Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 214 of 240
Found at i:64594102 original size:19 final size:18
Alignment explanation
Indices: 64594078--64594113 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
64594068 AATTCATTTT
*
64594078 TAATTTATATATTTTTTAA
1 TAATTT-TATAATTTTTAA
64594097 TAATTTTATAATTTTTA
1 TAATTTTATAATTTTTA
64594114 TTTTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TAATTTTATAATTTTTAA
Found at i:64596886 original size:20 final size:20
Alignment explanation
Indices: 64596861--64596900 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
64596851 CAAGAGTATG
64596861 TTCAATAACTTATATTTGAT
1 TTCAATAACTTATATTTGAT
64596881 TTCAATAACTTATATTTGAT
1 TTCAATAACTTATATTTGAT
64596901 GAATAAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (20 bp):
TTCAATAACTTATATTTGAT
Found at i:64607375 original size:32 final size:32
Alignment explanation
Indices: 64607339--64607399 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
64607329 ACAATCTACT
64607339 AAAACCACATAACAGTTGTACGTAATAAATAA
1 AAAACCACATAACAGTTGTACGTAATAAATAA
64607371 AAAACCACATAACAGTTGTACGTAATAAA
1 AAAACCACATAACAGTTGTACGTAATAAA
64607400 ATTCGAATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.52, C:0.16, G:0.10, T:0.21
Consensus pattern (32 bp):
AAAACCACATAACAGTTGTACGTAATAAATAA
Found at i:64615834 original size:23 final size:26
Alignment explanation
Indices: 64615803--64615853 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
64615793 GTGTTCACCT
64615803 TATACATA-TTA-A-TCATGAATTAA
1 TATACATATTTACATTCATGAATTAA
*
64615826 TATATATATTTACATTTCATGAATTAA
1 TATACATATTTACA-TTCATGAATTAA
64615853 T
1 T
64615854 CATCAACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 7 0.30
24 3 0.13
25 1 0.04
27 12 0.52
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (26 bp):
TATACATATTTACATTCATGAATTAA
Found at i:64617017 original size:7 final size:7
Alignment explanation
Indices: 64616983--64617016 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
64616973 CCAAAACCAA
64616983 AACCATT
1 AACCATT
64616990 AACCATT
1 AACCATT
64616997 AACCATT
1 AACCATT
*
64617004 AACCATC
1 AACCATT
64617011 AACCAT
1 AACCAT
64617017 CTTACATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (7 bp):
AACCATT
Found at i:64619559 original size:5 final size:5
Alignment explanation
Indices: 64619549--64619579 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
64619539 CCATTCATTG
64619549 TACTA TACTA TACTA TACTA TACTA TACTA T
1 TACTA TACTA TACTA TACTA TACTA TACTA T
64619580 CACCATTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (5 bp):
TACTA
Found at i:64623047 original size:73 final size:73
Alignment explanation
Indices: 64622960--64623145 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
64622950 ACAACTTGAC
64622960 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
64623025 CACTAACA
66 CACTAACA
*
64623033 AACTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
64623098 CACTAACA
66 CACTAACA
*
64623106 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
64623146 AATAATAATA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 110 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:64627464 original size:73 final size:73
Alignment explanation
Indices: 64627377--64627562 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
64627367 ACAACTTGAC
64627377 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
64627442 CACTAACA
66 CACTAACA
*
64627450 AACTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
64627515 CACTAACA
66 CACTAACA
*
64627523 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
64627563 AATAATAATA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 110 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:64631017 original size:22 final size:23
Alignment explanation
Indices: 64630992--64631036 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
64630982 ATATCGGCTA
* *
64630992 AATTAGTCATATATGT-TTTTTT
1 AATTAGTCAAATAGGTCTTTTTT
*
64631014 AATTGGTCAAATAGGTCTTTTTT
1 AATTAGTCAAATAGGTCTTTTTT
64631037 TTCTTGAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (23 bp):
AATTAGTCAAATAGGTCTTTTTT
Found at i:64632422 original size:21 final size:21
Alignment explanation
Indices: 64632384--64632423 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
64632374 TTTTCTTTTT
* *
64632384 TTAAAAAATTTTCTGTGGTGC
1 TTAAAAAATTTGCAGTGGTGC
*
64632405 TTAAAATATTTGCAGTGGT
1 TTAAAAAATTTGCAGTGGT
64632424 TAAAGCAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.42
Consensus pattern (21 bp):
TTAAAAAATTTGCAGTGGTGC
Found at i:64637292 original size:17 final size:17
Alignment explanation
Indices: 64637266--64637306 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
64637256 GATATTTTTA
* *
64637266 AAAATCTTTATAAATAT
1 AAAATATTTATAAAAAT
64637283 AAAATATTTATAAAAAT
1 AAAATATTTATAAAAAT
64637300 ATAAATA
1 A-AAATA
64637307 AAATTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATATTTATAAAAAT
Found at i:64637456 original size:38 final size:38
Alignment explanation
Indices: 64637377--64637449 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
64637367 AAAATTTTAA
* ** * * *
64637377 AAAATTATTAGAATTTGTAAAATATTGTAGAAAATTAT
1 AAAATCATTAGAAACTGTAAAAGATTGTAAAAAAATAT
64637415 AAAATCATTAGAAACTGTAAAAGATTGTAAAAAAA
1 AAAATCATTAGAAACTGTAAAAGATTGTAAAAAAA
64637450 ATTAAAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.55, C:0.03, G:0.11, T:0.32
Consensus pattern (38 bp):
AAAATCATTAGAAACTGTAAAAGATTGTAAAAAAATAT
Found at i:64638193 original size:18 final size:18
Alignment explanation
Indices: 64638170--64638204 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
64638160 TTAGTATTGA
*
64638170 TTTTAAAAATTAAAAAAC
1 TTTTAAAAAATAAAAAAC
64638188 TTTTAAAAAATAAAAAA
1 TTTTAAAAAATAAAAAA
64638205 AATAAAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TTTTAAAAAATAAAAAAC
Found at i:64638205 original size:19 final size:18
Alignment explanation
Indices: 64638170--64638205 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
64638160 TTAGTATTGA
*
64638170 TTTTAAAAATTAAAAAAC
1 TTTTAAAAATAAAAAAAC
64638188 TTTTAAAAAATAAAAAAA
1 TTTT-AAAAATAAAAAAA
64638206 ATAAAAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TTTTAAAAATAAAAAAAC
Found at i:64638378 original size:17 final size:16
Alignment explanation
Indices: 64638356--64638408 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
64638346 AACCTACAAG
64638356 ACTTAAACCAAATTCAA
1 ACTTAAACC-AATTCAA
*
64638373 ACTTAAACC--TACAA
1 ACTTAAACCAATTCAA
64638387 GACTTAAACCATATTCAA
1 -ACTTAAACCA-ATTCAA
64638405 ACTT
1 ACTT
64638409 TTCCATCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 4 0.13
15 9 0.30
17 13 0.43
18 4 0.13
ACGTcount: A:0.47, C:0.25, G:0.02, T:0.26
Consensus pattern (16 bp):
ACTTAAACCAATTCAA
Found at i:64638381 original size:32 final size:32
Alignment explanation
Indices: 64638345--64638408 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
64638335 ATATTAAAAA
64638345 AAACCTACAAGACTTAAACCAAATTCAAACTT
1 AAACCTACAAGACTTAAACCAAATTCAAACTT
*
64638377 AAACCTACAAGACTTAAACCATATTCAAACTT
1 AAACCTACAAGACTTAAACCAAATTCAAACTT
64638409 TTCCATCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.25, G:0.03, T:0.23
Consensus pattern (32 bp):
AAACCTACAAGACTTAAACCAAATTCAAACTT
Found at i:64638393 original size:15 final size:15
Alignment explanation
Indices: 64638345--64638396 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
64638335 ATATTAAAAA
64638345 AAACCTACAAGACTT
1 AAACCTACAAGACTT
*
64638360 AAACCAAATTCAA-ACTT
1 AAACC---TACAAGACTT
64638377 AAACCTACAAGACTT
1 AAACCTACAAGACTT
64638392 AAACC
1 AAACC
64638397 ATATTCAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 4 0.13
15 14 0.45
17 9 0.29
18 4 0.13
ACGTcount: A:0.50, C:0.27, G:0.04, T:0.19
Consensus pattern (15 bp):
AAACCTACAAGACTT
Found at i:64647075 original size:20 final size:20
Alignment explanation
Indices: 64647050--64647098 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
64647040 CAAATACTAA
*
64647050 AAAAATATAAAAACATCTAG
1 AAAAATATAAAAACATATAG
* * *
64647070 AAAAATATATATATATATAG
1 AAAAATATAAAAACATATAG
64647090 AAAAATATA
1 AAAAATATA
64647099 TATGGAGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (20 bp):
AAAAATATAAAAACATATAG
Found at i:64655331 original size:35 final size:35
Alignment explanation
Indices: 64655280--64655350 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
64655270 AAAGACCATG
64655280 ACCTCTAGCGGCGCTTTTACCACAAACGCCGCTAA
1 ACCTCTAGCGGCGCTTTTACCACAAACGCCGCTAA
* * *
64655315 ACCTTTAGCGGCGCTTTTCCCACAAGCGCCGCTAA
1 ACCTCTAGCGGCGCTTTTACCACAAACGCCGCTAA
64655350 A
1 A
64655351 GAACAAACCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.21
Consensus pattern (35 bp):
ACCTCTAGCGGCGCTTTTACCACAAACGCCGCTAA
Found at i:64655387 original size:42 final size:41
Alignment explanation
Indices: 64655313--64655405 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 41
64655303 AAACGCCGCT
* * * * *
64655313 AAACCTTTAGCGGCGCTTTTCCCACAAGCGCCGCTAAAGAAC
1 AAACCTTTAGCGACGCTTCTACCAAAAACGCCGCTAAA-AAC
*
64655355 AAACCTTTAGCGACGCTTCTAGCAAAAACGCCGCTAAAAAC
1 AAACCTTTAGCGACGCTTCTACCAAAAACGCCGCTAAAAAC
*
64655396 ATAATCTTTA
1 A-AACCTTTA
64655406 AAAAAATTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 4 0.09
42 39 0.91
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (41 bp):
AAACCTTTAGCGACGCTTCTACCAAAAACGCCGCTAAAAAC
Found at i:64660831 original size:41 final size:41
Alignment explanation
Indices: 64660786--64661062 Score: 431
Period size: 41 Copynumber: 6.9 Consensus size: 41
64660776 TATGATAAAT
* * *
64660786 CTGAGCATTAGCGACGCTTCTTAAAAAATGCCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCC
64660827 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCC
64660868 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCC
*
64660909 CTGAGCATTAGCGTCGCTTCTTC-AAAACGCCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCC
*
64660949 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAACC
1 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCC
* * * *
64660990 CTGAGCATTAGCGACGATTCTTTAAAAATGCCGCTAAA---
1 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCC
64661028 --GAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAA
1 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAA
64661063 TGCTCATTTT
Statistics
Matches: 221, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
36 31 0.14
40 39 0.18
41 151 0.68
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (41 bp):
CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCC
Found at i:64660957 original size:122 final size:119
Alignment explanation
Indices: 64660781--64661062 Score: 415
Period size: 122 Copynumber: 2.3 Consensus size: 119
64660771 TTTAATATGA
* *
64660781 TAAATCTGAGCATTAGCGACGCTTCTTAAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTT
1 TAAA-CTGAGCATTAGCGACGCTTCTT-CAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTT
* * *
64660846 CTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
64 CTTCAAAAACGCCGCTAAAACCCTGAGCATTAGCGACGATTCTTCAAAAACGCCGC
*
