Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 21 of 205
Found at i:6444656 original size:74 final size:71
Alignment explanation
Indices: 6444503--6444672 Score: 216
Period size: 75 Copynumber: 2.3 Consensus size: 71
6444493 AGTTTAATTG
* * * * *
6444503 TTTTTTTTAATTCAATAA-TTTTTAATACATTATAAATTTTAAATATAAAATTAATAGAAAATAA
1 TTTTTTTTAATTTAAGAATTTTTTAATACATTATAAAATTTAAATACAAAATTAATAAAAAATAA
6444567 GTTTAA
66 GTTTAA
6444573 TTTTGTTTTAATTTAAGAATTTTTTAATACATTATAAAAATTTAAATACAAAATTGAATAAAAAA
1 TTTT-TTTTAATTTAAGAATTTTTTAATACATTAT-AAAATTTAAATACAAAATT-AATAAAAAA
6444638 TAAGAGTTTAA
63 T-A-AGTTTAA
* * *
6444649 TTTTTTTAAAATTAAGATTTTTTT
1 TTTTTTTTAATTTAAGAATTTTTT
6444673 TATGCCCATG
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
70 4 0.05
71 12 0.14
72 15 0.17
73 17 0.20
74 9 0.10
75 18 0.21
76 11 0.13
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (71 bp):
TTTTTTTTAATTTAAGAATTTTTTAATACATTATAAAATTTAAATACAAAATTAATAAAAAATAA
GTTTAA
Found at i:6445239 original size:31 final size:29
Alignment explanation
Indices: 6445164--6445242 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
6445154 TGTTTGGCTC
* *
6445164 ATGTTACATTTTAGTCACTTATGTTTGAA
1 ATGTAACATTTTAGTCACTTATGTTTCAA
* * *
6445193 ATGTTACGTTTTAGTCACTTATGTTATCACG
1 ATGTAACATTTTAGTCACTTATGTT-TCA-A
*
6445224 TTGTAACATTTTAGTCACT
1 ATGTAACATTTTAGTCACT
6445243 GAGCCGTTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 24 0.57
30 2 0.05
31 16 0.38
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (29 bp):
ATGTAACATTTTAGTCACTTATGTTTCAA
Found at i:6447145 original size:41 final size:42
Alignment explanation
Indices: 6447066--6447147 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 42
6447056 TCAACTTTTG
**
6447066 TTTTAGACCTTATAATATAATGTATATACTAATTTTTTTACCA
1 TTTTAGACCTTATAATATAA-GTATATACTAACCTTTTTACCA
* *
6447109 TTTTAGACTTTGTAATATAA-TATATACTAACCTTTTTAC
1 TTTTAGACCTTATAATATAAGTATATACTAACCTTTTTAC
6447148 ATGTGCAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 17 0.49
43 18 0.51
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (42 bp):
TTTTAGACCTTATAATATAAGTATATACTAACCTTTTTACCA
Found at i:6447773 original size:58 final size:57
Alignment explanation
Indices: 6447674--6447783 Score: 130
Period size: 58 Copynumber: 1.9 Consensus size: 57
6447664 CATGTACCAT
* * * *
6447674 AATAATACACAAATTGATAGTTCATGTACCACATTAAACATTTTCAAAGTATAAGTCA
1 AATAATACACAAATTAATAGTTCAGGTACCACATCAAACATTTT-AAAATATAAGTCA
* * ** *
6447732 AATAATACACAGATTAATAGTTTAGGTATTACATCAGACATTTTAAAATATA
1 AATAATACACAAATTAATAGTTCAGGTACCACATCAAACATTTTAAAATATA
6447784 GATACCACAT
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
57 7 0.16
58 36 0.84
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (57 bp):
AATAATACACAAATTAATAGTTCAGGTACCACATCAAACATTTTAAAATATAAGTCA
Found at i:6447831 original size:30 final size:27
Alignment explanation
Indices: 6447768--6447831 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 27
6447758 TATTACATCA
*
6447768 GACATTTTAAAATATAGATACCACATT
1 GACATTTTAAAATATAGATACCAAATT
*
6447795 GAACATTTATAAAAATATAGATGCCAAATAT
1 G-ACATTT-T-AAAATATAGATACCAAAT-T
6447826 GACATT
1 GACATT
6447832 ATCCCAGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 1 0.03
28 6 0.19
29 1 0.03
30 21 0.68
31 2 0.06
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (27 bp):
GACATTTTAAAATATAGATACCAAATT
Found at i:6448347 original size:114 final size:114
Alignment explanation
Indices: 6448227--6448943 Score: 744
Period size: 114 Copynumber: 6.3 Consensus size: 114
6448217 GCGCTTACGA
** * * * * *
6448227 AAAAACGCCAATAATGTATAGTATTAGCGGCGCTTATGGGAAGCGCCGCAAA-CGATGTTAACCA
1 AAAAACGCCGCTAAAGTATAGTATTAGCGGCGTTTGTCGGAAGCGCCGCAAATC-ATCTTAACCA
* * *
6448291 AAACGCAGAG-TTTGGTCTTGATGTA-TATT-GCAATTAGTGGCGCTT-ATAA
65 AAACGCAGAGTTTTGGTCTTTA-GGAGTATTAG-AATTAGTGGCGCTTGAT-T
* * * ** * *
6448340 ATAAAACGCCGCTAATGTATAGTATTAGCGGCGCATAG-CATTAAACGCCGCAAGAT-ATCCTAA
1 A-AAAACGCCGCTAAAGTATAGTATTAGCGGCG-TTTGTC-GGAAGCGCCGCAA-ATCATCTTAA
* *** * * * * * **
6448403 TCAAAACGCTCCGTTTTGGTCTTGATGTA-TACTATAATTAGTGGCG-TTTAAG
62 CCAAAACGCAGAGTTTTGGTCTTTA-GGAGTATTAGAATTAGTGGCGCTTGATT
* * * * * *
6448455 GAAAACGCCAG-TAAAGGATAGT-TATAGCAGCGTTTGGTGGGAAGCGCCTCTAGAT-ATCTTAA
1 AAAAACGCC-GCTAAAGTATAGTAT-TAGCGGCGTTT-GTCGGAAGCGCCGC-AAATCATCTTAA
*
6448517 CCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCACTTGATT
62 CCAAAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATT
* * * *
6448570 AAAAACGCCGCTAAAGTATA-TCATCAGTGGCGTTTGTCTGATGCGCCGCAAATCATCTTAACCA
1 AAAAACGCCGCTAAAGTATAGT-ATTAGCGGCGTTTGTCGGAAGCGCCGCAAATCATCTTAACCA
*
6448634 AAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCACTTGATT
65 AAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATT
* * * *
6448684 AAAAACGCCGCTAAAGTATA-TCATCAGTGGCGTTTGTCTGATGCGCCGCAAATCATCTTAACCA
1 AAAAACGCCGCTAAAGTATAGT-ATTAGCGGCGTTTGTCGGAAGCGCCGCAAATCATCTTAACCA
6448748 AAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATT
65 AAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATT
* * *
6448798 AAAAACGCCGCTAAAGTATA-TCATCAGCGGCATTTGTCGGATGCGCCGCAAATCATCTTAACCA
1 AAAAACGCCGCTAAAGTATAGT-ATTAGCGGCGTTTGTCGGAAGCGCCGCAAATCATCTTAACCA
*
6448862 AAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGGTT
65 AAACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATT
*
6448912 AAAAACGCCGCTGAAGTATAGTATTAGCGGCG
1 AAAAACGCCGCTAAAGTATAGTATTAGCGGCG
6448944 CTTTTACGAA
Statistics
Matches: 522, Mismatches: 62, Indels: 39
0.84 0.10 0.06
Matches are distributed among these distances:
113 8 0.02
114 425 0.81
115 57 0.11
116 32 0.06
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (114 bp):
AAAAACGCCGCTAAAGTATAGTATTAGCGGCGTTTGTCGGAAGCGCCGCAAATCATCTTAACCAA
AACGCAGAGTTTTGGTCTTTAGGAGTATTAGAATTAGTGGCGCTTGATT
Found at i:6449070 original size:18 final size:18
Alignment explanation
Indices: 6449049--6449084 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
6449039 TCATTTTATA
6449049 TGTTT-TTTATATTTAATT
1 TGTTTATTTATA-TTAATT
6449067 TGTTTATTTATATTAATT
1 TGTTTATTTATATTAATT
6449085 AAAATTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TGTTTATTTATATTAATT
Found at i:6449166 original size:10 final size:11
Alignment explanation
Indices: 6449145--6449174 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
6449135 AATAGTATTA
6449145 TTTAAAATAAT
1 TTTAAAATAAT
6449156 TTTAAAA-AAT
1 TTTAAAATAAT
6449166 TTTAAAATA
1 TTTAAAATA
6449175 CATGACTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TTTAAAATAAT
Found at i:6450014 original size:7 final size:7
Alignment explanation
Indices: 6450002--6450053 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
6449992 TGTTCGGGGT
6450002 TTTAGGG
1 TTTAGGG
6450009 TTTAGGG
1 TTTAGGG
*
6450016 TTTAGGA
1 TTTAGGG
*
6450023 TTTGGGG
1 TTTAGGG
*
6450030 TTTGGGG
