches: 121, Mismatches: 27, Indels: 6
0.79 0.18 0.04
Matches are distributed among these distances:
57 46 0.38
58 75 0.62
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (58 bp):
CTAGATCAAGAAAAATGACCTAAATGACATCAAAATGCATGAAATGACATAAAAGTCC
Found at i:6150234 original size:115 final size:116
Alignment explanation
Indices: 6150086--6150314 Score: 307
Period size: 115 Copynumber: 2.0 Consensus size: 116
6150076 CATAAAATAT
* * *
6150086 CTAGATCATGAAAAATGACCTAAATGACATCAAAATGCATGAAATGACATAGAAGTCCCTAGATC
1 CTAGATCAAGAAAAATGACCTAAATGACATCAAAATGCATGAAATGACATAAAAGTCACTAGATC
* * *
6150151 ACGAAAAATGACCTAAATGGCATTAAAA-TCACAAAATTGTATCCAAGTCC
66 AAGAAAAATGACCTAAATGGCATCAAAATTCACAAAATTGAATCCAAGTCC
* * * * * *
6150201 CTAGATTAAGAAAAATTACCTAAATGACATCAAAATGTATGATATGACATAAAAGTTACTAGATT
1 CTAGATCAAGAAAAATGACCTAAATGACATCAAAATGCATGAAATGACATAAAAGTCACTAGATC
* * * *
6150266 AAGTAGAATGGCCTAAATGGCATCAAAATTCACAAAATTGAATTCAAGT
66 AAGAAAAATGACCTAAATGGCATCAAAATTCACAAAATTGAATCCAAGT
6150315 TTTTAGATCA
Statistics
Matches: 97, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
115 79 0.81
116 18 0.19
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (116 bp):
CTAGATCAAGAAAAATGACCTAAATGACATCAAAATGCATGAAATGACATAAAAGTCACTAGATC
AAGAAAAATGACCTAAATGGCATCAAAATTCACAAAATTGAATCCAAGTCC
Found at i:6150484 original size:58 final size:58
Alignment explanation
Indices: 6150423--6150652 Score: 182
Period size: 58 Copynumber: 3.9 Consensus size: 58
6150413 ATAAAATAAT
* * *
6150423 ATAAA-AGTCCTTAAAAGATGACAAATTATTAAAATGAGCCTAAAATGCATGAAATTTT
1 ATAAATAGTCC-TAAAACATGACAAATTACTAAAATGAGCCTAAAATGCATGAAATTTC
** * * * * * *
6150481 ATAAA-AGGGTTTTCAATCATGGCAAATGACTAAAATGATGCAT-AAATGCATGAAATTAC
1 ATAAATA--GTCCTAAAACATGACAAATTACTAAAATGA-GCCTAAAATGCATGAAATTTC
* * * *
6150540 CTAAATTA-TTCTAAAACATGACAAATTACTAAAAT-AACCTTAAAATACATGAAATTTC
1 ATAAA-TAGTCCTAAAACATGACAAATTACTAAAATGAGCC-TAAAATGCATGAAATTTC
* * * * * *
6150598 ATAAATAATCCTAAAATATGACAAATTGCTAAAATGATCTTAAAATGCGTGAAAT
1 ATAAATAGTCCTAAAACATGACAAATTACTAAAATGAGCCTAAAATGCATGAAAT
6150653 GACAAAATGA
Statistics
Matches: 134, Mismatches: 29, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
56 1 0.01
57 4 0.03
58 83 0.62
59 40 0.30
60 5 0.04
61 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.29
Consensus pattern (58 bp):
ATAAATAGTCCTAAAACATGACAAATTACTAAAATGAGCCTAAAATGCATGAAATTTC
Found at i:6150643 original size:29 final size:29
Alignment explanation
Indices: 6150533--6150643 Score: 86
Period size: 29 Copynumber: 3.8 Consensus size: 29
6150523 TAAATGCATG
* * *
6150533 AAATTACCTAAATTATTC-TAAAACATGAC
1 AAATTA-CTAAAATAATCTTAAAATATGAC
*
6150562 AAATTACTAAAATAACCTTAAAATACATG--
1 AAATTACTAAAATAATCTTAAAAT--ATGAC
* *
6150591 AAATTTC-ATAAATAATCCTAAAATATGAC
1 AAATTACTA-AAATAATCTTAAAATATGAC
* *
6150620 AAATTGCTAAAATGATCTTAAAAT
1 AAATTACTAAAATAATCTTAAAAT
6150644 GCGTGAAATG
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
27 3 0.05
28 9 0.14
29 49 0.75
30 1 0.02
31 3 0.05
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.31
Consensus pattern (29 bp):
AAATTACTAAAATAATCTTAAAATATGAC