64660902 TAAAGCCCTGAGCATTAGCGTCGCTTCTTCAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCT
1 TAAA---CTGAGCATTAGCGACGCTTCTTCAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCT
* *
64660967 TCTTCAAAAACGCCGCTAAAACCCTGAGCATTAGCGACGATTCTTTAAAAATGCCGC
63 TCTTCAAAAACGCCGCTAAAACCCTGAGCATTAGCGACGATTCTTCAAAAACGCCGC
*
64661024 TAAA--GAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAA
1 TAAACTGAGCATTAGCGACGCTTCTTC-AAAACGCCGCTAA
64661063 TGCTCATTTT
Statistics
Matches: 148, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
117 20 0.14
118 13 0.09
121 4 0.03
122 90 0.61
123 21 0.14
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (119 bp):
TAAACTGAGCATTAGCGACGCTTCTTCAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCT
TCAAAAACGCCGCTAAAACCCTGAGCATTAGCGACGATTCTTCAAAAACGCCGC
Found at i:64660974 original size:81 final size:81
Alignment explanation
Indices: 64660786--64661062 Score: 420
Period size: 81 Copynumber: 3.5 Consensus size: 81
64660776 TATGATAAAT
* * * *
64660786 CTGAGCATTAGCGACGCTTCTTAAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCTTCA
1 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCTTC-
64660851 AAAACGCCGCTAAAGCC
65 AAAACGCCGCTAAAGCC
*
64660868 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGTCGCTTCTTCA
1 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCTTCA
64660933 AAACGCCGCTAAAGCC
66 AAACGCCGCTAAAGCC
* * *
64660949 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAACCCTGAGCATTAGCGACGATTCTTTA
1 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTC-TTC
*
64661014 AAAATGCCGCTAAA---
65 AAAACGCCGCTAAAGCC
64661028 --GAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAA
1 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAA
64661063 TGCTCATTTT
Statistics
Matches: 185, Mismatches: 9, Indels: 7
0.92 0.04 0.03
Matches are distributed among these distances:
77 35 0.19
81 75 0.41
82 75 0.41
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (81 bp):
CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTCTTCA
AAACGCCGCTAAAGCC
Found at i:64661102 original size:39 final size:39
Alignment explanation
Indices: 64661033--64661165 Score: 119
Period size: 38 Copynumber: 3.4 Consensus size: 39
64661023 CTAAAGAGCA
* *
64661033 TTAGCGGCGCTTCTTCAAAAA-CGCCGCTAATGCTCATTT
1 TTAGCGGCG-TTTTTTAAAAAGCGCCGCTAATGCTCATTT
* * * *
64661072 TTAGCGGCGTTTTTTAAAAAGTGCCACTAATACTCGATCT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTC-ATTT
* * *
64661112 TTAGTGGC-ATTTTT-AAAAGCGCCGCTAATGCTTGATTT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGC-TCATTT
**
64661150 TTAGCGGTATTTTTTA
1 TTAGCGGCGTTTTTTA
64661166 TCCAAATGCC
Statistics
Matches: 73, Mismatches: 16, Indels: 9
0.74 0.16 0.09
Matches are distributed among these distances:
38 32 0.44
39 31 0.42
40 10 0.14
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.38
Consensus pattern (39 bp):
TTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCATTT
Found at i:64661140 original size:38 final size:39
Alignment explanation
Indices: 64661049--64661163 Score: 128
Period size: 38 Copynumber: 3.0 Consensus size: 39
64661039 GCGCTTCTTC
*
64661049 AAAAA-CGCCGCTAATGCTC-ATTTTTAGCGGCGTTTTTT
1 AAAAAGCGCCGCTAATGCTCGATTTTTAGCGGC-ATTTTT
* * * * *
64661087 AAAAAGTGCCACTAATACTCGATCTTTAGTGGCATTTTT
1 AAAAAGCGCCGCTAATGCTCGATTTTTAGCGGCATTTTT
* *
64661126 -AAAAGCGCCGCTAATGCTTGATTTTTAGCGGTATTTTT
1 AAAAAGCGCCGCTAATGCTCGATTTTTAGCGGCATTTTT
64661164 TATCCAAATG
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
38 36 0.58
39 16 0.26
40 10 0.16
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (39 bp):
AAAAAGCGCCGCTAATGCTCGATTTTTAGCGGCATTTTT
Found at i:64664184 original size:16 final size:16
Alignment explanation
Indices: 64664150--64664202 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
64664140 ATGGCATCAG
64664150 TCATGCAATACTCAAT
1 TCATGCAATACTCAAT
*
64664166 TCATG-AATACATCATT
1 TCATGCAATAC-TCAAT
* * *
64664182 TCATACCATACTCAAA
1 TCATGCAATACTCAAT
64664198 TCATG
1 TCATG
64664203 AGTATATAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 5 0.17
16 20 0.69
17 4 0.14
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.32
Consensus pattern (16 bp):
TCATGCAATACTCAAT
Found at i:64664474 original size:41 final size:41
Alignment explanation
Indices: 64664392--64664526 Score: 147
Period size: 41 Copynumber: 3.4 Consensus size: 41
64664382 CGCTAGTTGG
* *
64664392 CACCCAGTGCCTCATCG-AT-AATTCAAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAATAAATCCGAAGTAGTAAATTGA
*
64664431 CACCCAGTGTCTCATCGAATAAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAATAAATCCGAAGTAGTAAATTGA
* * ** * *
64664472 CACCTAGTGTCTCATCGGTTAAA-CTG-A--AGTAAATTGG
1 CACCCAGTGCCTCATCGAATAAATCCGAAGTAGTAAATTGA
64664509 CACCCAGTGCCTCATCGA
1 CACCCAGTGCCTCATCGA
64664527 CTCAAAATCG
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
37 24 0.29
39 17 0.20
40 4 0.05
41 38 0.46
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (41 bp):
CACCCAGTGCCTCATCGAATAAATCCGAAGTAGTAAATTGA
Found at i:64664703 original size:11 final size:11
Alignment explanation
Indices: 64664687--64664720 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
64664677 TCAAATAATC
64664687 AATATAT-TCAT
1 AATATATAT-AT
64664698 AATATATATAT
1 AATATATATAT
64664709 AATATATATAT
1 AATATATATAT
64664720 A
1 A
64664721 TATCAATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 21 0.95
12 1 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (11 bp):
AATATATATAT
Found at i:64665434 original size:15 final size:16
Alignment explanation
Indices: 64665414--64665444 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
64665404 AAGGCCGTGG
64665414 CTTTTTCTTT-TTTCT
1 CTTTTTCTTTCTTTCT
64665429 CTTTTTCTTTCTTTCT
1 CTTTTTCTTTCTTTCT
64665445 TTCCTGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
CTTTTTCTTTCTTTCT
Found at i:64665454 original size:19 final size:19
Alignment explanation
Indices: 64665417--64665454 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
64665407 GCCGTGGCTT
*
64665417 TTTCTTTTTTCTCTTTTTC
1 TTTCTTTTTTCTCTGTTTC
64665436 TTTCTTTCTTTC-CTGTTTC
1 TTTCTTT-TTTCTCTGTTTC
64665455 GTTTTGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTCTTTTTTCTCTGTTTC
Found at i:64667689 original size:18 final size:18
Alignment explanation
Indices: 64667666--64667709 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
64667656 GTTAATAGGT
*
64667666 ATTTCAATTC-ATAATTCA
1 ATTTCAATTCAAT-ATACA
*
64667684 ATTTCAAATCAATATACA
1 ATTTCAATTCAATATACA
64667702 ATTTCAAT
1 ATTTCAAT
64667710 CTATTCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTTCAATTCAATATACA
Found at i:64668027 original size:21 final size:21
Alignment explanation
Indices: 64668003--64668059 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
64667993 TTCGTTTCAC
*
64668003 TTCTCTGTTC-TTTCTTTCTTT
1 TTCT-TGTTCTTTTATTTCTTT
*
64668024 TTCTTTTTCTTTTATTTCTTT
1 TTCTTGTTCTTTTATTTCTTT
*
64668045 TAC-T-TTCTTTTATTT
1 TTCTTGTTCTTTTATTT
64668060 TATGTTATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 11 0.34
20 5 0.16
21 16 0.50
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (21 bp):
TTCTTGTTCTTTTATTTCTTT
Found at i:64668043 original size:15 final size:16
Alignment explanation
Indices: 64668013--64668052 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
64668003 TTCTCTGTTC
*
64668013 TTTCTTTCTTTTTCTT
1 TTTCTTTCTATTTCTT
64668029 TTTCTTT-TATTTCTT
1 TTTCTTTCTATTTCTT
*
64668044 TTACTTTCT
1 TTTCTTTCT
64668053 TTTATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTCTTTCTATTTCTT
Found at i:64668056 original size:10 final size:9
Alignment explanation
Indices: 64668029--64668059 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
64668019 TCTTTTTCTT
64668029 TTTCTTTTA
1 TTTCTTTTA
64668038 TTTCTTTTA
1 TTTCTTTTA
64668047 CTTTCTTTTA
1 -TTTCTTTTA
64668057 TTT
1 TTT
64668060 TATGTTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTCTTTTA
Found at i:64668941 original size:209 final size:206
Alignment explanation
Indices: 64668557--64668954 Score: 548
Period size: 209 Copynumber: 1.9 Consensus size: 206
64668547 TAGAATAAGG
* **
64668557 TTACTACTCTGCTTCTACTTGACATTAATTAGAATAAGGTTTTCAACCTATAAATAGATGTAGTT
1 TTACTACTCTGCTTCTACTTGACATTAATTAGAATAAGGTTTTCAACATATAAATAGATGTAGCC
* * * * *
64668622 GAAGCTCCTCTTGTATCATTCGAATTCGACATTAGTGAATTTTCTTCTCCTCTACTCGTGGTTTT
66 GAAACTCCTCTTGTATAATTCGAATTCGACAATAGTGAATTTTCTTCTCCTCTACCCGTAGTTTT
* * *
64668687 TTCCCGAAAGGGTTTCTACGTAAAATCTGTGTGTTCTTATTTTTTTTCTTATTGCTTTGCGATCG
131 TTCCCGAAAGGGTTTCCACGTAAAATCTATGTGTTCTTATTTTTTTTCTTATTACTTTGCGATCG
64668752 TTTTATGCTGC
196 TTTTATGCTGC
* * * * *
64668763 TTACTACAT-TGCTTCTATTTGATATTGATTAGAATAAGGATTTTCAATATATAAATATAGATTT
1 TTACTAC-TCTGCTTCTACTTGACATTAATTAGAATAAGG-TTTTCAACATAT-AA-ATAGATGT
* * *
64668827 AGCCGAAACTCCTCTTGTATAATTTGAATTCGACAATAGTGAATTTTCTTCTTCTCTGCCCGTAG
62 AGCCGAAACTCCTCTTGTATAATTCGAATTCGACAATAGTGAATTTTCTTCTCCTCTACCCGTAG
* * *
64668892 -TTTTTCTCGAAAGGGTTTCCACGTAAAATTTATTTGTTCTTATTTTTTTTCTTATTACTTTGC
127 TTTTTTCCCGAAAGGGTTTCCACGTAAAATCTATGTGTTCTTATTTTTTTTCTTATTACTTTGC
64668955 AATCATTCTA
Statistics
Matches: 166, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
206 34 0.20
207 11 0.07
208 59 0.36
209 62 0.37
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (206 bp):
TTACTACTCTGCTTCTACTTGACATTAATTAGAATAAGGTTTTCAACATATAAATAGATGTAGCC
GAAACTCCTCTTGTATAATTCGAATTCGACAATAGTGAATTTTCTTCTCCTCTACCCGTAGTTTT
TTCCCGAAAGGGTTTCCACGTAAAATCTATGTGTTCTTATTTTTTTTCTTATTACTTTGCGATCG
TTTTATGCTGC
Found at i:64680737 original size:21 final size:21
Alignment explanation
Indices: 64680711--64680751 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
64680701 AGACGAGCAA
* *
64680711 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
64680732 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
64680752 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:64682687 original size:16 final size:16
Alignment explanation
Indices: 64682654--64682687 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
64682644 GGAGATTGTT
* *
64682654 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
64682670 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
64682686 AA
1 AA
64682688 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:64687097 original size:20 final size:20
Alignment explanation
Indices: 64687064--64687102 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
64687054 ACAAAACTAA
64687064 TCCCATTGACTAAACAAATCC
1 TCCCATTGACTAAA-AAATCC
64687085 TCCCATT-ACTAAAAAATC
1 TCCCATTGACTAAAAAATC
64687103 TAATACTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.41, C:0.31, G:0.03, T:0.26
Consensus pattern (20 bp):
TCCCATTGACTAAAAAATCC
Found at i:64689149 original size:8 final size:8
Alignment explanation
Indices: 64689138--64689167 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
64689128 ATAAAAATTT
64689138 TTAAATAA
1 TTAAATAA
64689146 TTAAATAA
1 TTAAATAA
64689154 TTAAATAA
1 TTAAATAA
*
64689162 CTAAAT
1 TTAAAT
64689168 TATAACTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (8 bp):