1 TTTAGGG
* *
6450037 GTTAGAG
1 TTTAGGG
*
6450044 ATTAGGG
1 TTTAGGG
6450051 TTT
1 TTT
6450054 GGTTTTTGAG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.15, C:0.00, G:0.42, T:0.42
Consensus pattern (7 bp):
TTTAGGG
Found at i:6450051 original size:21 final size:21
Alignment explanation
Indices: 6450002--6450055 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
6449992 TGTTCGGGGT
* *
6450002 TTTAGGGTTTAGGGTTTAGGA
1 TTTAGGGTTTGGGGGTTAGGA
*
6450023 TTTGGGGTTTGGGGGTTAGAGA
1 TTTAGGGTTTGGGGGTTAG-GA
6450045 -TTAGGGTTTGG
1 TTTAGGGTTTGG
6450056 TTTTTGAGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.41
Consensus pattern (21 bp):
TTTAGGGTTTGGGGGTTAGGA
Found at i:6452692 original size:16 final size:16
Alignment explanation
Indices: 6452671--6452706 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
6452661 GTATTTATAA
*
6452671 TTATCGATTTGCAATT
1 TTATCGATTTACAATT
6452687 TTATCGATTTACAATT
1 TTATCGATTTACAATT
6452703 TTAT
1 TTAT
6452707 TTCAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.53
Consensus pattern (16 bp):
TTATCGATTTACAATT
Found at i:6452843 original size:67 final size:67
Alignment explanation
Indices: 6452766--6452904 Score: 253
Period size: 67 Copynumber: 2.1 Consensus size: 67
6452756 ATTAATTGAT
*
6452766 TGAATGTCAATGAATTATCAATTTTGGTTA-TGTAATTGATTGAATGTTTTATAAATTCATTATA
1 TGAATGTCAATGAATTATCAATTTTGGTTAGT-TAATTGATTGAATGTTTAATAAATTCATTATA
6452830 TAA
65 TAA
6452833 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
1 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
6452898 AA
66 AA
6452900 TGAAT
1 TGAAT
6452905 TCTCAACAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 69 0.99
68 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (67 bp):
TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
AA
Found at i:6458555 original size:21 final size:21
Alignment explanation
Indices: 6458531--6458579 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
6458521 GCGACAGTGC
*
6458531 GAGAAGCAGAAGCTGCAGCGA
1 GAGAAGCAGAAGCTGCAGCAA
6458552 GAGAAGCAGAAGCTGCAGCAA
1 GAGAAGCAGAAGCTGCAGCAA
6458573 GAGAAGC
1 GAGAAGC
6458580 CGAGCAGGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.41, C:0.18, G:0.37, T:0.04
Consensus pattern (21 bp):
GAGAAGCAGAAGCTGCAGCAA
Found at i:6459010 original size:42 final size:41
Alignment explanation
Indices: 6458943--6459147 Score: 279
Period size: 42 Copynumber: 4.9 Consensus size: 41
6458933 TAAGAATAAA
* *
6458943 CGCCGCTAAAAGAGCAT-TGTCTTTAGCGGCATTTCTTT-TAAAG
1 CGCCGCT-AAAGAACATGT-TCTTTAGCGGCGTTT-TTTCT-AAG
*
6458986 CGCCGCTAAAGAACATTTTCTTTAGCGGCGTTTCTTTTCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCG-TT-TTTTCTAAG
6459029 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTGTTCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTT-TTCTAAG
6459071 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTT-CTAAG
* *
6459113 CGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
6459148 ATTTGAAAAC
Statistics
Matches: 151, Mismatches: 5, Indels: 13
0.89 0.03 0.08
Matches are distributed among these distances:
41 4 0.03
42 100 0.66
43 45 0.30
44 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCTAAG
Found at i:6459040 original size:85 final size:84
Alignment explanation
Indices: 6458943--6459141 Score: 287
Period size: 85 Copynumber: 2.3 Consensus size: 84
6458933 TAAGAATAAA
* *
6458943 CGCCGCTAAAAGAGCATTGTCTTTAGCGGCATTTCT-TT-TAAAGCGCCGCTAAAGAACATTTTC
1 CGCCGCT-AAAGAACATTGTCTTTAGCGGCATTT-TGTTCT-AAGCGCCGCTAAAGAACATGTTC
*
6459006 TTTAGCGGCGTTTCTTTTCTAAG
63 TTTAGCGGCGTTT-TTTCCTAAG
*
6459029 CGCCGCTAAAGAACA-TGTTCTTTAGCGGCGTTTTGTTCTAAGCGCCGCTAAAGAACATGTTCTT
1 CGCCGCTAAAGAACATTG-TCTTTAGCGGCATTTTGTTCTAAGCGCCGCTAAAGAACATGTTCTT
6459093 TAGCGGCGTTTTTTCCTAAG
65 TAGCGGCGTTTTTTCCTAAG
*
6459113 CGCCGCTAAAGAACATGGTCTTTAGCGGC
1 CGCCGCTAAAGAACATTGTCTTTAGCGGC
6459142 GCTTTTATTT
Statistics
Matches: 104, Mismatches: 5, Indels: 10
0.87 0.04 0.08
Matches are distributed among these distances:
84 37 0.36
85 59 0.57
86 8 0.08
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (84 bp):
CGCCGCTAAAGAACATTGTCTTTAGCGGCATTTTGTTCTAAGCGCCGCTAAAGAACATGTTCTTT
AGCGGCGTTTTTTCCTAAG
Found at i:6461854 original size:21 final size:22
Alignment explanation
Indices: 6461818--6461861 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
6461808 CATGTCAGAC
6461818 ATAAATTAATTTTAAAAAATAT
1 ATAAATTAATTTTAAAAAATAT
*
6461840 ATAAATTAA-TTTAAAAAGTAT
1 ATAAATTAATTTTAAAAAATAT
6461861 A
1 A
6461862 ATTTTCTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
ATAAATTAATTTTAAAAAATAT
Found at i:6462413 original size:1 final size:1
Alignment explanation
Indices: 6462407--6462431 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
6462397 GGCGTTTCAC
6462407 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
6462432 TTGGAGAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6472319 original size:72 final size:72
Alignment explanation
Indices: 6472197--6472339 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 72
6472187 ATTCTCTCAA
6472197 GATGGAAAAAGGATTACAAGCGCTTCTATGTTCCAGACCAAGGTTCGTATAACGTTGATTCCATT
1 GATGGAAAAAGGATTACAAGCGCTTCTATGTTCCAGACCAAGGTTCGTATAACGTTGATTCCATT
6472262 GATCACC
66 GATCACC
*
6472269 GATGTAAAAAGGATTACAAGCGCTTCTATGTTCCAGACCAAGGTTCGTATAACGTTGATTCCATT
1 GATGGAAAAAGGATTACAAGCGCTTCTATGTTCCAGACCAAGGTTCGTATAACGTTGATTCCATT
6472334 GATCAC
66 GATCAC
6472340 ATGCAATGGT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (72 bp):
GATGGAAAAAGGATTACAAGCGCTTCTATGTTCCAGACCAAGGTTCGTATAACGTTGATTCCATT
GATCACC
Found at i:6485579 original size:20 final size:21
Alignment explanation
Indices: 6485554--6485593 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
6485544 CACAAATGAC
*
6485554 AACTAATTTGTC-TTTATTTT
1 AACTAATTTATCTTTTATTTT
6485574 AACTAATTTATCTTTTATTT
1 AACTAATTTATCTTTTATTT
6485594 GACAAATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.60
Consensus pattern (21 bp):
AACTAATTTATCTTTTATTTT
Found at i:6496523 original size:15 final size:14
Alignment explanation
Indices: 6496503--6496533 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
6496493 CCCTAAGATG
6496503 AAAGACGGTGATAA
1 AAAGACGGTGATAA
6496517 NAAAGACGGTGATAA
1 -AAAGACGGTGATAA
6496532 AA
1 AA
6496534 GAATTGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 2 0.12
15 14 0.88
ACGTcount: A:0.52, C:0.06, G:0.26, T:0.13
Consensus pattern (14 bp):
AAAGACGGTGATAA
Found at i:6501100 original size:29 final size:31
Alignment explanation
Indices: 6501032--6501100 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
6501022 TAACGGACCA
**
6501032 GTGACCAAATTGTTATAAATTGATAACATTT
1 GTGACCAAATTGTTATAAATTGATAACATCG
* * *
6501063 GTGATCAAATTGTTA-CAGTTGA-AACATCG
1 GTGACCAAATTGTTATAAATTGATAACATCG
6501092 GTGACCAAA
1 GTGACCAAA
