Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 424 of 438
Found at i:131219045 original size:71 final size:71
Alignment explanation
Indices: 131218957--131219120 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
131218947 GAGATGTATC
131218957 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
131219022 AGGACA
66 AGGACA
131219028 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
131219093 AGGACA
66 AGGACA
131219099 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
131219121 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:131226607 original size:41 final size:41
Alignment explanation
Indices: 131226562--131226679 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
131226552 TGAAAGATAA
131226562 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
131226603 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
131226633 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
131226674 ATGTAG
1 ATGTAG
131226680 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:131226618 original size:71 final size:71
Alignment explanation
Indices: 131226530--131226693 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
131226520 GAGATGTATC
131226530 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
131226595 AGGACA
66 AGGACA
131226601 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
131226666 AGGACA
66 AGGACA
131226672 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
131226694 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:131229680 original size:16 final size:16
Alignment explanation
Indices: 131229659--131229689 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
131229649 CGATATATAT
131229659 ATATATGTATACATAC
1 ATATATGTATACATAC
131229675 ATATATGTATACATA
1 ATATATGTATACATA
131229690 TATAATGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (16 bp):
ATATATGTATACATAC
Found at i:131235408 original size:16 final size:16
Alignment explanation
Indices: 131235387--131235417 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
131235377 TCAATCAGCG
131235387 ATATATATATACATAC
1 ATATATATATACATAC
*
131235403 ATATATGTATACATA
1 ATATATATATACATA
131235418 TATAATGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (16 bp):
ATATATATATACATAC
Found at i:131237377 original size:31 final size:31
Alignment explanation
Indices: 131237342--131237400 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
131237332 ATTTAAGGAC
*
131237342 TAAAATTGAAT-AATTTAAAAAATAAAAAGTT
1 TAAAATT-AATCAAATTAAAAAATAAAAAGTT
*
131237373 TAAAATTAATCAAATTAAAATATAAAAA
1 TAAAATTAATCAAATTAAAAAATAAAAA
131237401 TTAAATCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (31 bp):
TAAAATTAATCAAATTAAAAAATAAAAAGTT
Found at i:131239538 original size:23 final size:22
Alignment explanation
Indices: 131239487--131239540 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
131239477 TCGGTATTGT
131239487 TATTTTT-AATAAAATTTGTTA
1 TATTTTTAAATAAAATTTGTTA
*
131239508 TAACTTTTTAAATAAATTTTGTTTA
1 T-A-TTTTTAAATAAAATTTG-TTA
131239533 TATTTTTA
1 TATTTTTA
131239541 TGATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 1 0.04
22 1 0.04
23 11 0.39
24 11 0.39
25 4 0.14
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (22 bp):
TATTTTTAAATAAAATTTGTTA
Found at i:131239566 original size:20 final size:19
Alignment explanation
Indices: 131239520--131239567 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
131239510 ACTTTTTAAA
131239520 TAAATTTTGTTTATATTTT
1 TAAATTTTGTTTATATTTT
*
131239539 TATGATTTT-TTTAATAATTTT
1 TA-AATTTTGTTT-AT-ATTTT
131239560 TAAATTTT
1 TAAATTTT
131239568 AAAAGGGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 5 0.21
20 12 0.50
21 7 0.29
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TAAATTTTGTTTATATTTT
Found at i:131251236 original size:21 final size:21
Alignment explanation
Indices: 131251212--131251257 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
131251202 ATGCCTTTGG
* *
131251212 ATTTTAGTTTTCAAATTTCAT
1 ATTTTAGGTTTCAAATTTCAA
* *
131251233 ATTTTGGGTTTCGAATTTCAA
1 ATTTTAGGTTTCAAATTTCAA
131251254 ATTT
1 ATTT
131251258 GATGTTTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.54
Consensus pattern (21 bp):
ATTTTAGGTTTCAAATTTCAA
Found at i:131251738 original size:20 final size:19
Alignment explanation
Indices: 131251710--131251757 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
131251700 AAAAAATTAT
131251710 TAATTATTTTTATATTTTA
1 TAATTATTTTTATATTTTA
131251729 TAATTAATTTTTATATTTTCA
1 TAATT-ATTTTTATATTTT-A
*
131251750 TATTTATT
1 TAATTATT
131251758 AACGTAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 16 0.62
21 5 0.19
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TAATTATTTTTATATTTTA
Found at i:131252794 original size:40 final size:40
Alignment explanation
Indices: 131252728--131252804 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
131252718 TAAAGTTATT
*
131252728 CATAACATGCCCCAAGCTTTGCCAACTTCCTTTCATGAAC
1 CATAACATGCCCCAAGCTATGCCAACTTCCTTTCATGAAC
*
131252768 CATAACATG-CCCAGAGCTATGTCAACTTCCTTTCATG
1 CATAACATGCCCCA-AGCTATGCCAACTTCCTTTCATG
131252805 CTTAGAGGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.29
Consensus pattern (40 bp):
CATAACATGCCCCAAGCTATGCCAACTTCCTTTCATGAAC
Found at i:131257446 original size:17 final size:18
Alignment explanation
Indices: 131257408--131257446 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
131257398 ATTATTTCTC
* *
131257408 AAAAGTACTTTTGGGATA
1 AAAAATACTTTTGAGATA
131257426 AAAAATACTTTTGAGATA
1 AAAAATACTTTTGAGATA
131257444 AAA
1 AAA
131257447 TTATTATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (18 bp):
AAAAATACTTTTGAGATA
Found at i:131258134 original size:19 final size:21
Alignment explanation
Indices: 131258104--131258146 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
131258094 CTCTCTCAAC
131258104 AAAAATTACAAAA-AAATTTA
1 AAAAATTACAAAATAAATTTA
*
131258124 AAAAATT-CAAAATAATTTTA
1 AAAAATTACAAAATAAATTTA
131258144 AAA
1 AAA
131258147 TCTAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAATTACAAAATAAATTTA
Found at i:131258147 original size:18 final size:19
Alignment explanation
Indices: 131258105--131258164 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 19
131258095 TCTCTCAACA
* *
131258105 AAAATTACAAAAAAATTTAA
1 AAAATT-CAAAATAATTTAT
131258125 AAAATTCAAAATAATTT-T
1 AAAATTCAAAATAATTTAT
131258143 AAAA-TCTAAAAT-ATTTAT
1 AAAATTC-AAAATAATTTAT
131258161 AAAA
1 AAAA
131258165 AAATTCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
17 6 0.17
18 14 0.39
19 10 0.28
20 6 0.17
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATTCAAAATAATTTAT
Found at i:131258165 original size:19 final size:19
Alignment explanation
Indices: 131258104--131258175 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 19
131258094 CTCTCTCAAC
*
131258104 AAAAATTACAAAAAAATTTA-
1 AAAAATT-C-AAAATATTTAT
131258124 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
131258143 -AAAA-TCTAAAATATTTAT
1 AAAAATTC-AAAATATTTAT
131258161 AAAAAAATTCAAAAT
1 --AAAAATTCAAAAT
131258176 TTATATTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
17 6 0.14
18 14 0.33
19 5 0.12
20 7 0.16
21 9 0.21
22 2 0.05
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:131258484 original size:26 final size:26
Alignment explanation
Indices: 131258450--131258500 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
131258440 TATCTCGAAT
131258450 AATTTCAC-TCAATTCGACTCGATTCA
1 AATTTCACTTC-ATTCGACTCGATTCA
*
131258476 AATTTCACTTCATTTGACTCGATTC
1 AATTTCACTTCATTCGACTCGATTC
131258501 GAAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.39
Consensus pattern (26 bp):
AATTTCACTTCATTCGACTCGATTCA
Found at i:131260382 original size:19 final size:19
Alignment explanation
Indices: 131260360--131260404 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
131260350 AAAGACAAGA
*
131260360 TAATATCATATGCACA-ATT
1 TAATATCATAAGCACATA-T
*
131260379 TAATATTATAAGCACATAT
1 TAATATCATAAGCACATAT
131260398 TAATATC
1 TAATATC
131260405 TAGTATCATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 21 0.95
20 1 0.05
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (19 bp):
TAATATCATAAGCACATAT
Found at i:131261044 original size:5 final size:5
Alignment explanation
Indices: 131261020--131261067 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
131261010 TGTTAAAATA
* *
131261020 TATAT TAAAT TATTAT TATAG TATAT TATATT ATATAT TATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATA-T -TATAT TATAT TATAT
131261068 AAATAAGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 26 0.72
6 6 0.17
7 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:131261058 original size:12 final size:12
Alignment explanation
Indices: 131261018--131261068 Score: 63
Period size: 12 Copynumber: 4.5 Consensus size: 12
131261008 TGTGTTAAAA
*
131261018 TATATATTAAAT
1 TATATATTATAT
131261030 TAT-TATTATA-
1 TATATATTATAT
*
131261040 -GTATATTATAT
1 TATATATTATAT
131261051 TATATATTATAT
1 TATATATTATAT
131261063 TATATA
1 TATATA