TTAAATAA
Found at i:64699012 original size:17 final size:18
Alignment explanation
Indices: 64698998--64699031 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64698988 CAAATTAATT
64698998 TTTAT-TAATTTTTAAAC
1 TTTATATAATTTTTAAAC
*
64699015 TTTATATAATTTATAAA
1 TTTATATAATTTTTAAA
64699032 AATCATCTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTATATAATTTTTAAAC
Found at i:64699188 original size:20 final size:20
Alignment explanation
Indices: 64699165--64699217 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
64699155 TTTAATTTCA
64699165 TTTAATATTTTTTTATAAAT
1 TTTAATATTTTTTTATAAAT
* * *
64699185 TTTAATAATATTTTATATAT
1 TTTAATATTTTTTTATAAAT
*
64699205 TTATAAAATTTTT
1 TT-TAATATTTTT
64699218 AAAACATTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAATATTTTTTTATAAAT
Found at i:64702647 original size:21 final size:21
Alignment explanation
Indices: 64702621--64702661 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
64702611 ATCTGCTCAA
* *
64702621 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
64702642 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
64702662 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:64706558 original size:4 final size:4
Alignment explanation
Indices: 64706549--64706599 Score: 77
Period size: 4 Copynumber: 12.8 Consensus size: 4
64706539 TTCATCGAGC
*
64706549 ATTT ATTT ATTT ATTT ATTT ATTT -TATT ATTT ATTT ATTT ATTT ACTT
1 ATTT ATTT ATTT ATTT ATTT ATTT AT-TT ATTT ATTT ATTT ATTT ATTT
64706597 ATT
1 ATT
64706600 ATTCCTTTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 1 0.02
4 41 0.95
5 1 0.02
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:64707765 original size:2 final size:2
Alignment explanation
Indices: 64707758--64707806 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
64707748 TTTCTCGTGT
*
64707758 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
64707800 TC TC TC T
1 TC TC TC T
64707807 AAACGAAGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:64710845 original size:8 final size:9
Alignment explanation
Indices: 64710814--64710842 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
64710804 AAAATTTTTA
64710814 TTTAAAATT
1 TTTAAAATT
64710823 TTTAAAATT
1 TTTAAAATT
64710832 TTTAAAATT
1 TTTAAAATT
64710841 TT
1 TT
64710843 AAATTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTAAAATT
Found at i:64726881 original size:52 final size:48
Alignment explanation
Indices: 64726819--64727011 Score: 196
Period size: 47 Copynumber: 4.0 Consensus size: 48
64726809 GAAATGTGAT
* * *
64726819 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATTTGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
64726871 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * *
64726918 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * *
64726964 ATCCGTATAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAG--TGTGATATGTG
64727012 ACTATGTGCA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
46 27 0.22
47 53 0.43
48 11 0.09
50 1 0.01
51 1 0.01
52 29 0.24
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:64729768 original size:13 final size:13
Alignment explanation
Indices: 64729720--64729776 Score: 64
Period size: 13 Copynumber: 4.4 Consensus size: 13
64729710 CCATATAAAC
*
64729720 ATTTCATATAA-C
1 ATTTCATATAATT
*
64729732 ACTTCATATAATT
1 ATTTCATATAATT
64729745 ATTTCCATATAATT
1 ATTT-CATATAATT
64729759 GA-TTCATATAATT
1 -ATTTCATATAATT
64729772 ATTTC
1 ATTTC
64729777 GTTTATCTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 11 0.29
13 15 0.39
14 11 0.29
15 1 0.03
ACGTcount: A:0.37, C:0.14, G:0.02, T:0.47
Consensus pattern (13 bp):
ATTTCATATAATT
Found at i:64729796 original size:40 final size:40
Alignment explanation
Indices: 64729722--64729837 Score: 121
Period size: 40 Copynumber: 2.9 Consensus size: 40
64729712 ATATAAACAT
** *
64729722 TTCATATAA-CACTT-CATATAAT-TATTTCCATATAATTGA
1 TTCATATAACCA-TTACATAT-ATCTATTTCTGTATAACTGA
** * * *
64729761 TTCATATAATTATTTCGTTTATCTATTTCTGTATAACTGA
1 TTCATATAACCATTACATATATCTATTTCTGTATAACTGA
64729801 TTCATATAACCATTACATATATCTATTTCTGTATAAC
1 TTCATATAACCATTACATATATCTATTTCTGTATAAC
64729838 CAATTCTTAT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
39 13 0.21
40 50 0.79
ACGTcount: A:0.34, C:0.16, G:0.04, T:0.47
Consensus pattern (40 bp):
TTCATATAACCATTACATATATCTATTTCTGTATAACTGA
Found at i:64729848 original size:27 final size:27
Alignment explanation
Indices: 64729805--64729856 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
64729795 AACTGATTCA
64729805 TATAACCATTACATAT-ATCTATTTCTG
1 TATAACCATTACATATAATC-ATTTCTG
*
64729832 TATAACCAATT-CTTATAATCATTTC
1 TATAACC-ATTACATATAATCATTTC
64729857 ACATAACCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (27 bp):
TATAACCATTACATATAATCATTTCTG
Found at i:64729869 original size:40 final size:40
Alignment explanation
Indices: 64729785--64729874 Score: 101
Period size: 40 Copynumber: 2.3 Consensus size: 40
64729775 TCGTTTATCT
** * * *
64729785 ATTTCTGTATAACTGATTCATATAACCATTACATATATCT
1 ATTTCTGTATAACCAATTCATATAACCATTACACATAACC
* * *
64729825 ATTTCTGTATAACCAATTCTTATAATCATTTCACATAACC
1 ATTTCTGTATAACCAATTCATATAACCATTACACATAACC
64729865 ATTTC-GTATA
1 ATTTCTGTATA
64729875 GCCATTTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 5 0.12
40 37 0.88
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.42
Consensus pattern (40 bp):
ATTTCTGTATAACCAATTCATATAACCATTACACATAACC
Found at i:64738077 original size:213 final size:213
Alignment explanation
Indices: 64737711--64739320 Score: 2488
Period size: 213 Copynumber: 7.6 Consensus size: 213
64737701 AAGACACCAA
* *
64737711 AGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTCACAGT-GTT-TATCTTCA
1 AGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTCACAGTCGTTCAAGC-TCA
* *
64737774 AATCCTTAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCGGTTCCGCTTAAA
65 AATCCATAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAAA
* * * *
64737839 TCAAGTTCATACAACCTCTTCATGGTGTCTAAGATTTCCGGGAAAATCTCCAATCTCGAGCAACC
130 TCAAGTTCGTACAACATCTTCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCGAGCAACC
64737904 TTTAAGATAGAATCTC-CTG
195 TTTAAGATAGAATCTCTC-G
* * * * *
64737923 AGAGATTTCAATTTATAAAAGCTGTCAGGAAGGAAAACAACGTTTTTACAGTTGTTCATA-TTCA
1 AGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTCACAGTCGTTCA-AGCTCA
*
64737987 AATCCTTAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAAA
65 AATCCATAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAAA
* *
64738052 TCAAGTTCGTACAACATCTTCATGGTGTCCAAGATTTCTGGGAAAATCTCCAATCTCGAGCAACC
130 TCAAGTTCGTACAACATCTTCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCGAGCAACC
*
64738117 TTTAAAATAGAATCTCTCG
195 TTTAAGATAGAATCTCTCG
* * *
64738136 AGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCGAACAAGGTTTTCACAGTCATCCAAGCTCAA
1 AGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTCACAGTCGTTCAAGCTCAA
* * *
64738201 ATGCACAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCTCTTAAAT
66 ATCCATAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAAAT
*
64738266 CAAGTTCGTACAACATCTTCATGGTGTCCATGCTTTCCGGGAAAATCTCCAATCTCGAGCAACCT
131 CAAGTTCGTACAACATCTTCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCGAGCAACCT
*
64738331 TTAAGATAGAATCTCTCC
196 TTAAGATAGAATCTCTCG
* * * *
64738349 AGAGATTTCAATTTATAAAAGTTGTCAGGAAGGAAAACAAGGTTTTCACAGTCATCCAAGCTCAA
1 AGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTCACAGTCGTTCAAGCTCAA
* * *
64738414 ATGCACAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCTCTTAAAT
66 ATCCATAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAAAT
64738479 CAAGTTCGTACAACATCTTCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCGAGCAACCT
131 CAAGTTCGTACAACATCTTCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCGAGCAACCT
*
64738544 TTAAGATAGAATCTCTCC
196 TTAAGATAGAATCTCTCG
* * * *
64738562 AGAGATTTCAATTTATAAAAGTTGTCAGGAAGGAAAACAAGGTTTTTACAG-CTGTTCATA-TTC
1 AGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTCACAGTC-GTTCA-AGCTC
*
64738625 AAAT-CATTAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGTCGTTCCGCTTA
64 AAATCCA-TAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTA
* *
64738689 AATCAAGTTCGTACAACATCTTCATGGTGTCTATGATTTCCGGGAAAATCTCCAATCTCAAGCAA
128 AATCAAGTTCGTACAACATCTTCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCGAGCAA
64738754 CCTTTAAGATAGAATCTCTCG
193 CCTTTAAGATAGAATCTCTCG
* * *
64738775 AGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCGAACAAGGTTTTCACAGTCATCCAAGCTCAA
1 AGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTCACAGTCGTTCAAGCTCAA
* *
64738840 ATGCACAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAAAT
66 ATCCATAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAAAT
* * *
64738905 CAAGTTCGTACAACCTCTTCATGGTGTCTAAGATTTCCGGGAAAATCTCCAATCTCGAGCAACCT
131 CAAGTTCGTACAACATCTTCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCGAGCAACCT
64738970 TTAAGATAGAATCTC-CTG
196 TTAAGATAGAATCTCTC-G
* * *
64738988 AGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTTACAGTTGTTCATA-TTCA
1 AGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTCACAGTCGTTCA-AGCTCA
64739052 AA-CGCATAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAA
65 AATC-CATAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAA
* * *
64739116 ATCAAGTTCATACAACCA-CTCCATGGTGTCCATGATTTCCGGG-AAATCTCCAATCTTGAGCAA
129 ATCAAGTTCGTACAA-CATCTTCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCGAGCAA
64739179 CCTTTAAGATAGAATCTCTCG
193 CCTTTAAGATAGAATCTCTCG
* * * * *
64739200 AGAGATTTCAATTTATAAATGCTGTCAGGAAGGCAAACAAAGTTTTCGCAATCGCTCAAGCTCAA
1 AGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTCACAGTCGTTCAAGCTCAA
* * *
64739265 ATACTTAAGACCAATAAGATTGCCCATTGAGGATGGTAATTCCTTCAAAGCCGTTC
66 ATCCATAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTC
64739321 AACTTAAAAC
Statistics
Matches: 1301, Mismatches: 79, Indels: 36
0.92 0.06 0.03
Matches are distributed among these distances:
211 1 0.00
212 200 0.15
213 1092 0.84
214 7 0.01
215 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (213 bp):
AGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTCACAGTCGTTCAAGCTCAA
ATCCATAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAAAT
CAAGTTCGTACAACATCTTCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCGAGCAACCT
TTAAGATAGAATCTCTCG
Found at i:64744381 original size:9 final size:9
Alignment explanation
Indices: 64744367--64744394 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
64744357 TTTTGTTACA
64744367 ACAATTAAT
1 ACAATTAAT
64744376 ACAATTAAT
1 ACAATTAAT
64744385 ACAATTAAT
1 ACAATTAAT
64744394 A
1 A
64744395 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:64744419 original size:68 final size:66
Alignment explanation
Indices: 64744337--64744478 Score: 239
Period size: 68 Copynumber: 2.1 Consensus size: 66
64744327 TCAAGTTTGT
* *
64744337 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATAAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
64744402 AAA
64 AAA
