Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 108 of 109
Found at i:34927951 original size:16 final size:16
Alignment explanation
Indices: 34927858--34927951 Score: 50
Period size: 16 Copynumber: 5.8 Consensus size: 16
34927848 ATTCGAACAT
34927858 AAAATAACTTAAAC-C
1 AAAATAACTTAAACTC
* * *
34927873 TAAAATAATTTTAACTT
1 -AAAATAACTTAAACTC
* * *
34927890 AAAATTGACTCAAACTT
1 AAAA-TAACTTAAACTC
** *
34927907 AAAA-AATCTCGAAGTC
1 AAAATAA-CTTAAACTC
34927923 AAAATAA-TCTAAACTC
1 AAAATAACT-TAAACTC
34927939 AAAATAACTTAAA
1 AAAATAACTTAAA
34927952 GATGTTAAAA
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
15 2 0.03
16 41 0.71
17 15 0.26
ACGTcount: A:0.54, C:0.15, G:0.03, T:0.28
Consensus pattern (16 bp):
AAAATAACTTAAACTC
Found at i:34937830 original size:27 final size:26
Alignment explanation
Indices: 34937778--34937831 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
34937768 ATTATAGATT
*
34937778 AAATTTTAAATTCATCTTAAACTTAA
1 AAATTTTAAATTAATCTTAAACTTAA
* * *
34937804 AAATTTTCAATTAAATCTTTAAGTTAA
1 AAATTTTAAATT-AATCTTAAACTTAA
34937831 A
1 A
34937832 TTTTTGTTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (26 bp):
AAATTTTAAATTAATCTTAAACTTAA
Found at i:34943072 original size:28 final size:27
Alignment explanation
Indices: 34943038--34943090 Score: 97
Period size: 28 Copynumber: 1.9 Consensus size: 27
34943028 TTAAAATCTG
34943038 AAAAATATAAAAATTAAATTCTTAAAAT
1 AAAAATATAAAAATTAAATT-TTAAAAT
34943066 AAAAATATAAAAATTAAATTTTAAA
1 AAAAATATAAAAATTAAATTTTAAA
34943091 TTTAGGAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (27 bp):
AAAAATATAAAAATTAAATTTTAAAAT
Found at i:34945966 original size:29 final size:29
Alignment explanation
Indices: 34945924--34945979 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
34945914 TGATTCTTTT
* *
34945924 TAATAATACATGGATTTAATTT-ATCTATG
1 TAATAATAAATGGA-CTAATTTGATCTATG
*
34945953 TAATAGTAAATGGACTAATTTGATCTA
1 TAATAATAAATGGACTAATTTGATCTA
34945980 GCCCTTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.41
Consensus pattern (29 bp):
TAATAATAAATGGACTAATTTGATCTATG
Found at i:34976223 original size:22 final size:19
Alignment explanation
Indices: 34976197--34976240 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
34976187 TTGTCAAACA
34976197 ATAATTAGTTAAAAATATTATT
1 ATAATTA-TT-AAAATATT-TT
*
34976219 ATAATTATTATAATATTTT
1 ATAATTATTAAAATATTTT
34976238 ATA
1 ATA
34976241 TAACATCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 7 0.33
21 2 0.10
22 7 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
ATAATTATTAAAATATTTT
Found at i:34984503 original size:29 final size:29
Alignment explanation
Indices: 34984470--34984525 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
34984460 ATAAGGATTT
*
34984470 GATCAAATTAGTTCTTCTATAATTAAATG
1 GATCAAATTAGTTCTTCTACAATTAAATG
* *
34984499 GATCAATTTAGTTCTTGTACAATTAAA
1 GATCAAATTAGTTCTTCTACAATTAAA
34984526 AAGAATCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (29 bp):
GATCAAATTAGTTCTTCTACAATTAAATG
Found at i:34988993 original size:23 final size:22
Alignment explanation
Indices: 34988960--34989002 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
34988950 ATTAAGTCCC
*
34988960 TTAAAAATGATGAAATTATAAA
1 TTAAAAATGATAAAATTATAAA
34988982 TTAATAAATGATAAAATTATA
1 TTAA-AAATGATAAAATTATA
34989003 TTTTGACATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (22 bp):
TTAAAAATGATAAAATTATAAA
Found at i:34989590 original size:22 final size:22
Alignment explanation
Indices: 34989565--34989620 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
34989555 TAAAACTTTT
34989565 AAAATTTTTAAAAAGATTAATA
1 AAAATTTTTAAAAAGATTAATA
* ** *
34989587 AAAATTTTCAAAAATTTTAATT
1 AAAATTTTTAAAAAGATTAATA
*
34989609 AAGATTTTTAAA
1 AAAATTTTTAAA
34989621 TATTCGGAGG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (22 bp):
AAAATTTTTAAAAAGATTAATA
Found at i:34992025 original size:47 final size:47
Alignment explanation
Indices: 34991964--34992079 Score: 153
Period size: 53 Copynumber: 2.3 Consensus size: 47
34991954 GAATTTAGAC
34991964 TATTTTTTCA-AATTAATCTAAATTCAAATTGAGCACATTTAAATTAT
1 TATTTTTT-ATAATTAATCTAAATTCAAATTGAGCACATTTAAATTAT
*
34992011 TATTTTTTATAATTAAATGAGATTTAAATTCAAATTGAGCACATTTAAATTAT
1 TATTTTTTATAA-T---T-A-ATCTAAATTCAAATTGAGCACATTTAAATTAT
34992064 TATTTTTTATAATTAA
1 TATTTTTTATAATTAA
34992080 ATGAGATTTA
Statistics
Matches: 61, Mismatches: 1, Indels: 14
0.80 0.01 0.18
Matches are distributed among these distances:
46 1 0.02
47 11 0.18
48 2 0.03
49 1 0.02
51 1 0.02
52 2 0.03
53 43 0.70
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (47 bp):
TATTTTTTATAATTAATCTAAATTCAAATTGAGCACATTTAAATTAT
Found at i:34992040 original size:53 final size:53
Alignment explanation
Indices: 34991982--34992099 Score: 236
Period size: 53 Copynumber: 2.2 Consensus size: 53
34991972 CAAATTAATC
34991982 TAAATTCAAATTGAGCACATTTAAATTATTATTTTTTATAATTAAATGAGATT
1 TAAATTCAAATTGAGCACATTTAAATTATTATTTTTTATAATTAAATGAGATT
34992035 TAAATTCAAATTGAGCACATTTAAATTATTATTTTTTATAATTAAATGAGATT
1 TAAATTCAAATTGAGCACATTTAAATTATTATTTTTTATAATTAAATGAGATT
34992088 TAAATTCAAATT
1 TAAATTCAAATT
34992100 AATCAAGTTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 65 1.00
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (53 bp):
TAAATTCAAATTGAGCACATTTAAATTATTATTTTTTATAATTAAATGAGATT
Found at i:34993340 original size:40 final size:40
Alignment explanation
Indices: 34993267--34993345 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
34993257 AAAGCAAAAG
* ** *
34993267 GTTGAACAATTTATATGCAAAGAATTAGTAAAAATCAATT
1 GTTGAACAACTTATATGCAAAGAATTACCAAAAACCAATT
34993307 GTTGAACAACTTATATGCAATA-AATTACCAAAAACCAAT
1 GTTGAACAACTTATATGCAA-AGAATTACCAAAAACCAAT
34993346 AGTTCAAGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 33 0.97
41 1 0.03
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (40 bp):
GTTGAACAACTTATATGCAAAGAATTACCAAAAACCAATT
Found at i:35000982 original size:1 final size:1
Alignment explanation
Indices: 35000978--35001009 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
35000968 TGAAGATCTT
35000978 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
35001010 CCTATTAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:35005453 original size:2 final size:2
Alignment explanation
Indices: 35005441--35005474 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
35005431 GTTTTGGATG
35005441 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35005475 ATGATCAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:35009645 original size:198 final size:199
Alignment explanation
Indices: 35009307--35009705 Score: 791
Period size: 198 Copynumber: 2.0 Consensus size: 199
35009297 TTTCGACCTA
35009307 TTTCGATAAATAAATTGTTCGTTTGACCTATTTTATTAATTATTTTTAGTTTTGATAAATATTTT
1 TTTCGATAAATAAATTGTTCGTTTGACCTATTTTATTAATTATTTTTAGTTTTGATAAATATTTT
35009372 TTAAAAAATAAATTAAGAATAATTACTAGATTAACTATCAAACTTAATTTAGCTTTTTATTTTAA
66 TTAAAAAATAAATTAAGAATAATTACTAGATTAACTATCAAACTTAATTTAGCTTTTTATTTTAA
35009437 TATACTTTTAAGGATAACATTAAAATTATCTTTAATATTTATATTTTTTGTTAATTT-ATTTTTT
131 TATACTTTTAAGGATAACATTAAAATTATCTTTAATATTTATATTTTTTGTTAATTTAATTTTTT
35009501 TAAG
196 TAAG
35009505 TTTCGATAAATAAATTGTTCGTTTGACCTATTTTATTAATTATTTTTAGTTTTGATAAATATTTT
1 TTTCGATAAATAAATTGTTCGTTTGACCTATTTTATTAATTATTTTTAGTTTTGATAAATATTTT
35009570 TTAAAAAATAAATTAAGAATAATTACTAGATTAACTATCAAACTTAATTTAGCTTTTTATTTTAA
66 TTAAAAAATAAATTAAGAATAATTACTAGATTAACTATCAAACTTAATTTAGCTTTTTATTTTAA
35009635 TATACTTTTAAGGATAACATTAAAATTATCTTTAATATTTATATTTTTTGTTAATTTAATTTTTT
131 TATACTTTTAAGGATAACATTAAAATTATCTTTAATATTTATATTTTTTGTTAATTTAATTTTTT
35009700 TAAG
196 TAAG
35009704 TT
1 TT
35009706 AAATTTGATC
Statistics
Matches: 200, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
198 187 0.94
199 13 0.06
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.51
Consensus pattern (199 bp):
TTTCGATAAATAAATTGTTCGTTTGACCTATTTTATTAATTATTTTTAGTTTTGATAAATATTTT
TTAAAAAATAAATTAAGAATAATTACTAGATTAACTATCAAACTTAATTTAGCTTTTTATTTTAA
TATACTTTTAAGGATAACATTAAAATTATCTTTAATATTTATATTTTTTGTTAATTTAATTTTTT
TAAG
Found at i:35009884 original size:24 final size:24
Alignment explanation
Indices: 35009852--35009903 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
35009842 TCGACTTTTT
35009852 TTCAAACGTAAAACCCACATTTGG
1 TTCAAACGTAAAACCCACATTTGG
35009876 TTCAAACGTAAAACCCACATTTGG
1 TTCAAACGTAAAACCCACATTTGG
35009900 TTCA
1 TTCA
35009904 GGAAAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.27
Consensus pattern (24 bp):
TTCAAACGTAAAACCCACATTTGG
Found at i:35012535 original size:85 final size:85
Alignment explanation
Indices: 35012446--35012709 Score: 224
Period size: 85 Copynumber: 3.1 Consensus size: 85
35012436 GTATAATTAA
35012446 TATTTTAAAAATCTATCCATCCATCATATTTTAATTTTTATGTTGTATTCATGTACATCTTTCAT
1 TATTTTAAAAATCTATCCATCCATCATATTTTAATTTTTATGTTGTATTCATGTACATCTTTCAT
35012511 GTGTAAATTAAAATTTTACT
66 GTGTAAATTAAAATTTTACT
* ** * * *****
35012531 TATTTTATGTAAAAAAAT-TATCAATTAAAT-ATATATTAA--TGTAAACAATATT--T-TACAT
1 TA--TT-T-T--AAAAATCTATCCA-TCCATCATATTTTAATTTTTATGTTGTATTCATGTACAT
** * *
35012589 -TAACAT-TATATCAATTTAAATTGTATA-T
59 CTTTCATGTGTA--AATTAAAATT-T-TACT
35012617 ATATTTTAAAAATCTATCCATCCATCATATTTTAATTTTTATGTTGTATTCATGTACATCTTTCA
1 -TATTTTAAAAATCTATCCATCCATCATATTTTAATTTTTATGTTGTATTCATGTACATCTTTCA
35012682 TGTGTAAATTAAAATTTTACT
65 TGTGTAAATTAAAATTTTACT
35012703 TATTTTA
1 TATTTTA
35012710 TGTAAAAAAA
Statistics
Matches: 129, Mismatches: 28, Indels: 44
0.64 0.14 0.22
Matches are distributed among these distances:
81 9 0.07
82 13 0.10
83 4 0.03
84 12 0.09
85 27 0.21
86 6 0.05
87 20 0.16
88 12 0.09
89 4 0.03
90 13 0.10
91 9 0.07
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (85 bp):
TATTTTAAAAATCTATCCATCCATCATATTTTAATTTTTATGTTGTATTCATGTACATCTTTCAT
GTGTAAATTAAAATTTTACT
Found at i:35012667 original size:172 final size:173
Alignment explanation
Indices: 35012445--35012791 Score: 687
Period size: 172 Copynumber: 2.0 Consensus size: 173
35012435 TGTATAATTA
35012445 ATATTTTAAAAATCTATCCATCCATCATATTTTAATTTTTATGTTGTATTCATGTACATCTTTCA
1 ATATTTTAAAAATCTATCCATCCATCATATTTTAATTTTTATGTTGTATTCATGTACATCTTTCA
35012510 TGTGTAAATTAAAATTTTACTTATTTTATGTAAAAAAATTATCAATTAAATATATATTAATGTAA
66 TGTGTAAATTAAAATTTTACTTATTTTATGTAAAAAAATTATCAATTAAATATATATTAATGTAA
35012575 ACAATATTTTACATTAACATTATATCAATTT-AAATTGTATAT
131 ACAATATTTTACATTAACATTATATCAATTTAAAATTGTATAT
35012617 ATATTTTAAAAATCTATCCATCCATCATATTTTAATTTTTATGTTGTATTCATGTACATCTTTCA
1 ATATTTTAAAAATCTATCCATCCATCATATTTTAATTTTTATGTTGTATTCATGTACATCTTTCA
35012682 TGTGTAAATTAAAATTTTACTTATTTTATGTAAAAAAATTATCAATTAAATATATATTAATGTAA
66 TGTGTAAATTAAAATTTTACTTATTTTATGTAAAAAAATTATCAATTAAATATATATTAATGTAA
35012747 ACAATATTTTACATTAACATTATATCAATTTAAAATTGTATAT
131 ACAATATTTTACATTAACATTATATCAATTTAAAATTGTATAT
35012790 AT
1 AT
35012792 GAAAAATAAA
Statistics
