Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 197 of 204
Found at i:58212222 original size:4 final size:4
Alignment explanation
Indices: 58212215--58212248 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
58212205 AAGTAAGTAA
58212215 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
58212249 GTCGTTTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:58212767 original size:98 final size:98
Alignment explanation
Indices: 58212625--58212821 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
58212615 AAAACAGTAT
* * * *
58212625 TAACAATTGGACTTGAAGTTTGAAATCTAAAAAGTAGAGGAACTAAATTCCTGGAAATAAAAGTA
1 TAACAATTAGACTTGAAGTTTGAAACCTAAAAAGCAGAGGAACTAAATTCCTGGAAATAAAAATA
*
58212690 CATTTTCAAATTTGTGAAGAGTATAGGGATCTA
66 CATTTTCAAATTTGTGAAGAGAATAGGGATCTA
58212723 TAACAATTAGACTTGAAGTTTGAAACCTAAAAAGCAGAGGAACTAAATTCCTGGAAATAAAAATA
1 TAACAATTAGACTTGAAGTTTGAAACCTAAAAAGCAGAGGAACTAAATTCCTGGAAATAAAAATA
58212788 CATTTTCAAATTTGTGAAGAGAATAGGGATCTA
66 CATTTTCAAATTTGTGAAGAGAATAGGGATCTA
58212821 T
1 T
58212822 GACATATTTT
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.28
Consensus pattern (98 bp):
TAACAATTAGACTTGAAGTTTGAAACCTAAAAAGCAGAGGAACTAAATTCCTGGAAATAAAAATA
CATTTTCAAATTTGTGAAGAGAATAGGGATCTA
Found at i:58212879 original size:31 final size:31
Alignment explanation
Indices: 58212842--58212919 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
58212832 AATCTATGCT
*
58212842 AATTGGTACTTCAA-TTTAGCTTCAATGTTCT
1 AATTGGTACTT-AAGTTTAGCTTCAATGTTCA
* * * *
58212873 ATTTGGTGCCTAAGTTTGGCTTCAATGTTCA
1 AATTGGTACTTAAGTTTAGCTTCAATGTTCA
58212904 AATTGGTACTTAAGTT
1 AATTGGTACTTAAGTT
58212920 ATTTTCCATT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
30 2 0.05
31 36 0.95
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (31 bp):
AATTGGTACTTAAGTTTAGCTTCAATGTTCA
Found at i:58213268 original size:6 final size:6
Alignment explanation
Indices: 58213259--58213292 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
58213249 AACCACAATC
* *
58213259 ACAAAG ACAAAT ACAAAT ACAAAT ACGAAT ACAA
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAA
58213293 TTATAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.65, C:0.18, G:0.06, T:0.12
Consensus pattern (6 bp):
ACAAAT
Found at i:58219986 original size:33 final size:33
Alignment explanation
Indices: 58219944--58220242 Score: 135
Period size: 33 Copynumber: 8.4 Consensus size: 33
58219934 CAGTGGATTT
*
58219944 AGCACTTAGCAACCACCAGTGATTCGGGGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
* * *
58219977 AGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATC
1 AGCACTTAGCAACCAC---CA-A--T--GATTCGG-GGAATC
* *
58220019 AACACTTAGCAACCACCAATGAGTCGGGGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
* *
58220052 AGCACTTAGC-A--ACC--T-CTTGGGGGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
** * *
58220079 AAAATTTAGCAATCC-CTTTCACATTTAAGATACGGTGGAATC
1 AGCACTTAGCAA-CCAC---CA-A--T--GATTCGG-GGAATC
* *
58220121 AACACTTAGCAACCACCAATGAATCGGGGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
* *
58220154 AGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATC
1 AGCACTTAGCAACCAC---CA-A--T--GATTCGG-GGAATC
* *
58220196 AGCACTTAGCAACCACCAATGAATCGGAGAATC
1 AGCACTTAGCAACCACCAATGATTCGGGGAATC
58220229 AGCACTTAGCAACC
1 AGCACTTAGCAACC
58220243 CCTTTTATAT
Statistics
Matches: 200, Mismatches: 31, Indels: 70
0.66 0.10 0.23
Matches are distributed among these distances:
27 16 0.08
28 2 0.01
30 4 0.02
32 1 0.00
33 69 0.34
34 15 0.08
36 7 0.04
37 1 0.00
38 4 0.02
39 8 0.04
41 16 0.08
42 57 0.28
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (33 bp):
AGCACTTAGCAACCACCAATGATTCGGGGAATC
Found at i:58220096 original size:102 final size:102
Alignment explanation
Indices: 58219982--58220167 Score: 345
Period size: 102 Copynumber: 1.8 Consensus size: 102
58219972 GAATCAGCAC
* *
58219982 TTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAACACTTAGCAACCACCAATGAGTCGGG
1 TTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGG
58220047 GAATCAGCACTTAGCAACCTCTTGGGGGAATCAAAAT
66 GAATCAGCACTTAGCAACCTCTTGGGGGAATCAAAAT
*
58220084 TTAGCAATCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGG
1 TTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGG
58220149 GAATCAGCACTTAGCAACC
66 GAATCAGCACTTAGCAACC
58220168 CCTTTCACAT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 81 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (102 bp):
TTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGG
GAATCAGCACTTAGCAACCTCTTGGGGGAATCAAAAT
Found at i:58220132 original size:42 final size:41
Alignment explanation
Indices: 58220073--58220209 Score: 139
Period size: 42 Copynumber: 3.5 Consensus size: 41
58220063 ACCTCTTGGG
* *
58220073 GGAATCAAAATTTAGCAATCCCTTTCACATTTAAGATACGGT
1 GGAATCAACACTTAGCAA-CCCTTTCACATTTAAGATACGGT
*
58220115 GGAATCAACACTTAGCAACCAC---CA-A--TGA-AT-CGG-
1 GGAATCAACACTTAGCAACC-CTTTCACATTTAAGATACGGT
*
58220148 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAACACTTAGCAA-CCCTTTCACATTTAAGATACGGT
*
58220190 GGAATCAGCACTTAGCAACC
1 GGAATCAACACTTAGCAACC
58220210 ACCAATGAAT
Statistics
Matches: 79, Mismatches: 5, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
33 18 0.23
34 5 0.06
35 2 0.03
36 4 0.05
37 1 0.01
38 1 0.01
39 4 0.05
40 2 0.03
41 7 0.09
42 35 0.44
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (41 bp):
GGAATCAACACTTAGCAACCCTTTCACATTTAAGATACGGT
Found at i:58220171 original size:75 final size:75
Alignment explanation
Indices: 58220084--58220247 Score: 301
Period size: 75 Copynumber: 2.2 Consensus size: 75
58220074 GAATCAAAAT
* *
58220084 TTAGCAATCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGG
1 TTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGA
58220149 GAATCAGCAC
66 GAATCAGCAC
*
58220159 TTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGA
1 TTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGA
58220224 GAATCAGCAC
66 GAATCAGCAC
58220234 TTAGCAACCCCTTT
1 TTAGCAACCCCTTT
58220248 TATATTCAAT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 86 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (75 bp):
TTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCACCAATGAATCGGA
GAATCAGCAC
Found at i:58225483 original size:13 final size:13
Alignment explanation
Indices: 58225465--58225490 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58225455 TAAAGGTGTG
58225465 AAAAATAAAAAAT
1 AAAAATAAAAAAT
58225478 AAAAATAAAAAAT
1 AAAAATAAAAAAT
58225491 GACTAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:58231613 original size:18 final size:18
Alignment explanation
Indices: 58231590--58231626 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
58231580 CTTTCGATTT
*
58231590 TATAAAATTACATTAAAA
1 TATAAAAATACATTAAAA
58231608 TATAAAAATACATTAAAA
1 TATAAAAATACATTAAAA
58231626 T
1 T
58231627 CACATTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
TATAAAAATACATTAAAA
Found at i:58233701 original size:30 final size:30
Alignment explanation
Indices: 58233665--58233738 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
58233655 ATTTTAACTG
*
58233665 TATTTGCATTGTTGTTTGAGACAGTTTTTC
1 TATTTGCATTGTTGTTTGAGACAATTTTTC
* * *
58233695 TATTTGCATTGTTATTTGAGATAATTTTTG
1 TATTTGCATTGTTGTTTGAGACAATTTTTC
58233725 TATTTGCATTGTTG
1 TATTTGCATTGTTG
58233739 ACAATTTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.55
Consensus pattern (30 bp):
TATTTGCATTGTTGTTTGAGACAATTTTTC
Found at i:58240626 original size:41 final size:41
Alignment explanation
Indices: 58240581--58240673 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 41
58240571 TTCTAATTAT
* * *
58240581 AAGCGTTTTTAACGGATTTG-CAAGAAAACAT-TTCCAGCTGA
1 AAGCGTTTTCAACGGA-TTGACAA-AAAAAATATTCCAACTGA
*
58240622 AAGCGTTTTCAATGGATTGACAAAAAAAATGATTCCAACTGA
1 AAGCGTTTTCAACGGATTGACAAAAAAAAT-ATTCCAACTGA
58240664 AAGCGTTTTC
1 AAGCGTTTTC
58240674 TGCCCCCAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
40 9 0.20
41 17 0.38
42 19 0.42
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (41 bp):
AAGCGTTTTCAACGGATTGACAAAAAAAATATTCCAACTGA
Found at i:58244624 original size:27 final size:27
Alignment explanation
Indices: 58244593--58244647 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
58244583 CTATACTCTT
*
58244593 TGAAAATTTGAAATTTAGTCCTTTTAC
1 TGAAAATTTGAAATTTAATCCTTTTAC
58244620 TGAAAATTTGAAATTTAATCCTTTTAC
1 TGAAAATTTGAAATTTAATCCTTTTAC
58244647 T
1 T
58244648 TTTCAAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (27 bp):
TGAAAATTTGAAATTTAATCCTTTTAC
Found at i:58246920 original size:20 final size:20
Alignment explanation
Indices: 58246897--58246934 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
58246887 CAAAATAATA
58246897 TATAAAAATTAAAAAAGTGT
1 TATAAAAATTAAAAAAGTGT
*
58246917 TATAAAAATTGAAAAAGT
1 TATAAAAATTAAAAAAGT
58246935 ATTTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (20 bp):
TATAAAAATTAAAAAAGTGT
Found at i:58247005 original size:15 final size:15
Alignment explanation
Indices: 58246985--58247015 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58246975 CCTTTTTACA
58246985 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
*
58247000 ATTTTAGAATTTTAT
1 ATTTTAGAATTATAT
58247015 A
1 A
58247016 AAGAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Found at i:58247061 original size:20 final size:20
Alignment explanation
Indices: 58247025--58247072 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
58247015 AAAGAAAATT
*
58247025 ATTTTTAAAACTTTTTTATA
1 ATTTTTAAAACTGTTTTATA
*
58247045 ATTTTTACAAA-TGTTTTACA
1 ATTTTTA-AAACTGTTTTATA
*
58247065 TTTTTTAA
1 ATTTTTAA
58247073 TAATATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 20 0.83
21 3 0.12
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTTTTAAAACTGTTTTATA
Found at i:58250875 original size:128 final size:127
Alignment explanation
Indices: 58250663--58250905 Score: 330
Period size: 128 Copynumber: 1.9 Consensus size: 127
58250653 AGTACCGTAA
* * ***
58250663 CAATGTCATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGCCAATAGCCTAGCCATGG
1 CAATGTCATATCCCAGATATGGTCTTACACGAAATCAAATATCGATGCCAATAGCCTAGCCATGG
*
58250728 TCTTACACGAAATCACATATCGAT-ACCAATGTCCAAGACATGGTCTTACACGAATCCTCATAT
66 TCTTACACGAAATCACATATCGATGA-C-ATATCCAAGACATGGTCTTACACGAATCCTCATAT
*
58250791 CAATGTCATATCCCAGATATGGTCTTACACGAAATCAAATATCGATGCCAAT-GTCGC-AGGCAT
1 CAATGTCATATCCCAGATATGGTCTTACACGAAATCAAATATCGATGCCAATAG-C-CTAGCCAT
* * * *
58250854 GGTCTTACACGAATTCTCATATCGATGACATATCCCAGATATGGTCTTACAC
64 GGTCTTACACGAAATCACATATCGATGACATATCCAAGACATGGTCTTACAC
58250906 AGTAGCACAT
Statistics
Matches: 101, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
127 21 0.21
128 78 0.77
129 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (127 bp):
CAATGTCATATCCCAGATATGGTCTTACACGAAATCAAATATCGATGCCAATAGCCTAGCCATGG
TCTTACACGAAATCACATATCGATGACATATCCAAGACATGGTCTTACACGAATCCTCATAT
Found at i:58250917 original size:42 final size:41
Alignment explanation
Indices: 58250669--58250949 Score: 229
Period size: 43 Copynumber: 6.5 Consensus size: 41
58250659 GTAACAATGT
* * *
58250669 CATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGC
1 CATATCCCAGATATGGTCTTACACG-AATCACATATCGATGC
* * ** *
58250711 CAATAGCCTAGCCATGGTCTTACACGAAATCACATATCGATAC
1 C-ATATCCCAGATATGGTCTTACACG-AATCACATATCGATGC
* * * * * *
58250754 CAATGTCCAAGACATGGTCTTACACGAATCCTCATATCAATGT
1 C-ATATCCCAGATATGGTCTTACACGAAT-CACATATCGATGC
*
58250797 CATATCCCAGATATGGTCTTACACGAAATCAAATATCGATGC
1 CATATCCCAGATATGGTCTTACACG-AATCACATATCGATGC
* * ** * *
58250839 CAATGTCGCAGGCATGGTCTTACACGAATTCTCATATCGATGA
1 C-ATATCCCAGATATGGTCTTACACGAA-TCACATATCGATGC
* *
58250882 CATATCCCAGATATGGTCTTACACAGTAGCACATATCACGCTGATGC
1 CATATCCCAGATATGGTCTTACAC-GAATCACATAT----C-GATGC
58250929 CATATCCCAGATATGGTCTTA
1 CATATCCCAGATATGGTCTTA
58250950 TACAGAAACT
Statistics
Matches: 189, Mismatches: 39, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
42 62 0.33
43 101 0.53
46 1 0.01
47 25 0.13
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (41 bp):
CATATCCCAGATATGGTCTTACACGAATCACATATCGATGC
Found at i:58250918 original size:85 final size:85
Alignment explanation
Indices: 58250724--58250905 Score: 294
Period size: 85 Copynumber: 2.1 Consensus size: 85
58250714 TAGCCTAGCC
58250724 ATGGTCTTACACGAAATCACATATCGATACCAATGTCCAAGACATGGTCTTACACGAATCCTCAT
1 ATGGTCTTACACGAAATCACATATCGATACCAATGTCCAAGACATGGTCTTACACGAATCCTCAT
*
58250789 ATCAATGTCATATCCCAGAT
66 ATCAATGACATATCCCAGAT
* * * *
58250809 ATGGTCTTACACGAAATCAAATATCGATGCCAATGTCGC-AGGCATGGTCTTACACGAATTCTCA
1 ATGGTCTTACACGAAATCACATATCGATACCAATGTC-CAAGACATGGTCTTACACGAATCCTCA
*
58250873 TATCGATGACATATCCCAGAT
65 TATCAATGACATATCCCAGAT
58250894 ATGGTCTTACAC
1 ATGGTCTTACAC
58250906 AGTAGCACAT
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
85 89 0.99
86 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (85 bp):
ATGGTCTTACACGAAATCACATATCGATACCAATGTCCAAGACATGGTCTTACACGAATCCTCAT
ATCAATGACATATCCCAGAT
Found at i:58253605 original size:6 final size:6
Alignment explanation
Indices: 58253596--58253625 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