131261069 AATAAGTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 1 0.03
10 7 0.21
11 6 0.18
12 19 0.58
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:131262366 original size:15 final size:15
Alignment explanation
Indices: 131262343--131262392 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
131262333 TTTATTGAAT
131262343 TTATATTGATCGAAA
1 TTATATTGATCGAAA
* *
131262358 TTATTTTGATTGAAA
1 TTATATTGATCGAAA
*
131262373 TTATATTGATTG-AA
1 TTATATTGATCGAAA
131262387 TTATAT
1 TTATAT
131262393 AATATATATG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
14 8 0.25
15 24 0.75
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATCGAAA
Found at i:131262967 original size:21 final size:21
Alignment explanation
Indices: 131262763--131262956 Score: 307
Period size: 21 Copynumber: 9.0 Consensus size: 21
131262753 CGGCTTTATA
131262763 TATCAGGCACCTCGTGTGTCG
1 TATCAGGCACCTCGTGTGTCG
131262784 TATTTCAGGCACCTCGTGTGTCG
1 TA--TCAGGCACCTCGTGTGTCG
*
131262807 TATTTCAGGCACATCGTGTGTCG
1 TA--TCAGGCACCTCGTGTGTCG
131262830 TATCAGGCACCTCGTGTGTCG
1 TATCAGGCACCTCGTGTGTCG
131262851 TATTTCAGGCACCTCGTGTGTCG
1 TA--TCAGGCACCTCGTGTGTCG
*
131262874 TATCAGGCACCTCGTGTATCG
1 TATCAGGCACCTCGTGTGTCG
131262895 TATCAGGCACCTCGTGTGTCG
1 TATCAGGCACCTCGTGTGTCG
131262916 TATCAGGCACCTCGTGTGTCG
1 TATCAGGCACCTCGTGTGTCG
*
131262937 TAACAGGCACCTCGTGTGTC
1 TATCAGGCACCTCGTGTGTC
131262957 ATTTTAGGCA
Statistics
Matches: 164, Mismatches: 5, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
21 100 0.61
23 64 0.39
ACGTcount: A:0.15, C:0.27, G:0.27, T:0.30
Consensus pattern (21 bp):
TATCAGGCACCTCGTGTGTCG
Found at i:131262980 original size:42 final size:43
Alignment explanation
Indices: 131262765--131262956 Score: 307
Period size: 44 Copynumber: 4.4 Consensus size: 43
131262755 GCTTTATATA
131262765 TCAGGCACCTCGTGTGTCGTATTTCAGGCACCTCGTGTGTCGTATT
1 TCAGGCACCTCGTGTGTCGTA--TCAGGCACCTCGTGTGTCGTA-T
*
131262811 TCAGGCACATCGTGTGTCGTATCAGGCACCTCGTGTGTCGTATT
1 TCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGTA-T
*
131262855 TCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTATCGTA-
1 TCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGTAT
131262897 TCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGTA-
1 TCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGTAT
*
131262939 ACAGGCACCTCGTGTGTC
1 TCAGGCACCTCGTGTGTC
131262957 ATTTTAGGCA
Statistics
Matches: 141, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
42 58 0.41
44 63 0.45
46 20 0.14
ACGTcount: A:0.15, C:0.28, G:0.27, T:0.30
Consensus pattern (43 bp):
TCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGTAT
Found at i:131263164 original size:18 final size:19
Alignment explanation
Indices: 131263143--131263183 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
131263133 AATGAAATGA
131263143 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
131263161 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
131263180 GAAA
1 GAAA
131263184 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:131264387 original size:20 final size:19
Alignment explanation
Indices: 131264357--131264397 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
131264347 ATATATATAT
131264357 ATCAATTTAATCCAATTCA
1 ATCAATTTAATCCAATTCA
*
131264376 ATCAAGTTTAATTCAATTCA
1 ATCAA-TTTAATCCAATTCA
131264396 AT
1 AT
131264398 ATCAAAGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (19 bp):
ATCAATTTAATCCAATTCA
Found at i:131265233 original size:25 final size:25
Alignment explanation
Indices: 131265199--131265248 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
131265189 TTTTTTCATT
131265199 CTTTTAATAACCA-TCCCACTTAAAG
1 CTTTTAATAA-CAGTCCCACTTAAAG
131265224 CTTTTAATAACAGTCCCACTTAAAG
1 CTTTTAATAACAGTCCCACTTAAAG
131265249 ACCAATCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (25 bp):
CTTTTAATAACAGTCCCACTTAAAG
Found at i:131269858 original size:22 final size:22
Alignment explanation
Indices: 131269831--131269875 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
131269821 TACCATTAAA
*
131269831 ATAATAGAAAGTA-ATATAATTT
1 ATAATA-AAAATATATATAATTT
131269853 ATAATAAAAATATATATAATTT
1 ATAATAAAAATATATATAATTT
131269875 A
1 A
131269876 CTATTCTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
ATAATAAAAATATATATAATTT
Found at i:131276100 original size:17 final size:17
Alignment explanation
Indices: 131276078--131276112 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
131276068 AGTCACACAC
131276078 TTAAATAATAGA-ATAGA
1 TTAAATAAT-GATATAGA
131276095 TTAAATAATGATATAGA
1 TTAAATAATGATATAGA
131276112 T
1 T
131276113 ATACACAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.34
Consensus pattern (17 bp):
TTAAATAATGATATAGA
Found at i:131276347 original size:25 final size:27
Alignment explanation
Indices: 131276290--131276341 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
131276280 TAAAGTACGC
*
131276290 TCAAATAATATAATTTTTTTTGATAAAA
1 TCAAATAATATAATTTTATTT-ATAAAA
131276318 TCAAATAATATAA-TTTATTT-TAAA
1 TCAAATAATATAATTTTATTTATAAA
131276342 TGCAAAGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
27 6 0.26
28 13 0.57
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (27 bp):
TCAAATAATATAATTTTATTTATAAAA
Found at i:131278695 original size:21 final size:22
Alignment explanation
Indices: 131278655--131278695 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
131278645 TAAAAAAATT
*
131278655 CGACATATATTACCTATTTAGC
1 CGACATATATTACATATTTAGC
*
131278677 CGACATATTTTA-ATATTTA
1 CGACATATATTACATATTTA
131278696 TATCATAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (22 bp):
CGACATATATTACATATTTAGC
Found at i:131278942 original size:15 final size:17
Alignment explanation
Indices: 131278911--131278950 Score: 57
Period size: 15 Copynumber: 2.4 Consensus size: 17
131278901 TTCACATGTT
131278911 TTTAATTGTTCTTGAAA
1 TTTAATTGTTCTTGAAA
131278928 TTTAATT-TT-TTGAAA
1 TTTAATTGTTCTTGAAA
131278943 TTTCAATT
1 TTT-AATT
131278951 ATTATTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.41
16 6 0.27
17 7 0.32
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (17 bp):
TTTAATTGTTCTTGAAA
Found at i:131281556 original size:18 final size:19
Alignment explanation
Indices: 131281533--131281575 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
131281523 TGTTTTTCAA
* *
131281533 TTTTTAAGGGTC-CAATTT
1 TTTTTAAGGATCGAAATTT
131281551 TTTTTAAGGATCGAAATTT
1 TTTTTAAGGATCGAAATTT
131281570 TTTTTA
1 TTTTTA
131281576 CTAACTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.26, C:0.07, G:0.14, T:0.53
Consensus pattern (19 bp):
TTTTTAAGGATCGAAATTT
Found at i:131282488 original size:28 final size:28
Alignment explanation
Indices: 131282427--131282490 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
131282417 ATTAAGCCCC
*
131282427 CCAAAAAAAACCTAACCCCAAAAAAAAA
1 CCAAGAAAAACCTAACCCCAAAAAAAAA
** *
131282455 AAAAGAAAAACCTAACCCCCAAAAAAAA
1 CCAAGAAAAACCTAACCCCAAAAAAAAA
131282483 CCAAGAAA
1 CCAAGAAA
131282491 CCCTAGCCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.67, C:0.27, G:0.03, T:0.03
Consensus pattern (28 bp):
CCAAGAAAAACCTAACCCCAAAAAAAAA
Found at i:131283905 original size:41 final size:39
Alignment explanation
Indices: 131283781--131283932 Score: 159
Period size: 40 Copynumber: 3.8 Consensus size: 39
131283771 CCTTTGCTGG
* *
131283781 CTTTAGCGGCGC-TTTCTAAAAACGCCGCTAAAGATCGAGT
1 CTTTAGCGGCGCTTTTCTAAAAACGCCGCT-AATATTGA-T
* * * *
131283821 -ATTAGAGGCGCTTTTCTAAAAACGCCGCT-ATATGTACAC
1 CTTTAGCGGCGCTTTTCTAAAAACGCCGCTAATAT-T-GAT
131283860 CTTTAGCGGCGCTTTTCTAAAAAGCGCCGCTAATACTTGAT
1 CTTTAGCGGCGCTTTTCTAAAAA-CGCCGCTAATA-TTGAT
131283901 CTTTAGCGGCG-TTTTCTAAAAAGCGCCGCTAA
1 CTTTAGCGGCGCTTTTCTAAAAA-CGCCGCTAA
131283933 AGAATTTTGT
Statistics
Matches: 95, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
38 3 0.03
39 9 0.09
40 59 0.62
41 19 0.20
42 4 0.04
43 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (39 bp):
CTTTAGCGGCGCTTTTCTAAAAACGCCGCTAATATTGAT
Found at i:131284034 original size:41 final size:40
Alignment explanation
Indices: 131283977--131284084 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 40
131283967 ATTTTAGTGG
*
131283977 CTTTAGCGGCGCTTTTTTAAGAAACGCCGCTATAAG-TAC-AC
1 CTTTAGCGGCGCTTTTTTAA-AAACGCCGCGA-AAGCT-CGAC
* * *
131284018 CTTTAGCGGCGCTTTTTGAAAAACGCCGCGAATGCTCGAT
1 CTTTAGCGGCGCTTTTTTAAAAACGCCGCGAAAGCTCGAC
131284058 CTTTAGCGGCG-TTTTTTAAAAAACGCC
1 CTTTAGCGGCGCTTTTTT-AAAAACGCC
131284085 ACTACAAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
39 8 0.14
40 32 0.54
41 19 0.32
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (40 bp):
CTTTAGCGGCGCTTTTTTAAAAACGCCGCGAAAGCTCGAC
Found at i:131284481 original size:22 final size:21
Alignment explanation
Indices: 131284456--131284506 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
131284446 CCCTAAATTA
131284456 TAAAACTTAAAACTATAAACCC
1 TAAAAC-TAAAACTATAAACCC
* * *
131284478 TAAATCTAAAACCATAAAACC
1 TAAAACTAAAACTATAAACCC
*
131284499 TTAAACTA
1 TAAAACTA