64744405 TTTACTAATAAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATAAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
64744470 T
66 A
64744471 TTTACTAA
1 TTTACTAA
64744479 CAATTAATTT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 43 0.61
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATAAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:64744488 original size:16 final size:16
Alignment explanation
Indices: 64744467--64744508 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
64744457 AATAATTTGA
*
64744467 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
64744483 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
64744499 TAGTTTTAAT
1 TAATTTTAAT
64744509 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:64744492 original size:22 final size:23
Alignment explanation
Indices: 64744482--64744537 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
64744472 TTACTAACAA
* * *
64744482 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
64744504 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
64744527 TTAATTTTAAT
1 TTAATTTTAAT
64744538 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:64745002 original size:3 final size:3
Alignment explanation
Indices: 64744994--64745020 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
64744984 TTGATCATAT
64744994 CAG CAG CAG CAG CAG CAG CAG CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG
64745021 AAGAAGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:64749503 original size:21 final size:21
Alignment explanation
Indices: 64749477--64749517 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
64749467 AGACGAGCAA
* *
64749477 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
64749498 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
64749518 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:64758872 original size:17 final size:18
Alignment explanation
Indices: 64758842--64758875 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
64758832 TTTAGGGGAC
64758842 TAAATTACAATTTTAATA
1 TAAATTACAATTTTAATA
64758860 TAAATTA-AATTTTAAT
1 TAAATTACAATTTTAAT
64758876 TTAATTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTACAATTTTAATA
Found at i:64760641 original size:15 final size:15
Alignment explanation
Indices: 64760617--64760650 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
64760607 AACAATTACG
*
64760617 ATAATGCGAGCAAAA
1 ATAATACGAGCAAAA
*
64760632 ATAATACGAGCGAAA
1 ATAATACGAGCAAAA
64760647 ATAA
1 ATAA
64760651 CAAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.18, T:0.15
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:64760773 original size:19 final size:19
Alignment explanation
Indices: 64760744--64760799 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
64760734 AATAATGGAC
64760744 ACATAAA-TAAATAAATAA
1 ACATAAAGTAAATAAATAA
64760762 ACATAAAGTAAA-ACAATAA
1 ACATAAAGTAAATA-AATAA
*
64760781 TA-ATAAAG-AAATGAATAA
1 -ACATAAAGTAAATAAATAA
64760799 A
1 A
64760800 ATTATAAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
17 1 0.03
18 16 0.48
19 15 0.45
20 1 0.03
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (19 bp):
ACATAAAGTAAATAAATAA
Found at i:64762932 original size:134 final size:134
Alignment explanation
Indices: 64762744--64763529 Score: 1398
Period size: 134 Copynumber: 5.9 Consensus size: 134
64762734 TAAGATTACT
* * * * ** *
64762744 GGCTTCAATGTACTCCACTGTAATCAGTGAGGTAAAATCTGCCATCATCAATCTGCTTCTTTACC
1 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
64762809 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
66 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
64762874 TATC
131 TATC
* *
64762878 GGCTTTAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCTCTGCC
1 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
*
64762943 AAATACAAGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
66 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
64763008 TATC
131 TATC
*
64763012 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCC
1 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
*
64763077 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAAT
66 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
64763142 TATC
131 TATC
*
64763146 GGCTTCAATGTACTCCATTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
1 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
* *
64763211 AAATACAGGAAGGCAAGATCTGCGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAAT
66 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
64763276 TATC
131 TATC
*
64763280 GGCTTCAATGTACTCCACTTTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
1 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
64763345 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
66 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
64763410 TATC
131 TATC
64763414 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
1 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
64763479 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTACTT-CAC-GCC-AATACA
66 AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTA-TTCCACTGCCAAATACA
64763530 TGAAGATAAG
Statistics
Matches: 630, Mismatches: 21, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
132 6 0.01
133 3 0.00
134 619 0.98
135 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (134 bp):
GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCC
AAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT
TATC
Found at i:64763542 original size:44 final size:43
Alignment explanation
Indices: 64763450--64764945 Score: 1193
Period size: 44 Copynumber: 34.2 Consensus size: 43
64763440 GGGAGGTAAA
* * * * *
64763450 ATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
1 ATCTGCTATCTTCGATCTACTTC-C-ACC-AATATAGGAAGACAAG
* * * * * *
64763496 ATCTGCAATCTTCAATCTACTTCACGCCAATACATGAAGATAAG
1 ATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAAG
* * *
64763540 ATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAAGACAAG
* * * *
64763585 ATCTG-TATCTTCGATCCACTTCCTACCAATATAGGAAAATAGG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
* * * *
64763628 ACCTGCTATCTTCGATCTACTTCACGCCAATAAATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAAG
* * *
64763672 ATCTGCTTTCTACGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAAGACAAG
* * * *
64763717 ATCTGC-ATCATCGATCCACTTCCTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
* * * * * *
64763760 ACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAAG
* *
64763804 ATTTGCTTTCTTCGATCTACTTCCTACCAATATAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
* * * *
64763848 ATCTGC-ATCTTCGATCCATTTCCTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
* * * * * *
64763891 ACCTGTTATCTTTGATCTACTT-CACGCAATACATGAAGATAAG
1 ATCTGCTATCTTCGATCTACTTCCAC-CAATATAGGAAGACAAG
* * *
64763934 AT-T-CATTTCTTAGATCTACTTCGCACCAATATGGGAAGACAAG
1 ATCTGC-TATCTTCGATCTACTTC-CACCAATATAGGAAGACAAG
* * * *
64763977 GTCTG-T-TCTTCGATCCA-TTCCTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
* * * * * * *
64764018 ACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGATAAG
1 ATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAAG
** * *
64764062 ATCCACTTTCTTCGATCTACTTCGCTACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-C-ACCAATATAGGAAGACAAG
* * * *
64764107 GTCTGC-ATCGTCGATCCACTTCCTACCAATATAGGAAGACAGG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
* * * * * *
64764150 ACCTGTTATCTTTGATCTACTT-CACGCTAATACATGAAGACAAT
1 ATCTGCTATCTTCGATCTACTTCCAC-C-AATATAGGAAGACAAG
*
64764194 ATCTGCTTTCTTCGATCTACTTCCTACCAATATAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
*
64764238 ATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
* * * * * * * *
64764281 ACCTACTATATTTGATCTACTTCACGCCAATACATGAAGACAAT
1 ATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAAG
*
64764325 ATCTGCTTTCTTCGATCTACTTCCTACCAATATAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
*
64764369 ATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
* * * * * *
64764412 ACCTACTATCTTTGATCTACTT-CACGCTAATACATGAAGATAAG
1 ATCTGCTATCTTCGATCTACTTCCAC-C-AATATAGGAAGACAAG
* * *
64764456 ATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAAGACAAG
* * **
64764501 ATCTGC-ATCGTCGATCCACTTCCTACCAATATAGGAAGACCGG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
* * * * * *
64764544 ACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAAG
* *
64764588 ATCTGATTTCTTCGATCTACTTCGCCACCAATAT-GGAAAGACAAG
1 ATCTGCTATCTTCGATCTACTT--CCACCAATATAGG-AAGACAAG
* * * ** *
64764633 ATCTGC-ATCTTCGATCTACTTCACGCCAATACATGAAGGTAAA
1 ATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAAG
* * *
64764676 ATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAAGACAAG
* * **
64764721 ATCTGC-ATCGTCGATCCACTTCCTACCAATATAGGAAGACCGG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
* * * * *
64764764 ACCTGTTATCTTTGATCTACTT-CACGTCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCCAC--CAATATAGGAAGACAAG
* *
64764808 ATCTGCTTTCTTCGATCTACTTCCTACCAATACAGGAAGAC-AG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
64764851 AATCTG-TATCTTCGATCTACTTCCTACCAATATAGGAAGAC-AG
1 -ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
* * * *
64764894 AATCTGCT-TCCTTCGATCTACTTCACGCCAATACATGAAGGCAAG
1 -ATCTGCTAT-CTTCGATCTACTTC-CACCAATATAGGAAGACAAG
64764939 ATCTGCT
1 ATCTGCT
64764946 TTAATGACTT
Statistics
Matches: 1148, Mismatches: 242, Indels: 122
0.76 0.16 0.08
Matches are distributed among these distances:
40 1 0.00
41 22 0.02
42 42 0.04
43 321 0.28
44 602 0.52
45 127 0.11
46 30 0.03
47 3 0.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
ATCTGCTATCTTCGATCTACTTCCACCAATATAGGAAGACAAG
Found at i:64763654 original size:132 final size:131
Alignment explanation
Indices: 64763510--64764917 Score: 1766
Period size: 132 Copynumber: 10.7 Consensus size: 131
64763500 GCAATCTTCA
* *
64763510 ATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-CCACCAATATG
* * * *
64763575 GGAAGACAAGATCTGTATCTTCGATCCACTTCCTACCAATATAGGAAAATAGGACCTGCTATCTT
65 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTT
*
64763640 CG
130 TG
* *
64763642 ATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTCTACGATCTACTTCGCCACCAATATG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-CCACCAATATG
* *
64763707 GGAAGACAAGATCTGCATCATCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGTTATCTT
65 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTT
64763772 TG
130 TG
* * *
64763774 ATCTACTTCACGCCAATACATGAAGACAAGATTTGCTTTCTTCGATCTACTTCCTACCAATATAG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATGG
* *
64763839 GAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGACCTGTTATCTTT
66 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTTT
64763904 G
131 G
* * *
64763905 ATCTACTTCACG-CAATACATGAAGATAAGAT-T-CATTTCTTAGATCTACTTCGCACCAATATG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGC-TTTCTTCGATCTACTTCCCACCAATATG
* * *
64763967 GGAAGACAAGGTCTG-TTCTTCGATCCA-TTCCTACCAATATAGGAAGATAGGACCTGTTATCTT
65 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTT
64764030 TG
130 TG
* ** *
64764032 ATCTACTTCACGCCAATACATGAAGATAAGATCCACTTTCTTCGATCTACTTCGCTACCAATATG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-CCACCAATATG
* *
64764097 GGAAGACAAGGTCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTT
65 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTT
64764162 TG
130 TG
* * * *
64764164 ATCTACTTCACGCTAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCCTACCAATATAG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATGG
* ** *
64764229 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATATTT
66 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTTT
64764294 G
131 G
* * *
64764295 ATCTACTTCACGCCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCCTACCAATATAG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATGG
* **
64764360 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTT
66 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTTT
64764425 G
131 G
* * *
64764426 ATCTACTTCACGCTAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-CCACCAATATG
* *
64764491 GGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACCGGACCTGTTATCTT
65 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTT
64764556 TG
130 TG
*
64764558 ATCTACTTCACGCCAATACATGAAGACAAGATCTGATTTCTTCGATCTACTTCGCCACCAATATG
1 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-CCACCAATATG
* * * * * ** ** *
64764623 GAAAGACAAGATCTGCATCTTCGATCTACTTCAC-GCCAATACATGAAGGTAAAATCTGCTT-TC
65 GGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGACCTG-TTATC
*
64764686 TTCG
128 TTTG
* * * *** * * * * *
64764690 ATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTCCTACCAATATA
1 ATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATG
** * * * * * * * *
64764754 GGAAGACCGGACCTGTTATCTTTGATCTACTT-C-ACGTCAATACATGAAGACAAGATCTGCTT-
65 GGAAGACAAGATCTG-CATCTTCGATCCACTTCCTAC--CAATATAGGAAGACAGGACCTG-TTA
*
64764816 TCTTCG
126 TCTTTG
* * * *
64764822 ATCTACTTC-CTACCAATACAGGAAGAC-AGAATCTG-TATCTTCGATCTACTTCCTACCAATAT
1 ATCTACTTCAC-GCCAATACATGAAGACAAG-ATCTGCTTTCTTCGATCTACTTCCCACCAATAT
* * *
64764884 AGGAAGAC-AGAATCTGCTTCCTTCGATCTACTTC
64 GGGAAGACAAG-ATCTGCAT-CTTCGATCCACTTC
64764918 ACGCCAATAC
Statistics
Matches: 1151, Mismatches: 105, Indels: 40
0.89 0.08 0.03
Matches are distributed among these distances:
127 50 0.04
128 31 0.03
129 55 0.05
130 50 0.04
131 432 0.38
132 510 0.44
133 23 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (131 bp):
ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATGG
GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTTT
G
Found at i:64765883 original size:7 final size:7
Alignment explanation
Indices: 64765867--64765916 Score: 61
Period size: 7 Copynumber: 7.4 Consensus size: 7
64765857 TGGCCTCTCC
64765867 TTTTTC-
1 TTTTTCT
64765873 TTTTTCT
1 TTTTTCT
64765880 TTTTTC-
1 TTTTTCT
64765886 -TTTTCT
1 TTTTTCT
64765892 TTTTTCAT
1 TTTTTC-T
*
64765900 TTTTTCA
1 TTTTTCT
64765907 TTTTTCT
1 TTTTTCT
64765914 TTT
1 TTT
64765917 CGTTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
5 5 0.13
6 6 0.16
7 20 0.53
8 7 0.18
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:64765923 original size:7 final size:6
Alignment explanation
Indices: 64765866--64765916 Score: 50
Period size: 6 Copynumber: 7.8 Consensus size: 6
64765856 TTGGCCTCTC
64765866 CTTTTT CTTTTT CTTTTT -TCTTTT CTTTTTT CATTTTTT CATTTTT CTTTT
1 CTTTTT CTTTTT CTTTTT CT-TTTT C-TTTTT C--TTTTT C-TTTTT CTTTT
64765917 CGTTTTTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
5 1 0.03
6 20 0.50
7 11 0.28
8 8 0.20
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:64765923 original size:12 final size:13
Alignment explanation
Indices: 64765867--64765916 Score: 66
Period size: 12 Copynumber: 3.8 Consensus size: 13
64765857 TGGCCTCTCC
64765867 TTTTTCTTTTTCT
1 TTTTTCTTTTTCT
64765880 TTTTTC-TTTTCT
1 TTTTTCTTTTTCT
*
64765892 TTTTTCATTTTTTCA
1 TTTTTC--TTTTTCT
64765907 TTTTTCTTTT
1 TTTTTCTTTT
64765917 CGTTTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 12 0.36
13 10 0.30
15 11 0.33
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTCTTTTTCT
Found at i:64766381 original size:18 final size:17
Alignment explanation
Indices: 64766354--64766403 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
64766344 CCAGTAGAGG
* *
64766354 TTTTTCTTTTATTTGGT
1 TTTTTTTTTTATTTGCT
*
64766371 TTTTTTGTTTTTTTTGCT
1 TTTTTT-TTTTATTTGCT
64766389 TTTATTTTTTTATTT
1 TTT-TTTTTTTATTT
64766404 TTTGCCTCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 5 0.19
18 19 0.70
19 3 0.11
ACGTcount: A:0.06, C:0.04, G:0.08, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTATTTGCT
Found at i:64767765 original size:21 final size:20
Alignment explanation
Indices: 64767705--64767766 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 20
64767695 ATTTATTGTG
*
64767705 TGCAATGAAATGTAATGTTAA
1 TGCAATGAAATGTAATG-CAA
*
64767726 TG-AATGAAAAG--ATGC-A
1 TGCAATGAAATGTAATGCAA
64767742 TGCAATGAAATGTAATGCAGA
1 TGCAATGAAATGTAATGCA-A
64767763 TGCA
1 TGCA
64767767 TGGATGCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
16 3 0.09
17 8 0.24
18 3 0.09
19 4 0.12
20 8 0.24
21 7 0.21
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.26
Consensus pattern (20 bp):
TGCAATGAAATGTAATGCAA
Found at i:64769258 original size:552 final size:552
Alignment explanation
Indices: 64768215--64769319 Score: 2165
Period size: 552 Copynumber: 2.0 Consensus size: 552
64768205 TCTATTTAAC
64768215 AACCGAACATGAATCAACACCTCTTTTTATGATGAAAATGCAATGCAATCATAACAAAAAGAAAA
1 AACCGAACATGAATCAACACCTCTTTTTATGATGAAAATGCAATGCAATCATAACAAAAAGAAAA
*
64768280 CATGTTAGTACAAAGCAAAAGCAAGTAAGAATAAATAGAACACCTATTTGGGTGAATACTAGGGG
66 CATGTTAGTACAAAGCAAAAGCAAGCAAGAATAAATAGAACACCTATTTGGGTGAATACTAGGGG
64768345 TTCGAGGTGGTTCTACCTAGGGTGGGCTCCTAAGGTTCACTACATGAGGTTTAGTTCTAAAGTAA
131 TTCGAGGTGGTTCTACCTAGGGTGGGCTCCTAAGGTTCACTACATGAGGTTTAGTTCTAAAGTAA
64768410 GGGTACCTGAACCAGCAGATTCCTCGATCCTCACCCATTATAGGCTCATACGGACTGAGTTCAGT
196 GGGTACCTGAACCAGCAGATTCCTCGATCCTCACCCATTATAGGCTCATACGGACTGAGTTCAGT
*
64768475 TCAGGGGAATACATTTCCCTATGGCCATGCGGAGATGAAAATCTCACGAAGACATAGGTACGGAT
261 TCAAGGGAATACATTTCCCTATGGCCATGCGGAGATGAAAATCTCACGAAGACATAGGTACGGAT
64768540 GTATCCCGAAAGCGATTCACTATCCCATGCGGAGGTGAAAACCTCACGAAGGCGTAGTTTCTCAC
326 GTATCCCGAAAGCGATTCACTATCCCATGCGGAGGTGAAAACCTCACGAAGGCGTAGTTTCTCAC
64768605 TCCCACTTAAAAGGGTATGACCAGCGGTCATGCAATGTAATGTGCAGAGGTATAAAATAAAATAC
391 TCCCACTTAAAAGGGTATGACCAGCGGTCATGCAATGTAATGTGCAGAGGTATAAAATAAAATAC
64768670 AGAACACGATAAAAAAATATAACTCAAAACAAAAGAGATGCAATGAGAGGATCGTAAATTTAAAT
456 AGAACACGATAAAAAAATATAACTCAAAACAAAAGAGATGCAATGAGAGGATCGTAAATTTAAAT
*
64768735 CGAATTTTCAACTTTCGACTAAAAGACAAGAA
521 CGAATTTTCAACTTTCGACAAAAAGACAAGAA
*
64768767 AACCGAACGTGAATCAACACCTCTTTTTATGATGAAAATGCAATGCAATCATAACAAAAAGAAAA
1 AACCGAACATGAATCAACACCTCTTTTTATGATGAAAATGCAATGCAATCATAACAAAAAGAAAA
64768832 CATGTTAGTACAAAGCAAAAGCAAGCAAGAATAAATAGAACACCTATTTGGGTGAATACTAGGGG
66 CATGTTAGTACAAAGCAAAAGCAAGCAAGAATAAATAGAACACCTATTTGGGTGAATACTAGGGG
64768897 TTCGAGGTGGTTCTACCTAGGGTGGGCTCCTAAGGTTCACTACATGAGGTTTAGTTCTAAAGTAA
131 TTCGAGGTGGTTCTACCTAGGGTGGGCTCCTAAGGTTCACTACATGAGGTTTAGTTCTAAAGTAA
64768962 GGGTACCTGAACCAGCAGATTCCTCGATCCTCACCCATTATAGGCTCATACGGACTGAGTTCAGT
196 GGGTACCTGAACCAGCAGATTCCTCGATCCTCACCCATTATAGGCTCATACGGACTGAGTTCAGT
64769027 TCAAGGGAATACATTTCCCTATGGCCATGCGGAGATGAAAATCTCACGAAGACATAGGTACGGAT
261 TCAAGGGAATACATTTCCCTATGGCCATGCGGAGATGAAAATCTCACGAAGACATAGGTACGGAT
64769092 GTATCCCGAAAGCGATTCACTATCCCATGCGGAGGTGAAAACCTCACGAAGGCGTAGTTTCTCAC
326 GTATCCCGAAAGCGATTCACTATCCCATGCGGAGGTGAAAACCTCACGAAGGCGTAGTTTCTCAC
64769157 TCCCACTTAAAAGGGTATGACCAGCGGTCATGCAATGTAATGTGCAGAGGTATAAAATAAAATAC
391 TCCCACTTAAAAGGGTATGACCAGCGGTCATGCAATGTAATGTGCAGAGGTATAAAATAAAATAC
64769222 AGAACACGATAAAAAAATATAACTCAAAACAAAAGAGATGCAATGAGAGGATCGTAAATTTAAAT
456 AGAACACGATAAAAAAATATAACTCAAAACAAAAGAGATGCAATGAGAGGATCGTAAATTTAAAT
*
64769287 CGAATTTTCAACTTTTGACAAAAAGACAAGAA
521 CGAATTTTCAACTTTCGACAAAAAGACAAGAA
64769319 A
1 A
64769320 TAATCAACAC
Statistics
Matches: 548, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
552 548 1.00
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (552 bp):
AACCGAACATGAATCAACACCTCTTTTTATGATGAAAATGCAATGCAATCATAACAAAAAGAAAA
CATGTTAGTACAAAGCAAAAGCAAGCAAGAATAAATAGAACACCTATTTGGGTGAATACTAGGGG
TTCGAGGTGGTTCTACCTAGGGTGGGCTCCTAAGGTTCACTACATGAGGTTTAGTTCTAAAGTAA
GGGTACCTGAACCAGCAGATTCCTCGATCCTCACCCATTATAGGCTCATACGGACTGAGTTCAGT
TCAAGGGAATACATTTCCCTATGGCCATGCGGAGATGAAAATCTCACGAAGACATAGGTACGGAT
GTATCCCGAAAGCGATTCACTATCCCATGCGGAGGTGAAAACCTCACGAAGGCGTAGTTTCTCAC
TCCCACTTAAAAGGGTATGACCAGCGGTCATGCAATGTAATGTGCAGAGGTATAAAATAAAATAC
AGAACACGATAAAAAAATATAACTCAAAACAAAAGAGATGCAATGAGAGGATCGTAAATTTAAAT
CGAATTTTCAACTTTCGACAAAAAGACAAGAA
Found at i:64770249 original size:15 final size:15
Alignment explanation
Indices: 64770225--64770258 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
64770215 AACAATTACG
*
64770225 ATAATGCGAGCAAAA
1 ATAATACGAGCAAAA
*
64770240 ATAATACGAGCGAAA
1 ATAATACGAGCAAAA
64770255 ATAA
1 ATAA
64770259 CAAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.18, T:0.15
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:64770381 original size:19 final size:19
Alignment explanation
Indices: 64770352--64770407 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
64770342 AATAATGGAC
64770352 ACATAAA-TAAATAAATAA
1 ACATAAAGTAAATAAATAA
64770370 ACATAAAGTAAA-ACAATAA
1 ACATAAAGTAAATA-AATAA
*
64770389 TA-ATAAAG-AAATGAATAA
1 -ACATAAAGTAAATAAATAA
64770407 A
1 A
64770408 ATTATAAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
17 1 0.03
18 16 0.48
19 15 0.45
20 1 0.03
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (19 bp):
ACATAAAGTAAATAAATAA
Found at i:64776719 original size:30 final size:32
Alignment explanation
Indices: 64776666--64776724 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
64776656 TATTTGACAA
64776666 TTTAAATATAAATTATTTGATTTATATTTTAT
1 TTTAAATATAAATTATTTGATTTATATTTTAT
*
64776698 TTTATATATAAA-TATTT-ATTTATATTT
1 TTTAAATATAAATTATTTGATTTATATTT
64776725 ATATATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 10 0.38
31 5 0.19
32 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (32 bp):
TTTAAATATAAATTATTTGATTTATATTTTAT
Found at i:64776721 original size:18 final size:19
Alignment explanation
Indices: 64776693--64776732 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
64776683 TGATTTATAT
64776693 TTTATTTTATATATAAATA
1 TTTATTTTATATATAAATA
* *
64776712 TTTA-TTTATATTTATATA
1 TTTATTTTATATATAAATA
64776730 TTT
1 TTT
64776733 TATTCGCTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTATTTTATATATAAATA
Found at i:64778276 original size:20 final size:18
Alignment explanation
Indices: 64778225--64778279 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 18
64778215 TAATTAACTT
*
64778225 TTTAAAATATTAAAA--A
1 TTTAAAAAATTAAAATTA
64778241 TTTAAAAAATTAAAATTA
1 TTTAAAAAATTAAAATTA
64778259 TTTAAAAAATATACAAATTA
1 TTTAAAAAAT-TA-AAATTA
64778279 T
1 T
64778280 AAGTAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 14 0.41