58253586 ATTTATTGGC
*
58253596 TTTTTT TTTTTG TTTTTG TTTTTG TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
58253626 ATTCCCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTTTG
Found at i:58257359 original size:31 final size:31
Alignment explanation
Indices: 58257289--58257355 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
58257279 TAATTTGACC
*
58257289 AAATTTAG-TCTCTGTACTTTTTGAATTGGTT
1 AAATTTAGTTCTCTGTACTTTTCGAATT-GTT
58257320 AAATTTAGTTCT-TGTACTTTTCGAATT-TT
1 AAATTTAGTTCTCTGTACTTTTCGAATTGTT
58257349 GAAATTT
1 -AAATTT
58257356 TAGTCCTAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
29 2 0.06
30 6 0.18
31 22 0.67
32 3 0.09
ACGTcount: A:0.25, C:0.09, G:0.13, T:0.52
Consensus pattern (31 bp):
AAATTTAGTTCTCTGTACTTTTCGAATTGTT
Found at i:58263363 original size:13 final size:13
Alignment explanation
Indices: 58263345--58263395 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
58263335 AATTCTTCAT
58263345 TACTTTTGAAAAG
1 TACTTTTGAAAAG
*
58263358 TACTTTTGAGAAG
1 TACTTTTGAAAAG
* * *
58263371 TGCTGTGGAAAAG
1 TACTTTTGAAAAG
*
58263384 TGCTTTTGAAAA
1 TACTTTTGAAAA
58263396 TTTTGAGTGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (13 bp):
TACTTTTGAAAAG
Found at i:58264155 original size:28 final size:28
Alignment explanation
Indices: 58264115--58264170 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
58264105 CAGAAGCTAG
58264115 AAATCTGACCCTAAATGAAGTGTGTTTT
1 AAATCTGACCCTAAATGAAGTGTGTTTT
58264143 AAATCTGACCCTAAATGAAGTGTGTTTT
1 AAATCTGACCCTAAATGAAGTGTGTTTT
58264171 TCATTCCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (28 bp):
AAATCTGACCCTAAATGAAGTGTGTTTT
Found at i:58264778 original size:2 final size:2
Alignment explanation
Indices: 58264771--58264797 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
58264761 GCATTATCAC
58264771 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 A
58264798 GTTGAATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58265699 original size:9 final size:9
Alignment explanation
Indices: 58265681--58265712 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
58265671 CATCCATATA
58265681 ATTTTCAAT
1 ATTTTCAAT
*
58265690 ATTTTTAAT
1 ATTTTCAAT
58265699 ATTTTCAAT
1 ATTTTCAAT
58265708 ATTTT
1 ATTTT
58265713 TAAAGTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (9 bp):
ATTTTCAAT
Found at i:58265704 original size:18 final size:18
Alignment explanation
Indices: 58265681--58265715 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
58265671 CATCCATATA
58265681 ATTTTCAATATTTTTAAT
1 ATTTTCAATATTTTTAAT
58265699 ATTTTCAATATTTTTAA
1 ATTTTCAATATTTTTAA
58265716 AGTCAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTCAATATTTTTAAT
Found at i:58269225 original size:2 final size:2
Alignment explanation
Indices: 58269218--58269245 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
58269208 TTCTACTGTA
58269218 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
58269246 TAATGAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58269518 original size:22 final size:22
Alignment explanation
Indices: 58269487--58269529 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
58269477 AACTTCAATG
58269487 TTTTAATTTTAAATATTATTAAA
1 TTTTAATTTTAAATATT-TTAAA
*
58269510 TTTT-ATTTTTAATATTTTAA
1 TTTTAATTTTAAATATTTTAA
58269530 TGAAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTAATTTTAAATATTTTAAA
Found at i:58273421 original size:18 final size:19
Alignment explanation
Indices: 58273398--58273435 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
58273388 CCTAAATGAG
*
58273398 TTTTTATTTTTTTA-AATT
1 TTTTTATTTATTTATAATT
58273416 TTTTTATTTATTTATAATT
1 TTTTTATTTATTTATAATT
58273435 T
1 T
58273436 GTATTACACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTATTTATTTATAATT
Found at i:58283289 original size:132 final size:131
Alignment explanation
Indices: 58283020--58283391 Score: 532
Period size: 131 Copynumber: 2.8 Consensus size: 131
58283010 GTGCGAGTTA
* ** * * *
58283020 TAAAAAGATGGTATTTTTATTTTAGGCTTATCAATGATTTCAGGTTGCTTCTTGATAAAATCTAT
1 TAAAAAAATGGTAACTTTATTTTAGTCTTATCAATGATTTCAGGTTGCTTGTTGATAAAATCTTT
* *
58283085 CACTGT-CCTTGTTTTAGAAAAAAGGAAATTCCAGTGATGAATTCAAGTGCTAATCATGTAATTT
66 TACTTTCCCTT-TTTTA-AAAAAAGGAAATTCCAGTGATGAATTCAAGTGCTAATCATGTAATTT
58283149 GAT
129 GAT
* *
58283152 TAAAAAAATGGTAACTTTATTTTAGTCTTATCAATGATTTCAGGATGCTTGTTAATAAAATCTTT
1 TAAAAAAATGGTAACTTTATTTTAGTCTTATCAATGATTTCAGGTTGCTTGTTGATAAAATCTTT
* * * *
58283217 TACTTTCCCTTTCTTT-ATAAGATGAAATTCTAGTGATGAATTCAAGTGCTAATCATGTAATTTG
66 TACTTTCCCTTT-TTTAAAAAAAGGAAATTCCAGTGATGAATTCAAGTGCTAATCATGTAATTTG
58283281 AT
130 AT
*
58283283 TAAAAAAATGGTAACTTTATTTTAGTCTTATCAATGATTTCAGGTTGCTTGTTGATAAAATCTTG
1 TAAAAAAATGGTAACTTTATTTTAGTCTTATCAATGATTTCAGGTTGCTTGTTGATAAAATCTTT
*
58283348 TACTTTCCCTTTTTGTAGAAAAAAAGGAAATTCTAGTGATGAAT
66 TACTTTCCCTTTTT-T--AAAAAAAGGAAATTCCAGTGATGAAT
58283392 CCATAGTTAC
Statistics
Matches: 214, Mismatches: 20, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
130 2 0.01
131 121 0.57
132 62 0.29
133 7 0.03
134 22 0.10
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (131 bp):
TAAAAAAATGGTAACTTTATTTTAGTCTTATCAATGATTTCAGGTTGCTTGTTGATAAAATCTTT
TACTTTCCCTTTTTTAAAAAAAGGAAATTCCAGTGATGAATTCAAGTGCTAATCATGTAATTTGA
T
Found at i:58294997 original size:16 final size:17
Alignment explanation
Indices: 58294978--58295010 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
58294968 GAAAATAAAT
58294978 AAGAATATA-TCTAATC
1 AAGAATATATTCTAATC
58294994 AAGAATATATTCTAATC
1 AAGAATATATTCTAATC
58295011 TGCATTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (17 bp):
AAGAATATATTCTAATC
Found at i:58300434 original size:16 final size:17
Alignment explanation
Indices: 58300409--58300448 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
58300399 GCCCAAATGC
58300409 CAAA-CCCAAAT-AAAA
1 CAAAGCCCAAATCAAAA
*
58300424 CAAAGCCCAAATCCAAA
1 CAAAGCCCAAATCAAAA
58300441 C-AAGCCCA
1 CAAAGCCCA
58300449 TTACAGCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 14 0.64
17 4 0.18
ACGTcount: A:0.55, C:0.35, G:0.05, T:0.05
Consensus pattern (17 bp):
CAAAGCCCAAATCAAAA
Found at i:58301482 original size:3 final size:3
Alignment explanation
Indices: 58301471--58301576 Score: 108
Period size: 3 Copynumber: 35.3 Consensus size: 3
58301461 ATTATTTTGT
58301471 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * * * *
58301516 CTA TTA TTA TCT- TTA CTA TTA TTG TTA GTA TTA TTA CTA CTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
58301561 TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA T
58301577 ATTTATACCT
Statistics
Matches: 85, Mismatches: 14, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
2 3 0.04
3 78 0.92
4 4 0.05
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:58301752 original size:36 final size:34
Alignment explanation
Indices: 58301712--58301780 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 34
58301702 CATATTTTCG
58301712 TATATTTTATAA-TTTGTATATACATATACTTATATC
1 TATATTTTATAACTTT-TATA-A-ATATACTTATATC
* *
58301748 TATATTTTCTAACTTTTATAAATATATTTATAT
1 TATATTTTATAACTTTTATAAATATACTTATAT
58301781 GTACATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 11 0.37
35 1 0.03
36 15 0.50
37 3 0.10
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.55
Consensus pattern (34 bp):
TATATTTTATAACTTTTATAAATATACTTATATC
Found at i:58301901 original size:13 final size:13
Alignment explanation
Indices: 58301883--58301912 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
58301873 CTATTTACTC
*
58301883 TTTTTTATTTTTA
1 TTTTTTATTATTA
58301896 TTTTTTATTATTA
1 TTTTTTATTATTA
58301909 TTTT
1 TTTT
58301913 CAAATTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTATTATTA
Found at i:58314697 original size:43 final size:43
Alignment explanation
Indices: 58314559--58314706 Score: 156
Period size: 43 Copynumber: 3.4 Consensus size: 43
58314549 ATTATACAGG
* * * *
58314559 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTCAGA
1 TCTTATCTCCCTGAGA-TACAGCGGAGCAGATCAAAGAAGT-AGA
* ** *
58314604 TCTTATCTCCCTGAGTTACAGCGGAGCAGATTGAAGCCAG-AGA
1 TCTTATCTCCCTGAGATACAGCGGAGCAGATCAAAG-AAGTAGA
58314647 TCTTATCTCCCTGAGATACAGCGGAGCAGATCAAAGATAGTA-A
1 TCTTATCTCCCTGAGATACAGCGGAGCAGATCAAAGA-AGTAGA
* *
58314690 TCCTATCTCCTTGAGAT
1 TCTTATCTCCCTGAGAT
58314707 TACAATGGAG
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
43 54 0.63
44 16 0.19
45 16 0.19
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATACAGCGGAGCAGATCAAAGAAGTAGA
Found at i:58314717 original size:87 final size:88
Alignment explanation
Indices: 58314559--58314722 Score: 208
Period size: 87 Copynumber: 1.9 Consensus size: 88
58314549 ATTATACAGG
* * *
58314559 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTCAGATCTTATCTCCCTGAGTTACA
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAAGTCAGATCCTATCTCCCTGAGTTACA
*
58314624 GCGGAGCAGATTGAAGCCAGAGA
66 ACGGAGCAGATTGAAGCCAGAGA
* * *
58314647 TCTTATCTCCCTGAGA-TACAGCGGAGCAGATCAAAGATAGT-A-ATCCTATCTCCTTGAGATTA
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGA-AGTCAGATCCTATCTCCCTGAG-TTA
* *
58314709 CAATGGAGCGGATT
64 CAACGGAGCAGATT
58314723 AAAGGATCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
86 14 0.22
87 33 0.51
88 18 0.28
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (88 bp):
TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAAGTCAGATCCTATCTCCCTGAGTTACA
ACGGAGCAGATTGAAGCCAGAGA
Found at i:58314893 original size:169 final size:171
Alignment explanation
Indices: 58314644--58314970 Score: 455
Period size: 173 Copynumber: 1.9 Consensus size: 171
58314634 TTGAAGCCAG
* * *
58314644 AGATCTTATCTCCCTGAGATACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTA
1 AGATCTTATCTCCCTGAGATACAGCGGAGCAGATCAAAGACAGCAATCCTATCTCCCTGAGATTA
* *
58314709 CAATGGAGCGGA-T-TAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGAAGATCACATCAGGTC
66 CAATGGAGCGGATTATAAAGGATCTTATCTCTCTAAAGTTACAGCAGAGAAGATCACATCAAGTC
*
58314772 TTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGAATTTC
131 TTATTTCCCTGAAGTTACAGTGGAGTAGACCGGAGAATTTC
* *
58314813 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CCATCCTATCTCCCTGA-AGT
1 AGATCTTATCTCCCTGAGA-TACAGCGGAGCAGATCAAAGACAGCAATCCTATCTCCCTGAGA-T
* * * * * * *
58314876 TACAGTGGAGTGGATTAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGGTCGCATCA
64 TACAATGGAGCGGATT--ATAAAGGATCTTATCTCTCTAAAGTTACAGCAGAGAAGATCACATCA
58314941 AGTCTTATTTCCCTGAAGTTACAGTGGAGT
127 AGTCTTATTTCCCTGAAGTTACAGTGGAGT
58314971 GGATTAAAAT
Statistics
Matches: 137, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
168 1 0.01
169 46 0.34
170 22 0.16
173 68 0.50
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (171 bp):
AGATCTTATCTCCCTGAGATACAGCGGAGCAGATCAAAGACAGCAATCCTATCTCCCTGAGATTA
CAATGGAGCGGATTATAAAGGATCTTATCTCTCTAAAGTTACAGCAGAGAAGATCACATCAAGTC
TTATTTCCCTGAAGTTACAGTGGAGTAGACCGGAGAATTTC
Found at i:58314909 original size:43 final size:43
Alignment explanation
Indices: 58314862--58315008 Score: 156
Period size: 43 Copynumber: 3.4 Consensus size: 43
58314852 GACACCATCC
58314862 TATCTCCCTGAAGTTACAGTGGAGTGGATTAAATAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGTGGATTAAATAAAGGATCT
* * ** *** *
58314905 TATCTCTCTGAGGTTACAGCAGAGTAGG-TCGCATCAA-G-TCT
1 TATCTCCCTGAAGTTACAGTGGAGT-GGATTAAATAAAGGATCT
*
58314946 TATTTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGTGGATT-AAATAAAGGATCT
* *
58314990 TATCTCTCTGAGGTTACAG
1 TATCTCCCTGAAGTTACAG
58315009 CAGAGTAGGT
Statistics
Matches: 79, Mismatches: 20, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
40 2 0.03
41 24 0.30
42 5 0.06
43 27 0.34
44 21 0.27
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (43 bp):
TATCTCCCTGAAGTTACAGTGGAGTGGATTAAATAAAGGATCT
Found at i:58314962 original size:41 final size:41
Alignment explanation
Indices: 58314902--58315043 Score: 133
Period size: 41 Copynumber: 3.4 Consensus size: 41
58314892 AAATAAAGGA
* *
58314902 TCTTATCTCTCTGAGGTTACAGCAGAGTAGGTCGCATCAAG
1 TCTTATCTCCCTGAAGTTACAGCAGAGTAGGTCGCATCAAG
* ** *** *
58314943 TCTTATTTCCCTGAAGTTACAGTGGAGT-GGATTAAAATAAAGG
1 TCTTATCTCCCTGAAGTTACAGCAGAGTAGG--TCGCATCAA-G
* *
58314986 ATCTTATCTCTCTGAGGTTACAGCAGAGTAGGTCGCATCAAG
1 -TCTTATCTCCCTGAAGTTACAGCAGAGTAGGTCGCATCAAG
*
58315028 TCTTATTTCCCTGAAG
1 TCTTATCTCCCTGAAG
58315044 ATGCAGTGGA
Statistics
Matches: 75, Mismatches: 21, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
40 2 0.03
41 36 0.48
42 6 0.08
43 6 0.08
44 23 0.31
45 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (41 bp):
TCTTATCTCCCTGAAGTTACAGCAGAGTAGGTCGCATCAAG
Found at i:58315008 original size:85 final size:85
Alignment explanation
Indices: 58314722--58315053 Score: 364
Period size: 85 Copynumber: 3.9 Consensus size: 85
58314712 TGGAGCGGAT
* * * * * * *
58314722 TAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGAAGATCACATCAGGTCTTATTTCCCTGAGGT
1 TAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAAGTCTTATTTCCCTGAAGT
* ** *
58314787 TACAGTGGAGTAGACCGGAGAAT
66 TACAGTGGAGTGGA--TTA-AAA