131284507 TAGACAACAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.55, C:0.22, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAAACTAAAACTATAAACCC
Found at i:131284591 original size:12 final size:12
Alignment explanation
Indices: 131284574--131284606 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
131284564 AATAAATAAT
131284574 ATATATATATGG
1 ATATATATATGG
*
131284586 ATATATATATTG
1 ATATATATATGG
131284598 ATATATATA
1 ATATATATA
131284607 GATATTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (12 bp):
ATATATATATGG
Found at i:131286325 original size:10 final size:9
Alignment explanation
Indices: 131286299--131286329 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
131286289 TTGTGTGTTC
131286299 TTTATTTTA
1 TTTATTTTA
131286308 TTTATTTTA
1 TTTATTTTA
131286317 TTCTATTTTA
1 TT-TATTTTA
131286327 TTT
1 TTT
131286330 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:131290780 original size:10 final size:9
Alignment explanation
Indices: 131290754--131290784 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
131290744 TTATGTGTTC
131290754 TTTATTTTA
1 TTTATTTTA
131290763 TTTATTTTA
1 TTTATTTTA
131290772 TTCTATTTTA
1 TT-TATTTTA
131290782 TTT
1 TTT
131290785 TTCACACAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:131294369 original size:367 final size:367
Alignment explanation
Indices: 131293591--131294492 Score: 1731
Period size: 367 Copynumber: 2.5 Consensus size: 367
131293581 CTTGTCCATT
*
131293591 AAAA-TTACAACAATAGCTGACTTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTA
1 AAAACTTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTA
131293655 TATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGG
66 TATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGG
131293720 TGTAACAACGCCACGTATGATGAATCTTAAAAATTCAAAAAACTTGAAAAAGTTCTATCGAGCTC
131 TGTAACAACGCCACGTATGATGAATCTTAAAAATTCAAAAAACTTGAAAAAGTTCTATCGAGCTC
131293785 ATTTACTATTGAATATTTATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGAT
196 ATTTACTATTGAATATTTATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGAT
131293850 TCTTTTTTGATATTATTATATTCAAATTACTATTTTTATATTAATAATGTTTTATTTTAATATTT
261 TCTTTTTTGATATTATTATATTCAAATTACTATTTTTATATTAATAATGTTTTATTTTAATATTT
131293915 AATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
326 AATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
131293957 AAAACTTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTA
1 AAAACTTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTA
131294022 TATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGG
66 TATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGG
131294087 TGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAACTTGAAAAAAGTTCTATCGAGC
131 TGTAACAACGCCACGTATGATGAATCTT-AAAAATTCAAAAAACTTG-AAAAAGTTCTATCGAGC
131294152 TCATTTACTATTGAATATTTATAAACCTTAATTTATTTCCAATTTACTTAT-AAAATTAAACTAC
194 TCATTTACTATTGAATATTTAT-AACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTAC
131294216 GATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTATATTAATAATGTTTTATTTTAATA
258 GATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTATATTAATAATGTTTTATTTTAATA
131294281 TTTAATATTTTTAAATTTCTTT-AAAGTTATAACTACTTTTTATC
323 TTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
131294325 AAAACTTACAACAATAGCTGACCTTCTCTCCAACCTTA-TTTAAATATTTTAAAGATTCAAAGTA
1 AAAACTTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTA
*
131294389 TATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATTGATCCTCCCTAGG
66 TATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGG
131294454 TGTAACAACGCCACGTATGATGAATCTTAAAAATTCAAA
131 TGTAACAACGCCACGTATGATGAATCTTAAAAATTCAAA
131294493 TTTCAATTTA
Statistics
Matches: 530, Mismatches: 2, Indels: 8
0.98 0.00 0.01
Matches are distributed among these distances:
366 15 0.03
367 270 0.51
368 78 0.15
369 139 0.26
370 28 0.05
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (367 bp):
AAAACTTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTA
TATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGG
TGTAACAACGCCACGTATGATGAATCTTAAAAATTCAAAAAACTTGAAAAAGTTCTATCGAGCTC
ATTTACTATTGAATATTTATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGAT
TCTTTTTTGATATTATTATATTCAAATTACTATTTTTATATTAATAATGTTTTATTTTAATATTT
AATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
Found at i:131294631 original size:23 final size:24
Alignment explanation
Indices: 131294576--131294642 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
131294566 ATTATTATTG
*
131294576 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
131294600 AAATATTATTC-TCCGTTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
131294624 -AATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
131294643 CCATTTAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
22 2 0.05
23 16 0.41
24 19 0.49
25 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:131294868 original size:15 final size:15
Alignment explanation
Indices: 131294824--131294879 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
131294814 AACGACATGT
131294824 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
131294840 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
131294853 ATATTATTTAATTAA
1 ATATTATTTAATTAA
131294868 ATATTATTTAAT
1 ATATTATTTAAT
131294880 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:131295011 original size:9 final size:9
Alignment explanation
Indices: 131294994--131295242 Score: 134
Period size: 9 Copynumber: 27.4 Consensus size: 9
131294984 CATAATTTAC
131294994 ATAAC-TAT
1 ATAACTTAT
*
131295002 ATAACATAT
1 ATAACTTAT
*
131295011 ATAACTTAC
1 ATAACTTAT
131295020 ATAACTTAT
1 ATAACTTAT
* *
131295029 ATAACATAC
1 ATAACTTAT
131295038 ATAACTTAT
1 ATAACTTAT
* *
131295047 ATAACATAC
1 ATAACTTAT
131295056 ATAAC-TAT
1 ATAACTTAT
* *
131295064 ATAACATAC
1 ATAACTTAT
131295073 AT-ACTTAT
1 ATAACTTAT
131295081 AT-ACTTAT
1 ATAACTTAT
*
131295089 ATAACTTAG
1 ATAACTTAT
*
131295098 ATAA-ATAT
1 ATAACTTAT
*
131295106 ATAACTTAC
1 ATAACTTAT
*
131295115 ATAACTTAC
1 ATAACTTAT
131295124 ATAATACTTAAAT
1 AT-A-ACTT--AT
**
131295137 ATATTTTATAT
1 ATA-ACT-TAT
*
131295148 CATAATTTAT
1 -ATAACTTAT
*
131295158 ATAACTTAC
1 ATAACTTAT
131295167 ATAAACTTAT
1 AT-AACTTAT
*
131295177 ATAACTTAG
1 ATAACTTAT
*
131295186 ATAA-ATAT
1 ATAACTTAT
* *
131295194 ATAATTTAC
1 ATAACTTAT
*
131295203 ATAA-ATAT
1 ATAACTTAT
* *
131295211 ATATCATAT
1 ATAACTTAT
* *
131295220 CATAAATTAC
1 -ATAACTTAT
*
131295230 ATAACTTAC
1 ATAACTTAT
131295239 ATAA
1 ATAA
131295243 TACTTAAATA
Statistics
Matches: 189, Mismatches: 38, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
8 43 0.23
9 111 0.59
10 17 0.09
11 8 0.04
12 6 0.03
13 4 0.02
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
ATAACTTAT
Found at i:131295014 original size:17 final size:18
Alignment explanation
Indices: 131294984--131295242 Score: 163
Period size: 17 Copynumber: 14.3 Consensus size: 18
131294974 TATTTGATAT
* *
131294984 CATAATTTACATAAC-TA
1 CATAACTTATATAACATA
* * *
131295001 TATAACATATATAACTTA
1 CATAACTTATATAACATA
131295019 CATAACTTATATAACATA
1 CATAACTTATATAACATA
131295037 CATAACTTATATAACATA
1 CATAACTTATATAACATA
131295055 CATAAC-TATATAACATA
1 CATAACTTATATAACATA
*
131295072 CAT-ACTTATAT-ACTTA
1 CATAACTTATATAACATA
* *
131295088 TATAACTTAGATAA-ATA
1 CATAACTTATATAACATA
* * *
131295105 TATAACTTACATAACTTA
1 CATAACTTATATAACATA
**
131295123 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA--ACATA
* *
131295147 TCATAATTTATATAACTTA
1 -CATAACTTATATAACATA
*
131295166 CATAAACTTATATAACTTA
1 CAT-AACTTATATAACATA
* * **
131295185 GATAA-ATATATAATTTA
1 CATAACTTATATAACATA
* *
131295202 CATAA-ATATATATCATA
1 CATAACTTATATAACATA
* * *
131295219 TCATAAATTACATAACTTA
1 -CATAACTTATATAACATA
131295238 CATAA
1 CATAA
131295243 TACTTAAATA
Statistics
Matches: 193, Mismatches: 34, Indels: 29
0.75 0.13 0.11
Matches are distributed among these distances:
16 8 0.04
17 75 0.39
18 61 0.32
19 27 0.14
20 4 0.02
21 5 0.03
22 4 0.02
23 3 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACATA
Found at i:131295107 original size:42 final size:43
Alignment explanation
Indices: 131294963--131295122 Score: 126
Period size: 42 Copynumber: 3.7 Consensus size: 43
131294953 AACTTACATA
*** * *
131294963 ATACATAAATATATTTGATATCATAATTTACATAAC-TATATAAC
1 ATACATAAATATATAACATA-CATAACTTATAT-ACTTATATAAC
* * * * * * *
131295007 ATATATAACTTACATAACTTATATAACATACATAACTTATATAAC
1 ATACATAA-ATATATAACATACATAACTTATAT-ACTTATATAAC
*
131295052 ATACATAACTATATAACATACAT-ACTTATATACTTATATAAC
1 ATACATAAATATATAACATACATAACTTATATACTTATATAAC
* * *
131295094 TTAGATAAATATATAACTTACATAACTTA
1 ATACATAAATATATAACATACATAACTTA
131295123 CATAATACTT
Statistics
Matches: 92, Mismatches: 21, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 30 0.33
43 11 0.12
44 30 0.33
45 21 0.23
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (43 bp):
ATACATAAATATATAACATACATAACTTATATACTTATATAAC
Found at i:131303303 original size:29 final size:29
Alignment explanation
Indices: 131303271--131303346 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