Matches: 174, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
172 161 0.93
173 13 0.07
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (173 bp):
ATATTTTAAAAATCTATCCATCCATCATATTTTAATTTTTATGTTGTATTCATGTACATCTTTCA
TGTGTAAATTAAAATTTTACTTATTTTATGTAAAAAAATTATCAATTAAATATATATTAATGTAA
ACAATATTTTACATTAACATTATATCAATTTAAAATTGTATAT
Found at i:35019941 original size:45 final size:45
Alignment explanation
Indices: 35019892--35020019 Score: 175
Period size: 45 Copynumber: 2.8 Consensus size: 45
35019882 GTCTGGTTCA
* * *
35019892 TGATGCCATTATGTCTTTCAGCTATGGTTTTACTTGTTAGAATTG
1 TGATGCCATAATGTCTTTCAGCTATGGTTTTACTTGTTAAAATCG
* *
35019937 TGATGCCATAATGTCTTTCAACTATGGTTTTACTCGTTAAAATCG
1 TGATGCCATAATGTCTTTCAGCTATGGTTTTACTTGTTAAAATCG
* * * *
35019982 GGATGCCATAACGTCTTTCAGCCATGGTCTTACTTGTT
1 TGATGCCATAATGTCTTTCAGCTATGGTTTTACTTGTT
35020020 TTCGGTATGA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (45 bp):
TGATGCCATAATGTCTTTCAGCTATGGTTTTACTTGTTAAAATCG
Found at i:35021289 original size:15 final size:17
Alignment explanation
Indices: 35021258--35021290 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
35021248 ATTTAATCGT
35021258 TCAAATAACATAAATTA
1 TCAAATAACATAAATTA
35021275 TCAAATAA-A-AAATTA
1 TCAAATAACATAAATTA
35021290 T
1 T
35021291 TATAATACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (17 bp):
TCAAATAACATAAATTA
Found at i:35022638 original size:85 final size:84
Alignment explanation
Indices: 35022440--35022783 Score: 410
Period size: 85 Copynumber: 4.1 Consensus size: 84
35022430 TTATATACAT
* * ** * * * * *
35022440 ATATATATAGGGATGGTCTTCTCCGGTTCATATAGGAGGAAAGGAGTACGATTTATTGGAACCCA
1 ATATATATAGGGATAGTCTACTCCGGTTTGTATAGGAGGAACGAAATACGATTTATTGAAACCTA
* * *
35022505 AACTGTTCTTTTGGGAATT
66 AAATGTTCTTTTGGAAATC
* *
35022524 ACATATATAGGGATAGTCTACTCCGGTTTGTATAGGAGGAACGAAATATGATTTATTGAAACCTA
1 ATATATATAGGGATAGTCTACTCCGGTTTGTATAGGAGGAACGAAATACGATTTATTGAAACCTA
35022589 AAATGTTCTTTTTGGAAATC
66 AAATGTTC-TTTTGGAAATC
* * * * *
35022609 ATATATATAGGGATAGTCTTCTCTGGTTTGTATAGGAGGAACAAAATACGATCTATTGAAACATA
1 ATATATATAGGGATAGTCTACTCCGGTTTGTATAGGAGGAACGAAATACGATTTATTGAAACCTA
35022674 AAATGTTCTTTTGGAAATTC
66 AAATGTTCTTTTGGAAA-TC
* *
35022694 -TATATATAGGGGATAGTCTACTGCGGTTTGTATAGGAGTG---G-AATATGATTTATTGAAACC
1 ATATATATA-GGGATAGTCTACTCCGGTTTGTATAGGAG-GAACGAAATACGATTTATTGAAACC
*
35022754 TAAAATGTTCTTTTGGAAATT
64 TAAAATGTTCTTTTGGAAATC
*
35022775 GTATATATA
1 ATATATATA
35022784 TCATTTTTGC
Statistics
Matches: 226, Mismatches: 29, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
81 1 0.00
82 43 0.19
84 78 0.35
85 103 0.46
86 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (84 bp):
ATATATATAGGGATAGTCTACTCCGGTTTGTATAGGAGGAACGAAATACGATTTATTGAAACCTA
AAATGTTCTTTTGGAAATC
Found at i:35022701 original size:169 final size:170
Alignment explanation
Indices: 35022376--35022783 Score: 481
Period size: 169 Copynumber: 2.4 Consensus size: 170
35022366 TCTGTTGTTC
* * * * *
35022376 GTATAGGATGAACGAAATACGATTTATTGAAACTTAAAATGTTATTTTTTGAAATTATATACATA
1 GTATAGGAGGAACGAAATATGATTTATTGAAACCTAAAATGTT-CTTTTTG-GA--A-AT-C--A
* * * * * *
35022441 TATATATAGGGATGGTCTTCTCCGGTTCATATAGGAGGAAAGGAGTACGATTTATTGGAACCCAA
58 TATATATAGGGATAGTCTTCTCCGGTTCATATAGGAGGAAAGAAATACGATCTATTGAAACACAA
* *
35022506 ACTGTTCTTTTGGGAATTACATATATA-GGGATAGTCTACTCCGGTTT
123 AATGTTCTTTTGGAAATTACATATATAGGGGATAGTCTACTCCGGTTT
35022553 GTATAGGAGGAACGAAATATGATTTATTGAAACCTAAAATGTTCTTTTTGGAAATCATATATATA
1 GTATAGGAGGAACGAAATATGATTTATTGAAACCTAAAATGTTCTTTTTGGAAATCATATATATA
* ** *
35022618 GGGATAGTCTTCTCTGGTTTGTATAGGAGGAACA-AAATACGATCTATTGAAACATAAAATGTTC
66 GGGATAGTCTTCTCCGGTTCATATAGGAGGAA-AGAAATACGATCTATTGAAACACAAAATGTTC
*
35022682 TTTTGGAAATT-CTATATATAGGGGATAGTCTACTGCGGTTT
130 TTTTGGAAATTAC-ATATATAGGGGATAGTCTACTCCGGTTT
**
35022723 GTATAGGAGTG---G-AATATGATTTATTGAAACCTAAAATGTTC-TTTTGGAAATTGTATATAT
1 GTATAGGAG-GAACGAAATATGATTTATTGAAACCTAAAATGTTCTTTTTGGAAATCATATATAT
35022783 A
65 A
35022784 TCATTTTTGC
Statistics
Matches: 207, Mismatches: 20, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
166 18 0.09
167 29 0.14
168 2 0.01
169 77 0.37
170 29 0.14
171 2 0.01
172 2 0.01
173 1 0.00
175 1 0.00
176 6 0.03
177 40 0.19
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (170 bp):
GTATAGGAGGAACGAAATATGATTTATTGAAACCTAAAATGTTCTTTTTGGAAATCATATATATA
GGGATAGTCTTCTCCGGTTCATATAGGAGGAAAGAAATACGATCTATTGAAACACAAAATGTTCT
TTTGGAAATTACATATATAGGGGATAGTCTACTCCGGTTT
Found at i:35031337 original size:21 final size:22
Alignment explanation
Indices: 35031311--35031355 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
35031301 TTCTTCCCTG
35031311 TTTGTAA-TATTAGAT-TTTGTA
1 TTTGTAAGTATTA-ATCTTTGTA
35031332 TTTGTAAGTATTAATCTTTGTA
1 TTTGTAAGTATTAATCTTTGTA
35031354 TT
1 TT
35031356 ATCTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (22 bp):
TTTGTAAGTATTAATCTTTGTA
Found at i:35031743 original size:26 final size:26
Alignment explanation
Indices: 35031708--35031758 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
35031698 ACATTCTCTC
* *
35031708 AATTTGATATTTATAATTTTT-TTCTT
1 AATTTAATATCTA-AATTTTTATTCTT
35031734 AATTTAATATCTAAATTTTTATTCT
1 AATTTAATATCTAAATTTTTATTCT
35031759 GATCTATCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (26 bp):
AATTTAATATCTAAATTTTTATTCTT
Found at i:35032507 original size:23 final size:23
Alignment explanation
Indices: 35032481--35032531 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
35032471 TTTGAATTTA
*
35032481 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
35032504 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
35032527 AGTAA
1 TGTAA
35032532 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:35041124 original size:11 final size:11
Alignment explanation
Indices: 35041108--35041135 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
35041098 TCCAAAGACA
35041108 TGTCCCAAAAT
1 TGTCCCAAAAT
35041119 TGTCCCAAAAT
1 TGTCCCAAAAT
35041130 TGTCCC
1 TGTCCC
35041136 TTTTCATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.29
Consensus pattern (11 bp):
TGTCCCAAAAT
Found at i:35047591 original size:17 final size:16
Alignment explanation
Indices: 35047569--35047602 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
35047559 ATTTAATATA
*
35047569 TAATTATCTTAATCTAT
1 TAATTATATTAAT-TAT
35047586 TAATTATATTAATTAT
1 TAATTATATTAATTAT
35047602 T
1 T
35047603 TTTTTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATTATATTAATTAT
Found at i:35049903 original size:93 final size:95
Alignment explanation
Indices: 35049731--35049910 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 95
35049721 CGTCTCTCTT
* * * *
35049731 AAGTTTTGCCATTAAGACCAAGCCAAAAGGAAGCTTCCCTTCACCTCTCATTTTGTGTGAATTCT
1 AAGTTTTACCATTAAGACCAAGACAAAAGGAAGCCTCCCTTCACCTCCCATTTTGTGTGAATTCT
*
35049796 AAAACTTCGAGCTAGTCATATTTAAGGGCA
66 AAAACTTCAAGCTAGTCATATTTAAGGGCA
* *
35049826 AAGTTTTATCATT-AGATCAAGACAAAAGGAAGCCTCCCTTCACCTCCCA-TTTGTGTGAATTCT
1 AAGTTTTACCATTAAGACCAAGACAAAAGGAAGCCTCCCTTCACCTCCCATTTTGTGTGAATTCT
*
35049889 AAAACTTCAAGCTAGTTATATT
66 AAAACTTCAAGCTAGTCATATT
35049911 CAGGGGTAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
93 34 0.44
94 32 0.42
95 11 0.14
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (95 bp):
AAGTTTTACCATTAAGACCAAGACAAAAGGAAGCCTCCCTTCACCTCCCATTTTGTGTGAATTCT
AAAACTTCAAGCTAGTCATATTTAAGGGCA
Found at i:35051626 original size:3 final size:3
Alignment explanation
Indices: 35051618--35051651 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
35051608 AAATTTACTA
35051618 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
35051652 TCTATCTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:35054516 original size:24 final size:22
Alignment explanation
Indices: 35054484--35054535 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
35054474 AATATCATTA
* *
35054484 CTAACTTTAATTTTTTATTTTTAT
1 CTAATTTTAA-TTTTTATTATT-T
35054508 CTAATTTTAATTTTTATTATTT
1 CTAATTTTAATTTTTATTATTT
35054530 CTAATT
1 CTAATT
35054536 ATATAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 7 0.27
23 10 0.38
24 9 0.35
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (22 bp):
CTAATTTTAATTTTTATTATTT
Found at i:35056810 original size:126 final size:131
Alignment explanation
Indices: 35056517--35056820 Score: 386
Period size: 126 Copynumber: 2.3 Consensus size: 131
35056507 GATTGAACTA
*
35056517 ATTGGTTAATTTTTAACTGTATTATGATTATGATTGTTGTTATTGCGTTATTTTTACTCTTGTTT
1 ATTGGTTAA-TTTTAACTATATTATGATTATGATTGTTGTTATTGCGTTATTTTTACTCTTGTTT
* *
35056582 GACGCCTACTACTTAATTTAAGTATTAGAGTTTAGGGTTTAATTCTCAGCTTAACTATTATCCAA
65 GACGCC-ACTACTTAATTTAAGTATTAGAGTTTAGGGTTTAATTCCCAGCTTAACTATTATCAAA
*
35056647 TTC
129 ATC
* * * *
35056650 ACTGGTTAATTATTAACTATAATATTATTATGATTGCTGTTATTGCGTTA-TTTTACTCTTGTTT
1 ATTGGTTAATT-TTAACTATATTATGATTATGATTGTTGTTATTGCGTTATTTTTACTCTTGTTT
* * * * *
35056714 GATG-C-CTAC-TAA-TT-AGTTTTAGGGTTTAGGGTTTAATTCCCAGTTTAACTATTATTAAAA
65 GACGCCACTACTTAATTTAAGTATTAGAGTTTAGGGTTTAATTCCCAGCTTAACTATTATCAAAA
35056774 TC
130 TC
* * *
35056776 ATTGGTTAATGTTTAGCTTTATTATGATTGTGATTGTTGTTATTG
1 ATTGGTTAAT-TTTAACTATATTATGATTATGATTGTTGTTATTG
35056821 TTTTCTTTTG
Statistics
Matches: 149, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
126 77 0.52
127 3 0.02
128 3 0.02
129 4 0.03
131 1 0.01
132 19 0.13
133 42 0.28
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.49
Consensus pattern (131 bp):
ATTGGTTAATTTTAACTATATTATGATTATGATTGTTGTTATTGCGTTATTTTTACTCTTGTTTG
ACGCCACTACTTAATTTAAGTATTAGAGTTTAGGGTTTAATTCCCAGCTTAACTATTATCAAAAT
C
Found at i:35057352 original size:30 final size:29
Alignment explanation
Indices: 35057281--35057352 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
35057271 TAGGGACTGT
* * * *
35057281 ATCAAATTAGTCCCTCTATTATTGAATAG
1 ATCAAATTAGTCCCTATACTATTAAAAAG
*
35057310 ATCAATTTAGTCCCTATACTATTAAAAAG
1 ATCAAATTAGTCCCTATACTATTAAAAAG
*
35057339 AATCAAATAAGTCC
1 -ATCAAATTAGTCC
35057353 AAATTGTTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
29 24 0.69
30 11 0.31
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.33
Consensus pattern (29 bp):
ATCAAATTAGTCCCTATACTATTAAAAAG
Found at i:35058591 original size:30 final size:30
Alignment explanation
Indices: 35058548--35058620 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
35058538 GTTACAATTT
* * *
35058548 GGACTTAATTTGATTCC-TTCTAATATTATAG
1 GGAC-TAAATTGATTCCATT-TAATAATAGAG
35058579 GGACTAAATTGA-TCCATTTAATAATAGAG
1 GGACTAAATTGATTCCATTTAATAATAGAG
*
35058608 GGACTAACTTGAT
1 GGACTAAATTGAT
35058621 ACTGTCCCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 23 0.64
30 9 0.25
31 4 0.11
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (30 bp):
GGACTAAATTGATTCCATTTAATAATAGAG
Found at i:35068037 original size:14 final size:14
Alignment explanation
Indices: 35068018--35068047 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35068008 TAATTTTATA
*
35068018 TTATTTTTATATTT