** * * * * * * * *
58314810 TTCA-GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACCA-TCCTATCTCCCTGA
1 TAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCA-TCA--AGTCTTATTTCCCTGA
58314873 AGTTACAGTGGAGTGGATT-AAA
63 AGTTACAGTGGAGTGGATTAAAA
*
58314895 TAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGGTCGCATCAAGTCTTATTTCCCTGAAGT
1 TAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAAGTCTTATTTCCCTGAAGT
58314960 TACAGTGGAGTGGATTAAAA
66 TACAGTGGAGTGGATTAAAA
* *
58314980 TAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGGTCGCATCAAGTCTTATTTCCCTGAAGA
1 TAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAAGTCTTATTTCCCTGAAGT
*
58315045 TGCAGTGGA
66 TACAGTGGA
58315054 ATAGACTGAA
Statistics
Matches: 205, Mismatches: 33, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
83 1 0.00
84 31 0.15
85 81 0.40
86 32 0.16
87 29 0.14
88 4 0.02
89 27 0.13
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (85 bp):
TAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAAGTCTTATTTCCCTGAAGT
TACAGTGGAGTGGATTAAAA
Found at i:58315516 original size:16 final size:17
Alignment explanation
Indices: 58315491--58315530 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
58315481 GCCCAAATGC
58315491 CAAA-CCCAAAT-AAAA
1 CAAAGCCCAAATCAAAA
*
58315506 CAAAGCCCAAATCCAAA
1 CAAAGCCCAAATCAAAA
58315523 C-AAGCCCA
1 CAAAGCCCA
58315531 TTACAGCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 14 0.64
17 4 0.18
ACGTcount: A:0.55, C:0.35, G:0.05, T:0.05
Consensus pattern (17 bp):
CAAAGCCCAAATCAAAA
Found at i:58316560 original size:3 final size:3
Alignment explanation
Indices: 58316549--58316657 Score: 114
Period size: 3 Copynumber: 36.3 Consensus size: 3
58316539 ATTATTTTGT
58316549 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * * * *
58316597 CTA TTA TTA TCT- TTA CTA TTA TTG TTA GTA TTA TTA CTA CTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
58316642 TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA T
58316658 ATTTATACCT
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
2 3 0.03
3 81 0.92
4 4 0.05
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:58316832 original size:36 final size:34
Alignment explanation
Indices: 58316792--58316860 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 34
58316782 TCATATTTCG
58316792 TATATTTTATAA-TTTGTATATACATATACTTATATC
1 TATATTTTATAACTTT-TATA-A-ATATACTTATATC
* *
58316828 TATATTTTCTAACTTTTATAAATATATTTATAT
1 TATATTTTATAACTTTTATAAATATACTTATAT
58316861 GTACATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 11 0.37
35 1 0.03
36 15 0.50
37 3 0.10
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.55
Consensus pattern (34 bp):
TATATTTTATAACTTTTATAAATATACTTATATC
Found at i:58316981 original size:13 final size:13
Alignment explanation
Indices: 58316963--58316992 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
58316953 CTATTTACTC
*
58316963 TTTTTTATTTTTA
1 TTTTTTATTATTA
58316976 TTTTTTATTATTA
1 TTTTTTATTATTA
58316989 TTTT
1 TTTT
58316993 CAAATTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTATTATTA
Found at i:58321940 original size:18 final size:21
Alignment explanation
Indices: 58321917--58321954 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 21
58321907 AAGGATGGGG
58321917 TTGTTG-TAG-AT-TGGGATA
1 TTGTTGATAGCATATGGGATA
58321935 TTGTTGATAGCATATGGGAT
1 TTGTTGATAGCATATGGGAT
58321955 CATGCTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 2 0.12
21 6 0.35
ACGTcount: A:0.24, C:0.03, G:0.32, T:0.42
Consensus pattern (21 bp):
TTGTTGATAGCATATGGGATA
Found at i:58323018 original size:2 final size:2
Alignment explanation
Indices: 58323011--58323036 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
58323001 AAAAGGTGTT
58323011 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
58323037 ATCTTTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:58331245 original size:22 final size:22
Alignment explanation
Indices: 58331218--58331264 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
58331208 TTAAATTTTT
58331218 TAATAATACAAAGACTAAATT-A
1 TAATAATA-AAAGACTAAATTGA
* *
58331240 TAATAATAGAGGACTAAATTGA
1 TAATAATAAAAGACTAAATTGA
58331262 TAA
1 TAA
58331265 CATGCCTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.55, C:0.06, G:0.11, T:0.28
Consensus pattern (22 bp):
TAATAATAAAAGACTAAATTGA
Found at i:58332013 original size:22 final size:22
Alignment explanation
Indices: 58331988--58332049 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 22
58331978 TGTTCATATT
58331988 TATTTTAGTTTATGTTCCACCG
1 TATTTTAGTTTATGTTCCACCG
* * *
58332010 TATTTAAGTTCATATT------
1 TATTTTAGTTTATGTTCCACCG
58332026 TATTTTAGTTTATGTTCCACCG
1 TATTTTAGTTTATGTTCCACCG
58332048 TA
1 TA
58332050 GTTGCAATGG
Statistics
Matches: 28, Mismatches: 6, Indels: 12
0.61 0.13 0.26
Matches are distributed among these distances:
16 13 0.46
22 15 0.54
ACGTcount: A:0.23, C:0.15, G:0.11, T:0.52
Consensus pattern (22 bp):
TATTTTAGTTTATGTTCCACCG
Found at i:58332352 original size:21 final size:21
Alignment explanation
Indices: 58332314--58332353 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
58332304 CTTTCATGAG
* *
58332314 TTATTATTAAATTTGATTTGA
1 TTATTATTAAACTCGATTTGA
*
58332335 TTATTATTAGACTCGATTT
1 TTATTATTAAACTCGATTT
58332354 TTAATTTACG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (21 bp):
TTATTATTAAACTCGATTTGA
Found at i:58339314 original size:150 final size:151
Alignment explanation
Indices: 58338797--58339388 Score: 912
Period size: 151 Copynumber: 3.9 Consensus size: 151
58338787 TACTGTATTT
*
58338797 GTATCCCTACAAATAAAACTAGATAATTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
1 GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
* * **
58338862 AT-AAAAAGTGATATTTTCTATTATTATTTTTTCAAGTATTTATGACCATATTTATTCTACAATC
66 ATAAAAAAGTGATATTTTCTATTATTATTTTTTTAAGTATTTATGACCATATTTATTTTATGATC
*
58338926 CATGAAGATTAATC-TTTCGA
131 CATGAAGACTAATCTTTTCGA
*
58338946 GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATTATTAGCCTTGATA--
1 GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
* *
58339009 ATAAAAAAGTGATATTTTCTATTATTATTAATATTAAAGTATTTATGACCATATTTATTTTATGA
66 ATAAAAAAGTGATATTTTCTATTATTATT--TTTTTAAGTATTTATGACCATATTTATTTTATGA
* *
58339074 TCCATGAAGACTAAAT-TTTTTGG
129 TCCATGAAGACT-AATCTTTTCGA
* *
58339097 GTATCCCTACAGATAAAACTAGATACTTGTGTTGGGTGTGAATTTACATGATTAGCCTTGATATC
1 GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
*
58339162 ATAAAAAAGTGATATTTTCTATTATTATTTTTTTAAGTATTTATGATCATATTTATTTTACT-AT
66 ATAAAAAAGTGATATTTTCTATTATTATTTTTTTAAGTATTTATGACCATATTTATTTTA-TGAT
*
58339226 CCATGAAGGCTAATCTTTTCGA
130 CCATGAAGACTAATCTTTTCGA
* * *
58339248 GTATCCCTACAAAT-AAACTAAATACTTGTGTTGAGTGTGAATTTACATTATTAGCCTTGATGTC
1 GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
* *
58339312 ATAAAAAAGTGATATTTTCTATTATTA-TTTTTTAAGTATTTATGATCATATTTATTTTATGGTC
66 ATAAAAAAGTGATATTTTCTATTATTATTTTTTTAAGTATTTATGACCATATTTATTTTATGATC
58339376 CATGAAGACTAAT
131 CATGAAGACTAAT
58339389 AGACCAATCT
Statistics
Matches: 407, Mismatches: 26, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
147 2 0.00
148 27 0.07
149 107 0.26
150 116 0.29
151 125 0.31
152 1 0.00
153 29 0.07
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (151 bp):
GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
ATAAAAAAGTGATATTTTCTATTATTATTTTTTTAAGTATTTATGACCATATTTATTTTATGATC
CATGAAGACTAATCTTTTCGA
Found at i:58340081 original size:12 final size:13
Alignment explanation
Indices: 58340058--58340090 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
58340048 GTGTCTTATA
58340058 AAATATAATAAAT
1 AAATATAATAAAT
58340071 AAATA-AATAAAT
1 AAATATAATAAAT
*
58340083 AAAAATAA
1 AAATATAA
58340091 ATGAAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATATAATAAAT
Found at i:58340678 original size:3 final size:3
Alignment explanation
Indices: 58340670--58340696 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
58340660 TTCTTTTGCT
58340670 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
58340697 ATCGTCATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:58341059 original size:31 final size:31
Alignment explanation
Indices: 58341010--58341074 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
58341000 CGGGAATTAA
*
58341010 ATATTTTCTATAATTTTTAAAAAGATTAAATT
1 ATATTTTCTATAATTTTTAAAAA-ATTAAAAT
*
58341042 ATATTTT-TATTATTTTTAAAAAATTAAAAT
1 ATATTTTCTATAATTTTTAAAAAATTAAAAT
58341072 ATA
1 ATA
58341075 AATTTATCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 10 0.32
31 14 0.45
32 7 0.23
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (31 bp):
ATATTTTCTATAATTTTTAAAAAATTAAAAT
Found at i:58341081 original size:30 final size:31
Alignment explanation
Indices: 58341022--58341081 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
58341012 ATTTTCTATA
* **
58341022 ATTTTTAAAAAGATTAAATTATATTTTTATT
1 ATTTTTAAAAAGATTAAAATATAAATTTATT
58341053 ATTTTTAAAAA-ATTAAAATATAAATTTAT
1 ATTTTTAAAAAGATTAAAATATAAATTTAT
58341082 CCTTATTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (31 bp):
ATTTTTAAAAAGATTAAAATATAAATTTATT
Found at i:58341720 original size:25 final size:26
Alignment explanation
Indices: 58341677--58341725 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
58341667 AGATAAGTAA
* *
58341677 ATTAATTTTTATAGTTAAA-AATTTC
1 ATTAATTTCTATAGATAAACAATTTC
*
58341702 ATTAATTTCTATCGATAAACAATT
1 ATTAATTTCTATAGATAAACAATT
58341726 GTTCTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (26 bp):
ATTAATTTCTATAGATAAACAATTTC
Found at i:58353795 original size:13 final size:13
Alignment explanation
Indices: 58353777--58353801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58353767 CAAATCAAAG
58353777 TTCTTTTTTTCTT
1 TTCTTTTTTTCTT
58353790 TTCTTTTTTTCT
1 TTCTTTTTTTCT
58353802 CTCTTATCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTCTTTTTTTCTT
Found at i:58354832 original size:109 final size:110
Alignment explanation
Indices: 58354641--58354841 Score: 311
Period size: 109 Copynumber: 1.8 Consensus size: 110
58354631 GCTATAAATA
*
58354641 GCATACCTGTAAAAGTGCAGCAATAGTACCAAAAGAATTCCACAACAATGGAGCCAAATCTTGAA
1 GCATACCTGTAAAAGTGCAGCAATAGTACCAAAAGAATTCCACAACAAAGGAGCCAAATCTTGAA
58354706 ATAATTCTCTCTTCT-AAAAATAAAAACAAAAACAAGTTTATTAG
66 ATAATTCTCTCTTCTAAAAAATAAAAACAAAAACAAGTTTATTAG
* *
58354750 GCATACCTG-AATGAGTGCAGCTATAGTACCAAAAGAATTCCAC-ACGAAAGGAGCCAAATCTTG
1 GCATACCTGTAA-AAGTGCAGCAATAGTACCAAAAGAATTCCACAAC-AAAGGAGCCAAATCTTG
*
58354813 AAATAATTC-CTTGTTCTAAAAAATAAAAA
64 AAATAATTCTC-TCTTCTAAAAAATAAAAA
58354842 GGTAGACGCT
Statistics
Matches: 84, Mismatches: 4, Indels: 7
0.88 0.04 0.07
Matches are distributed among these distances:
108 5 0.06
109 68 0.81
110 11 0.13
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.23
Consensus pattern (110 bp):
GCATACCTGTAAAAGTGCAGCAATAGTACCAAAAGAATTCCACAACAAAGGAGCCAAATCTTGAA
ATAATTCTCTCTTCTAAAAAATAAAAACAAAAACAAGTTTATTAG
Found at i:58355792 original size:113 final size:113
Alignment explanation
Indices: 58355654--58355874 Score: 334
Period size: 113 Copynumber: 2.0 Consensus size: 113
58355644 ATACCATGCA
* ** * * *
58355654 AGATATTGTGTAGATTGGTGAGAAGATTCTAAAATTTCAAGGCTCTAGATCGATCGTAATTAACA
1 AGATATAGTGTAGATCAGCGAGAAGATTCTAAAATTTCAAGGCTCTAGATCGATCATAATCAACA
58355719 TACTCTTAATTCAATCCAAACTTCTAACAATAACCGCTCTCAGACGCG
66 TACTCTTAATTCAATCCAAACTTCTAACAATAACCGCTCTCAGACGCG
* *
58355767 AGATATAGTGTAGATCAGCGAGAAGATTCTTAAATTTCAAGGCTCTAGATCGATTATAATCAACA
1 AGATATAGTGTAGATCAGCGAGAAGATTCTAAAATTTCAAGGCTCTAGATCGATCATAATCAACA
* * * *
58355832 TATTCTTAATTCAGTCCAAACTTCTAATAATAACCGCTTTCAG
66 TACTCTTAATTCAATCCAAACTTCTAACAATAACCGCTCTCAG
58355875 GTAGTCTTTT
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
113 96 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (113 bp):
AGATATAGTGTAGATCAGCGAGAAGATTCTAAAATTTCAAGGCTCTAGATCGATCATAATCAACA
TACTCTTAATTCAATCCAAACTTCTAACAATAACCGCTCTCAGACGCG
Found at i:58358165 original size:12 final size:13
Alignment explanation
Indices: 58358141--58358195 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
58358131 TAAATAAATT
58358141 ATATATTTT-AAA
1 ATATATTTTAAAA
58358153 ATAT-TTTTAAAA
1 ATATATTTTAAAA
*
58358165 ATTGATATATTTTAAA
1 A-T-ATAT-TTTAAAA
*
58358181 ATATCTTTTAAAA
1 ATATATTTTAAAA
58358194 AT
1 AT
58358196 TGATATTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
11 4 0.11
12 8 0.23
13 9 0.26
14 5 0.14
15 2 0.06
16 7 0.20
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (13 bp):
ATATATTTTAAAA
Found at i:58358173 original size:28 final size:29
Alignment explanation
Indices: 58358136--58358201 Score: 118
Period size: 28 Copynumber: 2.3 Consensus size: 29
58358126 TTCCTTAAAT
58358136 AAATT-ATATATTTTAAAATAT-TTTTAA
1 AAATTGATATATTTTAAAATATCTTTTAA
58358163 AAATTGATATATTTTAAAATATCTTTTAA
1 AAATTGATATATTTTAAAATATCTTTTAA
58358192 AAATTGATAT
1 AAATTGATAT
58358202 TTCTTAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 5 0.14
28 16 0.43
29 16 0.43
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (29 bp):
AAATTGATATATTTTAAAATATCTTTTAA
Found at i:58358208 original size:17 final size:16
Alignment explanation