6501101 ACGTAAACTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 13 0.41
30 5 0.16
31 14 0.44
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (31 bp):
GTGACCAAATTGTTATAAATTGATAACATCG
Found at i:6506808 original size:21 final size:21
Alignment explanation
Indices: 6506782--6506827 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
6506772 GAAGCTTGAA
6506782 AGCTGAACAAAAGCTCATAAG
1 AGCTGAACAAAAGCTCATAAG
* *
6506803 AGCTGAACAGAAGCTCGTAAG
1 AGCTGAACAAAAGCTCATAAG
6506824 AGCT
1 AGCT
6506828 AATCCACCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.15
Consensus pattern (21 bp):
AGCTGAACAAAAGCTCATAAG
Found at i:6508457 original size:24 final size:24
Alignment explanation
Indices: 6508430--6508477 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6508420 CGCGAGCTTA
*
6508430 TAACGAGTAGCTCCGAAGAGCCAT
1 TAACGAGAAGCTCCGAAGAGCCAT
* *
6508454 TAACGGGAAGCTCCGAATAGCCAT
1 TAACGAGAAGCTCCGAAGAGCCAT
6508478 ATATTGGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (24 bp):
TAACGAGAAGCTCCGAAGAGCCAT
Found at i:6509047 original size:5 final size:5
Alignment explanation
Indices: 6509037--6509065 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
6509027 ATTCCTATTC
6509037 AATTT AATTT AATTT AATTT AATTT AATT
1 AATTT AATTT AATTT AATTT AATTT AATT
6509066 GATGACAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
AATTT
Found at i:6512344 original size:15 final size:15
Alignment explanation
Indices: 6512324--6512352 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6512314 GCCCATGGTT
6512324 TTTTTCAAAGTTCTA
1 TTTTTCAAAGTTCTA
6512339 TTTTTCAAAGTTCT
1 TTTTTCAAAGTTCT
6512353 CATATCTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.55
Consensus pattern (15 bp):
TTTTTCAAAGTTCTA
Found at i:6516461 original size:17 final size:18
Alignment explanation
Indices: 6516441--6516481 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
6516431 ATAAACATAA
6516441 ATCATTCATTTCAT-TAT-
1 ATCATT-ATTTCATGTATC
*
6516458 ATCAATATTTCATGTATC
1 ATCATTATTTCATGTATC
6516476 ATCATT
1 ATCATT
6516482 TTCATGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 5 0.25
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (18 bp):
ATCATTATTTCATGTATC
Found at i:6520140 original size:24 final size:24
Alignment explanation
Indices: 6520113--6520158 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
6520103 GTGCTTCCTA
*
6520113 ATTAATTGCTCTTCGGAGCTACAC
1 ATTAATTGCTCTTCAGAGCTACAC
*
6520137 ATTAATTGCTCTTTAGAGCTAC
1 ATTAATTGCTCTTCAGAGCTAC
6520159 CCGTTATAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (24 bp):
ATTAATTGCTCTTCAGAGCTACAC
Found at i:6536902 original size:17 final size:17
Alignment explanation
Indices: 6536880--6536919 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 17
6536870 AATCAACCTT
6536880 CACCTCCGGCACCAATC
1 CACCTCCGGCACCAATC
*
6536897 CACCT-C--CACCGATC
1 CACCTCCGGCACCAATC
6536911 CACCTCCGG
1 CACCTCCGG
6536920 TCCTTCACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 6
0.73 0.04 0.23
Matches are distributed among these distances:
14 12 0.63
15 1 0.05
16 1 0.05
17 5 0.26
ACGTcount: A:0.20, C:0.55, G:0.12, T:0.12
Consensus pattern (17 bp):
CACCTCCGGCACCAATC
Found at i:6539973 original size:18 final size:17
Alignment explanation
Indices: 6539945--6539979 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6539935 ATTGTTAAGA
*
6539945 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6539962 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6539980 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6540093 original size:18 final size:17
Alignment explanation
Indices: 6540065--6540099 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6540055 ATTATTAAGA
*
6540065 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6540082 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6540100 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6540329 original size:44 final size:45
Alignment explanation
Indices: 6540264--6540354 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 45
6540254 ACCTCTATTC
* * *
6540264 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
* *
6540308 CATTCAATCAAACA-ATGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACA-AGATTAGCTATTACACCTCTAATCCAATA
6540353 CA
1 CA
6540355 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
43 1 0.03
44 18 0.45
45 21 0.52
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.29
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:6540356 original size:16 final size:16
Alignment explanation
Indices: 6540335--6540370 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
6540325 GATTAGCTAT
6540335 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6540351 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6540367 TACA
1 TACA
6540371 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:6540849 original size:22 final size:21
Alignment explanation
Indices: 6540824--6540869 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6540814 AATAAAACTC
* *
6540824 AATTGTGAAAGTACAACAATAA
1 AATTGT-AAAATACAAAAATAA
*
6540846 AATTGTAAAATTCAAAAATAA
1 AATTGTAAAATACAAAAATAA
6540867 AAT
1 AAT
6540870 AGAGATAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.59, C:0.07, G:0.09, T:0.26
Consensus pattern (21 bp):
AATTGTAAAATACAAAAATAA
Found at i:6543788 original size:20 final size:20
Alignment explanation
Indices: 6543763--6543802 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6543753 CCTTTTTACG
6543763 GTAAAGTTATCATGATTTTA
1 GTAAAGTTATCATGATTTTA
6543783 GTAAAGTTATCATGATTTTA
1 GTAAAGTTATCATGATTTTA
6543803 ACGAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
GTAAAGTTATCATGATTTTA
Found at i:6543847 original size:16 final size:17
Alignment explanation
Indices: 6543820--6543854 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6543810 TAAAATTGGG
*
6543820 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
6543837 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
6543853 TT
1 TT
6543855 TGTGATGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:6547134 original size:21 final size:21
Alignment explanation
Indices: 6547105--6547151 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
6547095 CTACCATTGT
6547105 ACCGCTACAGT-ATCCAATCTC
1 ACCGCTACAGTAAT-CAATCTC
* *
6547126 ACCGTTACAGTAATTAATCTC
1 ACCGCTACAGTAATCAATCTC
6547147 ACCGC
1 ACCGC
6547152 CACCACTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.30, C:0.34, G:0.11, T:0.26
Consensus pattern (21 bp):
ACCGCTACAGTAATCAATCTC
Found at i:6547297 original size:21 final size:22
Alignment explanation
Indices: 6547251--6547298 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
6547241 CTAGTATAAT
*
6547251 TGATTTATGCCTTATGTGTTAG
1 TGATTTATGCCTTATGTGTCAG
6547273 -GATTTATGCCATTAT-TG-CAG