1 TTATTTATATATTT
35068032 TTATTTATATATTT
1 TTATTTATATATTT
35068046 TT
1 TT
35068048 GAACAATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTATTTATATATTT
Found at i:35070537 original size:15 final size:15
Alignment explanation
Indices: 35070511--35070551 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
35070501 TTTTTATTTG
35070511 AATAATTATAAATAAA
1 AATAATTATAAAT-AA
35070527 AATAA-TATAAATAA
1 AATAATTATAAATAA
35070541 AATAATTATAA
1 AATAATTATAA
35070552 TCAGAATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.29
15 12 0.50
16 5 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AATAATTATAAATAA
Found at i:35071718 original size:29 final size:30
Alignment explanation
Indices: 35071679--35071736 Score: 91
Period size: 29 Copynumber: 1.9 Consensus size: 30
35071669 ATTTGACGTG
*
35071679 TATATATAATTACAC-TAAATCAAAATTCA
1 TATATAAAATTACACATAAATCAAAATTCA
35071708 TATATAAAATTACACATTAAATCAAAATT
1 TATATAAAATTACACA-TAAATCAAAATT
35071737 TATGTGTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 14 0.54
31 12 0.46
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (30 bp):
TATATAAAATTACACATAAATCAAAATTCA
Found at i:35071773 original size:95 final size:95
Alignment explanation
Indices: 35071643--35071836 Score: 280
Period size: 95 Copynumber: 2.0 Consensus size: 95
35071633 TTTTTTTTAA
* * * * *
35071643 ATGTGTGTATTTGGTCCACGATAAAAATTTGACGTGTATATATAATTACACTAAATCAAAATTCA
1 ATGTGTATATTTAGTCAACAATAAAAATTTGACGTGTATATATAATTACACCAAATCAAAATTCA
*
35071708 TATATAAAATTACACATTAAATCAAAATTT
66 TATATAAAATTACACATAAAATCAAAATTT
* * *
35071738 ATGTGTATATTTAGTCAACAATAAAAGTTTTACGTGTATATATAATTACACCAAATTAAAATTCA
1 ATGTGTATATTTAGTCAACAATAAAAATTTGACGTGTATATATAATTACACCAAATCAAAATTCA
* * *
35071803 TATATCAAATTACACATAAAATTAAATTTT
66 TATATAAAATTACACATAAAATCAAAATTT
35071833 ATGT
1 ATGT
35071837 ATAATTTTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 87 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (95 bp):
ATGTGTATATTTAGTCAACAATAAAAATTTGACGTGTATATATAATTACACCAAATCAAAATTCA
TATATAAAATTACACATAAAATCAAAATTT
Found at i:35074182 original size:19 final size:19
Alignment explanation
Indices: 35074142--35074180 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
35074132 ATTTTTATAT
35074142 TATTTTTAATTATTTAAAA
1 TATTTTTAATTATTTAAAA
*
35074161 TATTTTT-A-TATTTATAA
1 TATTTTTAATTATTTAAAA
35074178 TAT
1 TAT
35074181 ATAATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 1 0.05
19 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTTTAATTATTTAAAA
Found at i:35074769 original size:165 final size:166
Alignment explanation
Indices: 35074497--35074827 Score: 655
Period size: 165 Copynumber: 2.0 Consensus size: 166
35074487 TCGCATATAA
35074497 ACAGAAAGACAATCTCTCTTGGTTTAATTTTCTTATCACCTCTAGAACCTTAGCTCTTGAAACTT
1 ACAGAAAGACAATCTCTCTTGGTTTAATTTTCTTATCACCTCTAGAACCTTAGCTCTTGAAACTT
35074562 AAGTGTCAAGCATTTAATAAAGTCAAATTTATTTTTTGTATTAATATTTTTATATATTCACGAAA
66 AAGTGTCAAGCATTTAATAAAGTCAAATTTATTTTTTGTATTAATATTTTTATATATTCACGAAA
35074627 AAAAATTTAAAAAATTATATTATTT-CTATAATTTT
131 AAAAATTTAAAAAATTATATTATTTACTATAATTTT
35074662 ACAGAAAGACAATCTCTCTTGGTTTAATTTTCTTATCACCTCTAGAACCTTAGCTCTTGAAACTT
1 ACAGAAAGACAATCTCTCTTGGTTTAATTTTCTTATCACCTCTAGAACCTTAGCTCTTGAAACTT
35074727 AAGTGTCAAGCATTTAATAAAGTCAAATTTATTTTTTGTATTAATATTTTTATATATTCACGAAA
66 AAGTGTCAAGCATTTAATAAAGTCAAATTTATTTTTTGTATTAATATTTTTATATATTCACGAAA
35074792 AAAAATTTAAAAAATTATATTATTTACTATAATTTT
131 AAAAATTTAAAAAATTATATTATTTACTATAATTTT
35074828 TTATTGGTAT
Statistics
Matches: 165, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
165 155 0.94
166 10 0.06
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (166 bp):
ACAGAAAGACAATCTCTCTTGGTTTAATTTTCTTATCACCTCTAGAACCTTAGCTCTTGAAACTT
AAGTGTCAAGCATTTAATAAAGTCAAATTTATTTTTTGTATTAATATTTTTATATATTCACGAAA
AAAAATTTAAAAAATTATATTATTTACTATAATTTT
Found at i:35077174 original size:22 final size:24
Alignment explanation
Indices: 35077130--35077174 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
35077120 CGATCTGAGT
* *
35077130 TATTATTTAATATACAGATTTTAA
1 TATTATTTAATATACAAAATTTAA
35077154 TATTATTT-A-ATACAAAATTTA
1 TATTATTTAATATACAAAATTTA
35077175 TTAATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (24 bp):
TATTATTTAATATACAAAATTTAA
Found at i:35078304 original size:73 final size:73
Alignment explanation
Indices: 35078222--35078369 Score: 296
Period size: 73 Copynumber: 2.0 Consensus size: 73
35078212 CATGCGTGTA
35078222 TGCCATGGATTTTTTTTTCAGCTTTGTATTAGTTTGATTTTACGTTGTAGTTTCTCGGACATGTA
1 TGCCATGGATTTTTTTTTCAGCTTTGTATTAGTTTGATTTTACGTTGTAGTTTCTCGGACATGTA
35078287 TTTTTACT
66 TTTTTACT
35078295 TGCCATGGATTTTTTTTTCAGCTTTGTATTAGTTTGATTTTACGTTGTAGTTTCTCGGACATGTA
1 TGCCATGGATTTTTTTTTCAGCTTTGTATTAGTTTGATTTTACGTTGTAGTTTCTCGGACATGTA
35078360 TTTTTACT
66 TTTTTACT
35078368 TG
1 TG
35078370 TATTGTTTTT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.16, C:0.12, G:0.18, T:0.53
Consensus pattern (73 bp):
TGCCATGGATTTTTTTTTCAGCTTTGTATTAGTTTGATTTTACGTTGTAGTTTCTCGGACATGTA
TTTTTACT
Found at i:35079114 original size:25 final size:24
Alignment explanation
Indices: 35079080--35079129 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
35079070 AAAATTTTCC
35079080 TTAAAAAACACAATTTAATAACTTT
1 TTAAAAAACACAATTTAATAA-TTT
* * *
35079105 TTAATAAACATAATTTATTAATTT
1 TTAAAAAACACAATTTAATAATTT
35079129 T
1 T
35079130 AAATTTGCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (24 bp):
TTAAAAAACACAATTTAATAATTT
Found at i:35079286 original size:20 final size:21
Alignment explanation
Indices: 35079239--35079288 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
35079229 TTTATGCGAA
* *
35079239 AAATATTTTTTTATTTTTTTG
1 AAATATTTATTTATTTTTTAG
35079260 AAA-ATTTATTT-TTTTTTAG
1 AAATATTTATTTATTTTTTAG
35079279 AAATATTTAT
1 AAATATTTAT
35079289 GGAAAAGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 10 0.38
20 13 0.50
21 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (21 bp):
AAATATTTATTTATTTTTTAG
Found at i:35083591 original size:3 final size:3
Alignment explanation
Indices: 35083578--35083628 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
35083568 TAGTTACTAA
*
35083578 CAT CGT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
35083626 CAT
1 CAT
35083629 AGGCCATGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.31, C:0.33, G:0.02, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:35088149 original size:61 final size:63
Alignment explanation
Indices: 35088069--35088191 Score: 162
Period size: 61 Copynumber: 2.0 Consensus size: 63
35088059 GACTCTAAGT
* *
35088069 TTTGGAGGGTCTAAATAAAAATTTTAAAAATTTTACGAGTTTAAT-A-ATTTTTTGAAAAAAAA
1 TTTGGAGGATCTAAATAAAAATTTTAAAAATTTTACGAGATTAATGAGA-TTTTTGAAAAAAAA
* * **
35088131 TTTGG-GGATCTAATTAAAATTTTTAAAAATTTTGTGAGATTAATGAGATTTTTGAAAAAAA
1 TTTGGAGGATCTAAATAAAAATTTTAAAAATTTTACGAGATTAATGAGATTTTTGAAAAAAA
35088192 TTTAAAAGAG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 33 0.62
62 19 0.36
63 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.15, T:0.40
Consensus pattern (63 bp):
TTTGGAGGATCTAAATAAAAATTTTAAAAATTTTACGAGATTAATGAGATTTTTGAAAAAAAA
Found at i:35091032 original size:19 final size:19
Alignment explanation
Indices: 35091008--35091044 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
35090998 TGATTTATGA
35091008 AAAATGATTTACTTTTCTG
1 AAAATGATTTACTTTTCTG
35091027 AAAATGATTTACTTTTCT
1 AAAATGATTTACTTTTCT
35091045 AGTGTTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (19 bp):
AAAATGATTTACTTTTCTG
Found at i:35091262 original size:14 final size:15
Alignment explanation
Indices: 35091243--35091271 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
35091233 ATTTATTTGT
35091243 AAATAAATAA-AATA
1 AAATAAATAATAATA
35091257 AAATAAATAATAATA
1 AAATAAATAATAATA
35091272 CTCAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAAATAATAATA
Found at i:35093502 original size:21 final size:20
Alignment explanation
Indices: 35093478--35093516 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
35093468 GTTAAAAATA
35093478 ATTATCATTTTCATCATTTGG
1 ATTATCATTTTCAT-ATTTGG
35093499 ATTATCATTTTCATATTT
1 ATTATCATTTTCATATTT
35093517 TAATCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTATCATTTTCATATTTGG
Found at i:35094150 original size:18 final size:17
Alignment explanation
Indices: 35094108--35094150 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
35094098 CCCTTAATTT
*
35094108 TGTAATATTTTATATTA
1 TGTAATTTTTTATATTA
* *
35094125 TATTATTTTTATATATTA
1 TGTAATTTTT-TATATTA
35094143 TGTAATTT
1 TGTAATTT
35094151 ATAACACATA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (17 bp):
TGTAATTTTTTATATTA
Found at i:35095121 original size:86 final size:86
Alignment explanation
Indices: 35094976--35095139 Score: 265
Period size: 86 Copynumber: 1.9 Consensus size: 86
35094966 CGCTCGAACT
* * * *
35094976 CACGTCTACTTGGAGTAGTAAAAATGTCAATACCAACCAAATTAAGACTCAATCTGATTCAATAT
1 CACGTCTACTTAGACTAGTAAAAATGTCAATACCAACCAAATTAAGACCCAACCTGATTCAATAT
*
35095041 AATAAATGTGCATCTCAAACC
66 AATAAACGTGCATCTCAAACC
**
35095062 CACGTCTACTTAGACTAGTAACTATGTCAATACCAACCAAATTAAGACCCAACCTGATTCAATAT
1 CACGTCTACTTAGACTAGTAAAAATGTCAATACCAACCAAATTAAGACCCAACCTGATTCAATAT
35095127 AATAAACGTGCAT
66 AATAAACGTGCAT
35095140 TTAATATATA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 71 1.00
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (86 bp):
CACGTCTACTTAGACTAGTAAAAATGTCAATACCAACCAAATTAAGACCCAACCTGATTCAATAT
AATAAACGTGCATCTCAAACC
Found at i:35095387 original size:2 final size:2
Alignment explanation
Indices: 35095382--35095412 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
35095372 TATTAACAAC
*
35095382 AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35095413 ATTTATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35108807 original size:24 final size:24
Alignment explanation
Indices: 35108773--35108824 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
35108763 TTTCTAGATG
* *
35108773 ATTTAATATTTATTAGTATGATAT
1 ATTTAACATTTATTAGTATAATAT
*
35108797 ATTTAACATTTATTAGTATAATTT
1 ATTTAACATTTATTAGTATAATAT
35108821 ATTT
1 ATTT
35108825 GACTTACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (24 bp):
ATTTAACATTTATTAGTATAATAT
Found at i:35111201 original size:16 final size:16
Alignment explanation
Indices: 35111164--35111202 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
35111154 GCTCTAGATT
*
35111164 GTTGGAGCACTGAAGT
1 GTTGGAGCACTGAAGC
* *
35111180 GCTGGAGCAGTGAAGC
1 GTTGGAGCACTGAAGC
35111196 GTTGGAG
1 GTTGGAG
35111203 TTAAAACACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.13, G:0.44, T:0.21
Consensus pattern (16 bp):
GTTGGAGCACTGAAGC
Found at i:35119699 original size:16 final size:16
Alignment explanation
Indices: 35119675--35119775 Score: 53
Period size: 16 Copynumber: 6.3 Consensus size: 16
35119665 ATTCGGTTCG
*