Indices: 58358153--58358208 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
58358143 ATATTTTAAA
58358153 ATATTTTTAAAAATTG
1 ATATTTTTAAAAATTG
58358169 ATATATTTT-AAAA-T-
1 ATAT-TTTTAAAAATTG
*
58358183 AT-CTTTTAAAAATTG
1 ATATTTTTAAAAATTG
58358198 ATATTTCTTAA
1 ATATTT-TTAA
58358209 TAAAATTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
12 4 0.12
13 4 0.12
14 3 0.09
15 3 0.09
16 10 0.31
17 8 0.25
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (16 bp):
ATATTTTTAAAAATTG
Found at i:58359459 original size:23 final size:23
Alignment explanation
Indices: 58359418--58359476 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 23
58359408 TAGAGTAGGA
58359418 AAAAGAAAATGAAGTAAAAAATAAA-
1 AAAAGAAAATGAA--AAAAAA-AAAG
58359443 AAGGAAGAAAATGAAAAAAAAAAAG
1 AA--AAGAAAATGAAAAAAAAAAAG
58359468 AAAAGAAAA
1 AAAAGAAAA
58359477 AGAAGGGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
23 7 0.23
24 3 0.10
25 10 0.32
27 11 0.35
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (23 bp):
AAAAGAAAATGAAAAAAAAAAAG
Found at i:58359461 original size:18 final size:17
Alignment explanation
Indices: 58359440--58359482 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
58359430 AGTAAAAAAT
58359440 AAAAAGGAAGAAAATGAA
1 AAAAAGGAAGAAAA-GAA
**
58359458 AAAAAAAAAGAAAAGAA
1 AAAAAGGAAGAAAAGAA
58359475 AAAGAAGG
1 AAA-AAGG
58359483 GTTTTTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (17 bp):
AAAAAGGAAGAAAAGAA
Found at i:58359471 original size:27 final size:27
Alignment explanation
Indices: 58359420--58359472 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
58359410 GAGTAGGAAA
* *
58359420 AAGAAAATGAAGTAAAAAATAAAAAGG
1 AAGAAAATGAAGAAAAAAAAAAAAAGG
58359447 AAGAAAATGAA-AAAAAAAAAGAAAAG
1 AAGAAAATGAAGAAAAAAAAA-AAAAG
58359473 AAAAAGAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (27 bp):
AAGAAAATGAAGAAAAAAAAAAAAAGG
Found at i:58368622 original size:22 final size:23
Alignment explanation
Indices: 58368583--58368628 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
58368573 CAAGTATTTC
* *
58368583 ACTACCATTTTCTTATTA-TATT
1 ACTACCATTTTATCATTATTATT
*
58368605 ACTACTATTTTATCATTATTATT
1 ACTACCATTTTATCATTATTATT
58368628 A
1 A
58368629 ATTTTAATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.54
Consensus pattern (23 bp):
ACTACCATTTTATCATTATTATT
Found at i:58372943 original size:60 final size:60
Alignment explanation
Indices: 58372842--58373047 Score: 288
Period size: 60 Copynumber: 3.4 Consensus size: 60
58372832 CAAAGAAATA
* * * * *
58372842 TCAAGGACTAACTTAGAC-CAAAAAAAGTTTAGACCTCAATGTCGGAACAATTGCCAAGT
1 TCAAGGCCTAACTTGGACAAAAAAAAAGTTCAGACCTCAATGTGGGAACAATTGCCAAGT
* *
58372901 TCAAGGCTTAACTTGGACAAAAAAAAAATTCAGACCTCAATGTGGGAACAATTGCCAAGT
1 TCAAGGCCTAACTTGGACAAAAAAAAAGTTCAGACCTCAATGTGGGAACAATTGCCAAGT
* * *
58372961 TCAATGCCTAACTTGGACAAAAAAAAAGTTCAGACCTCAATGTGGGAACAATTGTCTAGT
1 TCAAGGCCTAACTTGGACAAAAAAAAAGTTCAGACCTCAATGTGGGAACAATTGCCAAGT
* *
58373021 TCAGGGCCTAATTTGGATCAAAAAAAA
1 TCAAGGCCTAACTTGGA-CAAAAAAAA
58373048 TTCAGGCCCC
Statistics
Matches: 130, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
59 15 0.12
60 106 0.82
61 9 0.07
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (60 bp):
TCAAGGCCTAACTTGGACAAAAAAAAAGTTCAGACCTCAATGTGGGAACAATTGCCAAGT
Found at i:58379775 original size:21 final size:21
Alignment explanation
Indices: 58379751--58379790 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
58379741 ATTTTTTTAA
* *
58379751 TCGAGTTGAGTTAAATAAAAC
1 TCGAGTCGAGCTAAATAAAAC
58379772 TCGAGTCGAGCTAAATAAA
1 TCGAGTCGAGCTAAATAAA
58379791 TTTGTTTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (21 bp):
TCGAGTCGAGCTAAATAAAAC
Found at i:58397026 original size:24 final size:24
Alignment explanation
Indices: 58396999--58397075 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
58396989 ATTGATTGAA
*
58396999 TTAAAAATCAATAGTTAATTTTAT
1 TTAAAAATCAATAGTTAATTTAAT
** *
58397023 TTAAAATAT-ATATA-TCGA-TTAAA
1 TTAAAA-ATCA-ATAGTTAATTTAAT
* *
58397046 TTAAAAATCGATAGTTAATTTGAT
1 TTAAAAATCAATAGTTAATTTAAT
58397070 TTAAAA
1 TTAAAA
58397076 TATAGCAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
22 5 0.13
23 11 0.28
24 18 0.46
25 5 0.13
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (24 bp):
TTAAAAATCAATAGTTAATTTAAT
Found at i:58397103 original size:47 final size:47
Alignment explanation
Indices: 58397000--58397096 Score: 131
Period size: 47 Copynumber: 2.0 Consensus size: 47
58396990 TTGATTGAAT
* * * * * *
58397000 TAAAAATCAATAGTTAATTTTATTTAAAATATATATATCGATTAAAT
1 TAAAAATCGATAGTTAATTTGATTTAAAATATACAAATCAATTAAAA
58397047 TAAAAATCGATAGTTAATTTGATTTAAAATATAGCAAATCAATTAAAA
1 TAAAAATCGATAGTTAATTTGATTTAAAATATA-CAAATCAATTAAAA
58397095 TA
1 TA
58397097 TCATCGAGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
47 31 0.72
48 12 0.28
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (47 bp):
TAAAAATCGATAGTTAATTTGATTTAAAATATACAAATCAATTAAAA
Found at i:58398721 original size:150 final size:153
Alignment explanation
Indices: 58398406--58398722 Score: 366
Period size: 152 Copynumber: 2.1 Consensus size: 153
58398396 ACAAGTAGTG
* * *
58398406 AAGTATAATGTGCG--AATTATGAAGATTATTTCCCAAGGATTTAATTCTATATGTTTGTTTTAC
1 AAGTATAATGTGTGTTAATTATGAAGATTATTTCCCAAGGACTTAATTCTATATGCTTGTTTTAC
* * * *
58398469 TGTCCATGAAGATTTTAATTTTTTTTGCATTTGTAGATATTTCTCCTAACAATGTTATCTCTAGA
66 GGTCCATGAAGA-TTTAATTTTTTTTGAAATTGTAAATATTTCTCCTAACAATGTTATCTCTAGA
* ** * *
58398534 ATTCGAGCTAAGTTCTCTCATTGG
130 ATTCGAGATAAAATCTCTCACTGA
* ***
58398558 AAGTATAA--TGTGTTAATTGTGAAGATTATTTCTTTAGGACTTAATTCTATATGCTTGTTTTAC
1 AAGTATAATGTGTGTTAATTATGAAGATTATTTCCCAAGGACTTAATTCTATATGCTTGTTTTAC
**
58398621 GGTTTATGAAGA-TTAA-TTTTTTTGAAAATTGTAAATATCCTTC-CC-AACAATGTTATCTCTA
66 GGTCCATGAAGATTTAATTTTTTTTG-AAATTGTAAATAT--TTCTCCTAACAATGTTATCTCTA
58398682 GAATTCGA-ATAAAAT-TCTCACTGA
128 GAATTCGAGATAAAATCTCTCACTGA
58398706 AAGTATAATGTGTGTTA
1 AAGTATAATGTGTGTTA
58398723 TCGCTACACC
Statistics
Matches: 140, Mismatches: 18, Indels: 16
0.80 0.10 0.09
Matches are distributed among these distances:
148 15 0.11
149 12 0.09
150 48 0.34
151 2 0.01
152 63 0.45
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (153 bp):
AAGTATAATGTGTGTTAATTATGAAGATTATTTCCCAAGGACTTAATTCTATATGCTTGTTTTAC
GGTCCATGAAGATTTAATTTTTTTTGAAATTGTAAATATTTCTCCTAACAATGTTATCTCTAGAA
TTCGAGATAAAATCTCTCACTGA
Found at i:58399856 original size:10 final size:9
Alignment explanation
Indices: 58399838--58399903 Score: 60
Period size: 10 Copynumber: 6.7 Consensus size: 9
58399828 TAATTAAACC
58399838 TTTAAAAAA
1 TTTAAAAAA
58399847 TTTGAAAAAA
1 TTT-AAAAAA
58399857 TTTAACTAAAA
1 TTTAA--AAAA
58399868 TTTCCAAAAAA
1 TTT--AAAAAA
*
58399879 TTTCAAAAAT
1 TTT-AAAAAA
58399889 TTTAAAAAA
1 TTTAAAAAA
*
58399898 CTTAAA
1 TTTAAA
58399904 TGATCATTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 15 0.31
10 18 0.37
11 14 0.29
13 2 0.04
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:58401394 original size:8 final size:9
Alignment explanation
Indices: 58401370--58401407 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
58401360 TATTATATAT
58401370 ATATTTTTA
1 ATATTTTTA
58401379 ATATTTTTA
1 ATATTTTTA
*
58401388 ATATTTTAA
1 ATATTTTTA
58401397 AGT-TTTTTA
1 A-TATTTTTA
58401406 AT
1 AT
58401408 CGAATTGGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 1 0.04
9 24 0.92
10 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (9 bp):
ATATTTTTA
Found at i:58402020 original size:18 final size:18
Alignment explanation
Indices: 58401983--58402038 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
58401973 TTTTAAAACG
*
58401983 TATAAA-ATTTAGAATTTT
1 TATAAATATTTTGAA-TTT
58402001 TATAAATATTTTGAATTT
1 TATAAATATTTTGAATTT
* *
58402019 TAAAAATGATTTTAAATTT
1 TATAAAT-ATTTTGAATTT
58402038 T
1 T
58402039 TGAAAATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:58402055 original size:19 final size:19
Alignment explanation
Indices: 58401989--58402055 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
58401979 AACGTATAAA
*
58401989 ATTTAGAATTTTTATAAA-T
1 ATTTTGAATTTTTA-AAATT
* *
58402008 ATTTTGAATTTTAAAAATG
1 ATTTTGAATTTTTAAAATT
*
58402027 ATTTTAAATTTTTGAAAATT
1 ATTTTGAATTTTT-AAAATT
58402047 A-TTTGAATT
1 ATTTTGAATT
58402056 CTTTTGATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 3 0.08
19 30 0.77
20 6 0.15
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATT
Found at i:58404048 original size:36 final size:36
Alignment explanation
Indices: 58403998--58404078 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
58403988 CATACTTGTA
* * *
58403998 TGGAGGAGGTGGTGGTGACTTGTACACATATGTAGG
1 TGGAGGTGGAGGTGGTGACTTGTACACATATGGAGG
*
58404034 TGGAGGTGGAGGTGGTGACTTGTACACATATGGGGG
1 TGGAGGTGGAGGTGGTGACTTGTACACATATGGAGG
58404070 TGGAGGTGG
1 TGGAGGTGG
58404079 TGACTTGTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.20, C:0.07, G:0.47, T:0.26
Consensus pattern (36 bp):
TGGAGGTGGAGGTGGTGACTTGTACACATATGGAGG
Found at i:58404131 original size:27 final size:27
Alignment explanation
Indices: 58404074--58405337 Score: 338
Period size: 30 Copynumber: 42.3 Consensus size: 27
58404064 TGGGGGTGGA
** *
58404074 GGTGGTGACTTGTACTGGTATGGAGGTGGT
1 GGTGGTGACTCATACTTGTATGGA---GGT
*
58404104 GGTGGTGATTCATACTTGTATGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGT
*
58404131 GGAGGTGGTGACTCATATTTGTATGGAGGAGGT
1 ---GGTGGTGACTCATACTTGTAT---GGAGGT
** ** *
58404164 GGTGGTGACTTGTACACGTATGGGGGT
1 GGTGGTGACTCATACTTGTATGGAGGT
*
58404191 GGAGGTGGAGACTCATACTTGTATGGAGGT
1 ---GGTGGTGACTCATACTTGTATGGAGGT
* ** *** * *
58404221 GGAGGTGGTGATTTGTACACATAACGAGGAGGA
1 ---GGTGGTGACTCATACTTGT-A--TGGAGGT
58404254 GGTGGTGACTCATACTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTAT---GGAGGT
** *** *
58404284 GGTGGTGACTTGTACACATATGGGGGT
1 GGTGGTGACTCATACTTGTATGGAGGT
**
58404311 GGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
1 ---GGTGGTGACTCATACTTGTAT---GGAGGT
** *** *
58404344 GGTGGTGACTTGTACACATATGGGGGT
1 GGTGGTGACTCATACTTGTATGGAGGT
**
58404371 GGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
1 ---GGTGGTGACTCATACTTGTAT---GGAGGT
58404404 GGTGGTGACTCATACTTGTATGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGT
58404431 GGAGGTGGTGACTCATACTTGTATGGAGGAGGT
1 ---GGTGGTGACTCATACTTGTAT---GGAGGT
** ** *
58404464 GGTGGTGACTTGTACACGTATGGGGGT
1 GGTGGTGACTCATACTTGTATGGAGGT
*
58404491 GGAGGTGGAGACTCATACTTGTATGGAGGT
1 ---GGTGGTGACTCATACTTGTATGGAGGT
* * * * * *
58404521 GGAGGTGGTGATTTGTACACATAAGGA-GGAGGA
1 ---GGTGGTGA-CT-CATAC-T-TGTATGGAGGT
58404554 GGTGGTGACTCATACTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTAT---GGAGGT
** *** *
58404584 GGTGGTGACTTGTACACATATGGGGGT
1 GGTGGTGACTCATACTTGTATGGAGGT
**
58404611 GGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
1 ---GGTGGTGACTCATACTTGTAT---GGAGGT
58404644 GGTGGTGACTCATACTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTAT---GGAGGT
**
58404674 GGTGGTGACTTGTACTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTAT---GGAGGT
** ** *
58404704 GGTGGTGACTTGTACACGTATGGGGGT
1 GGTGGTGACTCATACTTGTATGGAGGT
*
58404731 GGAGGTGGAGACTCATACTTGTATGGAGGT
1 ---GGTGGTGACTCATACTTGTATGGAGGT
* * * * * *
58404761 GGAGGTGGTGATTTGTACACATAAGGA-GGAGGA
1 ---GGTGGTGA-CT-CATAC-T-TGTATGGAGGT
58404794 GGTGGTGACTCATACTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTAT---GGAGGT
** *** *
58404824 GGTGGTGACTTGTACACATATGGGGGT
1 GGTGGTGACTCATACTTGTATGGAGGT
**
58404851 GGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
1 ---GGTGGTGACTCATACTTGTAT---GGAGGT
58404884 GGTGGTGACTCATACTTGTATGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGT
58404911 GGACGTGGTGACTCATACTTGTATGGAGGAGGT
1 -G--GTGGTGACTCATACTTGTAT---GGAGGT
** ** *
58404944 GGTGGTGACTTGTACGCGTATGGGGGT
1 GGTGGTGACTCATACTTGTATGGAGGT
* *
58404971 AGAGGTGGAGACTCATACTTGTACGGAGGT
1 ---GGTGGTGACTCATACTTGTATGGAGGT
* * * * * *
58405001 GGAGGTGGTGATTTGTACACATAAGGA-GGAGGA
1 ---GGTGGTGA-CT-CATAC-T-TGTATGGAGGT
58405034 GGTGGTGACTCATACTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTAT---GGAGGT
** *** *
58405064 GGTGGTGACTTGTACACATATGGGGGT
1 GGTGGTGACTCATACTTGTATGGAGGT
* **
58405091 GGAGGTAGTGACTTGTACTTGTATGGAGGAGGT
1 ---GGTGGTGACTCATACTTGTAT---GGAGGT
**
58405124 GGTGGTGACTTGTACTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTAT---GGAGGT
58405154 GGTGGTGACTCATACTTGTATGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGT
*
58405181 GGAGGTTGTGACTCATACTTGTATGGAGGAGGT
1 ---GGTGGTGACTCATACTTGTAT---GGAGGT
** **
58405214 GGTGGTGACTTGTACACGTATGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGT
*
58405241 GGAGGTGGAGACTCATACTTGTATGGAGGATGT
1 ---GGTGGTGACTCATACTTGTATGGA-G--GT
** *** *
58405274 GGTGGTGACTTGTACACATATGGGGGAGGA
1 GGTGGTGACTCATACTTGTAT---GGAGGT
* *
58405304 GGTGGCGACTCATACTTGTATGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGT
58405331 GGTGGTG
1 GGTGGTG
58405338 GCGACTTGTA
Statistics
Matches: 937, Mismatches: 192, Indels: 213
0.70 0.14 0.16
Matches are distributed among these distances:
26 6 0.01
27 87 0.09
28 10 0.01
29 4 0.00
30 731 0.78
31 5 0.01
32 11 0.01
33 77 0.08
34 6 0.01
ACGTcount: A:0.20, C:0.09, G:0.42, T:0.29