1 TGATTTATGCC-TTATGTGTCAG
6547293 TGATTT
1 TGATTT
6547299 CATCATAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 2 0.09
21 17 0.74
22 4 0.17
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (22 bp):
TGATTTATGCCTTATGTGTCAG
Found at i:6562332 original size:10 final size:10
Alignment explanation
Indices: 6562310--6562449 Score: 68
Period size: 10 Copynumber: 14.6 Consensus size: 10
6562300 TCTTAATCAG
*
6562310 AAAAAT-TAA
1 AAAAATATAT
6562319 AAAAATATAT
1 AAAAATATAT
*
6562329 AAAAATA-AA
1 AAAAATATAT
*
6562338 AAAAAT-TCAA
1 AAAAATAT-AT
6562348 AAAAATA-AT
1 AAAAATATAT
6562357 AATAAAT-T-T
1 AA-AAATATAT
6562366 AAAAATATAT
1 AAAAATATAT
6562376 AAAAATA-A-
1 AAAAATATAT
*
6562384 AAAAATGATTGCT
1 AAAAAT-A-T-AT
* * *
6562397 GACAAGATAT
1 AAAAATATAT
*
6562407 AATAATATAT
1 AAAAATATAT
6562417 -AAAAT-T-T
1 AAAAATATAT
*
6562424 TAAAATATAT
1 AAAAATATAT
*
6562434 AAAAATACAT
1 AAAAATATAT
6562444 AAAAAT
1 AAAAAT
6562450 TTTAAAAACA
Statistics
Matches: 101, Mismatches: 14, Indels: 31
0.69 0.10 0.21
Matches are distributed among these distances:
7 1 0.01
8 16 0.16
9 27 0.27
10 52 0.51
11 1 0.01
12 1 0.01
13 3 0.03
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (10 bp):
AAAAATATAT
Found at i:6562334 original size:19 final size:18
Alignment explanation
Indices: 6562310--6562389 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 18
6562300 TCTTAATCAG
* *
6562310 AAAAATTAAAAAAATATAT
1 AAAAATAAAAAAAAT-TAA
6562329 AAAAATAAAAAAAATTCAA
1 AAAAATAAAAAAAATT-AA
* *
6562348 AAAAATAATAATAAATT-T
1 AAAAATAA-AAAAAATTAA
*
6562366 AAAAATATATAAAAA-TAA
1 AAAAATA-AAAAAAATTAA
6562384 AAAAAT
1 AAAAAT
6562390 GATTGCTGAC
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
17 1 0.02
18 18 0.36
19 24 0.48
20 7 0.14
ACGTcount: A:0.75, C:0.01, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAATAAAAAAAATTAA
Found at i:6562434 original size:27 final size:27
Alignment explanation
Indices: 6562403--6562467 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
6562393 TGCTGACAAG
*
6562403 ATATAATAATATAT-AAAATTTTAAAA
1 ATATAATAATACATAAAAATTTTAAAA
*
6562429 TATATAAAAATACATAAAAATTTTAAAA
1 -ATATAATAATACATAAAAATTTTAAAA
*
6562457 ACATAATAATA
1 ATATAATAATA
6562468 AATTTAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.64
28 12 0.36
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (27 bp):
ATATAATAATACATAAAAATTTTAAAA
Found at i:6562457 original size:20 final size:21
Alignment explanation
Indices: 6562434--6562472 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6562424 TAAAATATAT
6562434 AAAA-ATACATAA-AAATTTTA
1 AAAACATA-ATAATAAATTTTA
6562454 AAAACATAATAATAAATTT
1 AAAACATAATAATAAATTT
6562473 AAATTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAACATAATAATAAATTTTA
Found at i:6562476 original size:27 final size:28
Alignment explanation
Indices: 6562405--6562480 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 28
6562395 CTGACAAGAT
* *
6562405 ATAATAATATA-TAAAATTTTAAAATAT
1 ATAATAATAAATTAAAATTTTAAAATAC
* * *
6562432 ATAAAAATACATAAAAATTTTAAAA-AC
1 ATAATAATAAATTAAAATTTTAAAATAC
*
6562459 ATAATAATAAATTTAAATTTTA
1 ATAATAATAAATTAAAATTTTA
6562481 TATTAAATAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 28 0.70
28 12 0.30
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (28 bp):
ATAATAATAAATTAAAATTTTAAAATAC
Found at i:6567125 original size:18 final size:18
Alignment explanation
Indices: 6567102--6567137 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6567092 AAGAAACAAG
6567102 ACGTGGGAGCTAACTGAA
1 ACGTGGGAGCTAACTGAA
6567120 ACGTGGGAGCTAACTGAA
1 ACGTGGGAGCTAACTGAA
6567138 CTTCCTAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (18 bp):
ACGTGGGAGCTAACTGAA
Found at i:6570381 original size:28 final size:30
Alignment explanation
Indices: 6570350--6570405 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
6570340 TATGTTAATT
6570350 AATTATAAAATATATT-ATTAT-TTATTCA
1 AATTATAAAATATATTAATTATATTATTCA
* **
6570378 AATTGTAATTTATATTAATTATATTATT
1 AATTATAAAATATATTAATTATATTATT
6570406 ATATTATGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 13 0.57
29 5 0.22
30 5 0.22
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (30 bp):
AATTATAAAATATATTAATTATATTATTCA
Found at i:6570675 original size:19 final size:20
Alignment explanation
Indices: 6570640--6570678 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6570630 ACATGTGGAA
6570640 TAATAATAAACATATGTATT
1 TAATAATAAACATATGTATT
6570660 TAATAATAAA-ATATGTATT
1 TAATAATAAACATATGTATT
6570679 GCTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATAATAAACATATGTATT
Found at i:6570947 original size:19 final size:20
Alignment explanation
Indices: 6570912--6570950 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6570902 ACATGTGGAA
6570912 TAATAATAAACATATGTATT
1 TAATAATAAACATATGTATT
6570932 TAATAATAAA-ATATGTATT
1 TAATAATAAACATATGTATT
6570951 GCTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATAATAAACATATGTATT
Found at i:6571031 original size:272 final size:272
Alignment explanation
Indices: 6570545--6571083 Score: 1078
Period size: 272 Copynumber: 2.0 Consensus size: 272
6570535 AAATAATTAT
6570545 ATTATAAGATTTTTATGTGATAAATAAATTAAATAAAGACAAATGTATGGTGATGATTTAATACA
1 ATTATAAGATTTTTATGTGATAAATAAATTAAATAAAGACAAATGTATGGTGATGATTTAATACA
6570610 AGTGTATGGTAATAGTAATTACATGTGGAATAATAATAAACATATGTATTTAATAATAAAATATG
66 AGTGTATGGTAATAGTAATTACATGTGGAATAATAATAAACATATGTATTTAATAATAAAATATG
6570675 TATTGCTTATTAATTAAGTAAAAATATATATTATTATAATTAAAACAAAACAAATAAAAGAAAAG
131 TATTGCTTATTAATTAAGTAAAAATATATATTATTATAATTAAAACAAAACAAATAAAAGAAAAG
6570740 AAAAAGGAATTGAAAAAGAGAAACAGAGAATAGAAACGAAAACAGAGCAGGGAAAAGAAAGAAAA
196 AAAAAGGAATTGAAAAAGAGAAACAGAGAATAGAAACGAAAACAGAGCAGGGAAAAGAAAGAAAA
6570805 AGAAAAAGAGAA
261 AGAAAAAGAGAA
6570817 ATTATAAGATTTTTATGTGATAAATAAATTAAATAAAGACAAATGTATGGTGATGATTTAATACA
1 ATTATAAGATTTTTATGTGATAAATAAATTAAATAAAGACAAATGTATGGTGATGATTTAATACA
6570882 AGTGTATGGTAATAGTAATTACATGTGGAATAATAATAAACATATGTATTTAATAATAAAATATG
66 AGTGTATGGTAATAGTAATTACATGTGGAATAATAATAAACATATGTATTTAATAATAAAATATG
6570947 TATTGCTTATTAATTAAGTAAAAATATATATTATTATAATTAAAACAAAACAAATAAAAGAAAAG
131 TATTGCTTATTAATTAAGTAAAAATATATATTATTATAATTAAAACAAAACAAATAAAAGAAAAG
6571012 AAAAAGGAATTGAAAAAGAGAAACAGAGAATAGAAACGAAAACAGAGCAGGGAAAAGAAAGAAAA
196 AAAAAGGAATTGAAAAAGAGAAACAGAGAATAGAAACGAAAACAGAGCAGGGAAAAGAAAGAAAA
6571077 AGAAAAA
261 AGAAAAA
6571084 TTAGGGTTTA
Statistics
Matches: 267, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
272 267 1.00
ACGTcount: A:0.54, C:0.04, G:0.15, T:0.26
Consensus pattern (272 bp):
ATTATAAGATTTTTATGTGATAAATAAATTAAATAAAGACAAATGTATGGTGATGATTTAATACA
AGTGTATGGTAATAGTAATTACATGTGGAATAATAATAAACATATGTATTTAATAATAAAATATG
TATTGCTTATTAATTAAGTAAAAATATATATTATTATAATTAAAACAAAACAAATAAAAGAAAAG