35119675 GGTTAATTTCGAGTTTA
1 GGTT-ATTTTGAGTTTA
* *
35119692 GGTTATTTTGAATTTT
1 GGTTATTTTGAGTTTA
* *
35119708 GGTCATTTTGAGTTTT
1 GGTTATTTTGAGTTTA
* * * **
35119724 GGTCA-CTTCAAATTA
1 GGTTATTTTGAGTTTA
* *
35119739 AGTTATTTTGGGTTTA
1 GGTTATTTTGAGTTTA
*
35119755 GGTCTATTTTAAGTTT-
1 GGT-TATTTTGAGTTTA
35119771 GGTTA
1 GGTTA
35119776 GGGGTGTAAA
Statistics
Matches: 62, Mismatches: 20, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
15 10 0.16
16 38 0.61
17 14 0.23
ACGTcount: A:0.21, C:0.06, G:0.22, T:0.51
Consensus pattern (16 bp):
GGTTATTTTGAGTTTA
Found at i:35124553 original size:23 final size:23
Alignment explanation
Indices: 35124510--35124559 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
35124500 AATTAAATAT
**
35124510 ATATTTTTATTATTTTTAATTTA
1 ATATTTTTATTATTTAAAATTTA
*
35124533 ATATTTTTATT-TATTAAAATTTT
1 ATATTTTTATTAT-TTAAAATTTA
35124556 ATAT
1 ATAT
35124560 ATAGTTATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
ATATTTTTATTATTTAAAATTTA
Found at i:35127550 original size:128 final size:128
Alignment explanation
Indices: 35127200--35127570 Score: 451
Period size: 130 Copynumber: 2.9 Consensus size: 128
35127190 CAAAGAACCG
* * * ** * *
35127200 CATAAATAATAGTAAAAACAAACACACCAATAAGTTAGGTAGATAATATTTCGGTTTGGATCGGT
1 CATAAACAACAGT-AAAAC-AACACATCAATAAGTTAGGCGGATAACATTTCGGTTTGGATCGAT
* * * *
35127265 TTTGAATAAATTTAC-AATTACAATGTTTTAGCTTTTAAAAAAGCAATGAACCACATAAGATGAA
64 TTTGAATAAATTTACGAA-TACAATATTCTAGTTTTTAAAAAAGCAAAGAACCACATAAGATGAA
35127329 C
128 C
* * *
35127330 CATAAACAACAGTAAAAGTAAACACATCAATAAGTTAGGCGAATAACATTTCGGCTTGGATCGAT
1 CATAAACAACAGTAAAA--CAACACATCAATAAGTTAGGCGGATAACATTTCGGTTTGGATCGAT
* ** * *
35127395 TTTGAACAAATTTACGGTTACAGTATTCTAGTTTTTAAAAAAGCAAAGAGCCACATCAA-ATGAA
64 TTTGAATAAATTTACGAATACAATATTCTAGTTTTTAAAAAAGCAAAGAACCACAT-AAGATGAA
35127459 C
128 C
** *
35127460 CATAAACAACAGTGAAAACAA-ACATCAATAAGTTAGGCGGATAACATTTTAGTTTAGATCGATT
1 CATAAACAACAGT-AAAACAACACATCAATAAGTTAGGCGGATAACATTTCGGTTTGGATCGATT
*
35127524 TTGAATAAATTTACGAATACAATATTCTAATTTTTAAAAAAGCAAAG
65 TTGAATAAATTTACGAATACAATATTCTAGTTTTTAAAAAAGCAAAG
35127571 CGATTTCGTT
Statistics
Matches: 206, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
128 80 0.39
129 6 0.03
130 114 0.55
131 6 0.03
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (128 bp):
CATAAACAACAGTAAAACAACACATCAATAAGTTAGGCGGATAACATTTCGGTTTGGATCGATTT
TGAATAAATTTACGAATACAATATTCTAGTTTTTAAAAAAGCAAAGAACCACATAAGATGAAC
Found at i:35134695 original size:18 final size:18
Alignment explanation
Indices: 35134650--35134720 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
35134640 AGGCTTAACT
* *
35134650 TAAATTTAATTTTAATAA
1 TAAATTAAATTTTAAAAA
**
35134668 TAAAAAAAATTTTAAAAA
1 TAAATTAAATTTTAAAAA
*
35134686 TAAATTAAATTATAAAAA
1 TAAATTAAATTTTAAAAA
35134704 TATAATTTAAATATTTA
1 TA-AA-TTAAAT-TTTA
35134721 TTGATTTTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
18 31 0.74
19 2 0.05
20 6 0.14
21 3 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATTAAATTTTAAAAA
Found at i:35139211 original size:3 final size:3
Alignment explanation
Indices: 35139203--35139236 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
35139193 TAACAGCAAT
35139203 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC A
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC A
35139237 TCGTTAATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.32, G:0.32, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:35153206 original size:20 final size:19
Alignment explanation
Indices: 35153169--35153214 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
35153159 TACTTCATGC
*
35153169 TTTTTTTTTTAATATTGAA
1 TTTTTTTTTCAATATTGAA
*
35153188 TTTTTTTTTCAATTTTTGAA
1 TTTTTTTTTCAA-TATTGAA
35153208 TATTTTT
1 T-TTTTT
35153215 ATAATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.48
20 7 0.30
21 5 0.22
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
TTTTTTTTTCAATATTGAA
Found at i:35153942 original size:199 final size:197
Alignment explanation
Indices: 35153566--35154122 Score: 674
Period size: 199 Copynumber: 2.8 Consensus size: 197
35153556 GAAGGAAATA
* * *
35153566 ATTAGCTTTCTTGTTCATAGATTGTAAAGCAAAAATTAGGAAAATGAGATTAGTGGTTAGCTTGG
1 ATTAGCTTTCTTGTTCATAGATTGTAAAGCAAAAA-TACGAAAACGAGATTAGTGGTTTGCTTGG
* * * * * *
35153631 CAGAGT-AGAAAAAAGGGAAGAAATGGATATAGGATGGTGAAAAAC-CAAAGAAGAACATTAATG
65 CAGAGTGA-AAAAAACGGAAGAAATGAATAAAGGATGGTGAAAAACTGAAA-AAGAATATGAATG
* * * * * * *
35153694 TTTGAGTGTCTTAGGTAGGGAAGAAAATTCCGGCTCACTTAACTGCATTAC-AAAGATTAGCTTT
128 TTTGAGCGTGTTTGGTA-GGAAAAAAATTCTGGCTCACTTAACTGCATTACAAAAGATTAGCGTC
*
35153758 GTCTTC
192 ATCTTC
* *
35153764 ATTAGCTTTCTTGTTCATAGATAGTAAAGCAAAAATACGAAAACGAGTTTAGTGGTTTGCTTGGC
1 ATTAGCTTTCTTGTTCATAGATTGTAAAGCAAAAATACGAAAACGAGATTAGTGGTTTGCTTGGC
* * *
35153829 AGAGTGAAAAAAAAAACAGAAG-AATGAATAAAAGAAGGTGAAAAACTGAAAAAGAATATGAATG
66 AGAGTG---AAAAAAACGGAAGAAATGAATAAAGGATGGTGAAAAACTGAAAAAGAATATGAATG
* * *
35153893 TTTGAGCGTGTTTGGTAGGAAAAAGAATTCTTGTTCACTTAGCTGCATTACAAAAGATTAGCGTC
128 TTTGAGCGTGTTTGGTAGGAAAAA-AATTCTGGCTCACTTAACTGCATTACAAAAGATTAGCGTC
35153958 ATCTTC
192 ATCTTC
* * * *
35153964 GTTAGCTTTCTTGTTCATAGATTGTAAAGCAAAAATACGGAAACAAGATTAGTGGTTTGCTTAGC
1 ATTAGCTTTCTTGTTCATAGATTGTAAAGCAAAAATACGAAAACGAGATTAGTGGTTTGCTTGGC
* * * * *
35154029 AGAGTG-AAAAATCTGGAAGAAATGGAATTAGGGGTGGTGAAAAACTGAAAAAGAATATGGATGT
66 AGAGTGAAAAAAAC-GGAAGAAAT-GAATAAAGGATGGTGAAAAACTGAAAAAGAATATGAATGT
35154093 TTGAGCGTGTTTGGTAGGAAAGAAAATTCT
129 TTGAGCGTGTTTGGTAGGAAA-AAAATTCT
35154123 CGCACCTGTT
Statistics
Matches: 309, Mismatches: 39, Indels: 21
0.84 0.11 0.06
Matches are distributed among these distances:
196 6 0.02
197 35 0.11
198 43 0.14
199 128 0.41
200 96 0.31
201 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (197 bp):
ATTAGCTTTCTTGTTCATAGATTGTAAAGCAAAAATACGAAAACGAGATTAGTGGTTTGCTTGGC
AGAGTGAAAAAAACGGAAGAAATGAATAAAGGATGGTGAAAAACTGAAAAAGAATATGAATGTTT
GAGCGTGTTTGGTAGGAAAAAAATTCTGGCTCACTTAACTGCATTACAAAAGATTAGCGTCATCT
TC
Found at i:35154457 original size:12 final size:12
Alignment explanation
Indices: 35154442--35154466 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35154432 AAACAATTAT
35154442 AAAAAACAAAAC
1 AAAAAACAAAAC
35154454 AAAAAACAAAAC
1 AAAAAACAAAAC
35154466 A
1 A
35154467 GTCTGTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAACAAAAC
Found at i:35158316 original size:9 final size:9
Alignment explanation
Indices: 35158298--35158343 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
35158288 TTGGGTAATT
35158298 TTCGGGTAA
1 TTCGGGTAA
*
35158307 TTCGGTTAA
1 TTCGGGTAA
* *
35158316 TTTGGTTAA
1 TTCGGGTAA
35158325 -TCGGGTAA
1 TTCGGGTAA
35158333 TTCGGGTAA
1 TTCGGGTAA
35158342 TT
1 TT
35158344 TTTAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:35158342 original size:17 final size:17
Alignment explanation
Indices: 35158298--35158342 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
35158288 TTGGGTAATT
*
35158298 TTCGGGTAATTCGGTTAA
1 TTCGGGTAA-TCGGGTAA
* *
35158316 TTTGGTTAATCGGGTAA
1 TTCGGGTAATCGGGTAA
35158333 TTCGGGTAAT
1 TTCGGGTAAT
35158343 TTTTAACCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.22, C:0.09, G:0.29, T:0.40
Consensus pattern (17 bp):
TTCGGGTAATCGGGTAA
Found at i:35167706 original size:306 final size:310
Alignment explanation
Indices: 35167106--35167731 Score: 985
Period size: 306 Copynumber: 2.0 Consensus size: 310
35167096 TTTCTCGATT
** *
35167106 TTTTGTTGTTAATTGGAGTCACCGTTGTGATTCAATTCGATTTGACTTGGTTTGCAGCTTTTTTT
1 TTTTGTTGTTAATTGGAGTCACCGTTGTGATTCAATTAAATTTGACTTGGTTTGCAGCTGTTTTT
* *
35167171 GGTTAGTGGTTGTAAGATTTGATTTGAATTTTATAAATTAATAATACTCGTGCAATAGAGCTTAA
66 GGTTAGTAGTTGTAAGATTTGATTTGAATTTTATAAATT-ATAATACTCATGCAATAGAGCTTAA
* * *
35167236 TGCGATTCAATAGTGGAAAAATTAGATGTTTCAAATTCATATTTGAGCTGGAAACTATTGATATT
130 TGCGATTCAATAGTAGAAAAATTAGATGGTTCAAATTCATATTTAAGCTGGAAACTATTGATATT
* * *
35167301 AGAAGAGGTATGGAAATTTGAACTGTCTTACTTGTGTTTTGACTTGGTATTTTGATGTAGGAAGT
195 ACAAGAGGTATGGAAATTGGAACTGTCTTAATTGTGTTTTGACTTGGTATTTTGATGTAGGAAGT
*
35167366 TGCATAATATACTGGAGCTATTAAAATATGAGGAAATGGTTTTTCC-TTTG
260 TGCATAATATACTGGAGCTATTAAAATATGAGGAAATGGTTTTCCCTTTTG
* * *
35167416 TTTTGTTGTTAATTGGAGTTACCTTTGTGATTTAATTAAATTTGACTTGGTTTGCAGCTGTTTTT
1 TTTTGTTGTTAATTGGAGTCACCGTTGTGATTCAATTAAATTTGACTTGGTTTGCAGCTGTTTTT
*
35167481 GGTTAGTAGTTGTAAGATTTGATTTGAATTTTATAAA-T-TAATACTCATGGAATAGAGCTTAAT
66 GGTTAGTAGTTGTAAGATTTGATTTGAATTTTATAAATTATAATACTCATGCAATAGAGCTTAAT
* * * *
35167544 GCGATTTAATA-TAGAGAAATTAGATGGTTCAAATTCCTATTTAAGCTGGAAATTATTGATATTA
131 GCGATTCAATAGTAGAAAAATTAGATGGTTCAAATTCATATTTAAGCTGGAAACTATTGATATTA
*
35167608 CAAGAGGTATGGAAATTGGAACTGTTTTAATTGTG-TTTGACTTGGTATTTTGATGTAGGAAGTT
196 CAAGAGGTATGGAAATTGGAACTGTCTTAATTGTGTTTTGACTTGGTATTTTGATGTAGGAAGTT
35167672 GCATAAATATACTGGAGCTATTAAAA-ATTGAGGAAATGGTTTTCCCTTTTG
261 GCAT-AATATACTGGAGCTATTAAAATA-TGAGGAAATGGTTTTCCCTTTTG
*
35167723 TTTTCTTGT
1 TTTTGTTGT
35167732 AAAATTGTTA
Statistics
Matches: 291, Mismatches: 22, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
305 34 0.12
306 116 0.40
307 45 0.15
309 1 0.00
310 95 0.33
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (310 bp):
TTTTGTTGTTAATTGGAGTCACCGTTGTGATTCAATTAAATTTGACTTGGTTTGCAGCTGTTTTT
GGTTAGTAGTTGTAAGATTTGATTTGAATTTTATAAATTATAATACTCATGCAATAGAGCTTAAT
GCGATTCAATAGTAGAAAAATTAGATGGTTCAAATTCATATTTAAGCTGGAAACTATTGATATTA
CAAGAGGTATGGAAATTGGAACTGTCTTAATTGTGTTTTGACTTGGTATTTTGATGTAGGAAGTT
GCATAATATACTGGAGCTATTAAAATATGAGGAAATGGTTTTCCCTTTTG
Found at i:35172521 original size:14 final size:14
Alignment explanation
Indices: 35172502--35172528 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35172492 CCTTAAAATT
35172502 ATACATAAATTTTG
1 ATACATAAATTTTG
35172516 ATACATAAATTTT
1 ATACATAAATTTT
35172529 AGGGATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (14 bp):
ATACATAAATTTTG
Found at i:35174478 original size:17 final size:17
Alignment explanation
Indices: 35174452--35174484 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35174442 TAATATTACG
35174452 TATTAAATAAAAATAAC
1 TATTAAATAAAAATAAC
*
35174469 TATTATATAAAAATAA
1 TATTAAATAAAAATAA
35174485 GAATTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
TATTAAATAAAAATAAC
Found at i:35178796 original size:48 final size:48
Alignment explanation
Indices: 35178725--35178839 Score: 194
Period size: 48 Copynumber: 2.4 Consensus size: 48
35178715 GAGGGAGGAC
* *
35178725 TAGTTGGCGGCGGAGCTGCTGCGGTTGGTGGTGGTGTAGAAGGAGTGT
1 TAGTTGGCGGCGGAGTTGCTGCGGTTGGTGGTGGTGTAGAAGGAGTGG
* *
35178773 TAGTTGGCGGCGGAGTTGCTGCGGTTGGTGGTGGTGTGGCAGGAGTGG
1 TAGTTGGCGGCGGAGTTGCTGCGGTTGGTGGTGGTGTAGAAGGAGTGG
35178821 TAGTTGGCGGCGGAGTTGC
1 TAGTTGGCGGCGGAGTTGC
35178840 GGTGGATGGC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.10, C:0.11, G:0.51, T:0.27
Consensus pattern (48 bp):
TAGTTGGCGGCGGAGTTGCTGCGGTTGGTGGTGGTGTAGAAGGAGTGG