18 11 0.32
19 2 0.06
20 7 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
TTTAAAAAATTAAAATTA
Found at i:64788907 original size:3 final size:3
Alignment explanation
Indices: 64788899--64788926 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
64788889 TAAGATATAT
64788899 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
64788927 CTGACCTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:64790451 original size:13 final size:13
Alignment explanation
Indices: 64790435--64790459 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64790425 CATGGCTCAA
64790435 ATTTAAAATAAAT
1 ATTTAAAATAAAT
64790448 ATTTAAAATAAA
1 ATTTAAAATAAA
64790460 GAATGACCTA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATTTAAAATAAAT
Found at i:64794317 original size:24 final size:24
Alignment explanation
Indices: 64794277--64794323 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
64794267 TAAAAGATTT
*
64794277 AGTATTTATTAATATAATATATTA
1 AGTATTTATTAACATAATATATTA
* *
64794301 AGTATTTATTAGCATAATTTATT
1 AGTATTTATTAACATAATATATT
64794324 TGACTTACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.51
Consensus pattern (24 bp):
AGTATTTATTAACATAATATATTA
Found at i:64795416 original size:17 final size:17
Alignment explanation
Indices: 64795394--64795427 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
64795384 ATTGCCTAAG
64795394 TTTGTTTTCACTGTAAA
1 TTTGTTTTCACTGTAAA
*
64795411 TTTGTTTTCACTTTAAA
1 TTTGTTTTCACTGTAAA
64795428 AGACACACAC
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:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
TTTGTTTTCACTGTAAA
Found at i:64796267 original size:13 final size:13
Alignment explanation
Indices: 64796249--64796298 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
64796239 TTGGCAATGC
64796249 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
64796262 TTTTGAAAAGTG-
1 TTTTGAAAAGTGT
* *
64796274 CTGTGAAAAAGTGT
1 TTTTG-AAAAGTGT
64796288 TTTTGAAAAGT
1 TTTTGAAAAGT
64796299 TTGGTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 3 0.10
13 25 0.81
14 3 0.10
ACGTcount: A:0.34, C:0.02, G:0.24, T:0.40
Consensus pattern (13 bp):
TTTTGAAAAGTGT
Found at i:64796795 original size:13 final size:13
Alignment explanation
Indices: 64796779--64796803 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64796769 TTCAGAAGTG
64796779 CTTTTGAAAAGCA
1 CTTTTGAAAAGCA
64796792 CTTTTGAAAAGC
1 CTTTTGAAAAGC
64796804 GAAAAATTCC
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
CTTTTGAAAAGCA
Found at i:64802321 original size:13 final size:14
Alignment explanation
Indices: 64802303--64802334 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
64802293 CCCCAAATTA
64802303 TTTTTTTT-CTTTT
1 TTTTTTTTGCTTTT
64802316 TTTTTTTTGCTTTT
1 TTTTTTTTGCTTTT
64802330 TTTTT
1 TTTTT
64802335 GTTTTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.91
Consensus pattern (14 bp):
TTTTTTTTGCTTTT
Found at i:64802329 original size:23 final size:23
Alignment explanation
Indices: 64802304--64802351 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
64802294 CCCAAATTAT
*
64802304 TTTTTTTCTT-TTTTTT-TTTTGC
1 TTTTTTT-TTGTTTTTTGTTATGC
64802326 TTTTTTTTTGTTTTTTGTTATGC
1 TTTTTTTTTGTTTTTTGTTATGC
64802349 TTT
1 TTT
64802352 AGGAATATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 2 0.09
22 13 0.57
23 8 0.35
ACGTcount: A:0.02, C:0.06, G:0.08, T:0.83
Consensus pattern (23 bp):
TTTTTTTTTGTTTTTTGTTATGC
Found at i:64803384 original size:12 final size:12
Alignment explanation
Indices: 64803367--64803425 Score: 54
Period size: 12 Copynumber: 5.0 Consensus size: 12
64803357 CCAAATAGGT
64803367 AATAAATAATAA
1 AATAAATAATAA
64803379 AATAAAGTAAT-A
1 AATAAA-TAATAA
*
64803391 AATAAAGTAA-AG
1 AATAAA-TAATAA
64803403 AA-AAATAATAA
1 AATAAATAATAA
64803414 TAAT-AATAATAA
1 -AATAAATAATAA
64803426 TAATTGGGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
10 3 0.08
11 4 0.10
12 29 0.73
13 4 0.10
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (12 bp):
AATAAATAATAA
Found at i:64808063 original size:27 final size:25
Alignment explanation
Indices: 64808028--64808077 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
64808018 GTATATATGA
*
64808028 TGTAATTTGGACTTTTGGACTGTTTGT
1 TGTAATTTGGA-TTTT-AACTGTTTGT
*
64808055 TGTACTTTGGATTTTAACTGTTT
1 TGTAATTTGGATTTTAACTGTTT
64808078 ACATGGACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 4 0.19
27 10 0.48
ACGTcount: A:0.16, C:0.08, G:0.22, T:0.54
Consensus pattern (25 bp):
TGTAATTTGGATTTTAACTGTTTGT
Found at i:64811971 original size:71 final size:71
Alignment explanation
Indices: 64811894--64812032 Score: 224
Period size: 71 Copynumber: 2.0 Consensus size: 71
64811884 ACCTAAGTGT
* * * *
64811894 CTAATAAATGTACTCTCATTGATACCACAATTCAAACATTTAGAATCTAACCCACTTACATCATT
1 CTAATAAATGTACCCTCATTGATACCACAATTCAAACATTTAGAATCCAAACCACATACATCATT
64811959 TCCTGC
66 TCCTGC
* *
64811965 CTAATAAATGTACCCTCATTGGTACCACAATTCAAACATTTAGAATCCAAATCACATACATCATT
1 CTAATAAATGTACCCTCATTGATACCACAATTCAAACATTTAGAATCCAAACCACATACATCATT
64812030 TCC
66 TCC
64812033 CAAAATACAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (71 bp):
CTAATAAATGTACCCTCATTGATACCACAATTCAAACATTTAGAATCCAAACCACATACATCATT
TCCTGC
Found at i:64812937 original size:25 final size:27
Alignment explanation
Indices: 64812908--64812966 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 27
64812898 CATATCTATC
64812908 CATATAAAAATTT-CATATAA-C-ACTT
1 CATATAAAAATTTCCATATAATCGA-TT
**
64812933 CATATAATTATTTCCATATAATCGATT
1 CATATAAAAATTTCCATATAATCGATT
64812960 CATATAA
1 CATATAA
64812967 TTATTTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 11 0.38
26 7 0.24
27 10 0.34
28 1 0.03
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (27 bp):
CATATAAAAATTTCCATATAATCGATT
Found at i:64812952 original size:14 final size:14
Alignment explanation
Indices: 64812933--64812973 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
64812923 TATAACACTT
64812933 CATATAATTATTTC
1 CATATAATTATTTC
*
64812947 CATATAATCGA-TT-
1 CATATAAT-TATTTC
64812960 CATATAATTATTTC
1 CATATAATTATTTC
64812974 TTTTATCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
12 1 0.05
13 10 0.45
14 10 0.45
15 1 0.05
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.46
Consensus pattern (14 bp):
CATATAATTATTTC
Found at i:64813016 original size:13 final size:13
Alignment explanation
Indices: 64812998--64813078 Score: 81
Period size: 13 Copynumber: 6.2 Consensus size: 13
64812988 CTTTAACTGA
64812998 TTCATATAACCAT
1 TTCATATAACCAT
* * *
64813011 TACATATATCTAT
1 TTCATATAACCAT
*
64813024 TTCTATATAACCAA
1 TTC-ATATAACCAT
* *
64813038 TTCTTATAATCAT
1 TTCATATAACCAT
*
64813051 TTCACATAACCAT
1 TTCATATAACCAT
*
64813064 TTCATATAGCCAT
1 TTCATATAACCAT
64813077 TT
1 TT
64813079 AAAAGTGTTA
Statistics
Matches: 52, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
13 42 0.81
14 10 0.19
ACGTcount: A:0.36, C:0.21, G:0.01, T:0.42
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:64816226 original size:18 final size:18
Alignment explanation
Indices: 64816203--64816239 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
64816193 TATAAAGAAG
64816203 AAAAATATGCATATATAT
1 AAAAATATGCATATATAT
*
64816221 AAAAATATGTATATATAT
1 AAAAATATGCATATATAT
64816239 A
1 A
64816240 TATAGGTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (18 bp):
AAAAATATGCATATATAT
Found at i:64816465 original size:14 final size:14
Alignment explanation
Indices: 64816446--64816480 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
64816436 ATACAAAAAT
64816446 ATATAAATACATAC
1 ATATAAATACATAC
*
64816460 ATATAAATATATAC
1 ATATAAATACATAC
*
64816474 TTATAAA
1 ATATAAA
64816481 AATAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (14 bp):
ATATAAATACATAC
Found at i:64816685 original size:9 final size:9
Alignment explanation
Indices: 64816662--64816731 Score: 52
Period size: 9 Copynumber: 7.8 Consensus size: 9
64816652 TAAAAGTAAC
64816662 AACAATAAT
1 AACAATAAT
* *
64816671 ACCAATACT
1 AACAATAAT
*
64816680 AACAATAGT
1 AACAATAAT
*
64816689 AA-AGATGAT
1 AACA-ATAAT
*
64816698 AATAATAAT
1 AACAATAAT
*
64816707 AATAATAAT
1 AACAATAAT
*
64816716 AATAATAAT
1 AACAATAAT
*
64816725 AATAATA
1 AACAATA
64816732 GCAAAAGTAC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
8 1 0.02
9 50 0.96
10 1 0.02
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.27
Consensus pattern (9 bp):
AACAATAAT
Found at i:64816704 original size:3 final size:3
Alignment explanation
Indices: 64816696--64816731 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
64816686 AGTAAAGATG
64816696 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
64816732 GCAAAAGTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:64818516 original size:43 final size:43
Alignment explanation
Indices: 64818458--64818665 Score: 206
Period size: 44 Copynumber: 4.8 Consensus size: 43
64818448 AAGATCCTTT
* * *
64818458 AATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTC
1 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTC
* * * * *
64818501 GATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGAT-CTCTTATTTT
1 AATCTGCTCCACTGTAACT-TCAGGGAGATAAGATACT-GT-CTTC
* * *
64818545 AATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTC
1 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTC
* * * *
64818588 GATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTC
1 AATCTGCTCCACTGTAACT-TCAGGGAGATAAGAT-ACTGTCTTC
*
64818632 AATCTGCTCCACTGTAACCTCAGGGAGATAAGAT
1 AATCTGCTCCACTGTAACTTCAGGGAGATAAGAT
64818666 CTGAAATTCT
Statistics
Matches: 131, Mismatches: 26, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
42 3 0.02
43 59 0.45
44 67 0.51
45 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (43 bp):
AATCTGCTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTC
Found at i:64818565 original size:87 final size:87
Alignment explanation
Indices: 64818454--64818661 Score: 362
Period size: 87 Copynumber: 2.4 Consensus size: 87
64818444 AGATAAGATC
64818454 CTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
1 CTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
*
64818519 CTCAGGGAGATAAGATCTCTTA
66 CTCAGGGAGATAAGATCTCTGA
*
64818541 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
1 CTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
*
64818606 CTCAGGGAGATAAGATCTCTGG
66 CTCAGGGAGATAAGATCTCTGA
* * *
64818628 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATA
1 CTTTAATCCGCTCCACTGTAACTTCAGGGAGATA
64818662 AGATCTGAAA
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 114 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (87 bp):
CTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
CTCAGGGAGATAAGATCTCTGA
Found at i:64831367 original size:154 final size:147
Alignment explanation
Indices: 64831092--64831373 Score: 449
Period size: 154 Copynumber: 1.9 Consensus size: 147
64831082 TGACTAAAGC
64831092 TATTGTTTTTGAAGTCAATTACCCTTAAAGTGGTAGGCAGAGCACTACTTTACACTGCAAAAGCG
1 TATTGTTTTTGAAGTCAATTACCCTTAAAGTGGTAGGCAGAGCACTACTTTACACTGCAAAAGCG