AAAAAGGAATTGAAAAAGAGAAACAGAGAATAGAAACGAAAACAGAGCAGGGAAAAGAAAGAAAA
AGAAAAAGAGAA
Found at i:6579852 original size:107 final size:107
Alignment explanation
Indices: 6579666--6579978 Score: 545
Period size: 107 Copynumber: 2.9 Consensus size: 107
6579656 AAGTTTTAAG
* * *
6579666 AGGATATTTGGCTATTTAGTCGAATGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
6579731 ATTTCTAAACGCAAAATATTGCCTCGTTTTGAAATTATTGAA
66 ATTTCTAAACGCAAAATATTGCCTCGTTTTGAAATTATTGAA
6579773 AGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
6579838 ATTTCTAAACGCAAAATATTGCCTCGTTTTGAAATTATTGAA
66 ATTTCTAAACGCAAAATATTGCCTCGTTTTGAAATTATTGAA
* *
6579880 AGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCATGTTAGGGCACATTTTCTCGA
1 AGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
* * * *
6579945 TTTTCCAAAAGCAAAACATTGCCTCGTTTTGAAA
66 ATTTCTAAACGCAAAATATTGCCTCGTTTTGAAA
6579979 ATTTTTCCTT
Statistics
Matches: 197, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 197 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (107 bp):
AGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
ATTTCTAAACGCAAAATATTGCCTCGTTTTGAAATTATTGAA
Found at i:6591059 original size:51 final size:51
Alignment explanation
Indices: 6591004--6591101 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
6590994 AATTATTTTC
6591004 TCAATTTGCTCTCAATTTCCT-TCCAAATTTCTCTCAAATCCATATTTAATT
1 TCAATTTGCTCTCAATTTCCTCT-CAAATTTCTCTCAAATCCATATTTAATT
* * * *
6591055 TCAATTTTCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTGCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTT
6591102 TTAATTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.01, T:0.48
Consensus pattern (51 bp):
TCAATTTGCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTTAATT
Found at i:6594615 original size:17 final size:17
Alignment explanation
Indices: 6594575--6594608 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6594565 NNNNNNNNAA
6594575 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6594592 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6594609 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6594680 original size:20 final size:21
Alignment explanation
Indices: 6594641--6594680 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
6594631 AATTTACTAA
*
6594641 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
6594662 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
6594681 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:6594693 original size:26 final size:28
Alignment explanation
Indices: 6594648--6594727 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
6594638 TAATAAAATC
6594648 ATAATATATAATACTAAAATATAATTTAA-A
1 ATAATATATAAT--T-AAATATAATTTAATA
*
6594678 ATAAT-TATTATTAAATATAATTTAATA
1 ATAATATATAATTAAATATAATTTAATA
* *
6594705 ATAATATATAATTTAATAAAATT
1 ATAATATATAATTAAATATAATT
6594728 CTTATTCTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
26 13 0.30
27 7 0.16
28 14 0.32
29 5 0.11
30 5 0.11
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (28 bp):
ATAATATATAATTAAATATAATTTAATA
Found at i:6594760 original size:44 final size:41
Alignment explanation
Indices: 6594659--6594760 Score: 98
Period size: 44 Copynumber: 2.3 Consensus size: 41
6594649 TAATATATAA
6594659 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
1 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * **
6594700 TAATAATAATATATAATTTAATAA-AATTCTTATTCTTATATGAATT
1 TACT-A-AA-ATATAATTTAA-AATAATTATTATT-AAATAT-AATT
6594746 TACTAAAATCATAAT
1 TACTAAAAT-ATAAT
6594761 ATATAATACT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
41 3 0.06
42 1 0.02
43 4 0.08
44 27 0.55
45 7 0.14
46 7 0.14
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (41 bp):
TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
Found at i:6594770 original size:108 final size:112
Alignment explanation
Indices: 6594573--6594814 Score: 354
Period size: 108 Copynumber: 2.2 Consensus size: 112
6594563 NNNNNNNNNN
6594573 AAATATAATTTAATAA-AATATATAATTTAATAAAATTGTTAATAAATATTCTTATATGAATTTA
1 AAATATAATTTAATAATAATATATAATTTAATAAAA-T-TTAAT--ATATTCTTATATGAATTTA
6594637 CTAATAAAATCATAATATATAATAC-TAAAATATAATTTAAAATAATTATTATT
62 C--ATAAAATCATAATATATAATACATAAAATATAATTT-AAATAATTATTATT
*
6594690 AAATATAATTTAATAATAATATATAATTTAATAAAA-TT-CT-TATTCTTATATGAATTTAC-TA
1 AAATATAATTTAATAATAATATATAATTTAATAAAATTTAATATATTCTTATATGAATTTACATA
6594751 AAATCATAATATATAATACTATAAAATATAATTTAAATAATTATTATT
66 AAATCATAATATATAATAC-ATAAAATATAATTTAAATAATTATTATT
6594799 AAATATAATTT-ATAAT
1 AAATATAATTTAATAAT
6594815 CTACTTTATT
Statistics
Matches: 121, Mismatches: 1, Indels: 15
0.88 0.01 0.11
Matches are distributed among these distances:
108 26 0.21
109 25 0.21
110 13 0.11
111 19 0.16
114 1 0.01
115 2 0.02
117 16 0.13
118 19 0.16
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (112 bp):
AAATATAATTTAATAATAATATATAATTTAATAAAATTTAATATATTCTTATATGAATTTACATA
AAATCATAATATATAATACATAAAATATAATTTAAATAATTATTATT
Found at i:6594806 original size:32 final size:32
Alignment explanation
Indices: 6594770--6594833 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
6594760 TATATAATAC
*
6594770 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
6594802 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
6594834 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:6597702 original size:55 final size:55
Alignment explanation
Indices: 6597617--6597722 Score: 187
Period size: 54 Copynumber: 1.9 Consensus size: 55
6597607 AAAAGGAAAA
6597617 AAAGAAAAAAATGATTATAGCCAAGAAAAAAAAAGAAGGGAAAAGGATTCAGCAG
1 AAAGAAAAAAATGATTATAGCCAAGAAAAAAAAAGAAGGGAAAAGGATTCAGCAG
* *
6597672 AAAGAAAAAAA-GATTATAGCCAAGAAAAAAAAAGGAGGGAAAATGATTCAG
1 AAAGAAAAAAATGATTATAGCCAAGAAAAAAAAAGAAGGGAAAAGGATTCAG
6597723 TAGGAGGGAC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
54 38 0.78
55 11 0.22
ACGTcount: A:0.60, C:0.07, G:0.22, T:0.11
Consensus pattern (55 bp):
AAAGAAAAAAATGATTATAGCCAAGAAAAAAAAAGAAGGGAAAAGGATTCAGCAG
Found at i:6602845 original size:62 final size:62
Alignment explanation
Indices: 6602775--6602958 Score: 323
Period size: 62 Copynumber: 3.0 Consensus size: 62
6602765 CACGTATCTT
* * *
6602775 TTCATGCATCAACATTACATTTTATTGCATACAATAAATTTCTTAAAATCCAAAAATATGCA
1 TTCATGCATCAACATTACGTTTCATTGCATACAATAAATTTCTTAAAATCCAAAAATACGCA
*
6602837 TTCATGCATCAACATTACGTTTCATTGCATACAATAAATTTCTTAAAATCTAAAAATACGCA
1 TTCATGCATCAACATTACGTTTCATTGCATACAATAAATTTCTTAAAATCCAAAAATACGCA
*
6602899 TTCATGCATCAACATTACGTTTCATTGCATACAATAAATTTCTTAAAATCCAAAAGTACG
1 TTCATGCATCAACATTACGTTTCATTGCATACAATAAATTTCTTAAAATCCAAAAATACG
6602959 TCGAGTTTAG
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 116 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (62 bp):
TTCATGCATCAACATTACGTTTCATTGCATACAATAAATTTCTTAAAATCCAAAAATACGCA