131303261 CTGGAAATAT
* *
131303271 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
131303300 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
131303329 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
131303347 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:131306871 original size:18 final size:18
Alignment explanation
Indices: 131306816--131306872 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 18
131306806 AGAAAATATA
* *
131306816 AAAAT-TAAAAATTTATC
1 AAAATATAAAAAATTATT
* *
131306833 AAAACATAAAAAACTTTTT
1 AAAATATAAAAAA-TTATT
131306852 AAAATATAAAAAATTATT
1 AAAATATAAAAAATTATT
131306870 AAA
1 AAA
131306873 TTTTATTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 4 0.12
18 13 0.41
19 15 0.47
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATATAAAAAATTATT
Found at i:131306922 original size:12 final size:12
Alignment explanation
Indices: 131306890--131306928 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
131306880 ATAAATTATT
*
131306890 ATAAAAGATAAAA
1 ATAAAA-ATAGAA
*
131306903 ATAGAAATAGAA
1 ATAAAAATAGAA
131306915 ATAAAAATAGAA
1 ATAAAAATAGAA
131306927 AT
1 AT
131306929 TTATTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 18 0.78
13 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (12 bp):
ATAAAAATAGAA
Found at i:131306962 original size:23 final size:24
Alignment explanation
Indices: 131306926--131306971 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
131306916 TAAAAATAGA
131306926 AATTTATTAAAAAATATAAAAAAT
1 AATTTATTAAAAAATATAAAAAAT
*
131306950 AATTT-TTAAAAAATATAGAAAA
1 AATTTATTAAAAAATATAAAAAA
131306972 GTCTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AATTTATTAAAAAATATAAAAAAT
Found at i:131307041 original size:11 final size:11
Alignment explanation
Indices: 131307015--131307052 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
131307005 ATCATAAAAG
131307015 ATAAAAA-TAT
1 ATAAAAATTAT
*
131307025 AGAAAAATTAT
1 ATAAAAATTAT
131307036 -TAAAAATTAT
1 ATAAAAATTAT
131307046 ATAAAAA
1 ATAAAAA
131307053 GAAAGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
ATAAAAATTAT
Found at i:131308382 original size:7 final size:7
Alignment explanation
Indices: 131308370--131308408 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
131308360 CTTTATAATA
131308370 ACATTAT
1 ACATTAT
131308377 ACATTAT
1 ACATTAT
131308384 ACATTAT
1 ACATTAT
*
131308391 GCATTAT
1 ACATTAT
131308398 ACATTAT
1 ACATTAT
131308405 ACAT
1 ACAT
131308409 ATGTGCTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (7 bp):
ACATTAT
Found at i:131312986 original size:19 final size:19
Alignment explanation
Indices: 131312963--131313015 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
131312953 AAAATTATAC
* *
131312963 ATTTTTCAATTACATATAT
1 ATTTTTCAATTACATAAAA
* *
131312982 TTTTTTAAAATT-CATAAAA
1 ATTTTT-CAATTACATAAAA
131313001 ATTTTTCAATTACAT
1 ATTTTTCAATTACAT
131313016 TTTTCAATCC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
18 4 0.15
19 18 0.69
20 4 0.15
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTTTCAATTACATAAAA
Found at i:131315234 original size:48 final size:48
Alignment explanation
Indices: 131315163--131315258 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
131315153 TATACAAGGC
131315163 TTATTTGTTTTTGCTGCTATTTCACATTTGATCAATTTGATAAGCAAT
1 TTATTTGTTTTTGCTGCTATTTCACATTTGATCAATTTGATAAGCAAT
131315211 TTATTTGTTTTTGCTGCTATTTCACATTTGATCAATTTGATAAGCAAT
1 TTATTTGTTTTTGCTGCTATTTCACATTTGATCAATTTGATAAGCAAT
131315259 CATCAGATCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (48 bp):
TTATTTGTTTTTGCTGCTATTTCACATTTGATCAATTTGATAAGCAAT
Found at i:131324558 original size:7 final size:7
Alignment explanation
Indices: 131324546--131324570 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
131324536 TATATTTAGG
131324546 TATATAT
1 TATATAT
131324553 TATATAT
1 TATATAT
131324560 TATATAT
1 TATATAT
131324567 TATA
1 TATA
131324571 CTTAGTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TATATAT
Found at i:131326203 original size:43 final size:42
Alignment explanation
Indices: 131326033--131326261 Score: 260
Period size: 42 Copynumber: 5.4 Consensus size: 42
131326023 CGTCATAAGT
* *** *
131326033 ATCCTAATTGAGGAGGGATTAAATGAAATTGTAAAAACATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAAGATAA
* * * * * *
131326075 ATCTTATTTGATGTAGAATTAAATGAAAAACTAAAAACATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAAGATAA
* * * *
131326117 ATCCTATTTGACGTGAGATTAAATGAAAAATTAAAAAGATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAAGATAA
* *
131326159 ATCCTAATTGAGGTGGGATTAAATAAAAAAACTACAAAGATAA
1 ATCCTAATTGAGGTGGGATTAAAT-GAAAAACTAAAAAGATAA
* *
131326202 ATTCTAATTGAGGTGGGATTAAATGAAAAGCTAAAAAGATAAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAAGAT-AA
*
131326245 ATCTTAATTGAGGTGGG
1 ATCCTAATTGAGGTGGG
131326262 TTGTGGGGCT
Statistics
Matches: 157, Mismatches: 28, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
42 102 0.65
43 55 0.35
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (42 bp):
ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAAGATAA
Found at i:131326228 original size:85 final size:84
Alignment explanation
Indices: 131326033--131326261 Score: 271
Period size: 85 Copynumber: 2.7 Consensus size: 84
131326023 CGTCATAAGT
* * * * * * *
131326033 ATCCTAATTGAGGAGGGATTAAATG-AAATTGTAAAAACATAAATCTTATTTGATGTAGAATTAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAAT-TAAAAAGATAAATCTTAATTGAGGTGGGATTAA
*
131326097 ATGAAAAACTAAAAACATAA
65 ATAAAAAACTAAAAACATAA
* * * *
131326117 ATCCTATTTGACGTGAGATTAAATGAAAAATTAAAAAGATAAATCCTAATTGAGGTGGGATTAAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAATTAAAAAGATAAATCTTAATTGAGGTGGGATTAAA
* *
131326182 TAAAAAAACTACAAAGATAA
66 T-AAAAAACTAAAAACATAA
* **
131326202 ATTCTAATTGAGGTGGGATTAAATGAAAAGCTAAAAAGATAAAATCTTAATTGAGGTGGG
1 ATCCTAATTGAGGTGGGATTAAATGAAAAATTAAAAAGAT-AAATCTTAATTGAGGTGGG
131326262 TTGTGGGGCT
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
84 50 0.41
85 53 0.44
86 18 0.15
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (84 bp):
ATCCTAATTGAGGTGGGATTAAATGAAAAATTAAAAAGATAAATCTTAATTGAGGTGGGATTAAA
TAAAAAACTAAAAACATAA
Found at i:131328364 original size:21 final size:22
Alignment explanation
Indices: 131328336--131328401 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
131328326 CCTGATCAGT
131328336 ATACGACACATAAAGTGCCTAA
1 ATACGACACATAAAGTGCCTAA
* *
131328358 A-ACGACACACGACA-TGCCTGAA
1 ATACGACACA-TAAAGTGCCT-AA
* *
131328380 ATACAACACATAAAGTGTCTAA
1 ATACGACACATAAAGTGCCTAA
131328402 TCGGTAAAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
21 13 0.38
22 10 0.29
23 11 0.32
ACGTcount: A:0.45, C:0.24, G:0.14, T:0.17
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTAA
Found at i:131329826 original size:21 final size:20
Alignment explanation
Indices: 131329802--131329841 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
131329792 CTCCTCTCTG
*
131329802 TTTCGTTTCATTCTGCTTCTA
1 TTTCCTTTCATT-TGCTTCTA
131329823 TTTCCTTTCATTTGCTTCT
1 TTTCCTTTCATTTGCTTCT
131329842 TTAGTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.07, C:0.25, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTCCTTTCATTTGCTTCTA
Found at i:131329861 original size:5 final size:5
Alignment explanation
Indices: 131329848--131329894 Score: 76
Period size: 5 Copynumber: 9.0 Consensus size: 5
131329838 TTCTTTAGTT
131329848 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TCATAA
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA T-ATAA
131329895 AGTATCTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 32 0.80
6 8 0.20
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:131329920 original size:8 final size:8
Alignment explanation
Indices: 131329907--131329935 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
131329897 TATCTTTATT
131329907 ATATAATA
1 ATATAATA
131329915 ATATAATA
1 ATATAATA
131329923 ATATAATA
1 ATATAATA
131329931 ATATA
1 ATATA
131329936 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:131333010 original size:18 final size:18
Alignment explanation
Indices: 131332989--131333023 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
131332979 AAATCAAATT
131332989 AATTATTTTAATTTTTTG
1 AATTATTTTAATTTTTTG
* *
131333007 AATTGTTTTAGTTTTTT
1 AATTATTTTAATTTTTT
131333024 TATTATTAAA
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:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (18 bp):
AATTATTTTAATTTTTTG
Found at i:131334063 original size:21 final size:21
Alignment explanation
Indices: 131334039--131334079 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
131334029 GTTGCTACCT
*
131334039 TTTCCACCACTTCCGCCACCG
1 TTTCCACCACTTCCACCACCG
*
131334060 TTTCCACCCCTTCCACCACC
1 TTTCCACCACTTCCACCACC
131334080 ATCTCTGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.56, G:0.05, T:0.24
Consensus pattern (21 bp):
TTTCCACCACTTCCACCACCG
Found at i:131336084 original size:21 final size:21
Alignment explanation