Consensus pattern (27 bp):
GGTGGTGACTCATACTTGTATGGAGGT
Found at i:58404374 original size:240 final size:240
Alignment explanation
Indices: 58404034--58405248 Score: 1804
Period size: 240 Copynumber: 5.1 Consensus size: 240
58404024 CATATGTAGG
* * * * ** *
58404034 TGGAGGTGGAGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTGGTATGGAG
1 TGGAGGTGGAGGTGGTGATTTGTACACATAAGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
* * *** * ** *
58404099 GTGGTGGTGGTGA-TTCATACTTGTATGGAGGTGGAGGTGGTGACTCATATTTGTATGGAGGAGG
66 GAGGTGGTGGTGACTT-GTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGG
** ** * * * *
58404163 TGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGAGACTCATACTTGTATGGAGGTGGAGGTG
130 TGGTGGTGACTCATACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTATGGAGGAGGTGGTG
* * ** * *
58404228 GTGATTTGTACACATAACGAGGAGGAGGTGGTGACTCATACTTGTA
195 GTGACTTGTACACGTATGGGGGAGGAGGTGGAGACTCATACTTGTA
* * * * * * **
58404274 TGGAGGAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAG
1 TGGAGGTGGAGGTGGTGATTTGTACACATAAGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
58404339 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
66 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
58404404 GGTGGTGACTCATACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTATGGAGGAGGTGGTGG
131 GGTGGTGACTCATACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTATGGAGGAGGTGGTGG
*
58404469 TGACTTGTACACGTATGGGGGTGGAGGTGGAGACTCATACTTGTA
196 TGACTTGTACACGTATGGGGGAGGAGGTGGAGACTCATACTTGTA
58404514 TGGAGGTGGAGGTGGTGATTTGTACACATAAGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
1 TGGAGGTGGAGGTGGTGATTTGTACACATAAGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
58404579 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
66 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
* * **
58404644 GGTGGTGACTCATACTTGTATGGAGGAGGTGGTGGTGACTTGTACTTGTATGGAGGAGGTGGTGG
131 GGTGGTGACTCATACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTATGGAGGAGGTGGTGG
*
58404709 TGACTTGTACACGTATGGGGGTGGAGGTGGAGACTCATACTTGTA
196 TGACTTGTACACGTATGGGGGAGGAGGTGGAGACTCATACTTGTA
58404754 TGGAGGTGGAGGTGGTGATTTGTACACATAAGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
1 TGGAGGTGGAGGTGGTGATTTGTACACATAAGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
58404819 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
66 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
*
58404884 GGTGGTGACTCATACTTGTATGGAGGTGGACGTGGTGACTCATACTTGTATGGAGGAGGTGGTGG
131 GGTGGTGACTCATACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTATGGAGGAGGTGGTGG
*
58404949 TGACTTGTACGCGTATGGGGGTA-GAGGTGGAGACTCATACTTGTA
196 TGACTTGTACACGTATGGGGG-AGGAGGTGGAGACTCATACTTGTA
*
58404994 CGGAGGTGGAGGTGGTGATTTGTACACATAAGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
1 TGGAGGTGGAGGTGGTGATTTGTACACATAAGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
*
58405059 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTAGTGACTTGTACTTGTATGGAGGAGGT
66 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
** * * * * *
58405124 GGTGGTGACTTGTACTTGTATGGAGGAGGTGGTGGTGACTCATACTTGTATGGAGGTGGAGGTTG
131 GGTGGTGACTCATACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTATGGAGGAGGTGGTGG
** ** * * * ** **
58405189 TGACTCATACTTGTATGGAGGAGGTGGTGGTGACTTGTACACGTA
196 TGACTTGTACACGTATGGGGGAGGAGGTGGAGACTCATACTTGTA
58405234 TGGAGGTGGAGGTGG
1 TGGAGGTGGAGGTGG
58405249 AGACTCATAC
Statistics
Matches: 904, Mismatches: 68, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
239 1 0.00
240 901 1.00
241 2 0.00
ACGTcount: A:0.20, C:0.09, G:0.42, T:0.29
Consensus pattern (240 bp):
TGGAGGTGGAGGTGGTGATTTGTACACATAAGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
GGTGGTGACTCATACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTATGGAGGAGGTGGTGG
TGACTTGTACACGTATGGGGGAGGAGGTGGAGACTCATACTTGTA
Found at i:58405260 original size:120 final size:120
Alignment explanation
Indices: 58404034--58405506 Score: 1508
Period size: 120 Copynumber: 12.3 Consensus size: 120
58404024 CATATGTAGG
** * * ** *
58404034 TGGAGGTGGAGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTGGTATGGAG
1 TGGAGGTGGAGGTGGTGACTTGTACTTATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
* * ** * ** *
58404099 GTGGTGGTGGTGA-TTCATACTTGTATGGAGGTGGAGGTGGTGACTCATATTTGTA
66 GAGGTGGTGGTGACTT-GTACACGTATGGGGGTGGAGGTGGTGACTTGTACTTGTA
* * *** * * *
58404154 TGGAGGAGGTGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGAGACTCATACTTGTATGGAG
1 TGGAGGTGGAGGTGGTGACTTGTACTTATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
* * * * ** * * **
58404219 GTGGAGGTGGTGATTTGTACACATAACGAGGAGGAGGTGGTGACTCATACTTGTA
66 GAGGTGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGTGACTTGTACTTGTA
* * ** * * **
58404274 TGGAGGAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAG
1 TGGAGGTGGAGGTGGTGACTTGTACTTATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
*
58404339 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTA
66 GAGGTGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGTGACTTGTACTTGTA
* * ** * *
58404394 TGGAGGAGGTGGTGGTGACTCATACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTATGGAG
1 TGGAGGTGGAGGTGGTGACTTGTACTTATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
* **
58404459 GAGGTGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGAGACTCATACTTGTA
66 GAGGTGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGTGACTTGTACTTGTA
* ** *
58404514 TGGAGGTGGAGGTGGTGATTTGTACACATAAGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
1 TGGAGGTGGAGGTGGTGACTTGTACTTATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
*
58404579 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTA
66 GAGGTGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGTGACTTGTACTTGTA
* * ** * * **
58404634 TGGAGGAGGTGGTGGTGACTCATACTTGTATGGAGGAGGTGGTGGTGACTTGTACTTGTATGGAG
1 TGGAGGTGGAGGTGGTGACTTGTACTTATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
* **
58404699 GAGGTGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGAGACTCATACTTGTA
66 GAGGTGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGTGACTTGTACTTGTA
* ** *
58404754 TGGAGGTGGAGGTGGTGATTTGTACACATAAGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
1 TGGAGGTGGAGGTGGTGACTTGTACTTATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
*
58404819 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTA
66 GAGGTGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGTGACTTGTACTTGTA
* * ** * * *
58404874 TGGAGGAGGTGGTGGTGACTCATACTTGTATGGAGGTGGACGTGGTGACTCATACTTGTATGGAG
1 TGGAGGTGGAGGTGGTGACTTGTACTTATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
* * * **
58404939 GAGGTGGTGGTGACTTGTACGCGTATGGGGGTAGAGGTGGAGACTCATACTTGTA
66 GAGGTGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGTGACTTGTACTTGTA
* * ** *
58404994 CGGAGGTGGAGGTGGTGATTTGTACACATAAGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
1 TGGAGGTGGAGGTGGTGACTTGTACTTATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
* *
58405059 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTAGTGACTTGTACTTGTA
66 GAGGTGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGTGACTTGTACTTGTA
* * * *
58405114 TGGAGGAGGTGGTGGTGACTTGTACTTGTATGGAGGAGGTGGTGGTGACTCATACTTGTATGGAG
1 TGGAGGTGGAGGTGGTGACTTGTACTTATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
* * * ** ** * * * **
58405179 GTGGAGGTTGTGACTCATACTTGTATGGAGGAGGTGGTGGTGACTTGTACACGTA
66 GAGGTGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGTGACTTGTACTTGTA
* ** * * * ** *** *
58405234 TGGAGGTGGAGGTGGAGACTCATACTTGTATGGAGGATGTGGTGGTGACTTGTACACATATGGGG
1 TGGAGGTGGAGGTGGTGACTTGTACTTATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
* * ** ** * * * * *
58405299 GAGGAGGTGGCGACTCATACTTGTATGGAGGAGGTGGTGGCGACTTGTACATGTA
66 GAGGTGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGTGACTTGTACTTGTA
* * * * * * ** * *
58405354 CGGGGGTGGAGGAGGAGACTTATACTTATATGGAGGAGGTGGTGGTGACTTGTACATATATGGAG
1 TGGAGGTGGAGGTGGTGACTTGTACTTATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
* * * *** *** * * ** * *
58405419 GTGGAGGTGGTGACTCGTACTTATATGACAGAGGTGGTAATGACTTGTACGTATA
66 GAGGTGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGTGACTTGTACTTGTA
* **
58405474 TGGAGGTGGAGGTGATGACTCATACTTATATGG
1 TGGAGGTGGAGGTGGTGACTTGTACTTATATGG
58405507 CGGAAGCAAT
Statistics
Matches: 1163, Mismatches: 189, Indels: 2
0.86 0.14 0.00
Matches are distributed among these distances:
120 1161 1.00
121 2 0.00
ACGTcount: A:0.21, C:0.09, G:0.41, T:0.29
Consensus pattern (120 bp):
TGGAGGTGGAGGTGGTGACTTGTACTTATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
GAGGTGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGTGACTTGTACTTGTA
Found at i:58405280 original size:240 final size:240
Alignment explanation
Indices: 58404034--58405438 Score: 1761
Period size: 240 Copynumber: 5.9 Consensus size: 240
58404024 CATATGTAGG
* * ** *
58404034 TGGAGGTGGAGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTGGTATGGAG
1 TGGAGGTGGAGGTGGTGACTTGTACACATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
* * *** * ** *
58404099 GTGGTGGTGGTGA-TTCATACTTGTATGGAGGTGGAGGTGGTGACTCATATTTGTATGGAGGAGG
66 GAGGTGGTGGTGACTT-GTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGG
** ** * * * *
58404163 TGGTGGTGACTTGTACACGTATGGGGGTGGAGGTGGAGACTCATACTTGTATGGAGGTGGAGGTG
130 TGGTGGTGACTCATACTTGTATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAGGAGGAGGTG
* * **
58404228 GTGATTTGTACACATAACGAGGAGGAGGTGGTGACTCATACTTGTA
195 GTGACTTGTACACGTATGGAGGAGGAGGTGGTGACTCATACTTGTA
* * * * **
58404274 TGGAGGAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAG
1 TGGAGGTGGAGGTGGTGACTTGTACACATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
58404339 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
66 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
* *
58404404 GGTGGTGACTCATACTTGTATGGAGGTGGAGGTGGTGACTCATACTTGTATGGAGGAGGTGGTGG
131 GGTGGTGACTCATACTTGTATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAGGAGGAGGTGG
* * *
58404469 TGACTTGTACACGTATGGGGGTGGAGGTGGAGACTCATACTTGTA
196 TGACTTGTACACGTATGGAGGAGGAGGTGGTGACTCATACTTGTA
* *
58404514 TGGAGGTGGAGGTGGTGATTTGTACACATAAGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
1 TGGAGGTGGAGGTGGTGACTTGTACACATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
58404579 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
66 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
* ** *
58404644 GGTGGTGACTCATACTTGTATGGAGGAGGTGGTGGTGACTTGTACTTGTATGGAGGAGGTGGTGG
131 GGTGGTGACTCATACTTGTATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAGGAGGAGGTGG
* * *
58404709 TGACTTGTACACGTATGGGGGTGGAGGTGGAGACTCATACTTGTA
196 TGACTTGTACACGTATGGAGGAGGAGGTGGTGACTCATACTTGTA
* *
58404754 TGGAGGTGGAGGTGGTGATTTGTACACATAAGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
1 TGGAGGTGGAGGTGGTGACTTGTACACATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
58404819 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
66 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
* * *
58404884 GGTGGTGACTCATACTTGTATGGAGGTGGACGTGGTGACTCATACTTGTATGGAGGAGGTGGTGG
131 GGTGGTGACTCATACTTGTATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAGGAGGAGGTGG
* * *
58404949 TGACTTGTACGCGTATGGGGGTA-GAGGTGGAGACTCATACTTGTA
196 TGACTTGTACACGTATGGAGG-AGGAGGTGGTGACTCATACTTGTA
* * *
58404994 CGGAGGTGGAGGTGGTGATTTGTACACATAAGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
1 TGGAGGTGGAGGTGGTGACTTGTACACATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
*
58405059 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTAGTGACTTGTACTTGTATGGAGGAGGT
66 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
** * * *
58405124 GGTGGTGACTTGTACTTGTATGGAGGAGGTGGTGGTGACTCATACTTGTATGGAGGTGGAGGTTG
131 GGTGGTGACTCATACTTGTATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAGGAGGAGGTGG
** ** * ** **
58405189 TGACTCATACTTGTATGGAGGAGGTGGTGGTGACTTGTACACGTA
196 TGACTTGTACACGTATGGAGGAGGAGGTGGTGACTCATACTTGTA
* ** *** * * ** *** *
58405234 TGGAGGTGGAGGTGGAGACTCATACTTGTATGGAGGATGTGGTGGTGACTTGTACACATATGGGG
1 TGGAGGTGGAGGTGGTGACTTGTACACATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
* * ** *** * * * * * * * * *
58405299 GAGGAGGTGGCGACTCATACTTGTATGGAGGAGGTGGTGGCGACTTGTACATGTACGGGGGTGGA
66 GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
* * * * * ** * * *
58405364 GGAGGAGACTTATACTTATATGGAGGAGGTGGTGGTGACTTGTACATATATGGAGGTGGAGGTGG
131 GGTGGTGACTCATACTTGTATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAGGAGGAGGTGG
*
58405429 TGACTCGTAC
196 TGACTTGTAC
58405439 TTATATGACA
Statistics
Matches: 1051, Mismatches: 111, Indels: 6
0.90 0.10 0.01
Matches are distributed among these distances:
239 1 0.00
240 1048 1.00
241 2 0.00
ACGTcount: A:0.21, C:0.09, G:0.42, T:0.29
Consensus pattern (240 bp):
TGGAGGTGGAGGTGGTGACTTGTACACATATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAG
GAGGTGGTGGTGACTTGTACACATATGGGGGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGT
GGTGGTGACTCATACTTGTATGGAGGAGGAGGTGGTGACTCATACTTGTATGGAGGAGGAGGTGG