Found at i:6604240 original size:14 final size:14
Alignment explanation
Indices: 6604216--6604275 Score: 56
Period size: 13 Copynumber: 4.5 Consensus size: 14
6604206 TCAGTGGAAG
*
6604216 CAAAAAAAAAAAC-
1 CAAAAACAAAAACA
6604229 CAAAAACCAAAAACA
1 CAAAAA-CAAAAACA
6604244 CAAAAACAAAAA-A
1 CAAAAACAAAAACA
*
6604257 -AAGAAC-AAAACA
1 CAAAAACAAAAACA
*
6604269 AAAAAAC
1 CAAAAAC
6604276 TCTACTGGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 4 0.10
12 6 0.15
13 12 0.30
14 12 0.30
15 6 0.15
ACGTcount: A:0.80, C:0.18, G:0.02, T:0.00
Consensus pattern (14 bp):
CAAAAACAAAAACA
Found at i:6604247 original size:8 final size:7
Alignment explanation
Indices: 6604223--6604255 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
6604213 AAGCAAAAAA
6604223 AAAAACC
1 AAAAACC
6604230 AAAAACC
1 AAAAACC
6604237 AAAAACAC
1 AAAAAC-C
6604245 AAAAA-C
1 AAAAACC
6604251 AAAAA
1 AAAAA
6604256 AAAGAACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.24
7 13 0.52
8 6 0.24
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACC
Found at i:6604256 original size:8 final size:8
Alignment explanation
Indices: 6604217--6604275 Score: 50
Period size: 8 Copynumber: 7.6 Consensus size: 8
6604207 CAGTGGAAGC
6604217 AAAA-AAA
1 AAAACAAA
*
6604224 AAAACCAA
1 AAAACAAA
*
6604232 AAACCAAA
1 AAAACAAA
*
6604240 AACACAAA
1 AAAACAAA
*
6604248 AACA-AAA
1 AAAACAAA
* *
6604255 AAAAGAAC
1 AAAACAAA
6604263 AAAACAAA
1 AAAACAAA
6604271 AAAAC
1 AAAAC
6604276 TCTACTGGGG
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
7 10 0.24
8 31 0.76
ACGTcount: A:0.81, C:0.17, G:0.02, T:0.00
Consensus pattern (8 bp):
AAAACAAA
Found at i:6604257 original size:17 final size:17
Alignment explanation
Indices: 6604220--6604274 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
6604210 TGGAAGCAAA
6604220 AAAAAAAAC-CAAAAAC
1 AAAAAAAACACAAAAAC
*
6604236 --CAAAAACACAAAAAC
1 AAAAAAAACACAAAAAC
*
6604251 AAAAAAAAGA-ACAAAAC
1 AAAAAAAACACA-AAAAC
6604268 AAAAAAA
1 AAAAAAA
6604275 CTCTACTGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 6 0.19
15 7 0.22
16 1 0.03
17 18 0.56
ACGTcount: A:0.82, C:0.16, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAAACACAAAAAC
Found at i:6604726 original size:20 final size:19
Alignment explanation
Indices: 6604701--6604765 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
6604691 TTCACTTGAA
6604701 AAAAAATGAAAAGAAAATAG
1 AAAAAATGAAAA-AAAATAG
* *
6604721 AAAAAATCAAAAAAGAAAAG
1 AAAAAATGAAAAAA-AATAG
6604741 AAAAAA-GAAAAACAAAATAG
1 AAAAAATG-AAAA-AAAATAG
6604761 AAAAA
1 AAAAA
6604766 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
19 2 0.05
20 34 0.89
21 2 0.05
ACGTcount: A:0.80, C:0.03, G:0.11, T:0.06
Consensus pattern (19 bp):
AAAAAATGAAAAAAAATAG
Found at i:6605854 original size:44 final size:45
Alignment explanation
Indices: 6605779--6606046 Score: 239
Period size: 44 Copynumber: 6.2 Consensus size: 45
6605769 AGTCACAAAG
* * * *
6605779 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAATATA
1 GCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATA
* * * * * *
6605823 GCCGGTCTTGTCTTCTTACATTGGTAG-GAAGTGGATCGAAGA-C
1 GCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATA
* * * * *
6605866 GCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGGAGAAA
1 GCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATA
* * *
6605911 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATA
1 GCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATA
* * *
6605955 GCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-
1 GCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATA
* * * *
6605998 GCAGATATTGTCTTCCCATACT-G--GTGAAGTAGATCGAAGAAA
1 GCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATA
*
6606040 ACAGATC
1 GCAGATC
6606047 AATGAAGTTA
Statistics
Matches: 177, Mismatches: 41, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
40 1 0.01
41 14 0.08
42 6 0.03
43 37 0.21
44 97 0.55
45 22 0.12
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (45 bp):
GCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATA
Found at i:6606016 original size:132 final size:129
Alignment explanation
Indices: 6605779--6606046 Score: 428
Period size: 132 Copynumber: 2.1 Consensus size: 129
6605769 AGTCACAAAG
* * * *
6605779 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAATATAGCCGGTCTTGTCTTCTTACAT
1 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTACAT
* *
6605844 TGGTAGGAAGTGGATCGAAGACGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGGAGA
66 TGGTAGGAAGTGGATCGAAGACGCAGATATTGTCTTCCCATAC---TGGTGAAGTAGATCGAAGA
6605909 AA
128 AA
*
6605911 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATAT
1 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTACAT
*
6605976 TGGTAGGAAGTGGATCGAAGATGCAGATATTGTCTTCCCATACTGGTGAAGTAGATCGAAGAAA
66 TGGTAGGAAGTGGATCGAAGACGCAGATATTGTCTTCCCATACTGGTGAAGTAGATCGAAGAAA
*
6606040 ACAGATC
1 GCAGATC
6606047 AATGAAGTTA
Statistics
Matches: 127, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
129 26 0.20
132 101 0.80
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (129 bp):
GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTACAT
TGGTAGGAAGTGGATCGAAGACGCAGATATTGTCTTCCCATACTGGTGAAGTAGATCGAAGAAA
Found at i:6606275 original size:100 final size:100
Alignment explanation
Indices: 6606058--6606437 Score: 507
Period size: 100 Copynumber: 3.8 Consensus size: 100
6606048 ATGAAGTTAC
*
6606058 CTTC-CTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTG-TTCCCCGACATTGC
1 CTTCTCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGC
* *
6606121 AATTAAAGAGATTGAAGCCACAACGG-AGAATCTCA
66 AATTAAAAAGATTGAAACCACAACGGCA-AATCTCA
* ** *
6606156 CTTCTCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCTTGATATTGC
1 CTTCTCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGC
* **
6606221 AATTAAAAAGATTGAAACCGCAACGGCAAATCTTT
66 AATTAAAAAGATTGAAACCACAACGGCAAATCTCA
** ** *
6606256 CTTC-CATGGTGGTGTAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCCAACATTG
1 CTTCTC-TGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTG
* * *
6606320 CAATTAAAGAGATTGAAGCCACAACGGCGAATCTCA
65 CAATTAAAAAGATTGAAACCACAACGGCAAATCTCA
* * *
6606356 CTTCTCTGGCAGTACAGTAGAGCAGATTAAAGCTACGACGGCGATTCTTGCTTCCCTGACATTGC
1 CTTCTCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGC
* *
6606421 AATTTAAAAGATCGAAA
66 AATTAAAAAGATTGAAA
6606438 ATGGCAGATT
Statistics
Matches: 240, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
98 4 0.02
99 44 0.18
100 190 0.79
101 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (100 bp):
CTTCTCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGC
AATTAAAAAGATTGAAACCACAACGGCAAATCTCA
Found at i:6606333 original size:50 final size:50
Alignment explanation
Indices: 6606080--6606432 Score: 205