Indices: 131336048--131336091 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
131336038 ATTAAATTAA
131336048 ATAAAAAATATGAATAG-TTT
1 ATAAAAAATATGAATAGCTTT
131336068 ATAAATAAATAAT-AATAGCTTT
1 ATAAA-AAAT-ATGAATAGCTTT
131336090 AT
1 AT
131336092 TTAAATCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (21 bp):
ATAAAAAATATGAATAGCTTT
Found at i:131336588 original size:29 final size:29
Alignment explanation
Indices: 131336556--131336630 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
131336546 ATCTTTTTAA
131336556 TTTTAAGGG-TCTAAAATTTTTTTACTAAC
1 TTTTAAGGGATCTAAAATTTTTTTAC-AAC
* *
131336585 TTTTAAGGGATCTACAATTTTTTTTCAAC
1 TTTTAAGGGATCTAAAATTTTTTTACAAC
* *
131336614 TTTTAAGGAACCTAAAA
1 TTTTAAGGGATCTAAAA
131336631 CCCCATTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 26 0.65
30 14 0.35
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (29 bp):
TTTTAAGGGATCTAAAATTTTTTTACAAC
Found at i:131340024 original size:14 final size:14
Alignment explanation
Indices: 131339984--131340024 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
131339974 GGTTAGTGAT
131339984 TTAATATAAATATAA
1 TTAATAT-AATATAA
131339999 TTGAATAT-ATATAA
1 TT-AATATAATATAA
131340013 TTAATATAATAT
1 TTAATATAATAT
131340025 TTTTTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.21
14 12 0.50
15 2 0.08
16 5 0.21
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
TTAATATAATATAA
Found at i:131340568 original size:15 final size:15
Alignment explanation
Indices: 131340548--131340577 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
131340538 ATTTTATATT
*
131340548 AAAAACAATATAATA
1 AAAAACAATAAAATA
131340563 AAAAACAATAAAATA
1 AAAAACAATAAAATA
131340578 GATTATAAAA
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:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAACAATAAAATA
Found at i:131344200 original size:12 final size:12
Alignment explanation
Indices: 131344183--131344207 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
131344173 ACATGAATAT
131344183 ATTTATATAAAA
1 ATTTATATAAAA
131344195 ATTTATATAAAA
1 ATTTATATAAAA
131344207 A
1 A
131344208 CATTAAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTTATATAAAA
Found at i:131345277 original size:15 final size:16
Alignment explanation
Indices: 131345242--131345280 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
131345232 TATAATATTA
131345242 TTAATAATTAATAAATGT
1 TTAAT-ATTAATAAA-GT
131345260 TTAATATTAATAAA-T
1 TTAATATTAATAAAGT
131345275 TTAATA
1 TTAATA
131345281 ATTCTCAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.33
17 9 0.43
18 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
TTAATATTAATAAAGT
Found at i:131346349 original size:14 final size:14
Alignment explanation
Indices: 131346330--131346357 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
131346320 CATTCATGTC
131346330 ATATAACTGATCTT
1 ATATAACTGATCTT
131346344 ATATAACTGATCTT
1 ATATAACTGATCTT
131346358 GATGATCCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
ATATAACTGATCTT
Found at i:131346531 original size:32 final size:32
Alignment explanation
Indices: 131346490--131346556 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
131346480 ATTATAATGC
*
131346490 AATTAAGATAGGTGAAATGATAGCAGAATAGT
1 AATTAAGATAGGTGAAATGATAGCAAAATAGT
* *
131346522 AATTAAGATAGTTGAAATGATAGTAAAATAGT
1 AATTAAGATAGGTGAAATGATAGCAAAATAGT
131346554 AAT
1 AAT
131346557 AAAAAAAGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.49, C:0.01, G:0.21, T:0.28
Consensus pattern (32 bp):
AATTAAGATAGGTGAAATGATAGCAAAATAGT
Found at i:131352924 original size:39 final size:39
Alignment explanation
Indices: 131352869--131352947 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
131352859 CCAACATAAT
131352869 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
131352908 TGCCTTCGGGATTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
131352947 T
1 T
131352948 AACACCAGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:131352951 original size:15 final size:15
Alignment explanation
Indices: 131352931--131352962 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
131352921 TAGCCCGGAT
131352931 ATAACACCAGCACGA
1 ATAACACCAGCACGA
*
131352946 ATAACACCAGTACGA
1 ATAACACCAGCACGA
131352961 AT
1 AT
131352963 GCCTTCGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.28, G:0.12, T:0.12
Consensus pattern (15 bp):
ATAACACCAGCACGA
Found at i:131352978 original size:54 final size:54
Alignment explanation
Indices: 131352892--131353001 Score: 184
Period size: 54 Copynumber: 2.0 Consensus size: 54
131352882 TAGCCCGGAT
*
131352892 ATAACACCAGCACGAATGCCTTCGGGATTTAGCCCGGATATAACACCAGCACGA
1 ATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGA
* * *
131352946 ATAACACCAGTACGAATGCCTTCGGGACTTAGCCTGGATATAACACTAGCACGA
1 ATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGA
131353000 AT
1 AT
131353002 GCCTTCGGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (54 bp):
ATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGA
Found at i:131353000 original size:39 final size:39
Alignment explanation
Indices: 131352946--131353027 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
131352936 ACCAGCACGA
* *
131352946 ATAACACCAGTACGAATGCCTTCGGGACTTAGCCTGGAT
1 ATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGAT
*
131352985 ATAACACTAGCACGAATGCCTTCGGGACTTAGCCCGGAT
1 ATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGAT
131353024 ATAA
1 ATAA
131353028 ATCTCACACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (39 bp):
ATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGAT
Found at i:131356080 original size:30 final size:30
Alignment explanation
Indices: 131356044--131356100 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
131356034 GTTATTTTTT
*
131356044 AAAATTATG-ACTAAATTGATATATTATGTA
1 AAAATTAAGAACTAAATTGAT-TATTATGTA
*
131356074 AAAATTAAGAACTAAATTTATTATTAT
1 AAAATTAAGAACTAAATTGATTATTAT
131356101 ATTAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (30 bp):
AAAATTAAGAACTAAATTGATTATTATGTA
Found at i:131364714 original size:7 final size:7
Alignment explanation
Indices: 131364694--131364729 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
131364684 AAGACTATGG
131364694 TTCTTTT
1 TTCTTTT
131364701 ATTCTTTT
1 -TTCTTTT
131364709 TTCTTTT
1 TTCTTTT
131364716 TTCTTTT
1 TTCTTTT
131364723 TT-TTTT
1 TTCTTTT
131364729 T
1 T
131364730 AATTTCATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (7 bp):
TTCTTTT
Found at i:131369983 original size:12 final size:11
Alignment explanation
Indices: 131369964--131369994 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
131369954 CGTATAACTC
131369964 TTATTTTATTA
1 TTATTTTATTA
131369975 TTAATTTTATTA
1 TT-ATTTTATTA
131369987 TTATTTTA
1 TTATTTTA
131369995 GAGACATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:131371377 original size:3 final size:3
Alignment explanation
Indices: 131371369--131371400 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
131371359 AAATAAATTA
131371369 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
131371401 AAGGTATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:131373261 original size:10 final size:11
Alignment explanation
Indices: 131373242--131373274 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
131373232 AATTTGTGTG
131373242 TTATTTTATTT
1 TTATTTTATTT
131373253 TTA-TTTA-TT
1 TTATTTTATTT
131373262 TTATTTTATTT
1 TTATTTTATTT
131373273 TT
1 TT
131373275 TTCACAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 5 0.25
10 8 0.40
11 7 0.35
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:131373262 original size:15 final size:14
Alignment explanation
Indices: 131373242--131373276 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
131373232 AATTTGTGTG
131373242 TTATTTTATTTTTAT
1 TTATTTTA-TTTTAT
131373257 TTATTTTATTTTAT
1 TTATTTTATTTTAT
131373271 TT-TTTT
1 TTATTTT
131373277 CACAAATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.20
14 8 0.40
15 8 0.40
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTATTTTATTTTAT
Found at i:131377701 original size:5 final size:5
Alignment explanation
Indices: 131377691--131377728 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
131377681 AATTTATGTG
*
131377691 TTATT TTATT TTTTCT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTATT TT
131377729 TTTCACAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:131378451 original size:16 final size:16
Alignment explanation
Indices: 131378432--131378468 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
131378422 TTTTAATAAT
131378432 TTAAATTT-AAATTTGG
1 TTAAATTTCAAA-TTGG
131378448 TTAAATTTCAAATTGG
1 TTAAATTTCAAATTGG
131378464 TTAAA
1 TTAAA
131378469 CCAATTTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.46
Consensus pattern (16 bp):
TTAAATTTCAAATTGG
Found at i:131383993 original size:27 final size:27
Alignment explanation
Indices: 131383963--131384026 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
131383953 CCTCTGGCAG
131383963 AGGCGGCACCAGTTGTGTGGGTCCCAC