Found at i:35178865 original size:48 final size:48
Alignment explanation
Indices: 35178725--35178853 Score: 141
Period size: 48 Copynumber: 2.7 Consensus size: 48
35178715 GAGGGAGGAC
* * * * * * *
35178725 TAGTTGGCGGCGGAGCTGCTGCGGTTGGTGGTGGTGTAGAAGGAGTGT
1 TAGTTGGCGGCGGAGTTGCGGCGGATGGCGGCGGTGTGGAAGGAGTGG
* * * * *
35178773 TAGTTGGCGGCGGAGTTGCTGCGGTTGGTGGTGGTGTGGCAGGAGTGG
1 TAGTTGGCGGCGGAGTTGCGGCGGATGGCGGCGGTGTGGAAGGAGTGG
*
35178821 TAGTTGGCGGCGGAGTTGCGGTGGATGGCGGCG
1 TAGTTGGCGGCGGAGTTGCGGCGGATGGCGGCG
35178854 ATTGGGAAGG
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.10, C:0.12, G:0.53, T:0.26
Consensus pattern (48 bp):
TAGTTGGCGGCGGAGTTGCGGCGGATGGCGGCGGTGTGGAAGGAGTGG
Found at i:35180680 original size:22 final size:24
Alignment explanation
Indices: 35180655--35180701 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
35180645 TGCTGAATCC
*
35180655 TTGAAA-TTTAATT-TTATATATA
1 TTGAAAGTTTAATTATTATAAATA
*
35180677 TTGAAAGTTTTATTATTATAAATA
1 TTGAAAGTTTAATTATTATAAATA
35180701 T
1 T
35180702 AACAATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 6 0.29
24 9 0.43
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.53
Consensus pattern (24 bp):
TTGAAAGTTTAATTATTATAAATA
Found at i:35185229 original size:14 final size:14
Alignment explanation
Indices: 35185210--35185237 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35185200 AATCGAGCTC
35185210 AATAAAATAACAAT
1 AATAAAATAACAAT
35185224 AATAAAATAACAAT
1 AATAAAATAACAAT
35185238 GCTAATTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAAAATAACAAT
Found at i:35186559 original size:18 final size:18
Alignment explanation
Indices: 35186528--35186569 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
35186518 AATATGCTTG
*
35186528 AATT-AAAATGTAAA-TT
1 AATTAAAAATATAAACTT
35186544 AAATTAAAAATATAAACTT
1 -AATTAAAAATATAAACTT
35186563 AATTAAA
1 AATTAAA
35186570 GTTTTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 4 0.18
18 16 0.73
19 2 0.09
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
AATTAAAAATATAAACTT
Found at i:35188946 original size:5 final size:5
Alignment explanation
Indices: 35188889--35188942 Score: 81
Period size: 5 Copynumber: 10.8 Consensus size: 5
35188879 AGACAATGAT
* * *
35188889 TATGA TATGG TATGG TATGG TATGG TATGG TATGG TATGG TATGT TATGA
1 TATGG TATGG TATGG TATGG TATGG TATGG TATGG TATGG TATGG TATGG
35188939 TATG
1 TATG
35188943 ATATATATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (5 bp):
TATGG
Found at i:35191537 original size:10 final size:10
Alignment explanation
Indices: 35191522--35191546 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
35191512 TGATCGTTTG
35191522 TAATTTTTCA
1 TAATTTTTCA
35191532 TAATTTTTCA
1 TAATTTTTCA
35191542 TAATT
1 TAATT
35191547 GAGTTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (10 bp):
TAATTTTTCA
Found at i:35193614 original size:185 final size:191
Alignment explanation
Indices: 35193249--35193661 Score: 642
Period size: 185 Copynumber: 2.2 Consensus size: 191
35193239 GGGTTGTCAT
*
35193249 TTGGTTATCTGGTTTTAGTTTATTTCAATTTTACTAGGAATGCGGATCGGTTCGGTACGAGGAAC
1 TTGGTTATCTGGTTTTAGTTTATTTCAATGTTACTAGGAATGCGGATCGGTTCGGTACGAGGAAC
**
35193314 GGAAATCGGAACACAAATCGTTACTTATATGACACATTATTCGACAGGGGATAGTCTAATAGGAA
66 AAAAATCGGAACACAAATCGTTAC-TATA-GACACATTATTCGACAGGGGATAGTCTAATAGGAA
* *
35193379 TGAAATGCGATTCATCAGTTTGAATTTATACATATAGCTTTTGTGTTTATATAATC-GAGTCC
129 TGAAATACGATTCATCAGTTTGAATTTATACATATAGCTTTTGAGTTTATATAATCGGAGTCC
* * *
35193441 TTGGTTATTTGGTTTTAGTTTATTTCAATGTTACTAGGAATGCTGATCGGTTCGGTACGAGGAGC
1 TTGGTTATCTGGTTTTAGTTTATTTCAATGTTACTAGGAATGCGGATCGGTTCGGTACGAGGAAC
*
35193506 AAAAATCGGAACAC-AA-C-TTA-TATA-ACACCTTATTCGACAGGGGATAGTCTAATAGGAACT
66 AAAAATCGGAACACAAATCGTTACTATAGACACATTATTCGACAGGGGATAGTCTAATAGGAA-T
* *
35193566 -CAATACGATTCATCCGTTTGAATTTATACATATAGCTTTTGAGTTTATATAATCGGAGTCC
130 GAAATACGATTCATCAGTTTGAATTTATACATATAGCTTTTGAGTTTATATAATCGGAGTCC
*
35193627 TCGGTTATCTGGTTTTAGTTTATTTCAATGTTACT
1 TTGGTTATCTGGTTTTAGTTTATTTCAATGTTACT
35193662 TTCAACAATT
Statistics
Matches: 206, Mismatches: 13, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
185 83 0.40
186 40 0.19
187 4 0.02
189 3 0.01
190 1 0.00
191 2 0.01
192 73 0.35
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (191 bp):
TTGGTTATCTGGTTTTAGTTTATTTCAATGTTACTAGGAATGCGGATCGGTTCGGTACGAGGAAC
AAAAATCGGAACACAAATCGTTACTATAGACACATTATTCGACAGGGGATAGTCTAATAGGAATG
AAATACGATTCATCAGTTTGAATTTATACATATAGCTTTTGAGTTTATATAATCGGAGTCC
Found at i:35194134 original size:210 final size:213
Alignment explanation
Indices: 35193746--35195006 Score: 1207
Period size: 210 Copynumber: 5.6 Consensus size: 213
35193736 GAGTGGTTGT
* * *
35193746 TTATAGGAAACCTTATTCGGTAGGGCATAGTCTAATAGGAACAAAATACGATTCGTCGGTTTGAA
1 TTATAGGAAACCTTATTCGATAGGG-ATAGTCTAATAGGAACGAAATACGATTCATCGGTTTGAA
*
35193811 TCTATATATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATT
65 TCTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATT
*
35193876 GTT-CATTGATTTTCTTGATTATGTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTAT-G
130 GTTCCA-TGATTTTCATGATTATGTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTATGG
35193939 -A-GGAACGCAAATGGTTAC
194 AATGGAACGCAAATGGTTAC
* * * *
35193957 TTATATGAATCCTTATTCGATAGGGATAGTCTAATAGGAATGAAATACGACTCATCGGTTTGAAT
1 TTATAGGAAACCTTATTCGATAGGGATAGTCTAATAGGAACGAAATACGATTCATCGGTTTGAAT
* *
35194022 GTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAATCATACTGAATTGGATTGCTATTG
66 CTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATTG
* * *
35194087 TTCCATGATTTTCATGATTATGTACTTTGAATGGAGGGTTGTCATTGGATCAGTTCCGTATGAGG
131 TTCCATGATTTTCATGATTATGTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTAT--GG
35194152 AATGGATATTTAAACGCAAATGGTTAC
194 AATGG-------AACGCAAATGGTTAC
* * * * * *
35194179 TTATAGGAAACCTTATTTGATTGGGATAGTCTAATAGGAATG-AATACAAATCATCGGTTCGAAT
1 TTATAGGAAACCTTATTCGATAGGGATAGTCTAATAGGAACGAAATACGATTCATCGGTTTGAAT
* * * *
35194243 GTCTACATATAGCTTTTGTGTTTGTATAATCGAATCGTTAGTCATACTGAATTGGATTGCTGTTG
66 CTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATTG
* *
35194308 TTCCGTGATGTTTATGAGATTACAAGTGATTTTCATGTATTTTGAATGGAGGGTTGCCATTGGAT
131 TTCC---ATG---AT----TTTC-A-TGA--TT-ATGTATTTTGAATGGAGGGTTGTCATTGGAT
* * *
35194373 CGGTTCTGTACGAGGAATGGAAATTGAAATGCAAATGGTTAC
181 CGG---T-T-C--GGTATGG-AA-TGGAACGCAAATGGTTAC
* * * * * *
35194415 TTATACGACACCTTATTCAATAGGGATAGTCTTATAGGAACGAAATATGATTCATTGGTTTGAAT
1 TTATAGGAAACCTTATTCGATAGGGATAGTCTAATAGGAACGAAATACGATTCATCGGTTTGAAT
*
35194480 CTATACATATATCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATTG
66 CTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATTG
*
35194545 TTTCGTGATTTTTATGAGATTACAAGTGATTTTCATGATTATGTATTTTGAATGGAGGGTTGTCA
131 -TTC--------CAT--G------A-T--TTT-CATGATTATGTATTTTGAATGGAGGGTTGTCA
* * * * * *
35194610 TTGGATTGGTTTGGTACGAGGAACAGAAATTGAAATGCAAATAGTTAC
175 TTGGATCGGTTCGGT---ATG----G-AA-TGGAACGCAAATGGTTAC
* * * *
35194658 TTATATGAAACCTTATTTGATAGGGGTTAGTCTAATAGGAACGAAATACGATTCATC-GTTTGAT
1 TTATAGGAAACCTTATTCGATA-GGGATAGTCTAATAGGAACGAAATACGATTCATCGGTTTGAA
* *
35194722 TTTATACATATAGC--TTGTGTTTATATAATCGAATTGTTAGTCATACTGAATTGGATTGCTATT
65 TCTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATT
* * * *
35194785 TTTCCGTGATTTTTCAAGATTATTTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTATGG
130 GTTCCATGA-TTTTCATGATTATGTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTAT-G
*
35194850 CAAACAGAAAGTGGAACAC-AATGGTTA-
193 ------G-AA-TGGAACGCAAATGGTTAC
*
35194877 -TAT--GAAACCTTATTCGATAGGGATAGTCTAATAGGAACGAAATACGATTCGTCGGTTTGAAT
1 TTATAGGAAACCTTATTCGATAGGGATAGTCTAATAGGAACGAAATACGATTCATCGGTTTGAAT
* * * * *
35194939 GTATGCATGTAGCTTTTGTATTTATATAATTGAATCGTTAGTCATACTGAATTGGATTGCTATTG
66 CTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATTG
35195004 TTC
131 TTC
35195007 TGTGATCGGG
Statistics
Matches: 884, Mismatches: 98, Indels: 129
0.80 0.09 0.12
Matches are distributed among these distances:
210 152 0.17
211 24 0.03
213 1 0.00
214 1 0.00
215 34 0.04
216 32 0.04
218 53 0.06
219 1 0.00
220 7 0.01
221 140 0.16
222 56 0.06
224 5 0.01
227 2 0.00
230 1 0.00
231 3 0.00
232 2 0.00
233 3 0.00
235 2 0.00
236 82 0.09
237 77 0.09
238 3 0.00
239 4 0.00
240 5 0.01
241 51 0.06
242 2 0.00
243 97 0.11
244 32 0.04
245 1 0.00
246 3 0.00
247 5 0.01
248 2 0.00
249 1 0.00
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (213 bp):
TTATAGGAAACCTTATTCGATAGGGATAGTCTAATAGGAACGAAATACGATTCATCGGTTTGAAT
CTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATTG
TTCCATGATTTTCATGATTATGTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTATGGAA
TGGAACGCAAATGGTTAC
Found at i:35194730 original size:243 final size:239
Alignment explanation
Indices: 35194105--35195005 Score: 1063
Period size: 237 Copynumber: 3.9 Consensus size: 239
35194095 TTTTCATGAT
* * * * ** * * *
35194105 TATGTACTTTGAATGGAGGGTTGTCATTGGATCAGTTCCGTATGAGGAATGGATATTTAAACGCA
1 TATGTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTACGAGGAACAGAAATTGAAATGCA
* * * * * *
35194170 AATGGTTACTTATAGGAAACCTTATTTGATTGGGATAGTCTAATAGGAATG-AATACAAATCATC
66 AATGGTTACTTATATGAAACCTTATTCGATAGGGATAGTCTAATAGGAACGAAATACGATTCATC
* * *
35194234 GGTTCGAATGTCTACATATAGCTTTTGTGTTTGTATAATCGAATCGTTAGTCATACTGAATTGGA
131 GGTTTGAATGTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGA
* *
35194299 TTGCTGTTGTTCCGTGATGTTTATGAGATTACAAGTGATTTTC--
196 TTGCTATTGTTTCGTGAT-TTTATGAGATTACAAGTGATTTTCTA
* * **
35194342 -ATGTATTTTGAATGGAGGGTTGCCATTGGATCGGTTCTGTACGAGGAATGGAAATTGAAATGCA
1 TATGTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTACGAGGAACAGAAATTGAAATGCA
* * * * * *
35194406 AATGGTTACTTATACGACACCTTATTCAATAGGGATAGTCTTATAGGAACGAAATATGATTCATT
66 AATGGTTACTTATATGAAACCTTATTCGATAGGGATAGTCTAATAGGAACGAAATACGATTCATC
* *
35194471 GGTTTGAATCTATACATATATCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGA
131 GGTTTGAATGTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGA
35194536 TTGCTATTGTTTCGTGATTTTTATGAGATTACAAGTGATTTTCATGA
196 TTGCTATTGTTTCGTGA-TTTTATGAGATTACAAGTGATTTTC-T-A
* *
35194583 TTATGTATTTTGAATGGAGGGTTGTCATTGGATTGGTTTGGTACGAGGAACAGAAATTGAAATGC
1 -TATGTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTACGAGGAACAGAAATTGAAATGC
* * *
35194648 AAATAGTTACTTATATGAAACCTTATTTGATAGGGGTTAGTCTAATAGGAACGAAATACGATTCA
65 AAATGGTTACTTATATGAAACCTTATTCGATA-GGGATAGTCTAATAGGAACGAAATACGATTCA
* * *
35194713 TC-GTTTGATTTTATACATATAGC--TTGTGTTTATATAATCGAATTGTTAGTCATACTGAATTG
129 TCGGTTTGAATGTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTG
35194775 GATTGCTATT-TTTCCGTGA--TT-T----TT-CAA--GA---T-TA
194 GATTGCTATTGTTT-CGTGATTTTATGAGATTACAAGTGATTTTCTA
* * * *
35194807 T-T-TATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTATG-GCAAACAGAAAGTGGAA--C
1 TATGTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTACGAG-GAACAGAAATTGAAATGC
*