Found at i:6156395 original size:118 final size:116
Alignment explanation
Indices: 6156155--6156479 Score: 350
Period size: 118 Copynumber: 2.8 Consensus size: 116
6156145 TACATATATG
* * * * * * *
6156155 AAATTGCAT-AAAATTTTCTAGATAATGAAAAATGGCCTAAATGACATCACAATGTATGAAATGA
1 AAATTGCATCAAAATTCT-TAGATCATGATAAATGACCTAAATGACATCAAAATGCATAAAATGA
* *
6156219 CATAAAAGTTCATAGATCATGAAAAATGAATTAAATGGCATCAAAATTTACA
65 CATAAAAGTCCATAGATCATGAAAAATGAATTAAATGGCATCAAAATTAACA
*
6156271 AAATTGCATCAAAATTCTTAGATCATGGTAAATGACCTAAATGACATCAAAATGCATAAAATGAC
1 AAATTGCATCAAAATTCTTAGATCATGATAAATGACCTAAATGACATCAAAATGCATAAAATGAC
* * *
6156336 ATATATATA-TCCTTAGATCATGGAAAATG-ATGTAAATGGCATCAAAATTAATA
66 ATA-A-A-AGTCCATAGATCATGAAAAATGAAT-TAAATGGCATCAAAATTAACA
* * * * * * ** ***
6156389 AAATTGCATCCAAGTCCTTAGATCATGATAATTGACCTAAATGGCATCAATATGTGTAAAATTTT
1 AAATTGCATCAAAATTCTTAGATCATGATAAATGACCTAAATGACATCAAAATGCATAAAATGAC
*
6156454 ATAAAAGTCCCTAGATCATGGAAAAA
66 ATAAAAGTCCATAGATCAT-GAAAAA
6156480 GGTCTAAATG
Statistics
Matches: 175, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
115 1 0.01
116 64 0.37
117 16 0.09
118 93 0.53
119 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (116 bp):
AAATTGCATCAAAATTCTTAGATCATGATAAATGACCTAAATGACATCAAAATGCATAAAATGAC
ATAAAAGTCCATAGATCATGAAAAATGAATTAAATGGCATCAAAATTAACA
Found at i:6156518 original size:58 final size:57
Alignment explanation
Indices: 6156173--6156526 Score: 259
Period size: 58 Copynumber: 6.1 Consensus size: 57
6156163 TAAAATTTTC
* * * * * *
6156173 TAGATAATGAAAAATGGCCTAAATGACATCACAATGTATGAAATGACATAAAAGTTCA
1 TAGATCATGAAAAA-GACCTAAATGACATCAAAATGTATAAAATGACATAAAAGTCCT
** * * * *
6156231 TAGATCATGAAAAATGAATTAAATGGCATCAAAATTTACAAAATTG-CATCAAAA-TTCT
1 TAGATCATGAAAAA-GACCTAAATGACATCAAAATGTATAAAA-TGACAT-AAAAGTCCT
* * *
6156289 TAGATCATGGTAAATGACCTAAATGACATCAAAATGCATAAAATGACATATATATA-TCCT
1 TAGATCAT-GAAAAAGACCTAAATGACATCAAAATGTATAAAATGACATA-A-A-AGTCCT
* ** * **
6156349 TAGATCATGGAAAATGATGTAAATGGCATCAAAAT-TAATAAAATTG-CATCCAAGTCCT
1 TAGATCAT-GAAAAAGACCTAAATGACATCAAAATGT-ATAAAA-TGACATAAAAGTCCT
** * * * *** *
6156407 TAGATCATGATAATTGACCTAAATGGCATCAATATGTGTAAAATTTTATAAAAGTCCC
1 TAGATCATGA-AAAAGACCTAAATGACATCAAAATGTATAAAATGACATAAAAGTCCT
** *
6156465 TAGATCATGGAAAAAGGTCTAAATGACATCAACATGTATAAAATGACATAAAAGTCCT
1 TAGATCAT-GAAAAAGACCTAAATGACATCAAAATGTATAAAATGACATAAAAGTCCT
6156523 TAGA
1 TAGA
6156527 AGATGGTAAA
Statistics
Matches: 235, Mismatches: 47, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
57 7 0.03
58 168 0.71
59 14 0.06
60 44 0.19
61 2 0.01
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (57 bp):
TAGATCATGAAAAAGACCTAAATGACATCAAAATGTATAAAATGACATAAAAGTCCT
Found at i:6156520 original size:116 final size:117
Alignment explanation
Indices: 6156155--6156526 Score: 305
Period size: 116 Copynumber: 3.2 Consensus size: 117
6156145 TACATATATG
** * * * * * *
6156155 AAATTGCATAAAA-TTTTCTAGATAATGAAAAATGGCCTAAATGACATCACAATGTATGAAATGA
1 AAATTGCATAAAAGTCCT-TAGATCATGATAAATGACCTAAATGACATCAAAATGCATAAAAT-A
* * * * * *
6156219 CATA-A-AAGTTCATAGATCAT-GAAAAATGAAT-TAAATGGCATCAAAATTTACA
64 CATATATAAATCCCTAGATCATGGAAAAA-G-ATCTAAATGACATCAAAATTAATA