1 AGGCGGCACCAGTTGTGTGGGTCCCAC
131383990 AGGCGGCACCAGTTGTGTGGGTCCCAC
1 AGGCGGCACCAGTTGTGTGGGTCCCAC
131384017 AGGCGGCACC
1 AGGCGGCACC
131384027 TAAGCGCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.16, C:0.31, G:0.38, T:0.16
Consensus pattern (27 bp):
AGGCGGCACCAGTTGTGTGGGTCCCAC
Found at i:131384126 original size:19 final size:20
Alignment explanation
Indices: 131384097--131384149 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
131384087 AAGAAAATAA
*
131384097 AAGGAAAGAAAGGAGAA-GAG
1 AAGG-AAGAAAGAAGAAGGAG
131384117 AAGGAAGAAA-AAGAAGGAG
1 AAGGAAGAAAGAAGAAGGAG
*
131384136 AAGGAAAAAAGAAG
1 AAGGAAGAAAGAAG
131384150 GTATAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 4 0.14
19 18 0.62
20 7 0.24
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (20 bp):
AAGGAAGAAAGAAGAAGGAG
Found at i:131384138 original size:15 final size:15
Alignment explanation
Indices: 131384081--131384150 Score: 52
Period size: 15 Copynumber: 4.3 Consensus size: 15
131384071 ATTCAGCAGC
*
131384081 AAGGAGAAGAAAATAA
1 AAGGAGAAGAAAA-AG
*
131384097 AAGGA-AAGAAAGGAG
1 AAGGAGAAGAAA-AAG
131384112 AAGAGAAGGAAGAAAAAG
1 AAG-G-A-GAAGAAAAAG
131384130 AAGGAGAAGGAAAAAAG
1 AAGGAGAA-G-AAAAAG
131384147 AAGG
1 AAGG
131384151 TATAATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
15 13 0.30
16 8 0.18
17 12 0.27
18 5 0.11
19 6 0.14
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.01
Consensus pattern (15 bp):
AAGGAGAAGAAAAAG
Found at i:131388333 original size:72 final size:72
Alignment explanation
Indices: 131388216--131388356 Score: 210
Period size: 72 Copynumber: 2.0 Consensus size: 72
131388206 GCCCCCCGAT
* *
131388216 GAGCCCGGGAAATTGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAATATGAATG
1 GAGCCCGGAAAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAATATGAATG
131388281 CGATGAC
66 CGATGAC
* * * * * *
131388288 GAGCCCGGAAAATAGTCATTGCCTGCCAAATTCGGATGATTAGAAGTATCAGTCGAATGTGAATG
1 GAGCCCGGAAAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAATATGAATG
131388353 CGAT
66 CGAT
131388357 CGCTCGGACT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (72 bp):
GAGCCCGGAAAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAATATGAATG
CGATGAC
Found at i:131390653 original size:15 final size:14
Alignment explanation
Indices: 131390633--131390696 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 14
131390623 ACTTTATTCG
131390633 TATTTTTTCGTATAT
1 TATTTTTTC-TATAT
*
131390648 TATTTTTTAAAATATAT
1 TATTTTTT---CTATAT
* *
131390665 TA-TTTTCCTATTT
1 TATTTTTTCTATAT
131390678 TATTTTTT-TATAT
1 TATTTTTTCTATAT
131390691 TATTTT
1 TATTTT
131390697 AGCAAAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 16 0.41
14 4 0.10
15 8 0.21
16 4 0.10
17 7 0.18
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (14 bp):
TATTTTTTCTATAT
Found at i:131390709 original size:146 final size:147
Alignment explanation
Indices: 131390226--131391447 Score: 1159
Period size: 146 Copynumber: 8.3 Consensus size: 147
131390216 ATAAGCAAAA
* * * *
131390226 TATTTTCGTATATTA--TTTTTATATTATTTTAG-TAGAAATGTTTT-AAATGTATTATGTAAGT
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTTCAAATGTATTATTTAAGT
* ** *
131390287 ATTTTTTTATATTAATTTAATAAATAACACTGATTTT-GACACTTT-TTCGTATTTTTTATTTTC
66 -GTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTA---TTT-TTTTC
*
131390350 GTATCTTATTTTTTAAAATATAT
125 GTATATTATTTTTTAAAATATAT
* * * * * *
131390373 TACTTTCGTATTATT-TTATTTTAAAACCCTTATTTTAGTACATAATGTTTT-AAATGTATTATT
1 TATTTTCGTATT-TTATT-TTTTTATA---TTATTTTAGCAAAAAATGTTTTCAAATGTATTATT
* *
131390436 TAAGTGTTTTTAATATTTTTTTAATAAATAA-CCTGATTTTAGCACTTTATTTGTA-TTTTTTCG
61 TAAGTGTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCG
*
131390499 TATCTT-TTTTTT-AAATATAT
126 TATATTATTTTTTAAAATATAT
* * * **
131390519 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATTATGTTTTCAAATGTATTATTTAAGT
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTTCAAATGTATTATTTAAGT
131390584 GTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTTTTTCGTATAT
66 GTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATAT
131390648 TATTTTTTAAAATATAT
131 TATTTTTTAAAATATAT
*
131390665 TATTTTCCTATTTTATTTTTTTATATTATTTTAGCAAAAAATG-TTTCAAATGTATTAGGTATAT
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTTCAAATG---TA--T-TA-
* ** * *
131390729 TATGTAAGTGTTTTTTTATACTAATTTAATAAATAACCCTAATTTT-GACACTTTCTTCGTA-TT
59 T-T-TAAGTG-TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTATTT
*
131390792 TTTTCGTATCTTATTTTTTAAAATATAT
120 TTTTCGTATATTATTTTTTAAAATATAT
* * * * * *
131390820 TATTTTCCTATTTTATTTCTTCATATTATTTTAGTACATAATG-TTTCAAATGTATTATTTAAGT
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTTCAAATGTATTATTTAAGT
* * *
131390884 ATTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATAT
66 GTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATAT
131390949 TATTTTTTAAAATATAT
131 TATTTTTTAAAATATAT
* * * * * *
131390966 TATTTTCTTATTTTA-TTTTTTATATTATTTTAGCAAAAAA-ATATTCAAATGTACTAATTAACT
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTTCAAATGTATTATTTAAGT
* * * *
131391029 GTTTCTATATATTAAGGGATTTTTTACTAAATAACCCTGATTTT-GATACTTTCTTCGTAATTTT
66 GTTT-T-T-TA-T-A---TTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGT-A----
131391093 TTTATTTTCGTATATTATTTTTTAAAATATAT
117 TTT-TTTTCGTATATTATTTTTTAAAATATAT
* * * * *
131391125 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATG-CTTCAAATGTATTATTTAAGT
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTTCAAATGTATTATTTAAGT
*
131391189 GTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTTTTCGTATAT
66 GTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATAT
131391254 TATTTTTTAAAATATAT
131 TATTTTTTAAAATATAT
* * *
131391271 TATTTT-G----GTA------T-T-TTATTTTAGCATAAAAT-CTTTCAAATGTATTATTTAAGT
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTTCAAATGTATTATTTAAGT
* ** * * * * *
131391322 TTTTTTTATATTAATTTAATAAGTAA-CCTGACTTTGGCACCTTGTTCGTATTTTTTTATTTTCG
66 GTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA----TTT-TTTTCG
* * * *
131391386 GATTTTATTTTTT-AATTATAC
126 TATATTATTTTTTAAAATATAT
* *
131391407 TATTTTCATATTTTATTTTTTTATATTATTTTAACAAAAAA
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAA
131391448 CTCGTCACCA
Statistics
Matches: 905, Mismatches: 104, Indels: 130
0.79 0.09 0.11
Matches are distributed among these distances:
132 19 0.02
133 56 0.06
134 1 0.00
135 1 0.00
136 15 0.02
137 17 0.02
141 4 0.00
142 21 0.02
143 42 0.05
144 36 0.04
145 104 0.11
146 150 0.17
147 22 0.02
148 20 0.02
149 19 0.02
150 9 0.01
151 3 0.00
152 51 0.06
153 71 0.08
154 32 0.04
155 120 0.13
156 1 0.00
157 2 0.00
158 4 0.00
159 43 0.05
160 42 0.05
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (147 bp):
TATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTTCAAATGTATTATTTAAGT
GTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATAT
TATTTTTTAAAATATAT
Found at i:131390993 original size:12 final size:13
Alignment explanation
Indices: 131390961--131390996 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
131390951 TTTTTTAAAA
131390961 TATATTATTTTCT
1 TATATTATTTTCT
*
131390974 TATTTTATTTT-T
1 TATATTATTTTCT
131390986 TATATTATTTT
1 TATATTATTTT
131390997 AGCAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (13 bp):
TATATTATTTTCT
Found at i:131391196 original size:305 final size:298
Alignment explanation
Indices: 131390226--131391289 Score: 1220
Period size: 305 Copynumber: 3.6 Consensus size: 298
131390216 ATAAGCAAAA
* * * *
131390226 TATTTTCGTATATTA-TT-TTTATATTATTTTAGTAGA-AATGTTTTAAATGTATTATGTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT-
* ** *
131390288 TTTTTTTATATTAATTTAATAAATAACACTGATTTT-GACACTTT-TTCGTATTTTTTATTTTCG
65 GTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTA---TTT-TTTTCG
* * * * * *
131390351 TATCTTATTTTTTAAAATATATTACTTTCGTATTATT-TTATTTTAAAACCCTTATTTTAGTACA
125 TATATTATTTTTTAAAATATATTATTTTCCTATT-TTATT-TTTT-ATA---TTATTTTAGCAAA
* * * * * * * * ** *
131390415 TAATGTTTTAAATGTA-T---TAT--T-TAAGTGT-TTTTAATATTTTTTTAATAAATAA-CCTG
184 AAATGATTCAAATGTACTAGATATAATGTAACTATATATTAAGACTAATTTAATAAATAACCCTA
* *
131390471 ATTTT-AGCACTTTATTTGTATTTTTTCGTATCTT-TTTTTT-AAATATAT
249 ATTTTGA-CACTTTCTTCGTATTTTTTCGTATCTTATTTTTTAAAATATAT
*
131390519 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATTATGTTTTCAAATGTATTATTTAAGT
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATG-TTTCAAATGTATTATTTAAGT
131390584 GTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTTTTTCGTATAT
65 GTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATAT
*
131390648 TATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCA
130 TATTTTTTAAAATATATTATTTTCCTATTTTA-TTTTTTATATTATTTTAGCAAAAAATGATTCA
* * * * * * * *
131390713 AATGTATTAGGTATATTATGTAAGTGTTTTTTTATACTAATTTAATAAATAACCCTAATTTTGAC
194 AATGTACTA-G-ATATAATGTAACTATATATTAAGACTAATTTAATAAATAACCCTAATTTTGAC
131390778 ACTTTCTTCGTATTTTTTCGTATCTTATTTTTTAAAATATAT
257 ACTTTCTTCGTATTTTTTCGTATCTTATTTTTTAAAATATAT
* * *
131390820 TATTTTCCTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