TGACTTGTACACGTATGGAGGAGGAGGTGGTGACTCATACTTGTA
Found at i:58405536 original size:60 final size:60
Alignment explanation
Indices: 58403948--58405506 Score: 757
Period size: 60 Copynumber: 26.0 Consensus size: 60
58403938 GTAATATGAT
* * * * *
58403948 GGAGGTGATGGTGACTTATACATATATGGGGGTGGA---GAT---TCATACTTGTATGGA
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* ** **
58404002 GGAGGTGGTGGTGACTTGTACACATATGTAGGTGGAGGTGGAGGTGGTGACTTGTACACATATGG
1 GGAGGTGGTGGTGACTTGT--AC--ATGTA--TGGAGGTGGAGGTGATGACTCATACTTATATGG
*
58404067 G
60 A
* * * * * *
58404068 GGTGGAGGTGGTGACTTGTAC-TGGTATGGAGGTGGTGGTGGTGATTCATACTTGTATGGA
1 GGAGGTGGTGGTGACTTGTACAT-GTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* * ** ** * * * ** *** *
58404128 GGTGGAGGTGGTGACTCATATTTGTATGGAGGAGGTGGTGGTGACTTGTACACGTATGGG
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* * * ** * * * ** ** **
58404188 GGTGGAGGTGGAGACTCATACTTGTATGGAGGTGGAGGTGGTGATTTGTACACATAACGA
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* ** * * * * ** ** *
58404248 GGAGGAGGTGGTGACTCATACTTGTATGGAGGAGGTGGTGGTGACTTGTACACATATGGG
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* * * * * * ** ** *
58404308 GGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGTGGTGGTGACTTGTACACATATGGG
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* * * * * * *
58404368 GGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGTGGTGGTGACTCATACTTGTATGGA
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* * ** * * * * ** *** *
58404428 GGTGGAGGTGGTGACTCATACTTGTATGGAGGAGGTGGTGGTGACTTGTACACGTATGGG
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* * * ** * * * ** ** *
58404488 GGTGGAGGTGGAGACTCATACTTGTATGGAGGTGGAGGTGGTGATTTGTACACATAAGGA
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* ** * * * * ** ** *
58404548 GGAGGAGGTGGTGACTCATACTTGTATGGAGGAGGTGGTGGTGACTTGTACACATATGGG
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* * * * * * *
58404608 GGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGTGGTGGTGACTCATACTTGTATGGA
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* * * * ** *** *
58404668 GGAGGTGGTGGTGACTTGTACTTGTATGGAGGAGGTGGTGGTGACTTGTACACGTATGGG
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* * * ** * * * ** ** *
58404728 GGTGGAGGTGGAGACTCATACTTGTATGGAGGTGGAGGTGGTGATTTGTACACATAAGGA
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* ** * * * * ** ** *
58404788 GGAGGAGGTGGTGACTCATACTTGTATGGAGGAGGTGGTGGTGACTTGTACACATATGGG
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* * * * * * *
58404848 GGTGGAGGTGGTGACTTGTACTTGTATGGAGGAGGTGGTGGTGACTCATACTTGTATGGA
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* ** ** * * * * ** *** *
58404908 GGTGGACGTGGTGACTCATACTTGTATGGAGGAGGTGGTGGTGACTTGTACGCGTATGGG
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* * ** * * * * ** ** *
58404968 GGTA-GAGGTGGAGACTCATACTTGTACGGAGGTGGAGGTGGTGATTTGTACACATAAGGA
1 GG-AGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* ** * * * * ** ** *
58405028 GGAGGAGGTGGTGACTCATACTTGTATGGAGGAGGTGGTGGTGACTTGTACACATATGGG
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* * * * * * * ** *
58405088 GGTGGAGGTAGTGACTTGTACTTGTATGGAGGAGGTGGTGGTGACTTGTACTTGTATGGA
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
** * *
58405148 GGAGGTGGTGGTGACTCATACTTGTATGGAGGTGGAGGTTG-TGACTCATACTTGTATGGA
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGG-TGATGACTCATACTTATATGGA
* *
58405208 GGAGGTGGTGGTGACTTGTACACGTATGGAGGTGGAGGTGGA-GACTCATACTTGTATGGA
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGT-GATGACTCATACTTATATGGA
* ** * * ** *
58405268 GGATGTGGTGGTGACTTGTACACATATGGGGGAGGAGGTGGCGACTCATACTTGTATGGA
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* * * * *
58405328 GGAGGTGGTGGCGACTTGTACATGTACGGGGGTGGAGGAGGA-GACTTATACTTATATGGA
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGG-TGATGACTCATACTTATATGGA
* * *
58405388 GGAGGTGGTGGTGACTTGTACATATATGGAGGTGGAGGTGGTGACTCGTACTTATAT-GA
1 GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
* ** * *
58405447 CAGAGGTGGTAATGACTTGTACGTATATGGAGGTGGAGGTGATGACTCATACTTATATGG
1 -GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGG
58405507 CGGAAGCAAT
Statistics
Matches: 1284, Mismatches: 197, Indels: 41
0.84 0.13 0.03
Matches are distributed among these distances:
54 17 0.01
56 2 0.00
58 4 0.00
59 6 0.00
60 1216 0.95
61 6 0.00
62 3 0.00
63 2 0.00
64 2 0.00
66 26 0.02
ACGTcount: A:0.21, C:0.09, G:0.41, T:0.29
Consensus pattern (60 bp):
GGAGGTGGTGGTGACTTGTACATGTATGGAGGTGGAGGTGATGACTCATACTTATATGGA
Found at i:58411061 original size:60 final size:60
Alignment explanation
Indices: 58410907--58411035 Score: 249
Period size: 60 Copynumber: 2.1 Consensus size: 60
58410897 GTTGTAAACA
58410907 TAAGGAGGAAGGCGTAAAAGAGATGGTGAAGGTGGAGATGGAGGTGGAGACTAGTAAATG
1 TAAGGAGGAAGGCGTAAAAGAGATGGTGAAGGTGGAGATGGAGGTGGAGACTAGTAAATG
*
58410967 TAAGGAGGAAGGCGTAAAAGAGATGGTGAAGGTGGAGGTGGAGGTGGAGACTAGTAAATG
1 TAAGGAGGAAGGCGTAAAAGAGATGGTGAAGGTGGAGATGGAGGTGGAGACTAGTAAATG
58411027 TAAGGAGGA
1 TAAGGAGGA
58411036 GGAGGTGATG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 68 1.00
ACGTcount: A:0.36, C:0.03, G:0.44, T:0.16
Consensus pattern (60 bp):
TAAGGAGGAAGGCGTAAAAGAGATGGTGAAGGTGGAGATGGAGGTGGAGACTAGTAAATG
Found at i:58411085 original size:48 final size:48
Alignment explanation
Indices: 58411003--58413242 Score: 2500
Period size: 48 Copynumber: 46.5 Consensus size: 48
58410993 TGAAGGTGGA
* * * ** * * *
58411003 GGTGGAGGTGGAGACTAGTAAATGTAAGGAGGAGGAGGTGATGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * *
58411051 GGTGGAGGTGGTGACTTGTAGACATATGGTGGAGGTGGTGAGGAAAAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* *
58411099 GGTGGAGGTGGGGACTTGTAGACATATGGTGGAGGTTGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* *
58411147 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* ** * *
58411195 GGTGGAGGTGGAGACTTGTAGATGTAAGGAGGAGGAGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* ** * *
58411243 GGTGGAGGTGGTGACTTGTAGATGTAATGAGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * *
58411291 GGTGGAGGTGGTGATTTGTAAACATAAGGTGGAGGTGGTGAAGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* *
58411339 GGTGGAGGTGGGGACTTGTACACATAGGGTGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* *
58411387 GGTGGAGGTGGGGACTTGTACACATAGGGTGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * ** * *
58411435 AGTGGAAGTGGTGACTTGTAGATGTAAGGAGGAGGAGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * ** *
58411483 AGTAGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* ** * *
58411531 GGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTAAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * *
58411579 GGTGGAGGTGGTGATTTGTAAACATAAGGTGGAGGTGGTGAAGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * *
58411627 GGTGGAGGTGGGGACTTGTACACATAGGGTGGAGGAGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
** *
58411675 GGTGGAGGTGGGGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * * ** * *
58411723 GGTGAATGTGGTGACTTATAGATGTAAGGAGGAGGTGGTGAGAGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* *
58411771 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * *
58411819 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGGGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* ** * *
58411867 GGTGGAGGTGGAGACTTGTAGATGTAAGGAGGAGGAGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* ** *
58411915 GGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* ** * *
58411963 GGTGGAGGTGGTGACTTGTAGATGTAAGGTGGAGGAGGTGAAGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * *
58412011 GGTGGAGGTGGTGATTTGTAAACATAAGGTGGAGGTGGTGAAGGAGATGGT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTG-AGG-GA-GAT
* * * *
58412062 GGAGGTGGAGGTGGGGACTTGTACACATAGGGTGGAGGAGGTGAGGAAGAT
1 ---GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * *
58412113 GGTGGAGGTGGGGACTTGTAGACGTAGGGTGGGGGAGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * * *
58412161 GGTGGAGGTGGGGACTTATAGACGTAAGGTGGGGGAGGTGAGGGAGAC
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* *
58412209 GGTGGAGGTGGGGACTTGTAGACATAAGGAGGAGGTGGTGACGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * *
58412257 GGAGGAGGTGGGGACTTGTAGACATAAGGTGGGGGAGGTGAAGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * * * **
58412305 AGAGGAGGTGGGGACTTGTAGACATATGGTGGTGGAGGTGAATGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * * **
58412353 GGTGGAGGTGGAGACTTGTAAACATATGGTGGAGGAGGTGAATGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * * ** * *
58412401 GGTGGTGGTGGAGACTTATAAATGTAAGGAGGAGGTGGTGAGTGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
** * *
58412449 GGTGGAGGTGGGGACTTGTAGATGTAAGGGGGAGGTGGTGAAGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * * **
58412497 GGTGGAGGTGGAGACTTGTAAACATAAGGAGGAGGAGGTGAATGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * *
58412545 GGTGGAGGTGGGGACTTATAGACATAAGGTGGAGGAGGTAAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * ** * *
58412593 GGCGGAGGTGGAGACTTGTAGACATAAGGTGGAGGAAGTAAAGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * *
58412641 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGAGGTGAAGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * * **
58412689 GGTGGAGGTGGAGACTTGTAAACATATGGTGGAGGAGGTGAATGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * * ** *
58412737 GGTGGTGGTGGAGACTTATAAATGTAAGGAGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
** * *
58412785 GGTGGAGGTGGGGACTTGTAGTTATAAGGGGGAGGTGGTGAAGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * *
58412833 GGTGGAGGTGGGGACTTGTAGACATATGGTGGGGGAGGTGAAGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * ** * * * **
58412881 GGTGGAGGTGGAGATTTGTAGATGTATGGAGGAGGAGGTGAATGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * ** * *
58412929 GGTGGAGGAGGTGACTTGTAGATGTAAGGAGGTGGTGGTGAGGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * *
58412977 GGTGGAGGTGGGGACTTGTAGACATAGGGTGGGGGAGGTGAGGGAGAC
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * *
58413025 GGTGGAGGTGGGGAGTTGTAGACATAAGGAGGAGGTGGTGACGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* *
58413073 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGGGGTGGTGAGGCAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * * * **
58413121 GGTGGAGGTGGCGACTTGTAGACATAGGGTGGTGGAGGTGAATGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
* * ** * *
58413169 GGTGGAGGTGGAGATTTGTAGATGTAAGGAGGAGGTGGTGAAGGAGAT
1 GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
*
58413217 GGTGGAGGTGGGGACTTGTAGGCATA
1 GGTGGAGGTGGGGACTTGTAGACATA
58413243 GGATGGTGGT
Statistics
Matches: 1927, Mismatches: 259, Indels: 12
0.88 0.12 0.01
Matches are distributed among these distances:
48 1880 0.98
49 2 0.00
50 2 0.00
51 4 0.00
52 1 0.00
53 3 0.00
54 35 0.02
ACGTcount: A:0.25, C:0.04, G:0.50, T:0.22
Consensus pattern (48 bp):
GGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGTGGTGAGGGAGAT
Found at i:58411953 original size:27 final size:27
Alignment explanation
Indices: 58411147--58412051 Score: 163
Period size: 27 Copynumber: 37.5 Consensus size: 27
58411137 TGAGGGAGAT
* ** *
58411147 GGTGGAGGTGGAGACTTGTAGACATAT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* *
58411174 GGTGGAGGTGGTGA---G-GGA-G-AT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
*
58411195 GGTGGAGGTGGAGACTTGTAGATGTAA
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* * * *
58411222 GGAGGAGGAGGTGA---G-GGA-G-AT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
58411243 GGTGGAGGTGGTGACTTGTAGATGTAA
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* * * *
58411270 TGAGGAGGTGGTGA---G-GGA-G-AT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* * **
58411291 GGTGGAGGTGGTGATTTGTAAACATAA
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* *
58411318 GGTGGAGGTGGTGA--AG--GA-G-AT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* * ** *
58411339 GGTGGAGGTGGGGACTTGTACACATAG
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* *
58411366 GGTGGAGGTGGTGA---G-GGA-G-AT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* * ** *
58411387 GGTGGAGGTGGGGACTTGTACACATAG
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* *
58411414 GGTGGAGGTGGTGA--GGGAGA--T-A
1 GGTGGAGGTGGTGACTTGTAGATGTAA
*
58411436 -GTGGAAGTGGTGACTTGTAGATGTAA
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* * * *
58411462 GGAGGAGGAGGTGA--GGGAGA--T-A
1 GGTGGAGGTGGTGACTTGTAGATGTAA
*
58411484 -GTAGAGGTGGTGACTTGTAGATGTAA
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* * *
58411510 GGAGGAGGTGGTGA---G-GGA-G-AT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
58411531 GGTGGAGGTGGTGACTTGTAGATGTAA
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* * * *
58411558 GGAGGAGGTGGT-A--AG-GGA-G-AT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* * **
58411579 GGTGGAGGTGGTGATTTGTAAACATAA
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* *