35194867 ACAATGG----TTATATGAAACCTTATTCGATAGGGATAGTCTAATAGGAACGAAATACGATTCG
65 A-AATGGTTACTTATATGAAACCTTATTCGATAGGGATAGTCTAATAGGAACGAAATACGATTCA
* * * *
35194928 TCGGTTTGAATGTATGCATGTAGCTTTTGTATTTATATAATTGAATCGTTAGTCATACTGAATTG
129 TCGGTTTGAATGTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTG
35194993 GATTGCTATTGTT
194 GATTGCTATTGTT
35195006 CTGTGATCGG
Statistics
Matches: 586, Mismatches: 62, Indels: 50
0.84 0.09 0.07
Matches are distributed among these distances:
215 32 0.05
216 38 0.06
218 46 0.08
219 4 0.01
220 5 0.01
221 49 0.08
222 1 0.00
223 1 0.00
224 1 0.00
225 1 0.00
227 1 0.00
230 2 0.00
232 3 0.01
233 2 0.00
236 100 0.17
237 109 0.19
238 3 0.01
240 3 0.01
241 53 0.09
243 102 0.17
244 30 0.05
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (239 bp):
TATGTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTACGAGGAACAGAAATTGAAATGCA
AATGGTTACTTATATGAAACCTTATTCGATAGGGATAGTCTAATAGGAACGAAATACGATTCATC
GGTTTGAATGTATACATATAGCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGA
TTGCTATTGTTTCGTGATTTTATGAGATTACAAGTGATTTTCTA
Found at i:35194967 original size:459 final size:468
Alignment explanation
Indices: 35194092--35195005 Score: 1179
Period size: 459 Copynumber: 1.9 Consensus size: 468
35194082 TATTGTTCCA
* **
35194092 TGATTTTCATGATTATGTACTTTGAATGGAGGGTTGTCATTGGATCAGTTCCGTATGAGGAATGG
1 TGATTTTCATGATTATGTACTTTGAATGGAGGGTTGTCATTGGATCAGTTCCGTACGAGGAACAG
* * * * *
35194157 ATATTTAAACGCAAATGGTTACTTATAGGAAACCTTATTTGATTGGGATAGTCTAATAGGAATGA
66 AAATTGAAACGCAAATAGTTACTTATAGGAAACCTTATTTGATGGGGATAGTCTAATAGGAACGA
* *
35194222 ATACAAATCATCGGTTCGAATGTCTACATATAGCTTTTGTGTTTGTATAATCGAATCGTTAGTCA
131 ATACAAATCATCGGTTCGAATGTATACATATAGC-TTTGTGTTTATATAATCGAATCGTTAGTCA
*
35194287 TACTGAATTGGATTGCTGTTGTTCCGTGATGTTTATGAGATTACAAGTGATTTTCATGTATTTTG
195 TACTGAATTGGATTGCTATTGTTCCGTGA--TTTAT---ATTACAAG-GA-TTTCATGTATTTTG
* * ** *
35194352 AATGGAGGGTTGCCATTGGATCGGTTCTGTACGAGGAATGGAAATTGAAATGCAAATGGTTACTT
253 AATGGAGGGTTGCCATTGGATCGGTTCGGTACGAGAAACAGAAAGTGAAA-GCAAATGGTTAC-T
* * * *
35194417 ATACGACACCTTATTCAATAGGGATAGTCTTATAGGAACGAAATATGATTCATTGGTTTGAATCT
316 ATA-GAAACCTTATTCAATAGGGATAGTCTAATAGGAACGAAATACGATTCATCGGTTTGAATCT
* *
35194482 ATACATATATCTTTTGTGTTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATTGTT
380 ATACATATAGCTTTTGTATTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATTGTT
35194547 TCGTGATTTTTATGAGATTACAAG
445 TCGTGATTTTTATGAGATTACAAG
* ** **
35194571 TGATTTTCATGATTATGTATTTTGAATGGAGGGTTGTCATTGGATTGGTTTGGTACGAGGAACAG
1 TGATTTTCATGATTATGTACTTTGAATGGAGGGTTGTCATTGGATCAGTTCCGTACGAGGAACAG
* * *
35194636 AAATTGAAATGCAAATAGTTACTTATATGAAACCTTATTTGATAGGGGTTAGTCTAATAGGAACG
66 AAATTGAAACGCAAATAGTTACTTATAGGAAACCTTATTTGAT-GGGGATAGTCTAATAGGAACG
* * * * * *
35194701 AAATACGATTCATC-GTTTGATTTTATACATATAGC-TTGTGTTTATATAATCGAATTGTTAGTC
130 -AATACAAATCATCGGTTCGAATGTATACATATAGCTTTGTGTTTATATAATCGAATCGTTAGTC
* *
35194764 ATACTGAATTGGATTGCTATTTTTCCGTGA-TT-T-TT-CAA-GA-TT-ATTTATTTTGAATGGA
194 ATACTGAATTGGATTGCTATTGTTCCGTGATTTATATTACAAGGATTTCATGTATTTTGAATGGA
* * *
35194822 GGGTTGTCATTGGATCGGTTCGGTATG-GCAAACAGAAAGTGGAA-CACAATGGTTA-TAT-GAA
259 GGGTTGCCATTGGATCGGTTCGGTACGAG-AAACAGAAAGTGAAAGCA-AATGGTTACTATAGAA
* * * * *
35194883 ACCTTATTCGATAGGGATAGTCTAATAGGAACGAAATACGATTCGTCGGTTTGAATGTATGCATG
322 ACCTTATTCAATAGGGATAGTCTAATAGGAACGAAATACGATTCATCGGTTTGAATCTATACATA
*
35194948 TAGCTTTTGTATTTATATAATTGAATCGTTAGTCATACTGAATTGGATTGCTATTGTT
387 TAGCTTTTGTATTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATTGTT
35195006 CTGTGATCGG
Statistics
Matches: 384, Mismatches: 47, Indels: 28
0.84 0.10 0.06
Matches are distributed among these distances:
459 114 0.30
461 3 0.01
462 2 0.01
463 9 0.02
464 49 0.13
465 2 0.01
467 2 0.01
469 3 0.01
470 2 0.01
474 1 0.00
475 2 0.01
478 54 0.14
479 95 0.25
480 35 0.09
481 11 0.03
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (468 bp):
TGATTTTCATGATTATGTACTTTGAATGGAGGGTTGTCATTGGATCAGTTCCGTACGAGGAACAG
AAATTGAAACGCAAATAGTTACTTATAGGAAACCTTATTTGATGGGGATAGTCTAATAGGAACGA
ATACAAATCATCGGTTCGAATGTATACATATAGCTTTGTGTTTATATAATCGAATCGTTAGTCAT
ACTGAATTGGATTGCTATTGTTCCGTGATTTATATTACAAGGATTTCATGTATTTTGAATGGAGG
GTTGCCATTGGATCGGTTCGGTACGAGAAACAGAAAGTGAAAGCAAATGGTTACTATAGAAACCT
TATTCAATAGGGATAGTCTAATAGGAACGAAATACGATTCATCGGTTTGAATCTATACATATAGC
TTTTGTATTTATATAATCGAATCGTTAGTCATACTGAATTGGATTGCTATTGTTTCGTGATTTTT
ATGAGATTACAAG
Found at i:35195000 original size:218 final size:218
Alignment explanation
Indices: 35194570--35195012 Score: 583
Period size: 221 Copynumber: 2.0 Consensus size: 218
35194560 GAGATTACAA
* * * *
35194570 GTGA-TTTTCATGATTATGTATTTTGAATGGAGGGTTGTCATTGGATTGGTTTGGTACGAGGAAC
1 GTGATTTTTCAAGATTATGTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTACGAGAAAC
* * *
35194634 AGAAATTGAAATGCAAATAGTTACTTATATGAAACCTTATTTGATAGGGGTTAGTCTAATAGGAA
66 AGAAAGTGAAA-GCAAATAG-T-CTTATATGAAACCTTATTCGATAGGGGATAGTCTAATAGGAA
* * * *
35194699 CGAAATACGATTCATCGTTTGATTTTATACATATAGCTTGTGTTTATATAATCGAATTGTTAGTC
128 CGAAATACGATTCATCGTTTGAATGTATACATATAGCTTGTATTTATATAATCGAATCGTTAGTC
*
35194764 ATACTGAATTGGATTGCTATTTTTCC
193 ATACTGAATTGGATTGCTATTGTTCC
* *
35194790 GTGATTTTTCAAGATTATTTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTATG-GCAAA
1 GTGATTTTTCAAGATTATGTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTACGAG-AAA
* *
35194854 CAGAAAGTGGAA-CACAAT-G-GTTATATGAAACCTTATTCGATA-GGGATAGTCTAATAGGAAC
65 CAGAAAGTGAAAGCA-AATAGTCTTATATGAAACCTTATTCGATAGGGGATAGTCTAATAGGAAC
* * * *
35194915 GAAATACGATTCGTCGGTTTGAATGTATGCATGTAGCTTTTGTATTTATATAATTGAATCGTTAG
129 GAAATACGATTCATC-GTTTGAATGTATACATATAGC--TTGTATTTATATAATCGAATCGTTAG
*
35194980 TCATACTGAATTGGATTGCTATTGTTCT
191 TCATACTGAATTGGATTGCTATTGTTCC
35195008 GTGAT
1 GTGAT
35195013 CGGGATTGTA
Statistics
Matches: 196, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
215 32 0.16
216 38 0.19
218 54 0.28
219 3 0.02
220 8 0.04
221 61 0.31
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (218 bp):
GTGATTTTTCAAGATTATGTATTTTGAATGGAGGGTTGTCATTGGATCGGTTCGGTACGAGAAAC
AGAAAGTGAAAGCAAATAGTCTTATATGAAACCTTATTCGATAGGGGATAGTCTAATAGGAACGA
AATACGATTCATCGTTTGAATGTATACATATAGCTTGTATTTATATAATCGAATCGTTAGTCATA
CTGAATTGGATTGCTATTGTTCC
Found at i:35198435 original size:7 final size:7
Alignment explanation
Indices: 35198423--35198451 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
35198413 TCTGCAGACA
35198423 ACAATGT
1 ACAATGT
35198430 ACAATGT
1 ACAATGT
35198437 ACAATGT
1 ACAATGT
35198444 ACAATGT
1 ACAATGT
35198451 A
1 A
35198452 AAAGGGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (7 bp):
ACAATGT
Found at i:35206982 original size:2 final size:2
Alignment explanation
Indices: 35206975--35207008 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
35206965 TCATACATAC
35206975 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35207009 CAAATTTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35210157 original size:16 final size:16
Alignment explanation
Indices: 35210136--35210167 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35210126 AATCATAGAT
*
35210136 CCCAAAATCTGAAAAA
1 CCCAAAAACTGAAAAA
35210152 CCCAAAAACTGAAAAA
1 CCCAAAAACTGAAAAA
35210168 AAAAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.25, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAACTGAAAAA
Found at i:35210961 original size:158 final size:159
Alignment explanation
Indices: 35210673--35210991 Score: 631
Period size: 158 Copynumber: 2.0 Consensus size: 159
35210663 AAAAAGTGTG
35210673 ATTTGTTAATTTCGAATATTCTTCATTGTTGTCAAGGGAAGTTAAAATATCTATTTTAGATTTGA
1 ATTTGTTAATTTCGAATATTCTTCATTGTTGTCAAGGGAAGTTAAAATATCTATTTTAGATTTGA
35210738 TATTGAAAAGTAAAATCAATTCAATCTAAATGATATTTAAATAATTTAATATTATGATACATGAA
66 TATTGAAAAGTAAAATCAATTCAATCTAAATGATATTTAAATAATTTAATATTATGATACATGAA
35210803 ATATATATTTAAATGC-TTTAAAAAATTA
131 ATATATATTTAAATGCTTTTAAAAAATTA
35210831 ATTTGTTAATTTCGAATATTCTTCATTGTTGTCAAGGGAAGTTAAAATATCTATTTTAGATTTGA
1 ATTTGTTAATTTCGAATATTCTTCATTGTTGTCAAGGGAAGTTAAAATATCTATTTTAGATTTGA
35210896 TATTGAAAAGTAAAATCAATTCAATCTAAATGATATTTAAATAATTTAATATTATGATACATGAA
66 TATTGAAAAGTAAAATCAATTCAATCTAAATGATATTTAAATAATTTAATATTATGATACATGAA
35210961 ATATATATTTAAATGCTTTTAAAAAATTA
131 ATATATATTTAAATGCTTTTAAAAAATTA
35210990 AT
1 AT
35210992 ATAAATTATT
Statistics
Matches: 160, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
158 146 0.91
159 14 0.09
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (159 bp):
ATTTGTTAATTTCGAATATTCTTCATTGTTGTCAAGGGAAGTTAAAATATCTATTTTAGATTTGA
TATTGAAAAGTAAAATCAATTCAATCTAAATGATATTTAAATAATTTAATATTATGATACATGAA
ATATATATTTAAATGCTTTTAAAAAATTA
Found at i:35211076 original size:31 final size:32
Alignment explanation
Indices: 35211006--35211077 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
35210996 ATTATTTGTG
35211006 AAAT-TAATGATAAATAAAATATTATAAAATT
1 AAATATAATGATAAATAAAATATTATAAAATT
* *
35211037 AAATATAATGATAAATGATA-ATTA-AATAATT
1 AAATATAATGATAAATAAAATATTATAA-AATT
*
35211068 TAATATAATG
1 AAATATAATG
35211078 CTACATTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 2 0.06
31 21 0.58
32 13 0.36
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (32 bp):
AAATATAATGATAAATAAAATATTATAAAATT
Found at i:35213120 original size:14 final size:14
Alignment explanation
Indices: 35213101--35213134 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
35213091 AATCTAAATT
35213101 AAATTATATTT-ATC
1 AAATTATATTTGA-C
35213115 AAATTATATTTGAC
1 AAATTATATTTGAC
35213129 AAATTA
1 AAATTA
35213135 AAAAATCCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 18 0.95
15 1 0.05
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (14 bp):
AAATTATATTTGAC
Found at i:35216836 original size:22 final size:23
Alignment explanation
Indices: 35216811--35216857 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
35216801 TAAAACGGGC
35216811 ATAAAATACACCAA-AAAATAAA
1 ATAAAATACACCAACAAAATAAA
* *
35216833 ATAAAATTCACCAACAAAATGAA
1 ATAAAATACACCAACAAAATAAA
35216856 AT
1 AT
35216858 TACCAAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.66, C:0.15, G:0.02, T:0.17
Consensus pattern (23 bp):
ATAAAATACACCAACAAAATAAA
Found at i:35216857 original size:18 final size:17
Alignment explanation
Indices: 35216830--35216863 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
35216820 ACCAAAAAAT
35216830 AAAATAAAATTCACCAAC
1 AAAATAAAATT-ACCAAC
*
35216848 AAAATGAAATTACCAA
1 AAAATAAAATTACCAA
35216864 AACTTTATAT
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:0.62, C:0.18, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAATAAAATTACCAAC
Found at i:35217532 original size:14 final size:15
Alignment explanation
Indices: 35217513--35217541 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
35217503 TTCTGTAGAA
35217513 AATCTATTT-TTTTT
1 AATCTATTTGTTTTT
35217527 AATCTATTTGTTTTT
1 AATCTATTTGTTTTT
35217542 GTCTTAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (15 bp):