64831157 TGTGGGACATCCACATTGAAAATAATTGTACGACTTCTCCAGCAAATTCAAAGTCTAGTCCTTAG
66 TGTGGGACATCCACATTGAAAATAATTGTACGACTTCTCCAGCAAATTCAAAGTCTAGTCCTTAG
64831222 GATTTGGGAACCAATTA
131 GATTTGGGAACCAATTA
* *
64831239 TATTGTTTTTTAAGTCAATTACCCTTTAAAG-GTGTAGGCAGAGCACTACTTTATACTGCAAAAG
1 TATTGTTTTTGAAGTCAATTACCC-TTAAAGTG-GTAGGCAGAGCACTACTTTACACTGCAAAAG
* *
64831303 CGTGTTGGAGTTGGACATTCACATTGAAAATAATTGTACGACTTCTCCAGCAAATTCGAAGTCTA
64 CGTG-T---G--GGACATCCACATTGAAAATAATTGTACGACTTCTCCAGCAAATTCAAAGTCTA
64831368 GTCCTT
123 GTCCTT
64831374 GGGAACCAAT
Statistics
Matches: 123, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
147 24 0.20
148 40 0.33
149 1 0.01
152 1 0.01
154 57 0.46
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (147 bp):
TATTGTTTTTGAAGTCAATTACCCTTAAAGTGGTAGGCAGAGCACTACTTTACACTGCAAAAGCG
TGTGGGACATCCACATTGAAAATAATTGTACGACTTCTCCAGCAAATTCAAAGTCTAGTCCTTAG
GATTTGGGAACCAATTA
Found at i:64832214 original size:16 final size:15
Alignment explanation
Indices: 64832193--64832224 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
64832183 GTTCAAATAT
64832193 ATAATAATTATAAAAA
1 ATAATAA-TATAAAAA
64832209 ATAATAATATAAAAA
1 ATAATAATATAAAAA
64832224 A
1 A
64832225 CTTGACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATAATATAAAAA
Found at i:64832394 original size:18 final size:19
Alignment explanation
Indices: 64832359--64832413 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
64832349 TTAATGTTAA
*
64832359 ATAAT-TTTAATATTTTTTT
1 ATAATATTT-ATATATTTTT
64832378 ATAA-ATTTATATATTTTT
1 ATAATATTTATATATTTTT
64832396 A-AATATTT-T-TATTTTT
1 ATAATATTTATATATTTTT
64832412 AT
1 AT
64832414 TAATGCTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
16 8 0.25
17 3 0.09
18 14 0.44
19 7 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATAATATTTATATATTTTT
Found at i:64832406 original size:20 final size:20
Alignment explanation
Indices: 64832355--64832407 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
64832345 ATTCTTAATG
64832355 TTAAATAATTTTA-ATATTT
1 TTAAATAATTTTATATATTT
** *
64832374 TTTTATAAATTTATATATTT
1 TTAAATAATTTTATATATTT
*
64832394 TTAAATATTTTTAT
1 TTAAATAATTTTAT
64832408 TTTTATTAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTAAATAATTTTATATATTT
Found at i:64837692 original size:213 final size:211
Alignment explanation
Indices: 64837324--64838769 Score: 2021
Period size: 213 Copynumber: 6.8 Consensus size: 211
64837314 TAAGACACAA
64837324 AAGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTTACAGTTGTTCATATTCA
1 AAGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTTACAGTTGTTCATATTCA
* * * *
64837389 AATGCGTAAGAACAATAAGATTGTCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCACTTAAA
66 AATCCG-AAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAAA
* * * * *
64837454 TCAAGATCCTTCAACCACTCCATGGTGTCCATGACTTCCGGGAAAATCTCCAATCTCGAGCAACC
130 TCAAGTTCATACAACCTCTCCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCGAGCAACC
*
64837519 TGTAAGATAGAATCTCG
195 TGTAAGATAGAATCTCC
* * *
64837536 AGAGAGATTTCAATTTATAAAAGCTGTTAGGAAGGCAAACAAGATTTTCACAGTT-TTGCA-ATG
1 A-AGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTTACAGTTGTT-CATAT-
* *
64837599 TCAAATCCTGAAGACCAATAAGATTGCCAATCGAGGATGGTAATTCCTTCAAAGCTGTTCCGCTT
63 TCAAATCC-GAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTT
* * *
64837664 AAATCAAGTTCAAACAACCCCTCCATGGTGTCCATGATTTTCGGGAAAATCTCCAATCTCGAGCA
127 AAATCAAGTTCATACAACCTCTCCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCGAGCA
*
64837729 ACCTTTAAGATAGAATCTCCC
192 ACCTGTAAGATAGAATCT-CC
* * * * * *
64837750 GAGAGATTTCAATTTATAAAAACTGTCAGGAAGGCAAATAAGGTTTTCACAATTGTTCA-ATCCC
1 AAGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTTACAGTTGTTCATAT-TC
** *
64837814 AAATACTTAAGACCAATAAGATTGGCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAA
65 AAAT-CCGAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAA
*
64837879 ATCAAGTTCATACAACCTCTCCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCAAGCAAC
129 ATCAAGTTCATACAACCTCTCCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCGAGCAAC
64837944 CTGTAAGATAGAATCTCTC
194 CTGTAAGATAGAATCTC-C
* *
64837963 GAGAGATTTCAATTTACAAAAGCTGTCAGGAAGGCAAACAAGGTTTTTACAGTTGTTCATATTCA
1 AAGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTTACAGTTGTTCATATTCA
* **
64838028 AA-CGCGTAAGACCAATAAGATTTCCAATTGAGGATGGTAATTCCTTCAAAGCTATTCCGCTTAA
66 AATC-CG-AAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAA
* * *
64838092 ATCAAGTTCATACAACCTCTCCCTGGTGTCCATGATTTCTGGGAAAATCTCCAATCTCGAACAAC
129 ATCAAGTTCATACAACCTCTCCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCGAGCAAC
* * *
64838157 CTTTAAGATTGAATATCTC
194 CTGTAAGATAGAATCTC-C
* * *
64838176 AAGAGATTTCAATTTATAAAAGCTGTCACGAAAGCAAACAAGGTTTTTACAGTTGTTCATATTGA
1 AAGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTTACAGTTGTTCATATTCA
64838241 AA-CGCGTAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAA
66 AATC-CG-AAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAA
*
64838305 ATCAAGTTCATACAACCTCTCCATGGTGTCCATGATTTCTGGGAAAATCTCCAATCTCGAGCAAC
129 ATCAAGTTCATACAACCTCTCCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCGAGCAAC
*
64838370 CTTTAAGATAGAATCTCTC
194 CTGTAAGATAGAATCTC-C
* * *
64838389 AAGAGATTTCAATTTACAAAAGCTGTCAGGAAGGCAAACAAGGTTTTTACAGTCGTTCA-AGCTC
1 AAGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTTACAGTTGTTCATA-TTC
*
64838453 AAATACAC-AAGACCAATAAGATTGACAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTA
65 AAAT-C-CGAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTA
64838517 AATCAAGTTCATACAACCTCTCCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCGAGCAA
128 AATCAAGTTCATACAACCTCTCCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCGAGCAA
** * *
64838582 CCATG-AAGACGGAATGTCGT
193 CC-TGTAAGATAGAATCTC-C
** * * *
64838602 AAGAGATTTCAATTTGCAAAAGCTGCCAGGAAGGCAAACAAGGTTTTCACAGTTGTTCATATGCA
1 AAGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTTACAGTTGTTCATATTCA
* *
64838667 AATTCTC-AAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCATTCCACTTAA
66 AA-TC-CGAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAA
* * * * * *
64838731 AACAAGATGCCT-CAAACTCTCCATGGTGCCCACGATTTC
129 ATCAAG-TTCATACAACCTCTCCATGGTGTCCATGATTTC
64838770 TGGAAAACTA
Statistics
Matches: 1118, Mismatches: 98, Indels: 35
0.89 0.08 0.03
Matches are distributed among these distances:
211 1 0.00
212 7 0.01
213 1095 0.98
214 13 0.01
215 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (211 bp):
AAGAGATTTCAATTTATAAAAGCTGTCAGGAAGGCAAACAAGGTTTTTACAGTTGTTCATATTCA
AATCCGAAGACCAATAAGATTGCCAATTGAGGATGGTAATTCCTTCAAAGCCGTTCCGCTTAAAT
CAAGTTCATACAACCTCTCCATGGTGTCCATGATTTCCGGGAAAATCTCCAATCTCGAGCAACCT
GTAAGATAGAATCTCC
Found at i:64854697 original size:20 final size:19
Alignment explanation
Indices: 64854670--64854729 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
64854660 AGCAATTAAT
64854670 TTTAAAAATTATAAAAATTA
1 TTTAAAAA-TATAAAAATTA
*
64854690 TTTGAAAAA-ATTAAAATTA
1 TTT-AAAAATATAAAAATTA
*
64854709 TTTAAAAAGTATACAAATTA
1 TTTAAAAA-TATAAAAATTA
64854729 T
1 T
64854730 AAAAAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.15
19 12 0.35
20 12 0.35
21 5 0.15
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (19 bp):
TTTAAAAATATAAAAATTA
Found at i:64857476 original size:6 final size:6
Alignment explanation
Indices: 64857465--64857492 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
64857455 GGATATCTCT
64857465 CTTCCC CTTCCC CTTCCC CTTCCC CTTC
1 CTTCCC CTTCCC CTTCCC CTTCCC CTTC
64857493 GCCTAAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
CTTCCC
Found at i:64858863 original size:22 final size:22
Alignment explanation
Indices: 64858819--64858863 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
64858809 AAATAAGTAA
* * *
64858819 TAAAATATTTAATAGATAAATT
1 TAAAATATATAATACACAAATT
*
64858841 TAAAATATATAATACACATATT
1 TAAAATATATAATACACAAATT
64858863 T
1 T
64858864 TATTTTGTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (22 bp):
TAAAATATATAATACACAAATT
Found at i:64864446 original size:230 final size:230
Alignment explanation
Indices: 64864043--64864492 Score: 900
Period size: 230 Copynumber: 2.0 Consensus size: 230
64864033 ATAGAATAAG
64864043 TACTTGTGAATGTAAAGAAAAAGAACTTGAATTACCGAGTAACTTGTGAATTCCAACCGGATAAA
1 TACTTGTGAATGTAAAGAAAAAGAACTTGAATTACCGAGTAACTTGTGAATTCCAACCGGATAAA
64864108 TTGGCAGCAGACGTCAAAGCACTTCTCCAGGATTTCACCTTTTCAACATCATGCTTTAAATTTGC
66 TTGGCAGCAGACGTCAAAGCACTTCTCCAGGATTTCACCTTTTCAACATCATGCTTTAAATTTGC
64864173 TTCATGCTTCGAAAATGCATCAGCAACACTCCCTCTTTGTTTCCTTACATCTGAGGGGTCTACAC
131 TTCATGCTTCGAAAATGCATCAGCAACACTCCCTCTTTGTTTCCTTACATCTGAGGGGTCTACAC
64864238 TGTAAAAAACAGGAACAACACATTTCACCTTTGTT
196 TGTAAAAAACAGGAACAACACATTTCACCTTTGTT
64864273 TACTTGTGAATGTAAAGAAAAAGAACTTGAATTACCGAGTAACTTGTGAATTCCAACCGGATAAA
1 TACTTGTGAATGTAAAGAAAAAGAACTTGAATTACCGAGTAACTTGTGAATTCCAACCGGATAAA
64864338 TTGGCAGCAGACGTCAAAGCACTTCTCCAGGATTTCACCTTTTCAACATCATGCTTTAAATTTGC
66 TTGGCAGCAGACGTCAAAGCACTTCTCCAGGATTTCACCTTTTCAACATCATGCTTTAAATTTGC
64864403 TTCATGCTTCGAAAATGCATCAGCAACACTCCCTCTTTGTTTCCTTACATCTGAGGGGTCTACAC
131 TTCATGCTTCGAAAATGCATCAGCAACACTCCCTCTTTGTTTCCTTACATCTGAGGGGTCTACAC
64864468 TGTAAAAAACAGGAACAACACATTT
196 TGTAAAAAACAGGAACAACACATTT
64864493 GTTGCAGTCC
Statistics
Matches: 220, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
230 220 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (230 bp):
TACTTGTGAATGTAAAGAAAAAGAACTTGAATTACCGAGTAACTTGTGAATTCCAACCGGATAAA
TTGGCAGCAGACGTCAAAGCACTTCTCCAGGATTTCACCTTTTCAACATCATGCTTTAAATTTGC
TTCATGCTTCGAAAATGCATCAGCAACACTCCCTCTTTGTTTCCTTACATCTGAGGGGTCTACAC
TGTAAAAAACAGGAACAACACATTTCACCTTTGTT
Found at i:64874533 original size:18 final size:18
Alignment explanation
Indices: 64874447--64874535 Score: 56
Period size: 18 Copynumber: 4.8 Consensus size: 18
64874437 TTCTTTTGTT
** *
64874447 TCTTTTTCTAATTCATTT
1 TCTTTTTCTTTTTCATTC
64874465 TC-TTTTCTTTCTTCAATT-
1 TCTTTTTCTTT-TTC-ATTC
** * *
64874483 TCTTTTTCACTCTCAATC
1 TCTTTTTCTTTTTCATTC
64874501 TCTTTTTGCTCTTTTTCATTC
1 TC-TTTT--TCTTTTTCATTC
64874522 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTC
64874536 CTCACTTGTT
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
17 8 0.15
18 19 0.35
19 13 0.24
20 4 0.07
21 10 0.19
ACGTcount: A:0.10, C:0.24, G:0.01, T:0.65
Consensus pattern (18 bp):
TCTTTTTCTTTTTCATTC
Found at i:64885328 original size:25 final size:25
Alignment explanation
Indices: 64885300--64885480 Score: 215
Period size: 25 Copynumber: 7.3 Consensus size: 25
64885290 GTTTATATAT
* *
64885300 TTATGTATTATGTAAATTATGTAAC
1 TTATGTATTATGTAAGTTATGTAAG
*
64885325 TTATGTATTATGTAAGTTATGAAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
64885350 TTGTGTATTACGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
64885375 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* **
64885400 TTATGTATTATGTAAATTATGTGCG
1 TTATGTATTATGTAAGTTATGTAAG
*
64885425 TTATGTAAGTTATATAAGTTATGT-A-
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
64885450 TTATGTATTATTTATG-TATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