* *
131390885 TTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
*
131390950 ATTTTTTAAAATATATTATTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAAAT-ATTCAA
131 ATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTATATTATTTTAGC-AAAAAATGATTCAA
** ** * * *
131391014 ATGTACTA-AT-TAACTGTTTCTATATATTAAGGGA-TTTTTTACTAAATAACCCTGATTTTGAT
195 ATGTACTAGATATAA-TGTAACTATATATTAA--GACTAATTTAATAAATAACCCTAATTTTGAC
*
131391076 ACTTTCTTCGTAATTTTTTTATTTTCGTATATTATTTTTTAAAATATAT
257 ACTTTCTTCGT-A-----TT-TTTTCGTATCTTATTTTTTAAAATATAT
*
131391125 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGCTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
*
131391190 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTTTTCGTATATT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
**
131391255 ATTTTTTAAAATATATTATTTTGGTATTTTATTTT
131 ATTTTTTAAAATATATTATTTTCCTATTTTATTTT
131391290 AGCATAAAAT
Statistics
Matches: 680, Mismatches: 57, Indels: 56
0.86 0.07 0.07
Matches are distributed among these distances:
288 25 0.04
289 1 0.00
291 4 0.01
292 41 0.06
293 18 0.03
294 5 0.01
295 18 0.03
296 44 0.06
297 44 0.06
298 54 0.08
299 35 0.05
300 107 0.16
301 99 0.15
304 2 0.00
305 183 0.27
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (298 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
ATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTATATTATTTTAGCAAAAAATGATTCAAA
TGTACTAGATATAATGTAACTATATATTAAGACTAATTTAATAAATAACCCTAATTTTGACACTT
TCTTCGTATTTTTTCGTATCTTATTTTTTAAAATATAT
Found at i:131391901 original size:14 final size:14
Alignment explanation
Indices: 131391882--131391943 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
131391872 AAAAATTACA
131391882 TTTTTCTTTCCTTC
1 TTTTTCTTTCCTTC
* *
131391896 TTTTTCCTTCCCTC
1 TTTTTCTTTCCTTC
*
131391910 TTCTTCTTCTCCTTCTC
1 TTTTTCTT-TCC-T-TC
131391927 TTTTTCTTT--TTC
1 TTTTTCTTTCCTTC
131391939 TTTTT
1 TTTTT
131391944 TCTTCTCTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 7 0.18
13 1 0.03
14 18 0.46
15 3 0.08
16 1 0.03
17 9 0.23
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTCTTTCCTTC
Found at i:131391914 original size:17 final size:18
Alignment explanation
Indices: 131391892--131391938 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
131391882 TTTTTCTTTC
131391892 CTTCTTTTTCCTTC-CCT
1 CTTCTTTTTCCTTCTCCT
*
131391909 CTTCTTCTTCTCCTTCTCTT
1 CTTCTT-TT-TCCTTCTCCT
*
131391929 TTTCTTTTTC
1 CTTCTTTTTC
131391939 TTTTTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 6 0.24
18 4 0.16
19 8 0.32
20 7 0.28
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTCTTTTTCCTTCTCCT
Found at i:131391996 original size:27 final size:26
Alignment explanation
Indices: 131391966--131392033 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 26
131391956 CGCCGGCCTC
131391966 CTTCTCCTCCTCTCCTTCTTTTTCTTT
1 CTTCTCCT-CTCTCCTTCTTTTTCTTT
*
131391993 CTTCTTCT-TCT-CTTC--TTTCTTT
1 CTTCTCCTCTCTCCTTCTTTTTCTTT
* *
131392015 CTTCTCTTCTTTCCTTCTT
1 CTTCTCCTCTCTCCTTCTT
131392034 CTCTCTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
22 13 0.39
23 2 0.06
24 8 0.24
25 3 0.09
27 7 0.21
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (26 bp):
CTTCTCCTCTCTCCTTCTTTTTCTTT
Found at i:131391999 original size:3 final size:3
Alignment explanation
Indices: 131391980--131392055 Score: 68
Period size: 3 Copynumber: 25.0 Consensus size: 3
131391970 TCCTCCTCTC
*
131391980 CTT CTT TTT CTTT CTT CTT CTT C-T CTT CTTT CTTT CTT C-T CTT CTT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT C-TT C-TT CTT CTT CTT CTT
* *
131392026 -TC CTT CTT CTCT CTT TTT CTT CTT CTT CTT
1 CTT CTT CTT CT-T CTT CTT CTT CTT CTT CTT
131392056 TGCCGAAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
2 5 0.08
3 43 0.70
4 13 0.21
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:131392001 original size:16 final size:16
Alignment explanation
Indices: 131391980--131392056 Score: 75
Period size: 16 Copynumber: 4.4 Consensus size: 16
131391970 TCCTCCTCTC
131391980 CTTCTTTTTCTTTCTT
1 CTTCTTTTTCTTTCTT
131391996 CTTCTTCTCTTCTTTCTTT
1 CTTCTT-T-TTCTTTC-TT
*
131392015 CTTCTCTTCTTTCCTTCTT
1 C-T-TCTT-TTTCTTTCTT
131392034 CTCTCTTTTTC-TTCTT
1 CT-TCTTTTTCTTTCTT
131392050 CTTCTTT
1 CTTCTTT
131392057 GCCGAAAATG
Statistics
Matches: 55, Mismatches: 1, Indels: 11
0.82 0.01 0.16
Matches are distributed among these distances:
15 5 0.09
16 13 0.24
17 5 0.09
18 13 0.24
19 6 0.11
20 7 0.13
21 6 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
CTTCTTTTTCTTTCTT
Found at i:131392008 original size:8 final size:8
Alignment explanation
Indices: 131391995--131392055 Score: 60
Period size: 8 Copynumber: 7.9 Consensus size: 8
131391985 TTTTCTTTCT
131391995 TCTTCTTC
1 TCTTCTTC
131392003 TCTTCTT-
1 TCTTCTTC
131392010 TCTTTCTTC
1 TC-TTCTTC
131392019 TCTTCTT-
1 TCTTCTTC
131392026 TCCTTCTTC
1 T-CTTCTTC
131392035 TC-TCTT-
1 TCTTCTTC
131392041 T-TTCTTC
1 TCTTCTTC
131392048 TTCTTCTT
1 -TCTTCTT
131392056 TGCCGAAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
6 5 0.11
7 7 0.16
8 25 0.56
9 8 0.18
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (8 bp):
TCTTCTTC
Found at i:131392034 original size:27 final size:27
Alignment explanation
Indices: 131391978--131392052 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
131391968 TCTCCTCCTC
131391978 TCCTTCTT-TTTCTTTC-T-TCTTC-T
1 TCCTTCTTCTTTCTTTCTTCTCTTCTT
131392001 T-C-TCTTCTTTCTTTCTTCTCTTCTT
1 TCCTTCTTCTTTCTTTCTTCTCTTCTT
*
131392026 TCCTTCTTCTCTCTTT-TTCTTCTTCTT
1 TCCTTCTTCTTTCTTTCTTC-TCTTCTT
131392053 CTTTGCCGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
21 4 0.09
22 9 0.20
23 2 0.05
24 5 0.11
25 2 0.05
26 4 0.09
27 18 0.41
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (27 bp):
TCCTTCTTCTTTCTTTCTTCTCTTCTT
Found at i:131392676 original size:30 final size:30
Alignment explanation
Indices: 131392642--131392701 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
131392632 TGAAAAAGAA
131392642 GGAGCCATTTGTTGACAATAATGCCTATAC
1 GGAGCCATTTGTTGACAATAATGCCTATAC
*
131392672 GGAGCCATTTGTTGACAATAATTCCTATAC
1 GGAGCCATTTGTTGACAATAATGCCTATAC
131392702 TTTTATTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (30 bp):
GGAGCCATTTGTTGACAATAATGCCTATAC
Found at i:131393923 original size:18 final size:18
Alignment explanation
Indices: 131393881--131393929 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
131393871 ACTTTCATTC
131393881 TTTTATTACTATTGTTGT
1 TTTTATTACTATTGTTGT
** * *
131393899 TGCTATTTCTCTTGTTGT
1 TTTTATTACTATTGTTGT
*
131393917 TTTTATTATTATT
1 TTTTATTACTATT
131393930 TATATTATTG
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.08, G:0.10, T:0.67
Consensus pattern (18 bp):
TTTTATTACTATTGTTGT
Found at i:131393925 original size:3 final size:3
Alignment explanation
Indices: 131393919--131394078 Score: 89
Period size: 3 Copynumber: 53.3 Consensus size: 3
131393909 CTTGTTGTTT
* * * *
131393919 TTA TTA TTA TT- TATA TTA TTG TTA GTA TTA TTA TTA TTCC TTA GT-
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
* * *
131393964 TTA TTA TTA TTA TTA TTA TT- TTA TCA TTA TTT TCTA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* * * * * * *
131394009 TTA TCA ATA -CA CTA TTA TTA TTC TTA TTAA TGTA TTA CTA TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA
*
131394055 TCTA CT- TTA TTA TTA TTA -TA TTA T
1 T-TA TTA TTA TTA TTA TTA TTA TTA T
131394079 AACTATTGCT
Statistics
Matches: 117, Mismatches: 28, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
2 8 0.07
3 98 0.84
4 10 0.09
5 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:131395239 original size:127 final size:127
Alignment explanation
Indices: 131395013--131395372 Score: 447
Period size: 127 Copynumber: 2.8 Consensus size: 127
131395003 GTCGACTTTG
* * * * *
131395013 TAAAACAAAGGTGAAGTTTGATGTTTAGAAATTCGAGGGATCATGCCTTAATGTGTTGGGTTTCG
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGAATCATGCCCTAATGTGCTGGGTTTCG
* *
131395078 ATCTTTTGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCGTTT-TCTAAACCT
66 ATCTTTTGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTAT-TAAACCT
* *
131395140 TAAAACAAAGGCGATGTTTGATATCTAGAAATTCGAGGAATCATGCCCTAATGTGCTGGGTTTCG
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGAATCATGCCCTAATGTGCTGGGTTTCG
* * * * *
131395205 ATCTTTCGTTTGTCTAAATAATCAGATTTCCCTTTTAAACTTCGTCCGCATTTATTAAACTT
66 ATCTTTTGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTATTAAACCT
* * * * * * *
131395267 TAAGACAAAAGCGATGATTGATGTTTGGGAATTCG-GGAAATCGTGCCCTAATGTGCTGAGTTTC
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGG-AATCATGCCCTAATGTGCTGGGTTTC
* * **
131395331 GAT-TTCTTGTTTATCCAAATAATCAAACATCCCTTTAAAATT
65 GATCTT-TTGTTTGTCTAAATAATCAAATTTCCCTTTAAAATT
131395373 CTGTCCATAT
Statistics
Matches: 199, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
126 4 0.02
127 194 0.97
128 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (127 bp):
TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGAATCATGCCCTAATGTGCTGGGTTTCG
ATCTTTTGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTATTAAACCT
Found at i:131400029 original size:21 final size:21
Alignment explanation
Indices: 131400005--131400047 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
131399995 AGATTTAATT
*
131400005 AAAATTTCTAAAA-ATTTCAAA
1 AAAATATC-AAAATATTTCAAA
*
131400026 AAAATATCAAAATTTTTCAAA
1 AAAATATCAAAATATTTCAAA
131400047 A
1 A
131400048 TTTGGGGGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATATCAAAATATTTCAAA
Found at i:131401802 original size:3 final size:3
Alignment explanation
Indices: 131401794--131401841 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
131401784 AGCCCTTTTA
* * *
131401794 TTC TTC TTCC TT- TTC TTT TTC CTC ATC TTC TTC TTC TTC TTC TTC
1 TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
131401839 TTC
1 TTC
131401842 ACTTCATCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:131403294 original size:2 final size:2
Alignment explanation
Indices: 131403287--131403321 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
131403277 ATCCCCCTTT
131403287 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
131403322 TTAGATCAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:131405184 original size:19 final size:19
Alignment explanation
Indices: 131405143--131405184 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
131405133 TATATCATAC
*
131405143 CTTTCATATCCAATTTCAA
1 CTTTCATATCCAAATTCAA
131405162 -TTTCA-ATCCACAATTCAA
1 CTTTCATATCCA-AATTCAA
131405180 CTTTC
1 CTTTC
131405185 TCATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (19 bp):
CTTTCATATCCAAATTCAA
Found at i:131405395 original size:21 final size:21
Alignment explanation
Indices: 131405371--131405411 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
131405361 CAAAAGCAGT
131405371 ATACGACACATA-AAGTGCCTA
1 ATACGACACATATAA-TGCCTA
131405392 ATACGACACATATAATGCCT
1 ATACGACACATATAATGCCT
131405412 GATCGGCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.22
Consensus pattern (21 bp):
ATACGACACATATAATGCCTA
Found at i:131405891 original size:17 final size:18
Alignment explanation
Indices: 131405859--131405894 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
131405849 TGAATTTCTA
131405859 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
131405877 TCCAATTTA-ACCCTAAT
1 TCCAATTTATACCCTAAT
131405894 T
1 T
131405895 AACTCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:131406559 original size:3 final size:3
Alignment explanation
Indices: 131406551--131406578 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
131406541 TTTATTTTAT
131406551 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
131406579 TGAATAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:131406910 original size:10 final size:10
Alignment explanation
Indices: 131406895--131406923 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
131406885 TAGAAAACCA
131406895 TAATAATAAT
1 TAATAATAAT
131406905 TAATAATAAT
1 TAATAATAAT
131406915 T-ATAATAAT
1 TAATAATAAT
131406924 AGATTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATAATAAT
Found at i:131408483 original size:23 final size:23
Alignment explanation
Indices: 131408453--131408509 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
131408443 CGAAGTGCCA
131408453 TTCACTTGCACCATAATGCCACT
1 TTCACTTGCACCATAATGCCACT
* * *
131408476 TTCACTTGCATCGTAGTGCCACT
1 TTCACTTGCACCATAATGCCACT
*
131408499 ATCACTTGCAC
1 TTCACTTGCAC
131408510 ATTTAGTGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.23, C:0.33, G:0.12, T:0.32
Consensus pattern (23 bp):
TTCACTTGCACCATAATGCCACT
Found at i:131409040 original size:18 final size:19
Alignment explanation
Indices: 131409006--131409041 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
131408996 TATTATTTAT
131409006 TATAATTATTAAATTAAAA
1 TATAATTATTAAATTAAAA
*
131409025 TATATTTATT-AATTAAA
1 TATAATTATTAAATTAAA
131409042 TTACTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATAATTATTAAATTAAAA
Found at i:131410441 original size:17 final size:17
Alignment explanation
Indices: 131410419--131410458 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
131410409 ATAATATATA
* *
131410419 AAAATATCATATGGAGT
1 AAAATATAATATGGAAT
*
131410436 AAAATATAATATGTAAT
1 AAAATATAATATGGAAT
131410453 AAAATA
1 AAAATA
131410459 ATATGAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (17 bp):
AAAATATAATATGGAAT
Found at i:131410685 original size:25 final size:28
Alignment explanation
Indices: 131410634--131410687 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 28
131410624 TTTAATTAAT
131410634 ACAATATAAATAATACATATGCCATATAAA
1 ACAATATAAATAATA-ATATG-CATATAAA
131410664 ACAATAT-AATAAT-ATATG-ATATAA
1 ACAATATAAATAATAATATGCATATAA
131410688 TGGATTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 6 0.25
27 5 0.21
29 6 0.25
30 7 0.29
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (28 bp):
ACAATATAAATAATAATATGCATATAAA
Found at i:131412137 original size:3 final size:3
Alignment explanation
Indices: 131412131--131412171 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
131412121 TATTATAGTG
131412131 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
131412172 AATTATAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:131413222 original size:18 final size:18
Alignment explanation
Indices: 131413199--131413235 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
131413189 TTTGTGATCA
131413199 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
*
131413217 AAATTGAAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
131413235 A
1 A
131413236 TAAGAATTGT
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:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:131413224 original size:12 final size:12
Alignment explanation
Indices: 131413199--131413235 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
131413189 TTTGTGATCA
131413199 AAATTGAAAGTG
1 AAATTGAAAGTG
* *
131413211 AAAGTGAAATTG
1 AAATTGAAAGTG
131413223 AAATTGAAAGTG
1 AAATTGAAAGTG
131413235 A
1 A
131413236 TAAGAATTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
AAATTGAAAGTG
Found at i:131429907 original size:19 final size:19
Alignment explanation
Indices: 131429883--131429920 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
131429873 CTTCCAAAAC
131429883 ATACAAAGCGGCCACCTTT
1 ATACAAAGCGGCCACCTTT
*
131429902 ATACAAAGCGGCCGCCTTT
1 ATACAAAGCGGCCACCTTT
131429921 GCATATGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (19 bp):
ATACAAAGCGGCCACCTTT
Found at i:131430313 original size:20 final size:20
Alignment explanation
Indices: 131430275--131430322 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
131430265 TAAATTCTAA
**
131430275 AAAGATAAATACATTTAATT
1 AAAGATAAATACAGATAATT
*
131430295 AAAGATAAATAGAGATAATT
1 AAAGATAAATACAGATAATT
131430315 AAA-ATAAA
1 AAAGATAAA
131430323 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.27
Consensus pattern (20 bp):
AAAGATAAATACAGATAATT
Found at i:131430981 original size:11 final size:11
Alignment explanation
Indices: 131430965--131430989 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
131430955 AATTAATATA
131430965 TAAAATATTTT
1 TAAAATATTTT
131430976 TAAAATATTTT
1 TAAAATATTTT
131430987 TAA
1 TAA
131430990 TAAATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAAAATATTTT
Found at i:131432690 original size:30 final size:30
Alignment explanation
Indices: 131432656--131432753 Score: 111
Period size: 30 Copynumber: 3.5 Consensus size: 30
131432646 GCAATATAGG
131432656 AGGAAGTGGTGGAAGAACGGTGGTAGGGTT
1 AGGAAGTGGTGGAAGAACGGTGGTAGGGTT
* *
131432686 AGGAAGTGGT-G--GAA--TTGGTA--CTAT
1 AGGAAGTGGTGGAAGAACGGTGGTAGGGT-T
*
131432710 GGGAAGTGGTGGAAGAACGGTGGTAGGGTT
1 AGGAAGTGGTGGAAGAACGGTGGTAGGGTT
131432740 AGGAAGTGGTGGAA
1 AGGAAGTGGTGGAA
131432754 TTGGTAATCT
Statistics
Matches: 54, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
23 1 0.02
24 10 0.19
25 6 0.11
27 6 0.11
29 6 0.11
30 24 0.44
31 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.48, T:0.21
Consensus pattern (30 bp):
AGGAAGTGGTGGAAGAACGGTGGTAGGGTT
Found at i:131432720 original size:54 final size:54
Alignment explanation
Indices: 131432657--131432833 Score: 291
Period size: 54 Copynumber: 3.3 Consensus size: 54
131432647 CAATATAGGA
* *
131432657 GGAAGTGGTGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTACTATG
1 GGAAGTGGTGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTAATCTG
131432711 GGAAGTGGTGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTAATCTG
1 GGAAGTGGTGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTAATCTG
* ** *
131432765 GGGAGTGGTGGAAGAACAATGGTAGGGTTAGGAAGCGGTGGAATTGGTAATCTG
1 GGAAGTGGTGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTAATCTG
*
131432819 GGAAGTGGCGGAAGA
1 GGAAGTGGTGGAAGA
131432834 TTAGGAAGTG
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 115 1.00
ACGTcount: A:0.27, C:0.05, G:0.46, T:0.22
Consensus pattern (54 bp):
GGAAGTGGTGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTAATCTG
Done.