AATCTATTTGTTTTT
Found at i:35225143 original size:149 final size:149
Alignment explanation
Indices: 35224768--35225512 Score: 1210
Period size: 149 Copynumber: 5.0 Consensus size: 149
35224758 TCCCACAGCC
* * * * *
35224768 ACAGGTATCCCTTGTGTTTGATCTCTACTTGCCTAATTGCCTCTTCGCATTGGAACTCTTCTGAT
1 ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTGCCTCTTCACACTGGAACTCTTCTGAT
* * *
35224833 CTCTGCAACTT-TTCTCCAGGACCGAAC-TAAAAAATACGGGTCTTTCCATGTCAATGGTGAAGA
66 CTCTGTAA-TTGTTCTCTAGGACCG-ACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGA
*
35224896 TAATAAATCAAATTATGGAAA
129 TAATAAATCAAATGATGGAAA
* * *
35224917 ACAGGTAT-CCTCGTGTTTGATCTTTACTTGCCTGATCGCATCTTCACACTGAAACTCTTCTGAT
1 ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTGCCTCTTCACACTGGAACTCTTCTGAT
35224981 CTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
66 CTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
35225046 ATAAATCAAATGATGGAAA
131 ATAAATCAAATGATGGAAA
* * * *
35225065 ACAGGTATCACTCGTGTTTGATCTTTACTTGCTTGATTGCCTCTTCATACTGAAACTCTTCTGAT
1 ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTGCCTCTTCACACTGGAACTCTTCTGAT
35225130 CTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
66 CTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
35225195 ATAAATCAAATGATGGAAA
131 ATAAATCAAATGATGGAAA
*
35225214 ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTGCCTCTTCACACTGGAACACTTCTGAT
1 ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTGCCTCTTCACACTGGAACTCTTCTGAT
*
35225279 CTCTGTAATTGTTCTCTAGGACCGACTTAAAAAGTACGGGTCTTTCCATGTCAATGGTGATGATA
66 CTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
35225344 ATAAATCAAATGATGGAAA
131 ATAAATCAAATGATGGAAA
* ** *
35225363 ACAGGTATCCCTCGTGTTTGCA-CTTTACTTGTCTGATTATCTCTTCACACTGGAACTCTTCTAA
1 ACAGGTATCCCTCGTGTTTG-ATCTTTACTTGCCTGATTGCCTCTTCACACTGGAACTCTTCTGA
* *
35225427 TCTCTGTAAGTGTTCTCTAGGACCGACCTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGAT
65 TCTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGAT
*
35225492 AATAAATCAAACGATGGAAA
130 AATAAATCAAATGATGGAAA
35225512 A
1 A
35225513 AGTGCTGATC
Statistics
Matches: 560, Mismatches: 32, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
147 4 0.01
148 130 0.23
149 425 0.76
150 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (149 bp):
ACAGGTATCCCTCGTGTTTGATCTTTACTTGCCTGATTGCCTCTTCACACTGGAACTCTTCTGAT
CTCTGTAATTGTTCTCTAGGACCGACTTAAAAAATACGGGTCTTTCCATGTCAATGGTGATGATA
ATAAATCAAATGATGGAAA
Found at i:35227815 original size:26 final size:27
Alignment explanation
Indices: 35227786--35227836 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
35227776 GGATATTTGA
*
35227786 ATTTTCTATAAAAATC-AAAATTTTAG
1 ATTTACTATAAAAATCAAAAATTTTAG
* *
35227812 ATTTACTTTAAAATTCAAAAATTTT
1 ATTTACTATAAAAATCAAAAATTTT
35227837 TATTATCTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (27 bp):
ATTTACTATAAAAATCAAAAATTTTAG
Found at i:35229808 original size:16 final size:17
Alignment explanation
Indices: 35229789--35229827 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
35229779 TAAATTATTA
35229789 AAAAAATTA-TAAAAAT
1 AAAAAATTATTAAAAAT
*
35229805 AAAATA-TATTAAAAAT
1 AAAAAATTATTAAAAAT
35229821 AAAAAAT
1 AAAAAAT
35229828 CTGGAGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAAATTATTAAAAAT
Found at i:35239883 original size:3 final size:3
Alignment explanation
Indices: 35239875--35239910 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
35239865 GTTAAATGCT
35239875 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
35239911 GCTGTGTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:35242489 original size:24 final size:24
Alignment explanation
Indices: 35242462--35242513 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
35242452 TTAGTAAGTC
*
35242462 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
35242486 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
35242510 AAAT
1 AAAT
35242514 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:35243898 original size:2 final size:2
Alignment explanation
Indices: 35243891--35243919 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
35243881 NNNNNNATTG
35243891 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35243920 TATTAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35257231 original size:40 final size:41
Alignment explanation
Indices: 35257140--35257233 Score: 106
Period size: 40 Copynumber: 2.3 Consensus size: 41
35257130 GACAATTAAA
*
35257140 TTTTTATTATATTTATTGGTGTTTTTTTAATATAATAAAAC
1 TTTTTATTATATTTATTGGTGTTTTTTGAATATAATAAAAC
* *
35257181 -ATTTATTATATTTA-TGGTAGTGTTTTTGAATAT-A-AATAC
1 TTTTTATTATATTTATTGGT-GT-TTTTTGAATATAATAAAAC
*
35257220 TTTTTAATATATTT
1 TTTTTATTATATTT
35257234 TTAATGTGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
39 8 0.18
40 27 0.60
41 10 0.22
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (41 bp):
TTTTTATTATATTTATTGGTGTTTTTTGAATATAATAAAAC
Found at i:35266293 original size:27 final size:29
Alignment explanation
Indices: 35266229--35266311 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 29
35266219 TTGGAAATTT
*
35266229 TTAT-AAAATTGAAATTCAAAAATATAAAA
1 TTATAAAAATTGAAAAT-AAAAATATAAAA
*
35266258 TTATAAAAATTGCAAA-AAAAAT-TAAAA
1 TTATAAAAATTGAAAATAAAAATATAAAA
*
35266285 -TATTTAAAATTGAAAATAAAAAATATA
1 TTA-TAAAAATTGAAAAT-AAAAATATA
35266312 GATTTTTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
26 2 0.04
27 16 0.36
28 6 0.13
29 10 0.22
30 11 0.24
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (29 bp):
TTATAAAAATTGAAAATAAAAATATAAAA
Found at i:35266783 original size:20 final size:20
Alignment explanation
Indices: 35266742--35266783 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
35266732 TTTTTTATGC
* *
35266742 TTTTGTGATTTTTACTTTTT
1 TTTTGTAATTTTTACTTATT
35266762 TTTTGTAATTTTGTA-TTATT
1 TTTTGTAATTTT-TACTTATT
35266782 TT
1 TT
35266784 AATAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.14, C:0.02, G:0.10, T:0.74
Consensus pattern (20 bp):
TTTTGTAATTTTTACTTATT
Found at i:35285958 original size:9 final size:9
Alignment explanation
Indices: 35285947--35285990 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
35285937 GTTGCCGTCA
*
35285947 TCATCATCA
1 TCATCATCG
35285956 TCAGTC-TCG
1 TCA-TCATCG
35285965 TCATCATCG
1 TCATCATCG
*
35285974 TCATCGTCG
1 TCATCATCG
35285983 TCATCATC
1 TCATCATC
35285991 CTCTTCCTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 2 0.07
9 26 0.87
10 2 0.07
ACGTcount: A:0.20, C:0.34, G:0.11, T:0.34
Consensus pattern (9 bp):
TCATCATCG
Found at i:35285970 original size:15 final size:16
Alignment explanation
Indices: 35285943--35285988 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
35285933 TGTCGTTGCC
*
35285943 GTCATCATCATCATCA
1 GTCATCGTCATCATCA
35285959 GTC-TCGTCATCATC-
1 GTCATCGTCATCATCA
*
35285973 GTCATCGTCGTCATCA
1 GTCATCGTCATCATCA
35285989 TCCTCTTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 3 0.12
15 20 0.77
16 3 0.12
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.33
Consensus pattern (16 bp):
GTCATCGTCATCATCA
Found at i:35285970 original size:18 final size:18
Alignment explanation
Indices: 35285942--35285990 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
35285932 TTGTCGTTGC
*
35285942 CGTCATCATCATCATCAGT
1 CGTCGTCATCATCATCA-T
*
35285961 C-TCGTCATCATCGTCAT
1 CGTCGTCATCATCATCAT
35285978 CGTCGTCATCATC
1 CGTCGTCATCATC
35285991 CTCTTCCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 2 0.07
18 24 0.89
19 1 0.04
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (18 bp):
CGTCGTCATCATCATCAT
Found at i:35288977 original size:18 final size:18
Alignment explanation
Indices: 35288946--35288980 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
35288936 ATTGTTTATG
35288946 GCAAAAGAAGAAAGAAAT
1 GCAAAAGAAGAAAGAAAT
35288964 GCAAATAGAA-AAAGAAA
1 GCAAA-AGAAGAAAGAAA
35288981 AAGGTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.69, C:0.06, G:0.20, T:0.06
Consensus pattern (18 bp):
GCAAAAGAAGAAAGAAAT
Found at i:35291750 original size:30 final size:30
Alignment explanation
Indices: 35291685--35291751 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
35291675 TAATTCATGG
* *
35291685 TAAAATTCATTTTGGCCCGTCAAATATGAA
1 TAAAATTCATTTAGGCCCGTCAAAAATGAA
* * *
35291715 AAAAATTCTATTTAGTCCCTTCAAAAAT-AA
1 TAAAATTC-ATTTAGGCCCGTCAAAAATGAA
35291745 TAAAATT
1 TAAAATT
35291752 ATAAATTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.34
Consensus pattern (30 bp):
TAAAATTCATTTAGGCCCGTCAAAAATGAA
Found at i:35293509 original size:132 final size:132
Alignment explanation
Indices: 35293272--35293639 Score: 409
Period size: 132 Copynumber: 2.8 Consensus size: 132
35293262 AGTCGACAGA
* * ** * *
35293272 CCCCTCAACATGTCCAATATTATCCCCAATCAAGCCGAGGTTTTATCTCCCAACTTAATCGGGAG
1 CCCCTCAACATGTCCAGTATTATCCCCGATCGGGCCGAGGTTTTATCTCCCAACTTAGTCGAGAG
* ** *
35293337 CCCGAGTACATGAGGCTACCTGAAGAAGCGACAAATTTAGAAGTGTTATCTACCCAGAA-CCAAC
66 CCAGAGTACACAAGGCTACCTGAAGAAGCGACAAATTTAGAAGTGTCATCTACCCA-AAGCCAAC
*
35293401 GAG
130 AAG
* * * *
35293404 CCCCTCAACATGTCCAGTATTGTCCTCGATCGGGCTGAGGTTTTATCTCCCGACTTAGTCGAGAG
1 CCCCTCAACATGTCCAGTATTATCCCCGATCGGGCCGAGGTTTTATCTCCCAACTTAGTCGAGAG
* * * *
35293469 CCAGAGTACACAAGGCTACGC-GAAGAAGTGACAGATTTAGAAGTGTCATCTACCCAAAGTCGAC
66 CCAGAGTACACAAGGCTAC-CTGAAGAAGCGACAAATTTAGAAGTGTCATCTACCCAAAGCCAAC
35293533 AAG
130 AAG
* * * * * *
35293536 CCCCTCAACATGTTCAGCATTATCCCCGATTGGGCCGAGGTTTTATCTCCCTAGTTAGTCGAAAG
1 CCCCTCAACATGTCCAGTATTATCCCCGATCGGGCCGAGGTTTTATCTCCCAACTTAGTCGAGAG
** ** * *
35293601 -CATGAGTACATGAGATTGCCTGAAGAAGTGACAAATTTA
66 CCA-GAGTACACAAGGCTACCTGAAGAAGCGACAAATTTA
35293640 TTAGGTAAGA
Statistics
Matches: 198, Mismatches: 34, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
131 5 0.03
132 192 0.97
133 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (132 bp):
CCCCTCAACATGTCCAGTATTATCCCCGATCGGGCCGAGGTTTTATCTCCCAACTTAGTCGAGAG
CCAGAGTACACAAGGCTACCTGAAGAAGCGACAAATTTAGAAGTGTCATCTACCCAAAGCCAACA
AG
Found at i:35295760 original size:33 final size:33
Alignment explanation
Indices: 35295722--35295790 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
35295712 TTTTACCATA
35295722 TAATAACTTCA-GATTTTTAAAATTTTGAAGGAC
1 TAATAACTTCATG-TTTTTAAAATTTTGAAGGAC
*
35295755 TAATAACTTCATGTTTTTTAAATTTTGAAGGAC
1 TAATAACTTCATGTTTTTAAAATTTTGAAGGAC
35295788 TAA
1 TAA
35295791 AGCAACAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.42
Consensus pattern (33 bp):
TAATAACTTCATGTTTTTAAAATTTTGAAGGAC
Found at i:35303468 original size:197 final size:198
Alignment explanation
Indices: 35303133--35303527 Score: 783
Period size: 197 Copynumber: 2.0 Consensus size: 198
35303123 TTGTTCTAAC
35303133 GTTCCATTCTTTTTTGGATAATTCTAACTTATTAATGCCAACTATCTCCATTCTTTTTACATGCA
1 GTTCCATTCTTTTTTGGATAATTCTAACTTATTAATGCCAACTATCTCCATTCTTTTTACATGCA
35303198 ATTTCTTAGATGTTACTTATTGAATATATCTAATAATTAATTTTATTTAAAAAGCTAAACTTAAA