64885474 TTATGTA
1 TTATGTA
64885481 AGATATAAAT
Statistics
Matches: 136, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
22 5 0.04
23 8 0.06
24 8 0.06
25 101 0.74
26 1 0.01
27 13 0.10
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:64885433 original size:43 final size:41
Alignment explanation
Indices: 64885300--64885482 Score: 155
Period size: 41 Copynumber: 4.4 Consensus size: 41
64885290 GTTTATATAT
* *
64885300 TTATGT-A-TTATGTAAATTATGTAACTTATGTATTATGTAAG
1 TTATGTAAGTTATGTAAGTTATGT-A-TTATGTATTATGTACG
* * * *
64885341 TTATGAAAGTTGTGT-A-TTACGTAAGTTATGTAAGTTGTGTA--
1 TTATGTAAGTTATGTAAGTTATGT-A-TTATGT-A-TTATGTACG
*
64885382 TTATGTAAGTTATGTAAGTTATGTATTATGTAAATTATGTGCG
1 TTATGTAAGTTATGTAAGTTATGTATTATGT--ATTATGTACG
* * *
64885425 TTATGTAAGTTATATAAGTTATGTATTATGTATTATTTATG
1 TTATGTAAGTTATGTAAGTTATGTATTATGTATTATGTACG
64885466 -TATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAG
64885483 ATATAAATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
40 16 0.14
41 49 0.42
42 7 0.06
43 46 0.39
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.48
Consensus pattern (41 bp):
TTATGTAAGTTATGTAAGTTATGTATTATGTATTATGTACG
Found at i:64885480 original size:9 final size:9
Alignment explanation
Indices: 64885307--64885482 Score: 153
Period size: 9 Copynumber: 21.0 Consensus size: 9
64885297 TATTTATGTA
*
64885307 TTATGTAAA
1 TTATGTAAG
*
64885316 TTATGTAAC
1 TTATGTAAG
64885325 TTATGT-A-
1 TTATGTAAG
64885332 TTATGTAAG
1 TTATGTAAG
*
64885341 TTATGAAAG
1 TTATGTAAG
*
64885350 TTGTGT-A-
1 TTATGTAAG
*
64885357 TTACGTAAG
1 TTATGTAAG
64885366 TTATGTAAG
1 TTATGTAAG
*
64885375 TTGTGT-A-
1 TTATGTAAG
64885382 TTATGTAAG
1 TTATGTAAG
64885391 TTATGTAAG
1 TTATGTAAG
64885400 TTATGT-A-
1 TTATGTAAG
*
64885407 TTATGTAAA
1 TTATGTAAG
**
64885416 TTATGTGCG
1 TTATGTAAG
64885425 TTATGTAAG
1 TTATGTAAG
*
64885434 TTATATAAG
1 TTATGTAAG
64885443 TTATGT-A-
1 TTATGTAAG
64885450 TTATGT-A-
1 TTATGTAAG
* *
64885457 TTATTTATG
1 TTATGTAAG
64885466 -TATGTAAG
1 TTATGTAAG
64885474 TTATGTAAG
1 TTATGTAAG
64885483 ATATAAATTT
Statistics
Matches: 136, Mismatches: 20, Indels: 22
0.76 0.11 0.12
Matches are distributed among these distances:
7 33 0.24
8 15 0.11
9 88 0.65
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:64891202 original size:9 final size:9
Alignment explanation
Indices: 64891189--64891529 Score: 350
Period size: 9 Copynumber: 40.4 Consensus size: 9
64891179 TATTTATGTA
*
64891189 TTATGTAAA
1 TTATGTAAG
*
64891198 TTATGTAAC
1 TTATGTAAG
64891207 TTATGTAA-
1 TTATGTAAG
64891215 -TATGTAAG
1 TTATGTAAG
64891223 TTATGTAAG
1 TTATGTAAG
*
64891232 TTGTGT-A-
1 TTATGTAAG
64891239 TTATGTAAG
1 TTATGTAAG
*
64891248 TTATGTAAA
1 TTATGTAAG
*
64891257 TTGTGT-A-
1 TTATGTAAG
64891264 TTATGTAAG
1 TTATGTAAG
*
64891273 TTATGTGAG
1 TTATGTAAG
64891282 TTATGTAAG
1 TTATGTAAG
*
64891291 CTATGT-A-
1 TTATGTAAG
64891298 TTATGTAAG
1 TTATGTAAG
64891307 TTATGTAAG
1 TTATGTAAG
*
64891316 TTCTGT-A-
1 TTATGTAAG
64891323 TTATGTAAG
1 TTATGTAAG
64891332 TTATGTAAG
1 TTATGTAAG
**
64891341 TTATGTGCG
1 TTATGTAAG
**
64891350 TTATGTGCG
1 TTATGTAAG
*
64891359 TTATATAAG
1 TTATGTAAG
64891368 TTATGT-A-
1 TTATGTAAG
64891375 TTATGTAAG
1 TTATGTAAG
64891384 TTATGTAAG
1 TTATGTAAG
* *
64891393 CTGTGT-A-
1 TTATGTAAG
64891400 TTATGTAAG
1 TTATGTAAG
64891409 TTATGTAAG
1 TTATGTAAG
*
64891418 TTCTGT-A-
1 TTATGTAAG
64891425 TTATGTAAG
1 TTATGTAAG
64891434 TTATGTAAG
1 TTATGTAAG
64891443 TTATGTAAG
1 TTATGTAAG
64891452 TTATGT-A-
1 TTATGTAAG
64891459 TTATGTAAG
1 TTATGTAAG
64891468 TTATGTAAG
1 TTATGTAAG
*
64891477 TTATATAAG
1 TTATGTAAG
64891486 TTATGT-A-
1 TTATGTAAG
64891493 TTATGT-A-
1 TTATGTAAG
* *
64891500 TTATTTATG
1 TTATGTAAG
64891509 -TATGTAAG
1 TTATGTAAG
64891517 TTATGTAAG
1 TTATGTAAG
64891526 TTAT
1 TTAT
64891530 AAATTTTAAA
Statistics
Matches: 281, Mismatches: 30, Indels: 42
0.80 0.08 0.12
Matches are distributed among these distances:
7 60 0.21
8 23 0.08
9 198 0.70
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:64891210 original size:25 final size:27
Alignment explanation
Indices: 64891189--64891529 Score: 271
Period size: 25 Copynumber: 13.5 Consensus size: 27
64891179 TATTTATGTA
* *
64891189 TTATGTAAATTATGTAACTTATGTAA-
1 TTATGTAAGTTATGTAAATTATGTAAG
* *
64891215 -TATGTAAGTTATGTAAGTTGTGT-A-
1 TTATGTAAGTTATGTAAATTATGTAAG
*
64891239 TTATGTAAGTTATGTAAATTGTGT-A-
1 TTATGTAAGTTATGTAAATTATGTAAG
* *
64891264 TTATGTAAGTTATGTGAGTTATGTAAG
1 TTATGTAAGTTATGTAAATTATGTAAG
* *
64891291 CTATGT-A-TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAATTATGTAAG
* *
64891316 TTCTGT-A-TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAATTATGTAAG
** *** *
64891341 TTATGTGCGTTATGTGCGTTATATAAG
1 TTATGTAAGTTATGTAAATTATGTAAG
*
64891368 TTATGT-A-TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAATTATGTAAG
* * *
64891393 CTGTGT-A-TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAATTATGTAAG
* *
64891418 TTCTGT-A-TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAATTATGTAAG
64891443 TTATGTAAGTTATGT--ATTATGTAAG
1 TTATGTAAGTTATGTAAATTATGTAAG
* *
64891468 TTATGTAAGTTATATAAGTTATGT-A-
1 TTATGTAAGTTATGTAAATTATGTAAG
*
64891493 TTATGT-A-TTAT-T-TATGTATGTAAG
1 TTATGTAAGTTATGTAAAT-TATGTAAG
64891517 TTATGTAAGTTAT
1 TTATGTAAGTTAT
64891530 AAATTTTAAA
Statistics
Matches: 271, Mismatches: 30, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.00
22 6 0.02
23 5 0.02
24 8 0.03
25 205 0.76
26 8 0.03
27 38 0.14
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATGTAAATTATGTAAG
Found at i:64891228 original size:34 final size:34
Alignment explanation
Indices: 64891183--64891523 Score: 334
Period size: 34 Copynumber: 10.2 Consensus size: 34
64891173 TTTATATATT
* *
64891183 TATGTATTATGTAAATTATGTAACTTATGTAA--
1 TATGTATTATGTAAGTTATGTAAGTTATGTAAGT
*
64891215 TATGTAAGTTATGTAAGTTGTGT-A-TTATGTAAGT
1 TATGT-A-TTATGTAAGTTATGTAAGTTATGTAAGT
* *
64891249 TATGTAAATTGTGT-A-TTATGTAAGTTATGTGAGT
1 TATGT--ATTATGTAAGTTATGTAAGTTATGTAAGT
*
64891283 TATGTAAGCTATGT-A-TTATGTAAGTTATGTAAGT
1 TATGT-A-TTATGTAAGTTATGTAAGTTATGTAAGT
* **
64891317 TCTGTATTATGTAAGTTATGTAAGTTATGTGCGT
1 TATGTATTATGTAAGTTATGTAAGTTATGTAAGT
* *
64891351 TATGTGCGTTATATAAGTTATGT-A-TTATGTAAGT
1 TATGT--ATTATGTAAGTTATGTAAGTTATGTAAGT
* *
64891385 TATGTAAGCTGTGT-A-TTATGTAAGTTATGTAAGT
1 TATGT-A-TTATGTAAGTTATGTAAGTTATGTAAGT
*
64891419 TCTGTATTATGTAAGTTATGTAAGTTATGTAAGT
1 TATGTATTATGTAAGTTATGTAAGTTATGTAAGT
*
64891453 TATGTATTATGTAAGTTATGTAAGTTATATAAGT
1 TATGTATTATGTAAGTTATGTAAGTTATGTAAGT
* *
64891487 TATGTATTATGT-A-TTATTTATG-TATGTAAGT
1 TATGTATTATGTAAGTTATGTAAGTTATGTAAGT
64891518 TATGTA
1 TATGTA
64891524 AGTTATAAAT
Statistics
Matches: 262, Mismatches: 30, Indels: 35
0.80 0.09 0.11
Matches are distributed among these distances:
31 14 0.05
32 40 0.15
33 13 0.05
34 178 0.68
35 3 0.01
36 14 0.05
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.47
Consensus pattern (34 bp):
TATGTATTATGTAAGTTATGTAAGTTATGTAAGT
Found at i:64893758 original size:17 final size:19
Alignment explanation
Indices: 64893736--64893770 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
64893726 TCTTAATAAT
64893736 ATTTT-AATTTT-TTTAAC
1 ATTTTAAATTTTATTTAAC
64893753 ATTTTAAATTTTATTTAA
1 ATTTTAAATTTTATTTAA
64893771 TACTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTAAATTTTATTTAAC
Found at i:64893759 original size:28 final size:29
Alignment explanation
Indices: 64893723--64893818 Score: 83
Period size: 30 Copynumber: 3.3 Consensus size: 29
64893713 ATTTCGATAT
*
64893723 CATTCTTAATAATATTTTAAT-TTTTTTAA
1 CATT-TTAATAATATTTTAATATTTTATAA
* *
64893752 CATTTTAA-ATTTTATTTAATACTTTTATAA
1 CATTTTAATAATAT-TTTAATA-TTTTATAA
64893782 -ATTTTAATAATATTTTACATA-TTTATAAA
1 CATTTTAATAATATTTTA-ATATTTTAT-AA
*
64893811 AATTTTAA
1 CATTTTAA
64893819 AAATTAAAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
27 3 0.05
28 15 0.27
29 17 0.31
30 20 0.36
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (29 bp):
CATTTTAATAATATTTTAATATTTTATAA
Found at i:64893871 original size:30 final size:30
Alignment explanation
Indices: 64893813--64893871 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
64893803 TTTATAAAAA
* *
64893813 TTTTAAAAATTAAAATTTTAAAAGAATTAT
1 TTTTAAAAATTAAAACTTTAAAAAAATTAT
*
64893843 TTTTAAAAATT-AAGCTTTAAAATAAATTA
1 TTTTAAAAATTAAAACTTTAAAA-AAATTA
64893872 ACCCTGGACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (30 bp):
TTTTAAAAATTAAAACTTTAAAAAAATTAT
Found at i:64904647 original size:2 final size:2
Alignment explanation
Indices: 64904640--64904669 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
64904630 ATTTCTAACA
*
64904640 AT AT AT AT AT AG 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
64904670 TTGCATTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:64910036 original size:6 final size:6
Alignment explanation
Indices: 64910022--64910085 Score: 119
Period size: 6 Copynumber: 10.7 Consensus size: 6
64910012 CTTTTGGGTT
*
64910022 ATTTCG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
64910070 ATTTTG ATTTTG ATTT
1 ATTTTG ATTTTG ATTT
64910086 AGGGTTATTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.17, C:0.02, G:0.16, T:0.66
Consensus pattern (6 bp):
ATTTTG
Found at i:64912257 original size:12 final size:12
Alignment explanation
Indices: 64912234--64912265 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
64912224 CATGTTAACC
64912234 TAAATG-AATGT
1 TAAATGAAATGT
64912245 TAAATGAAATGT
1 TAAATGAAATGT
64912257 TAAATGAAA
1 TAAATGAAA
64912266 AGCATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (12 bp):
TAAATGAAATGT
Found at i:64912720 original size:21 final size:21
Alignment explanation
Indices: 64912694--64912737 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
64912684 TTTATATAAG
64912694 ATTAAT-AGTAAATT-TAGAATA
1 ATTAATGA-TAAATTATA-AATA
64912715 ATTAATGATAAATTATAAATA
1 ATTAATGATAAATTATAAATA
64912736 AT
1 AT
64912738 AACACATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (21 bp):
ATTAATGATAAATTATAAATA
Found at i:64913713 original size:16 final size:17
Alignment explanation
Indices: 64913692--64913725 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
64913682 AGCCAGAGAT
64913692 AAAATAAAAT-AAAATA
1 AAAATAAAATCAAAATA
*
64913708 AAAATACAATCAAAATA
1 AAAATAAAATCAAAATA
64913725 A
1 A
64913726 TAAAATTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATAAAATCAAAATA
Found at i:64916731 original size:15 final size:15
Alignment explanation
Indices: 64916711--64916746 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
64916701 AACCTATGAT
*
64916711 AAATATGTATTAACA
1 AAATATATATTAACA
64916726 AAATATATATTAACA
1 AAATATATATTAACA
*
64916741 ACATAT
1 AAATAT
64916747 TTAGGGTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (15 bp):
AAATATATATTAACA
Found at i:64917396 original size:3 final size:3
Alignment explanation
Indices: 64917388--64917434 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
64917378 ATATATATAT
64917388 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
64917435 TTGACCTGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Done.