58411606 GGTGGAGGTGGTGA--AG--GA-G-AT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* * ** *
58411627 GGTGGAGGTGGGGACTTGTACACATAG
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* * *
58411654 GGTGGAGGAGGTGA---G-GGA-G-AT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
*
58411675 GGTGGAGGTGGGGACTTGTAGATGTAA
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* * *
58411702 GGAGGAGGTGGTGA---G-GGA-G-AT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* * *
58411723 GGTGAATGTGGTGACTTATAGATGTAA
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* *
58411750 GGAGGAGGTGGTGA---G-AGA-G-AT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* ** *
58411771 GGTGGAGGTGGAGACTTGTAGACATAT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* *
58411798 GGTGGAGGTGGTGA---G-GGA-G-AT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* ** *
58411819 GGTGGAGGTGGAGACTTGTAGACATAT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
** *
58411846 GGTGGAGGTGGTG----GGGGA-G-AT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
*
58411867 GGTGGAGGTGGAGACTTGTAGATGTAA
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* * * *
58411894 GGAGGAGGAGGTGA---G-GGA-G-AT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
58411915 GGTGGAGGTGGTGACTTGTAGATGTAA
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* * *
58411942 GGAGGAGGTGGTGA---G-GGA-G-AT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
58411963 GGTGGAGGTGGTGACTTGTAGATGTAA
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* * *
58411990 GGTGGAGGAGGTGA--AG--GA-G-AT
1 GGTGGAGGTGGTGACTTGTAGATGTAA
* * **
58412011 GGTGGAGGTGGTGATTTGTAAACATAA
1 GGTGGAGGTGGTGACTTGTAGATGTAA
58412038 GGTGGAGGTGGTGA
1 GGTGGAGGTGGTGA
58412052 AGGAGATGGT
Statistics
Matches: 617, Mismatches: 153, Indels: 216
0.63 0.16 0.22
Matches are distributed among these distances:
21 239 0.39
22 11 0.02
23 43 0.07
24 22 0.04
25 40 0.06
26 11 0.02
27 251 0.41
ACGTcount: A:0.25, C:0.03, G:0.50, T:0.22
Consensus pattern (27 bp):
GGTGGAGGTGGTGACTTGTAGATGTAA
Found at i:58412143 original size:27 final size:27
Alignment explanation
Indices: 58412065--58412144 Score: 64
Period size: 27 Copynumber: 3.2 Consensus size: 27
58412055 AGATGGTGGA
* *
58412065 GGTGGAGGTGGGGACTTGTACACATAG
1 GGTGGAGGTGGGGACTTGTAGACGTAG
* * * *
58412092 GGTGGAGGAGGTGA---G--GAAG-AT
1 GGTGGAGGTGGGGACTTGTAGACGTAG
58412113 GGTGGAGGTGGGGACTTGTAGACGTAG
1 GGTGGAGGTGGGGACTTGTAGACGTAG
58412140 GGTGG
1 GGTGG
58412145 GGGAGGTGAG
Statistics
Matches: 37, Mismatches: 10, Indels: 12
0.63 0.17 0.20
Matches are distributed among these distances:
21 13 0.35
22 1 0.03
24 2 0.05
26 3 0.08
27 18 0.49
ACGTcount: A:0.21, C:0.06, G:0.53, T:0.20
Consensus pattern (27 bp):
GGTGGAGGTGGGGACTTGTAGACGTAG
Found at i:58412170 original size:27 final size:26
Alignment explanation
Indices: 58412140--58412221 Score: 66
Period size: 27 Copynumber: 3.3 Consensus size: 26
58412130 GTAGACGTAG
58412140 GGTGGGGGAGGTGAGGGAGATGGTGGA
1 GGTGGGGGAGGTGAGGGAGA-GGTGGA
* * * * *
58412167 GGT-GGGGA-CTTA--TAGACGT-AA
1 GGTGGGGGAGGTGAGGGAGAGGTGGA
58412188 GGTGGGGGAGGTGAGGGAGACGGTGGA
1 GGTGGGGGAGGTGAGGGAGA-GGTGGA
58412215 GGTGGGG
1 GGTGGGG
58412222 ACTTGTAGAC
Statistics
Matches: 39, Mismatches: 10, Indels: 12
0.64 0.16 0.20
Matches are distributed among these distances:
21 4 0.10
22 7 0.18
23 5 0.13
25 5 0.13
26 7 0.18
27 11 0.28
ACGTcount: A:0.20, C:0.04, G:0.61, T:0.16
Consensus pattern (26 bp):
GGTGGGGGAGGTGAGGGAGAGGTGGA
Found at i:58412242 original size:27 final size:27
Alignment explanation
Indices: 58412212--58412285 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 27
58412202 GGGAGACGGT
58412212 GGAGGTGGGGACTTGTAGACATAAGGA
1 GGAGGTGGGGACTTGTAGACATAAGGA
* *
58412239 GGAGGTGGTGAC--G--GAGAT--GGA
1 GGAGGTGGGGACTTGTAGACATAAGGA
58412260 GGAGGTGGGGACTTGTAGACATAAGG
1 GGAGGTGGGGACTTGTAGACATAAGG
58412286 TGGGGGAGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
21 14 0.38
23 5 0.14
25 5 0.14
27 13 0.35
ACGTcount: A:0.27, C:0.07, G:0.49, T:0.18
Consensus pattern (27 bp):
GGAGGTGGGGACTTGTAGACATAAGGA
Found at i:58412354 original size:21 final size:21
Alignment explanation
Indices: 58412330--58412408 Score: 59
Period size: 21 Copynumber: 3.5 Consensus size: 21
58412320 TTGTAGACAT
58412330 ATGGTGGTGGAGGTGAATGAG
1 ATGGTGGTGGAGGTGAATGAG
* ** *
58412351 ATGGTGGAGGTGGAGACTTGTAAACAT
1 ATGGT---GGTGGAG--GTG-AATGAG
*
58412378 ATGGTGGAGGAGGTGAATGAG
1 ATGGTGGTGGAGGTGAATGAG
58412399 ATGGTGGTGG
1 ATGGTGGTGG
58412409 TGGAGACTTA
Statistics
Matches: 42, Mismatches: 10, Indels: 12
0.66 0.16 0.19
Matches are distributed among these distances:
21 17 0.40
22 2 0.05
24 13 0.31
26 2 0.05
27 8 0.19
ACGTcount: A:0.25, C:0.03, G:0.48, T:0.24
Consensus pattern (21 bp):
ATGGTGGTGGAGGTGAATGAG
Found at i:58412362 original size:24 final size:24
Alignment explanation
Indices: 58412335--58412413 Score: 65
Period size: 24 Copynumber: 3.3 Consensus size: 24
58412325 GACATATGGT
58412335 GGTGGAGGTGAATGAGATGGTGGA
1 GGTGGAGGTGAATGAGATGGTGGA
* ** *
58412359 GGTGGAGACTTGTAAACATATGGTGGA
1 GGTGGAG--GTG-AATGAGATGGTGGA
*
58412386 ---GGAGGTGAATGAGATGGTGGT
1 GGTGGAGGTGAATGAGATGGTGGA
58412407 GGTGGAG
1 GGTGGAG
58412414 ACTTATAAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 12
0.66 0.15 0.20
Matches are distributed among these distances:
21 10 0.25
22 2 0.05
24 15 0.38
26 2 0.05
27 11 0.28
ACGTcount: A:0.25, C:0.03, G:0.49, T:0.23
Consensus pattern (24 bp):
GGTGGAGGTGAATGAGATGGTGGA
Found at i:58412669 original size:27 final size:27
Alignment explanation
Indices: 58412639--58412723 Score: 83
Period size: 27 Copynumber: 3.4 Consensus size: 27
58412629 AGTAAAGGAG
58412639 ATGGTGGAGGTGGAGACTTGTAGACAT
1 ATGGTGGAGGTGGAGACTTGTAGACAT
* * * *
58412666 ATGGTGGA---GGAG--GTGAAG-GAG
1 ATGGTGGAGGTGGAGACTTGTAGACAT
*
58412687 ATGGTGGAGGTGGAGACTTGTAAACAT
1 ATGGTGGAGGTGGAGACTTGTAGACAT
58412714 ATGGTGGAGG
1 ATGGTGGAGG
58412724 AGGTGAATGA
Statistics
Matches: 43, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
21 9 0.21
22 4 0.09
24 8 0.19
26 3 0.07
27 19 0.44
ACGTcount: A:0.27, C:0.05, G:0.46, T:0.22
Consensus pattern (27 bp):
ATGGTGGAGGTGGAGACTTGTAGACAT
Found at i:58412934 original size:24 final size:24
Alignment explanation
Indices: 58412866--58412939 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
58412856 ATATGGTGGG
* *
58412866 GGAGGTGAAGGAGATGGTGGAGGT
1 GGAGGTGAATGAGATGGTGGAGGA
* * *
58412890 GGAGAT--TTGTAGATGTATGGAGGA
1 GGAGGTGAATG-AGATG-GTGGAGGA
58412914 GGAGGTGAATGAGATGGTGGAGGA
1 GGAGGTGAATGAGATGGTGGAGGA
58412938 GG
1 GG
58412940 TGACTTGTAG
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
22 1 0.03
23 5 0.13
24 25 0.66
25 5 0.13
26 2 0.05
ACGTcount: A:0.27, C:0.00, G:0.53, T:0.20
Consensus pattern (24 bp):
GGAGGTGAATGAGATGGTGGAGGA
Found at i:58417438 original size:48 final size:48
Alignment explanation
Indices: 58417367--58418466 Score: 1153
Period size: 48 Copynumber: 22.8 Consensus size: 48
58417357 TTTAGTAATA
* * * * * *
58417367 TGGAGGTGGAGGCTTGTAGACATAAGGCGGAGGAGGAGAAAGAGAAGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
* * * * *
58417415 TGGAGGTGGGGACTTGTACACATACGGTGGAGGTGGTGAGGGAGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
58417463 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGATA-GAGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGA-AGGAGATGG
*
58417511 TGGAGGTGGAGACTTGTAAACATAAGGAGGAGGAGGTGAAGGAGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
* * * * *
58417559 TGGAGGTGGGGACTTGTAGACATAGGGTGGAGGTGGTGAGGGAGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
*
58417607 TGGAGGTGGAGACTTGTAAACATAAGGAGGAGGAGGTGAAGGAGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
* * * * *
58417655 TGGAGGTGGGGACTTGTAAGCATAGGGTGGAGGTGGTGAGGGAGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
*
58417703 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGACGGAGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
*
58417751 TGGAGGTGGAGACTTGTAAACATAAGGAGGAGGAGGTGAAGGAGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
* * * * * * *
58417799 TGGAGGTGGGGACTTATAAACATAGGGTAGAGGTGGTGAGGGGGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
* * *
58417847 TGGAGGTGGAGACTTGTAAACATAAGGAGGGGGAGGTGAATGAGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
* * * *
58417895 TGGAGGTGGGGACTTGTAAACATAGGGTGGAGGTGGTGAGGGAGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
* *
58417943 TGGAGGTGGAGACTTGTAGACATAATGTGGAGGAGGTGAAGGAGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
* * * * * * *
58417991 CGGATGTGGAGACTTGTAGATATAGGGTGGAGGAGGAGAGGGAGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
* * * *
58418039 CGGAGGTGGAGACTTGTAGACATAGGGTGGAGGTA-GTGAAGGTGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGG-AGGTGAAGGAGATGG
* * * * * * *
58418087 TGGTGGTGGGGACTTGTAGACATAGGGTGAAGGTGGTGAAGGTGATGGTGGTGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAA-G-GA----GATGG
* * * * * * * *
58418141 TGGTGGTGGAAACCTGTAAATATAAGGAGGAGGTGGAGAGGGAGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
* *
58418189 TAGAGGTGGAGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
* ** * * *
58418237 TGGAGGTGGTGACTTGTAGGCATAAGGCGGAGGTGGTGAAGGTGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
* * * * * * * * *
58418285 TGGTGGTGGGGACTTATAAACATATGGAGGTGGTGGAGATGGAGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
* * * * * * * * *
58418333 TGGTGGTGGGGACTTATAAACATATGGAGGTGGTGGAGATGGAGATGG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
* * * * * *
58418381 TGGAGGTGGGGACTTGTACACATAAGGAGGTGGAGG-GAAAGGAGAAGC
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTG-AAGGAGATGG
* * ** * *
58418429 TGGCGGTGGAGACTTATAGGCATACGGTGGTGGAGGTG
1 TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTG
58418467 GGGACTTGTA
Statistics
Matches: 896, Mismatches: 144, Indels: 23
0.84 0.14 0.02
Matches are distributed among these distances:
47 2 0.00
48 853 0.95
49 3 0.00
50 1 0.00
52 2 0.00
53 1 0.00
54 34 0.04
ACGTcount: A:0.27, C:0.05, G:0.48, T:0.20
Consensus pattern (48 bp):
TGGAGGTGGAGACTTGTAAACATAAGGTGGAGGAGGTGAAGGAGATGG
Found at i:58417491 original size:27 final size:27
Alignment explanation
Indices: 58417461--58417543 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
58417451 TGAGGGAGAT
58417461 GGTGGAGGTGGAGACTTGTAAACATAA
1 GGTGGAGGTGGAGACTTGTAAACATAA
* * * *
58417488 GGTGGAGGAGGTGA----TAGAGAT--
1 GGTGGAGGTGGAGACTTGTAAACATAA
58417509 GGTGGAGGTGGAGACTTGTAAACATAA
1 GGTGGAGGTGGAGACTTGTAAACATAA
*
58417536 GGAGGAGG
1 GGTGGAGG
58417544 AGGTGAAGGA
Statistics
Matches: 41, Mismatches: 9, Indels: 12
0.66 0.15 0.19
Matches are distributed among these distances:
21 12 0.29
23 5 0.12
25 5 0.12
27 19 0.46
ACGTcount: A:0.31, C:0.05, G:0.45, T:0.19
Consensus pattern (27 bp):
GGTGGAGGTGGAGACTTGTAAACATAA
Found at i:58417731 original size:27 final size:27
Alignment explanation
Indices: 58417701--58417783 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
58417691 TGAGGGAGAT
58417701 GGTGGAGGTGGAGACTTGTAAACATAA
1 GGTGGAGGTGGAGACTTGTAAACATAA
* * * *
58417728 GGTGGAGGAGGTGAC--G--GAGAT--
1 GGTGGAGGTGGAGACTTGTAAACATAA
58417749 GGTGGAGGTGGAGACTTGTAAACATAA
1 GGTGGAGGTGGAGACTTGTAAACATAA
*
58417776 GGAGGAGG
1 GGTGGAGG
58417784 AGGTGAAGGA
Statistics
Matches: 41, Mismatches: 9, Indels: 12
0.66 0.15 0.19
Matches are distributed among these distances:
21 13 0.32
23 4 0.10
25 4 0.10
27 20 0.49
ACGTcount: A:0.30, C:0.06, G:0.46, T:0.18
Consensus pattern (27 bp):
GGTGGAGGTGGAGACTTGTAAACATAA
Found at i:58418070 original size:27 final size:26
Alignment explanation
Indices: 58417893--58418072 Score: 66
Period size: 27 Copynumber: 7.3 Consensus size: 26
58417883 TGAATGAGAT
* *
58417893 GGTGGAGGTGGGGACTTGTAAACATA
1 GGTGGAGGTGGAGACTTGTAGACATA
* * *
58417919 GGGTGGAGGTGGTGA---G-GGAGAT-
1 -GGTGGAGGTGGAGACTTGTAGACATA
58417941 GGTGGAGGTGGAGACTTGTAGACATAA
1 GGTGGAGGTGGAGACTTGTAGACAT-A
* * * * *
58417968 TGTGGAGGAGGTGA--AG--GAGAT-
1 GGTGGAGGTGGAGACTTGTAGACATA
* * *
58417989 GGCGGATGTGGAGACTTGTAGATATA
1 GGTGGAGGTGGAGACTTGTAGACATA
* * *
58418015 GGGTGGAGGAGGAGA---G-GGAGAT-
1 -GGTGGAGGTGGAGACTTGTAGACATA
*
58418037 GGCGGAGGTGGAGACTTGTAGACATA
1 GGTGGAGGTGGAGACTTGTAGACATA
58418063 GGGTGGAGGT
1 -GGTGGAGGT
58418073 AGTGAAGGTG
Statistics
Matches: 106, Mismatches: 29, Indels: 36
0.62 0.17 0.21
Matches are distributed among these distances:
21 34 0.32
23 12 0.11
24 4 0.04
25 13 0.12
27 43 0.41
ACGTcount: A:0.26, C:0.05, G:0.49, T:0.20
Consensus pattern (26 bp):
GGTGGAGGTGGAGACTTGTAGACATA
Found at i:58418316 original size:24 final size:24
Alignment explanation
Indices: 58418289--58418365 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
58418279 TGATGGTGGT
58418289 GGTGGGGACTTATAAACATATGGA
1 GGTGGGGACTTATAAACATATGGA
* ** * * *
58418313 GGTGGTGGA--GATGGAGATGGTGGT
1 GGTGG-GGACTTATAAACAT-ATGGA
58418337 GGTGGGGACTTATAAACATATGGA
1 GGTGGGGACTTATAAACATATGGA
58418361 GGTGG
1 GGTGG
58418366 TGGAGATGGA
Statistics
Matches: 37, Mismatches: 12, Indels: 8
0.65 0.21 0.14
Matches are distributed among these distances:
23 8 0.22
24 21 0.57
25 8 0.22
ACGTcount: A:0.26, C:0.05, G:0.44, T:0.25
Consensus pattern (24 bp):
GGTGGGGACTTATAAACATATGGA
Found at i:58418319 original size:27 final size:27
Alignment explanation
Indices: 58418281--58418368 Score: 80
Period size: 27 Copynumber: 3.5 Consensus size: 27
58418271 GGTGAAGGTG
*
58418281 ATGGTGGTGGTGGGGACTTATAAACAT
1 ATGGAGGTGGTGGGGACTTATAAACAT
* ** *
58418308 ATGGAGGTGGT--GGA--GAT--GGAG
1 ATGGAGGTGGTGGGGACTTATAAACAT
*
58418329 ATGGTGGTGGTGGGGACTTATAAACAT
1 ATGGAGGTGGTGGGGACTTATAAACAT
58418356 ATGGAGGTGGTGG
1 ATGGAGGTGGTGG
58418369 AGATGGAGAT
Statistics
Matches: 44, Mismatches: 11, Indels: 12
0.66 0.16 0.18
Matches are distributed among these distances:
21 11 0.25
23 5 0.11
25 5 0.11
27 23 0.52
ACGTcount: A:0.24, C:0.05, G:0.45, T:0.26
Consensus pattern (27 bp):
ATGGAGGTGGTGGGGACTTATAAACAT
Found at i:58418376 original size:15 final size:15
Alignment explanation
Indices: 58418356--58418385 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58418346 TTATAAACAT
*
58418356 ATGGAGGTGGTGGAG
1 ATGGAGATGGTGGAG
58418371 ATGGAGATGGTGGAG
1 ATGGAGATGGTGGAG
58418386 GTGGGGACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.57, T:0.20
Consensus pattern (15 bp):
ATGGAGATGGTGGAG
Found at i:58418473 original size:30 final size:30
Alignment explanation
Indices: 58418433--58418521 Score: 88
Period size: 30 Copynumber: 3.0 Consensus size: 30
58418423 AGAAGCTGGC
*
58418433 GGTGGAGACTTATAGGCATACGGTGGTGGA
1 GGTGGAGACTTATAGGCATAAGGTGGTGGA
* * * ** *
58418463 GGTGGGGACTTGTAGACATAAGAAGGTGGT
1 GGTGGAGACTTATAGGCATAAGGTGGTGGA
* * *
58418493 GGTGGAGAGTTATAGGTATATGGTGGTGG
1 GGTGGAGACTTATAGGCATAAGGTGGTGG
58418522 CGATGATGGT
Statistics
Matches: 44, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.24, C:0.06, G:0.45, T:0.26
Consensus pattern (30 bp):
GGTGGAGACTTATAGGCATAAGGTGGTGGA
Found at i:58420520 original size:24 final size:24
Alignment explanation
Indices: 58420493--58420544 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
58420483 TTAGTAAGTC
*
58420493 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
58420517 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
58420541 AAAT
1 AAAT
58420545 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:58423605 original size:23 final size:23
Alignment explanation
Indices: 58423563--58423606 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
58423553 ATACAAGGGT
*
58423563 AAAATTATAGTTTAACTCTCATA
1 AAAATTATAATTTAACTCTCATA
58423586 AAAATATATAATTTAA-TCTCA
1 AAAAT-TATAATTTAACTCTCA
58423607 ACCCCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (23 bp):
AAAATTATAATTTAACTCTCATA
Found at i:58424855 original size:44 final size:43
Alignment explanation
Indices: 58424774--58424856 Score: 98
Period size: 44 Copynumber: 1.9 Consensus size: 43
58424764 CCTGAAAAAA
* * *
58424774 AATAAAAAATAACAGAATTAAAGGTTTGGATCTGAAAATGAAG
1 AATAAAAAAAAACAGAATTAAAGATTTGAATCTGAAAATGAAG
58424817 AATAAAATAAAAACAGAATT-AAGAATATTGAATC-GAAAAT
1 AATAAAA-AAAAACAGAATTAAAG-AT-TTGAATCTGAAAAT
58424857 TTGAGAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
43 10 0.29
44 18 0.53
45 6 0.18
ACGTcount: A:0.58, C:0.05, G:0.14, T:0.23
Consensus pattern (43 bp):
AATAAAAAAAAACAGAATTAAAGATTTGAATCTGAAAATGAAG
Found at i:58429505 original size:17 final size:16
Alignment explanation
Indices: 58429483--58429529 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
58429473 AATTAATTAA
58429483 TTAAAATTTTATAAAAT
1 TTAAAATTTTA-AAAAT
*
58429500 TTAAAAATTTAAAAAT
1 TTAAAATTTTAAAAAT
*
58429516 TATAAAATTATAAA
1 T-TAAAATTTTAAA
58429530 TCAATTCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAAATTTTAAAAAT
Found at i:58429508 original size:8 final size:8
Alignment explanation
Indices: 58429483--58429522 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
58429473 AATTAATTAA
*
58429483 TTAAAATT
1 TTAAAAAT
58429491 TTATAAAAT
1 TTA-AAAAT
58429500 TTAAAAAT
1 TTAAAAAT
58429508 TTAAAAAT
1 TTAAAAAT
58429516 TATAAAA
1 T-TAAAA
58429523 TTATAAATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 17 0.59
9 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TTAAAAAT
Found at i:58429523 original size:16 final size:17
Alignment explanation
Indices: 58429491--58429529 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
58429481 AATTAAAATT
*
58429491 TTATAAAATTTA-AAAA
1 TTATAAAAATTATAAAA
58429507 TT-TAAAAATTATAAAA
1 TTATAAAAATTATAAAA
58429523 TTATAAA
1 TTATAAA
58429530 TCAATTCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 8 0.40
16 8 0.40
17 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTATAAAAATTATAAAA
Found at i:58438298 original size:18 final size:18
Alignment explanation
Indices: 58438275--58438309 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58438265 GGTCATTGAA
*
58438275 TTTGATAATTAAGTTTAT
1 TTTGATAATTAAATTTAT
*
58438293 TTTGATATTTAAATTTA
1 TTTGATAATTAAATTTA
58438310 AAAAATATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (18 bp):
TTTGATAATTAAATTTAT
Found at i:58442070 original size:203 final size:205
Alignment explanation
Indices: 58441675--58442281 Score: 593
Period size: 210 Copynumber: 2.9 Consensus size: 205
58441665 TTAAACACGT
* * * *
58441675 GTTTGATCATTGGGTTTTTTTAATTATTTTATTTAAATATGATATAAAAGTACGAAAAGATAAAA
1 GTTTGATCATT-GG-ATTTGTAATTATTTTATTTAAAAATGATATAAAAGTACGAAAAGACAAAA
* * * *
58441740 ATGAAATCATAATAATATTAATTATAATTTAAAAGGAGTATTTCTATAATTTCATAATTGAGTTG
64 GTGAAATCACAATAACATTAATTATAATTTAAAAGGAGTATTTCTATAATTTCATAATTAAGTTG
* * * ** * *
58441805 GTGATCCAGTTAAGGGTGACACTAGCTCCTTAAATTGCTTAAATATAAGTATTAGGTTAGATATT
129 GTGATCCAATTAAAGGTGACACTAACTCAGTAAAGTGCTTAAATATAAGTATTAGATTAGATATT
*
58441870 -A-A-ATA-TGC
194 AACACATATTCC
* *
58441878 GTTTGATCATTGGATTTGTAATTATATTATTTAAAAATGATATAAAAGTACGAAAAGAGAAAAGT
1 GTTTGATCATTGGATTTGTAATTATTTTATTTAAAAATGATATAAAAGTACGAAAAGACAAAAGT
* * *
58441943 GACATCACAATAACATTGATTATAATTTTACAAAAGGGGTATTTCTATAATTTCATAATTAAGTT
66 GAAATCACAATAACATTAATTATAA-TTT--AAAAGGAGTATTTCTATAATTTCATAATTAAGTT
* * *
58442008 GGTGA-CCAATTAAAGGTGACACTAACTCAGTAACGTGTTTAAATATAAGTATTATATTAGATAT
128 GGTGATCCAATTAAAGGTGACACTAACTCAGTAAAGTGCTTAAATATAAGTATTAGATTAGATAT
58442072 TGAACACATATTCC
193 T-AACACATATTCC
* * **
58442086 GTCATTGGAT--TTGTAATTTGTAATTATTTTATTTGAAAATGATATAAAAGTATAAAAAGACAA
1 GT--TT-GATCATTG-GATTTGTAATTATTTTATTTAAAAATGATATAAAAGTACGAAAAGACAA
** *** * * * *
58442149 AAGTGTTATTGTAATAATATTAATTATAATTTAAAAGAAATGATATTTTTATAATTTCATAATTG
62 AAGTGAAATCACAATAACATTAATTATAATTTAAAAG-GA-G-TATTTCTATAATTTCATAATTA
* * * * * * * ** *
58442214 AGTAGG-CAGTTCAATT-AAGAGCGATACTAACTCAGTAAAATACTTAAATACGAGTATTATATT
124 AGTTGGTGA-TCCAATTAAAG-GTGACACTAACTCAGTAAAGTGCTTAAATATAAGTATTAGATT
58442277 AGATA
187 AGATA
58442282 CATTAAATAT
Statistics
Matches: 335, Mismatches: 51, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
201 67 0.20
202 5 0.01
203 61 0.18
204 37 0.11
205 1 0.00
206 1 0.00
207 8 0.02
208 4 0.01
209 8 0.02
210 95 0.28
211 48 0.14
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (205 bp):
GTTTGATCATTGGATTTGTAATTATTTTATTTAAAAATGATATAAAAGTACGAAAAGACAAAAGT
GAAATCACAATAACATTAATTATAATTTAAAAGGAGTATTTCTATAATTTCATAATTAAGTTGGT
GATCCAATTAAAGGTGACACTAACTCAGTAAAGTGCTTAAATATAAGTATTAGATTAGATATTAA
CACATATTCC
Found at i:58446238 original size:4 final size:4
Alignment explanation
Indices: 58446229--58446258 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
58446219 TTAAATACGC
58446229 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
58446259 AATAGGGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:58452048 original size:16 final size:18
Alignment explanation
Indices: 58452009--58452042 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58451999 TAAGTTTATA
58452009 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
58452026 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
58452043 AATTTAAAGC
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:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:58452917 original size:20 final size:19
Alignment explanation
Indices: 58452871--58452919 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
58452861 AATAAAATTT
* *
58452871 ATTTTTTAAATTAATAAAA
1 ATTTTTAAAATAAATAAAA
58452890 ATGCTTTTAAAATAAATAAATA
1 AT--TTTTAAAATAAATAAA-A
58452912 ATTTTTAA
1 ATTTTTAA
58452920 TCACTTCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 2 0.08
20 6 0.24
21 14 0.56
22 3 0.12
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
ATTTTTAAAATAAATAAAA
Found at i:58454465 original size:26 final size:27
Alignment explanation
Indices: 58454411--58454467 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
58454401 AATTTTAAAA
* * *
58454411 TATTTTTAAAATACTTTTTTTATTTTT
1 TATTTTTAAAATACATTTTTTAGTGTT
*
58454438 TATTTTTAAAATA-ATTTTTTGGTGTT
1 TATTTTTAAAATACATTTTTTAGTGTT
58454464 TATT
1 TATT
58454468 AAAAAAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (27 bp):
TATTTTTAAAATACATTTTTTAGTGTT
Found at i:58454653 original size:17 final size:19
Alignment explanation
Indices: 58454626--58454670 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
58454616 TCTAGCCTCG
58454626 ATATAATATTAAT-TTTAA
1 ATATAATATTAATATTTAA
*
58454644 ATAT-ATATTAATATTTAT
1 ATATAATATTAATATTTAA
58454662 AT-TAATATT
1 ATATAATATT
58454671 TAATTTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATAATATTAATATTTAA
Found at i:58454664 original size:12 final size:12
Alignment explanation
Indices: 58454629--58454672 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
58454619 AGCCTCGATA
* *
58454629 TAATATTAATTT
1 TAATATTTATAT
*
58454641 TAA-ATATATAT
1 TAATATTTATAT
58454652 TAATATTTATAT
1 TAATATTTATAT
58454664 TAATATTTA
1 TAATATTTA
58454673 ATTTCAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 8 0.30
12 19 0.70
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TAATATTTATAT
Found at i:58454978 original size:88 final size:88
Alignment explanation
Indices: 58454791--58455001 Score: 223
Period size: 88 Copynumber: 2.4 Consensus size: 88
58454781 TTTTGTATTT
* * **
58454791 AATTGGGTATTTAAACTTTCAAAATGCATCAAAAAGGTCCTCAAAATTTTTCAAAAAAAGCAATT
1 AATTGGGTACTTAAACTTTCAAAATGCATC-AAAAGGTCCTCAAAATCTTAAAAAAAAAGCAATT
58454856 AAGCCACTATTTTCTCTTACACTC
65 AAGCCACTATTTTCTCTTACACTC
* **
58454880 AATTGAGTACTTAAACTTTCAAAATGCATCAAAAGG-CCTTC-AAA-CTTAAAAAAAAATTAATT
1 AATTGGGTACTTAAACTTTCAAAATGCATCAAAAGGTCC-TCAAAATCTTAAAAAAAAAGCAATT
* * * * *
58454942 AAGCCCCTGCTTTTTTTTTCCCACTC
65 AAGCCACT-ATTTTCTCTT-ACACTC
* *
58454968 AATTGGGTACTTAAA-TTGCCAAAATGCATTAAAA
1 AATTGGGTACTTAAACTT-TCAAAATGCATCAAAA
58455002 ATGTATTTTG
Statistics
Matches: 103, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
86 20 0.19
87 14 0.14
88 41 0.40
89 28 0.27
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (88 bp):
AATTGGGTACTTAAACTTTCAAAATGCATCAAAAGGTCCTCAAAATCTTAAAAAAAAAGCAATTA
AGCCACTATTTTCTCTTACACTC
Found at i:58455171 original size:19 final size:19
Alignment explanation
Indices: 58455143--58455186 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
58455133 ATTAAATTTT
*
58455143 AATA-AAAAATATTAAAAA
1 AATATAAAAATAGTAAAAA
* *
58455161 ATTATAAAAATCGTAAAAA
1 AATATAAAAATAGTAAAAA
58455180 AATATAA
1 AATATAA
58455187 TTTTTTATGC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (19 bp):
AATATAAAAATAGTAAAAA
Found at i:58456028 original size:21 final size:21
Alignment explanation
Indices: 58456002--58456044 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
58455992 GTTCGGACTC
*
58456002 TAAGAAAGTGTGGGAAAATCT
1 TAAGAAAGTGCGGGAAAATCT
58456023 TAAGAAAGTGCGGGAAAATCT
1 TAAGAAAGTGCGGGAAAATCT
58456044 T
1 T
58456045 GTAACTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.07, G:0.28, T:0.23
Consensus pattern (21 bp):
TAAGAAAGTGCGGGAAAATCT
Found at i:58456200 original size:3 final size:3
Alignment explanation
Indices: 58456192--58456221 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
58456182 TTTCCCTTAA
58456192 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
58456222 TTTGCATATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:58493819 original size:8 final size:8
Alignment explanation
Indices: 58493806--58493838 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
58493796 TTTGCTTCTC
58493806 TTTTTTGT
1 TTTTTTGT
58493814 TTTTTTGT
1 TTTTTTGT
*
58493822 TTTTTTTT
1 TTTTTTGT
58493830 TTTTTTGT
1 TTTTTTGT
58493838 T
1 T
58493839 GTTAGTAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (8 bp):
TTTTTTGT
Found at i:58497687 original size:5 final size:5
Alignment explanation
Indices: 58497677--58497728 Score: 104
Period size: 5 Copynumber: 10.4 Consensus size: 5
58497667 TAATCAAGCA
58497677 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
58497727 TA
1 TA
58497729 CAATGTGTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:58520922 original size:2 final size:2
Alignment explanation
Indices: 58520915--58520951 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
58520905 AAAACTTTAA
58520915 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
58520952 AAGATTACAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Done.