66 ATTTCTTAGATGTTACTTATTGAATATATCTAATAATTAATTTTATTTAAAAAGCTAAACTTAAA
35303263 TTTTAATTAGTATATAACTCTAATAGTAATTAAGTAATAATTAATAGATAATTTG-TTATTTTAT
131 TTTTAATTAGTATATAACTCTAATAGTAATTAAGTAATAATTAATAGATAATTTGTTTATTTTAT
35303327 ACT
196 ACT
35303330 GTTCCATTCTTTTTTGGATAATTCTAACTTATTAATGCCAACTATCTCCATTCTTTTTACATGCA
1 GTTCCATTCTTTTTTGGATAATTCTAACTTATTAATGCCAACTATCTCCATTCTTTTTACATGCA
35303395 ATTTCTTAGATGTTACTTATTGAATATATCTAATAATTAATTTTATTTAAAAAGCTAAACTTAAA
66 ATTTCTTAGATGTTACTTATTGAATATATCTAATAATTAATTTTATTTAAAAAGCTAAACTTAAA
35303460 TTTTAATTAGTATATAACTCTAATAGTAATTAAGTAATAATTAATAGATAATTTGTTTATTTTAT
131 TTTTAATTAGTATATAACTCTAATAGTAATTAAGTAATAATTAATAGATAATTTGTTTATTTTAT
35303525 ACT
196 ACT
35303528 TATAACTCTA
Statistics
Matches: 197, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
197 185 0.94
198 12 0.06
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.46
Consensus pattern (198 bp):
GTTCCATTCTTTTTTGGATAATTCTAACTTATTAATGCCAACTATCTCCATTCTTTTTACATGCA
ATTTCTTAGATGTTACTTATTGAATATATCTAATAATTAATTTTATTTAAAAAGCTAAACTTAAA
TTTTAATTAGTATATAACTCTAATAGTAATTAAGTAATAATTAATAGATAATTTGTTTATTTTAT
ACT
Found at i:35305786 original size:18 final size:18
Alignment explanation
Indices: 35305765--35305808 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
35305755 AAATTGTTTT
35305765 AAAATGTAAAAATTATAAA
1 AAAAT-TAAAAATTATAAA
* *
35305784 AAAATT-AAAATTTTTAA
1 AAAATTAAAAATTATAAA
35305801 AAAATTAA
1 AAAATTAA
35305809 TTAATGGCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 15 0.68
18 2 0.09
19 5 0.23
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAATTAAAAATTATAAA
Found at i:35316746 original size:48 final size:48
Alignment explanation
Indices: 35316694--35316795 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 48
35316684 TATTCCACAA
* *
35316694 TCACCACCTCCGCCGCCGCCACCGCCAGTATACTCTCCCCCTCCCCCT
1 TCACCACCTCCACCGCCGCCACCACCAGTATACTCTCCCCCTCCCCCT
* * * * * *
35316742 TCACCACCTCCACCTCCGCCGCCACCTGTGTACTCTCCTCCTCCGCCT
1 TCACCACCTCCACCGCCGCCACCACCAGTATACTCTCCCCCTCCCCCT
*
35316790 CCACCA
1 TCACCA
35316796 TCGCCCCCGC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.13, C:0.59, G:0.10, T:0.19
Consensus pattern (48 bp):
TCACCACCTCCACCGCCGCCACCACCAGTATACTCTCCCCCTCCCCCT
Found at i:35316851 original size:9 final size:9
Alignment explanation
Indices: 35316826--35316867 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
35316816 TTCACCTCCA
35316826 CCACCACC-
1 CCACCACCT
*
35316834 CCCCTCACCT
1 CCAC-CACCT
35316844 CCACCACCT
1 CCACCACCT
*
35316853 TCACCACCT
1 CCACCACCT
35316862 CCACCA
1 CCACCA
35316868 GTTTACTCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
8 3 0.11
9 22 0.79
10 3 0.11
ACGTcount: A:0.21, C:0.67, G:0.00, T:0.12
Consensus pattern (9 bp):
CCACCACCT
Found at i:35316914 original size:12 final size:12
Alignment explanation
Indices: 35316880--35316962 Score: 60
Period size: 12 Copynumber: 6.7 Consensus size: 12
35316870 TTACTCTCCA
35316880 CCACCACCACCT
1 CCACCACCACCT
35316892 CCATCC-CCACCT
1 CCA-CCACCACCT
* *
35316904 CCACCATCACCC
1 CCACCACCACCT
* *
35316916 CCGCCACCTACTTAT
1 CCACCACC-AC--CT
*
35316931 CCATCACCACCT
1 CCACCACCACCT
* *
35316943 CCACCATCTCCT
1 CCACCACCACCT
35316955 CCACCACC
1 CCACCACC
35316963 TTCACCAGTA
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
11 2 0.04
12 39 0.74
13 4 0.08
14 2 0.04
15 6 0.11
ACGTcount: A:0.22, C:0.61, G:0.01, T:0.16
Consensus pattern (12 bp):
CCACCACCACCT
Found at i:35316923 original size:39 final size:38
Alignment explanation
Indices: 35316818--35316950 Score: 108
Period size: 39 Copynumber: 3.3 Consensus size: 38
35316808 CCTGTGTATT
* * * *
35316818 CACCTCCACCACCACCCCCCTCACCTCCACCACCTTCAC
1 CACCTCCACCATCACCCCCC-CACCACCACCTCCATCAC
* * *
35316857 CACCTCCACCAGTTTACTCTCCACCACCACCACCTCCATCCC
1 CACCTCCACCA--TCAC-C-CCCCCACCACCACCTCCATCAC
*
35316899 CACCTCCACCATCACCCCCGCCACCTACTTA--TCCATCAC
1 CACCTCCACCATCACCCCC-CCACC-AC-CACCTCCATCAC
35316938 CACCTCCACCATC
1 CACCTCCACCATC
35316951 TCCTCCACCA
Statistics
Matches: 76, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
38 2 0.03
39 37 0.49
40 5 0.07
41 3 0.04
42 26 0.34
43 3 0.04
ACGTcount: A:0.22, C:0.60, G:0.02, T:0.17
Consensus pattern (38 bp):
CACCTCCACCATCACCCCCCCACCACCACCTCCATCAC
Found at i:35318788 original size:19 final size:21
Alignment explanation
Indices: 35318750--35318792 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
35318740 TTCGTTGTTG
*
35318750 TAATATTAATATTTTAAATTT
1 TAATATTAATATTCTAAATTT
35318771 TAAT-TTAA-ATTCTAAATTT
1 TAATATTAATATTCTAAATTT
35318790 TAA
1 TAA
35318793 ACCTAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.62
20 4 0.19
21 4 0.19
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATATTAATATTCTAAATTT
Found at i:35325273 original size:24 final size:23
Alignment explanation
Indices: 35325229--35325273 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
35325219 AATTAAAATC
* * *
35325229 AAAATTTAATATTTATAATTATA
1 AAAAATTAAAATTCATAATTATA
35325252 AAAAATTAAAATTCATATATTA
1 AAAAATTAAAATTCATA-ATTA
35325274 AATTACATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAAATTAAAATTCATAATTATA
Found at i:35338100 original size:107 final size:107
Alignment explanation
Indices: 35337914--35338124 Score: 368
Period size: 107 Copynumber: 2.0 Consensus size: 107
35337904 AAGTTTTTCT
* *
35337914 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGTCCTAACGTGCTGGGTTTCGATT
1 AAATAAGGAAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
* * *
35337979 TCTCGTTCGACTAAATAGTCAAAAATCCTTTTTAAACTTTTA
66 TCTCGTTCGACTAAATAGCCAAAAATCCTCTTAAAACTTTTA
35338021 AAATAAGGAAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
1 AAATAAGGAAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
*
35338086 TCTCGTTCGACTAAATAGCCAAATATCCTCTTAAAACTT
66 TCTCGTTCGACTAAATAGCCAAAAATCCTCTTAAAACTT
35338125 CAAAGTATGG
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 98 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (107 bp):
AAATAAGGAAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATT
TCTCGTTCGACTAAATAGCCAAAAATCCTCTTAAAACTTTTA
Found at i:35367304 original size:31 final size:31
Alignment explanation
Indices: 35367269--35367332 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
35367259 ATTAAGCTCC
* * *
35367269 AATGTGGGAACACTTGCCTAGTTTAAGCCTT
1 AATGTGGGAACAATGGCCAAGTTTAAGCCTT
*
35367300 AATGTGGGAACAATGGCCAAGTTTAAGGCTT
1 AATGTGGGAACAATGGCCAAGTTTAAGCCTT
35367331 AA
1 AA
35367333 CTTGGAGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (31 bp):
AATGTGGGAACAATGGCCAAGTTTAAGCCTT
Found at i:35367585 original size:31 final size:32
Alignment explanation
Indices: 35367521--35367618 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 32
35367511 TCACAATTTT
*
35367521 GTCATTGAACTATTCAAAAGTTTTTTTTATTTAA
1 GTCACTGAACTATTCAAAA--TTTTTTTATTTAA
*
35367555 GTCACTGAACTATTCAAAA-TTTTTTGTTTAA
1 GTCACTGAACTATTCAAAATTTTTTTATTTAA
* ** ** *
35367586 GTTACTGGGCTATT-AAGGTTTTTTTTTTTAA
1 GTCACTGAACTATTCAAAATTTTTTTATTTAA
35367617 GT
1 GT
35367619 TCCACAAACG
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
30 2 0.04
31 35 0.64
34 18 0.33
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (32 bp):
GTCACTGAACTATTCAAAATTTTTTTATTTAA
Found at i:35371994 original size:21 final size:21
Alignment explanation
Indices: 35371970--35372009 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35371960 TTTTGGGTCA
35371970 TTATTATTTTCGAATTTGAGT
1 TTATTATTTTCGAATTTGAGT
*
35371991 TTATTATTTTTGAATTTGA
1 TTATTATTTTCGAATTTGA
35372010 TCAAATTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.60
Consensus pattern (21 bp):
TTATTATTTTCGAATTTGAGT
Found at i:35372776 original size:19 final size:19
Alignment explanation
Indices: 35372750--35372787 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
35372740 TTTATCAGAG
*
35372750 CAAAAATAACTTA-TATTT
1 CAAAAATAAATTATTATTT
35372768 CAAACAATAAATTATTATTT
1 CAAA-AATAAATTATTATTT
35372788 AAATTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (19 bp):
CAAAAATAAATTATTATTT
Found at i:35413958 original size:20 final size:20
Alignment explanation
Indices: 35413920--35413958 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35413910 AGGTACAAAT
*
35413920 GTGTTTAAAATTTGATCCAC
1 GTGTTTAAAATATGATCCAC
* *
35413940 GTGTTTTAAATATGCTCCA
1 GTGTTTAAAATATGATCCA
35413959 TGCTAAATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (20 bp):
GTGTTTAAAATATGATCCAC
Found at i:35423390 original size:29 final size:29
Alignment explanation
Indices: 35423353--35423409 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
35423343 CACCTTGACA
* * *
35423353 CGAATTCTCAATGAACAAGTTCTTCATCG
1 CGAACTCTCAACGAACAAGTTCTCCATCG
35423382 CGAACTCTCAACGAACAAGTTCTCCATC
1 CGAACTCTCAACGAACAAGTTCTCCATC
35423410 TCTTCCATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (29 bp):
CGAACTCTCAACGAACAAGTTCTCCATCG
Found at i:35425697 original size:70 final size:70
Alignment explanation
Indices: 35425583--35425718 Score: 220
Period size: 70 Copynumber: 1.9 Consensus size: 70
35425573 GAAACTAAGT
*
35425583 ATGTTAGATAAAAGAGCAAATTAACATTTCTGTTAAAAAATTCATCCATTTATATTGTTAAAAAT
1 ATGTTAGATAAAAGAGCAAATTAACACTTCTGTTAAAAAATTCATCCATTTATATTGTTAAAAAT
35425648 TAGGC
66 TAGGC
* * *
35425653 ATGTTAGATAAAAGAGCAAA-TAAGCCCTTCTGTTAAAAATTTCATCCATTTCTATTGTTAAAAA
1 ATGTTAGATAAAAGAGCAAATTAA-CACTTCTGTTAAAAAATTCATCCATTTATATTGTTAAAAA
35425717 TT
65 TT
35425719 GCTCATTGTA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 3 0.05
70 58 0.95
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (70 bp):
ATGTTAGATAAAAGAGCAAATTAACACTTCTGTTAAAAAATTCATCCATTTATATTGTTAAAAAT
TAGGC
Found at i:35432112 original size:13 final size:15
Alignment explanation
Indices: 35432085--35432116 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
35432075 AGTCGAAAAG
35432085 AAAAAGAAACGATGA
1 AAAAAGAAACGATGA
35432100 AAAAAG-AAC-ATGA
1 AAAAAGAAACGATGA
35432113 AAAA
1 AAAA
35432117 TAGGGAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 3 0.18
15 6 0.35
ACGTcount: A:0.72, C:0.06, G:0.16, T:0.06
Consensus pattern (15 bp):
AAAAAGAAACGATGA
Found at i:35437185 original size:43 final size:43
Alignment explanation
Indices: 35437137--35437256 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
35437127 TTCTGATAAA
*
35437137 TGTTTTCGTGTAAGACCACGTCTGAGACATTGGCATCGACTT-G
1 TGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGA-TTAG
** * **
35437180 TGTTTTCGTGTAAGACCTTGTCCGGGACAGCGGCATCGATTAG
1 TGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTAG
* * * *
35437223 TGATTACATGTAAGACCACGTCTGGGACGTTGGC
1 TGTTTTCGTGTAAGACCACGTCTGGGACATTGGC
35437257 GTTGTATAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 2 0.03
43 59 0.97
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (43 bp):
TGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTAG
Done.