* *
6156271 AAATTGCATCAAAA-TTCTTAGATCATGGTAAATGACCTAAATGACATCAAAATGCATAAAATGA
1 AAATTGCAT-AAAAGTCCTTAGATCATGATAAATGACCTAAATGACATCAAAATGCATAAAAT-A
* * * * *
6156335 CATATATATATCCTTAGATCATGGAAAATGATGTAAATGGCATCAAAATTAATA
64 CATATATAAATCCCTAGATCATGGAAAAAGATCTAAATGACATCAAAATTAATA
** * * * ** **
6156389 AAATTGCATCCAAGTCCTTAGATCATGATAATTGACCTAAATGGCATCAATATGTGTAAAAT-TT
1 AAATTGCATAAAAGTCCTTAGATCATGATAAATGACCTAAATGACATCAAAATGCATAAAATACA
* *
6156453 TATA-AAAGTCCCTAGATCATGGAAAAAGGTCTAAATGACATCAACATGT-ATA
66 TATATAAA-TCCCTAGATCATGGAAAAAGATCTAAATGACATCAAAAT-TAATA
6156505 AAA-TGACATAAAAGTCCTTAGA
1 AAATTG-CATAAAAGTCCTTAGA
6156527 AGATGGTAAA
Statistics
Matches: 212, Mismatches: 35, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
115 4 0.02
116 109 0.51
117 13 0.06
118 81 0.38
119 5 0.02
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.28
Consensus pattern (117 bp):
AAATTGCATAAAAGTCCTTAGATCATGATAAATGACCTAAATGACATCAAAATGCATAAAATACA
TATATAAATCCCTAGATCATGGAAAAAGATCTAAATGACATCAAAATTAATA
Found at i:6156632 original size:58 final size:59
Alignment explanation
Indices: 6156570--6156780 Score: 182
Period size: 59 Copynumber: 3.6 Consensus size: 59
6156560 ATAAAATTGT
* *
6156570 ATAAAAGGTTCT-AAATCATGGCAAATGACTAAAATGATGCAT-AAATGCATGGAATTAC
1 ATAAAAGGTTCTAAAATCATGGCAAATTACTAAAATGAT-CATAAAATGCATGCAATTAC
* * * ** * *
6156628 ATAAATGGTCCTAAAAACATAACAAATTACTAAAATGATCGTAAAATGCATGCAATTGC
1 ATAAAAGGTTCTAAAATCATGGCAAATTACTAAAATGATCATAAAATGCATGCAATTAC
* * ** * * *
6156687 ATAAATA-G-TCTTAAAAT-ATGGCAAATTACTAAAATGAACTTAAAATTTACGAAATCAC
1 ATAAA-AGGTTC-TAAAATCATGGCAAATTACTAAAATGATCATAAAATGCATGCAATTAC
* *
6156745 ATAAAATGGTCCTAAAAT-ATGGCAAATTAGTAAAAT
1 ATAAAA-GGTTCTAAAATCATGGCAAATTACTAAAAT
6156781 AACCTTAAAA
Statistics
Matches: 122, Mismatches: 24, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
57 1 0.01
58 49 0.40
59 71 0.58
60 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (59 bp):
ATAAAAGGTTCTAAAATCATGGCAAATTACTAAAATGATCATAAAATGCATGCAATTAC
Found at i:6156721 original size:29 final size:29
Alignment explanation
Indices: 6156689--6156792 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 29
6156679 GCAATTGCAT
6156689 AAATAGTCTTAAAATATGGCAAATTACTA
1 AAATAGTCTTAAAATATGGCAAATTACTA
* ** *
6156718 AAAT-GAACTTAAAAT-TTACGAAATCACATA
1 AAATAG-TCTTAAAATATGGC-AAATTAC-TA
* * *
6156748 AAATGGTCCTAAAATATGGCAAATTAGTA
1 AAATAGTCTTAAAATATGGCAAATTACTA
**
6156777 AAATAACCTTAAAATA
1 AAATAGTCTTAAAATA
6156793 CATTGAATGA
Statistics
Matches: 56, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
28 3 0.05
29 32 0.57
30 18 0.32
31 3 0.05
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.28
Consensus pattern (29 bp):
AAATAGTCTTAAAATATGGCAAATTACTA
Found at i:6158585 original size:11 final size:11
Alignment explanation
Indices: 6158569--6158601 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
6158559 AGAAAAGTTT
6158569 GAAATTTAAAA
1 GAAATTTAAAA
6158580 GAAATTTAAAA
1 GAAATTTAAAA
*
6158591 GAAATTGAAAA
1 GAAATTTAAAA
6158602 AGAGGCAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (11 bp):
GAAATTTAAAA
Done.