Period size: 50 Copynumber: 7.1 Consensus size: 50
6606070 GCAGTGGAGC
*
6606080 AGATTAAAGCTACGACGGCGAATCTTG-TTCCCCGACATTGCAATTAAAG
1 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAG
* * * * ** * * * * * **
6606129 AGATTGAAGCCACAACGGAGAATCTCACTTCTCTGGCAGTAC-AGTGGAG
1 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAG
* * * *
6606178 CAGATTAAAGCTACGACGGTGAATCTTGCTTCCTTGATATTGCAATTAAAA
1 -AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAG
** * * * * **** * * **
6606229 AGATTGAAA-CCGCAACGGCAAATCTTTCTTCCATGGTGGTG-TAGTGGAG
1 AGATT-AAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAG
**
6606278 CAGATTAAAGCTACGACGGCGAATCTTGCTTCCCCAACATTGCAATTAAAG
1 -AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAG
* * * ** * * * * * *
6606329 AGATTGAAGCCACAACGGCGAATCTCACTTCTCTGGCAGTAC-AGTAGAG
1 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAG
*
6606378 CAGATTAAAGCTACGACGGCGATTCTTGCTTCCCTGACATTGCAATTTAAA-
1 -AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAA-TTAAAG
6606429 AGAT
1 AGAT
6606433 CGAAAATGGC
Statistics
Matches: 208, Mismatches: 86, Indels: 19
0.66 0.27 0.06
Matches are distributed among these distances:
49 36 0.17
50 158 0.76
51 11 0.05
52 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (50 bp):
AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTAAAG
Found at i:6606422 original size:200 final size:199
Alignment explanation
Indices: 6606072--6606437 Score: 642
Period size: 200 Copynumber: 1.8 Consensus size: 199
6606062 CTGGCAGTGC
*
6606072 AGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAA
1 AGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGTTCCCCAACATTGCAATTAAAGAGATTGAA
* *
6606137 GCCACAACGGAGAATCTCACTTCTCTGGCAGTACAGTGGAGCAGATTAAAGCTACGACGGTGAAT
66 GCCACAACGGAGAATCTCACTTCTCTGGCAGTACAGTAGAGCAGATTAAAGCTACGACGGCGAAT
* * *
6606202 CTTGCTTCCTTGATATTGCAATTAAAAAGATTGAAACCGCAACGGCAAATCTTTCTTCCATGGTG
131 CTTGCTTCCCTGACATTGCAATTAAAAAGATCGAAACCGCAACGGCAAATCTTTCTTCCATGGTG
6606267 GTGT
196 GTGT
6606271 AGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCCAACATTGCAATTAAAGAGATTGA
1 AGTGGAGCAGATTAAAGCTACGACGGCGAATCTTG-TTCCCCAACATTGCAATTAAAGAGATTGA
* *
6606336 AGCCACAACGGCGAATCTCACTTCTCTGGCAGTACAGTAGAGCAGATTAAAGCTACGACGGCGAT
65 AGCCACAACGGAGAATCTCACTTCTCTGGCAGTACAGTAGAGCAGATTAAAGCTACGACGGCGAA
*
6606401 TCTTGCTTCCCTGACATTGCAATTTAAAAGATCGAAA
130 TCTTGCTTCCCTGACATTGCAATTAAAAAGATCGAAA
6606438 ATGGCAGATT
Statistics
Matches: 157, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
199 35 0.22
200 122 0.78
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (199 bp):
AGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGTTCCCCAACATTGCAATTAAAGAGATTGAA
GCCACAACGGAGAATCTCACTTCTCTGGCAGTACAGTAGAGCAGATTAAAGCTACGACGGCGAAT
CTTGCTTCCCTGACATTGCAATTAAAAAGATCGAAACCGCAACGGCAAATCTTTCTTCCATGGTG
GTGT
Found at i:6606557 original size:44 final size:44
Alignment explanation
Indices: 6606504--6606690 Score: 110
Period size: 44 Copynumber: 4.2 Consensus size: 44
6606494 ACTTCCCTGG
*
6606504 GCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
1 GCAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
* ** * * ** * * *
6606548 GCAGTAGTGGAGCAGATCGAATATGACAGATTTTACCTCCCTGA
1 GCAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
* * **** * * **
6606592 G-ATTATAGTGGAGTACATTGAAG-CCGGAAAT-TCTATTTCCCTGG
1 GCA--ATAGTGGAATAGATTGAAGATTTCAGATCT-TATCTCCCTAA
*
6606636 GCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
1 GCAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
* *
6606680 ACAGTAGTGGA
1 GCAATAGTGGA
6606691 GCAGATCGAA
Statistics
Matches: 99, Mismatches: 38, Indels: 12
0.66 0.26 0.08
Matches are distributed among these distances:
43 18 0.18
44 65 0.66
45 16 0.16
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
GCAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
Found at i:6606666 original size:132 final size:132
Alignment explanation
Indices: 6606429--6606801 Score: 629
Period size: 132 Copynumber: 2.8 Consensus size: 132
6606419 GCAATTTAAA
* * **
6606429 AGATCGAAAATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCTAGAAATTCT
1 AGATCGAAAATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGAAATTCT
*
6606494 ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAACAGTAGTGGA
6606559 GC
131 GC
* * *
6606561 AGATCGAATATGACAGATTTTACCTCCCTGAGATTATAGTGGAGTACATTGAAGCCGGAAATTCT
1 AGATCGAAAATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGAAATTCT
*
6606626 ATTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAACAGTAGTGGA
66 ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAACAGTAGTGGA
6606691 GC
131 GC
* * *
6606693 AGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGTAGTTCT
1 AGATCGAAAATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGAAATTCT
*
6606758 ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTGCAGATCTT
66 ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTT
6606802 GCCTTCTTGT
Statistics
Matches: 225, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 225 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
AGATCGAAAATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCGGAAATTCT
ACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAACAGTAGTGGA
GC
Found at i:6606988 original size:40 final size:43
Alignment explanation
Indices: 6606925--6607045 Score: 158
Period size: 40 Copynumber: 2.9 Consensus size: 43
6606915 AGAGTGAAGA
* * *
6606925 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-ACA-
1 AAACAAGATCTTATCTCCCTAAGCAATAGTGGAGCAGACAAAG
* *
6606966 CATCAAG-TCTTATCTCCCTAAGCAATAGTGGAGCAGACGAAAG
1 AAACAAGATCTTATCTCCCTAAGCAATAGTGGAGCAGAC-AAAG
*
6607009 AAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAG
1 AAACAAGATCTTATCTCCCTAAGCAATAGTGGAGCAG
6607046 GTCGAAGATG
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
40 29 0.43
41 4 0.06
42 2 0.03
43 4 0.06
44 29 0.43
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.21
Consensus pattern (43 bp):
AAACAAGATCTTATCTCCCTAAGCAATAGTGGAGCAGACAAAG
Found at i:6607201 original size:40 final size:40
Alignment explanation
Indices: 6607147--6607299 Score: 234
Period size: 40 Copynumber: 3.8 Consensus size: 40
6607137 AGATTACAGA
6607147 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACCACATCCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACCACATCCAG
* * *
6607187 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACCACATC-CAG
* *
6607228 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGACCACATCCAG
*
6607269 TCTTATCTCCCTAAGAAGTAGTGGAGCAGAC
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAC
6607300 TAAAAACACA
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 63 0.62
41 5 0.05
42 33 0.33
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGACCACATCCAG
Found at i:6607238 original size:82 final size:83
Alignment explanation
Indices: 6607142--6607309 Score: 293
Period size: 82 Copynumber: 2.0 Consensus size: 83
6607132 AGTGAAGATT
* *
6607142 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACCACATCCAGTCTTATCTCCCTAAGCAGTA
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACCACATCAAGTCTTATCTCCCTAAGAAGTA
*
6607207 GTGGAGCAGAC-AAAACC
66 GTGGAGCAGACTAAAAAC
*
6607224 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGAAGTA
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACCACATCAAGTCTTATCTCCCTAAGAAGTA
6607289 GTGGAGCAGACTAAAAAC
66 GTGGAGCAGACTAAAAAC
6607307 ACA
1 ACA
6607310 AGTCTCATCC
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 73 0.90
83 8 0.10
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (83 bp):
ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACCACATCAAGTCTTATCTCCCTAAGAAGTA
GTGGAGCAGACTAAAAAC
Found at i:6610259 original size:26 final size:24
Alignment explanation
Indices: 6610218--6610272 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
6610208 AAATCTATTT
* *
6610218 AAAAATTGAAATTTAAAATTATAA
1 AAAAATGGAAATTTAAAATAATAA
*
6610242 AAAAATGGAAAATATTAAAATAATAG
1 AAAAATGG-AAAT-TTAAAATAATAA
6610268 AAAAA
1 AAAAA
6610273 CATTCGAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 7 0.27
25 4 0.15
26 15 0.58
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.25
Consensus pattern (24 bp):
AAAAATGGAAATTTAAAATAATAA
Found at i:6611163 original size:20 final size:20
Alignment explanation
Indices: 6611138--6611177 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6611128 AATATTTTCC
*
6611138 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
6611158 AGTAAAACATTTTTCAGAAA
1 AGTAAAACATTTTACAGAAA
6611178 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:6611179 original size:34 final size:35
Alignment explanation
Indices: 6611126--6611192 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
6611116 CAAACACCAG
*
6611126 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
6611161 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
6611193 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:6611776 original size:12 final size:13
Alignment explanation
Indices: 6611755--6611783 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6611745 CCAATAAAAA
6611755 TTTTATTTTTTAT
1 TTTTATTTTTTAT
6611768 TTTTA-TTTTTAT
1 TTTTATTTTTTAT
6611780 TTTT
1 TTTT
6611784 TCGTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:6612190 original size:30 final size:30
Alignment explanation
Indices: 6612156--6612212 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
6612146 TAATTGATTG
* *
6612156 CTTAAATTCAATTGAGAGCTCAATTGAGCA
1 CTTAAACTCAATCGAGAGCTCAATTGAGCA
* *
6612186 CTTAAACTCAATCGAGGGCTTAATTGA
1 CTTAAACTCAATCGAGAGCTCAATTGA
6612213 ATGTTGTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (30 bp):
CTTAAACTCAATCGAGAGCTCAATTGAGCA
Found at i:6617178 original size:55 final size:55
Alignment explanation
Indices: 6617094--6617204 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
6617084 GGGCCGACTA
6617094 AGGCGCTGGGTTATGACAGTTTCCAAACCATTTTTTATCAGCATTTTTGACATTT
1 AGGCGCTGGGTTATGACAGTTTCCAAACCATTTTTTATCAGCATTTTTGACATTT
*
6617149 AGGCGCTGGGTTATGACAGTTTCCCAACCATTTTTTATCAGCATTTTTGACATTT
1 AGGCGCTGGGTTATGACAGTTTCCAAACCATTTTTTATCAGCATTTTTGACATTT
6617204 A
1 A
6617205 ATTGGTAAAG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (55 bp):
AGGCGCTGGGTTATGACAGTTTCCAAACCATTTTTTATCAGCATTTTTGACATTT
Found at i:6627029 original size:51 final size:51
Alignment explanation
Indices: 6626953--6627079 Score: 182
Period size: 51 Copynumber: 2.5 Consensus size: 51
6626943 NNNNNNNNNN
* * * *
6626953 GATATGATATTATAATCTTAGAGATCTTAGATATGATATGAAATCTTATAA
1 GATATGATTTTATATTCTTAGAGATCTTAGATACGATATGAAATCTTAGAA
* *
6627004 GATATTATTTTATATTCTTAGAGATCTTAGATACGATATGTAATCTTAGAA
1 GATATGATTTTATATTCTTAGAGATCTTAGATACGATATGAAATCTTAGAA
* *
6627055 AATATGATTTTATATTCTTCGAGAT
1 GATATGATTTTATATTCTTAGAGAT
6627080 TTGATTTGTA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (51 bp):
GATATGATTTTATATTCTTAGAGATCTTAGATACGATATGAAATCTTAGAA
Found at i:6636929 original size:52 final size:51
Alignment explanation
Indices: 6636867--6636981 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
6636857 AGAAATTGTG
6636867 AAAATGGAGAAATGGGAAACATTTGAAAATGAATGTGGCTTTCTCCAAAATA
1 AAAAT-GAGAAATGGGAAACATTTGAAAATGAATGTGGCTTTCTCCAAAATA
* *
6636919 AAAATAGAGAAAT-GGAAACATTTGAAAATGAATGTGGTTTTCTCCAAAATG
1 AAAAT-GAGAAATGGGAAACATTTGAAAATGAATGTGGCTTTCTCCAAAATA
6636970 AAAATGA-AAATG
1 AAAATGAGAAATG
6636982 AAAATGAATT
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
49 4 0.07
50 2 0.03
51 41 0.69
52 12 0.20
ACGTcount: A:0.47, C:0.08, G:0.20, T:0.25
Consensus pattern (51 bp):
AAAATGAGAAATGGGAAACATTTGAAAATGAATGTGGCTTTCTCCAAAATA
Found at i:6636975 original size:6 final size:6
Alignment explanation
Indices: 6636964--6636989 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6636954 GGTTTTCTCC
6636964 AAAATG AAAATG AAAATG AAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AA
6636990 TTTATGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:6637754 original size:86 final size:86
Alignment explanation
Indices: 6637609--6637777 Score: 302
Period size: 86 Copynumber: 2.0 Consensus size: 86
6637599 TTTTTGTATC
* **
6637609 TGTGTTTGATTCGAATCGTTTGAGCCCACACTCGAAGCAGTTTGTGGTACAAGAATAGCGGAGAA
1 TGTGTTTGATTCGAATCGTTCGAGCCCACACTCGAAGCAGTTCATGGTACAAGAATAGCGGAGAA
6637674 GACCGTTCGGTTGAAAGCATT
66 GACCGTTCGGTTGAAAGCATT
*
6637695 TGTGTTTGATTCGAATCGTTCGAGCCCACACTCGAAGCAGTTCATGGTACAAGACTAGCGGAGAA
1 TGTGTTTGATTCGAATCGTTCGAGCCCACACTCGAAGCAGTTCATGGTACAAGAATAGCGGAGAA
6637760 GACCGTTCGGTTGAAAGC
66 GACCGTTCGGTTGAAAGC
6637778 CAGGAACGAC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 79 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (86 bp):
TGTGTTTGATTCGAATCGTTCGAGCCCACACTCGAAGCAGTTCATGGTACAAGAATAGCGGAGAA
GACCGTTCGGTTGAAAGCATT
Found at i:6638890 original size:36 final size:35
Alignment explanation
Indices: 6638840--6638915 Score: 82
Period size: 35 Copynumber: 2.1 Consensus size: 35
6638830 AAATAGAAAT
* *
6638840 AAATATATAAAAATTCAAAAAAATTATAATTT-AGAA
1 AAATACATAAAAATT-AAAAAAA-TAAAATTTAAGAA
* * *
6638876 AAATACATATAAATTATAAAAATAAAATTTAATAA
1 AAATACATAAAAATTAAAAAAATAAAATTTAAGAA
6638911 AAATA
1 AAATA
6638916 TGTGATAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
34 7 0.21
35 14 0.41
36 13 0.38
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (35 bp):
AAATACATAAAAATTAAAAAAATAAAATTTAAGAA
Found at i:6639028 original size:23 final size:22
Alignment explanation
Indices: 6639001--6639048 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
6638991 AAAATATTTT
*
6639001 TTATAAAATTCCATAATATGTAA
1 TTATAAAATTCCAAAATA-GTAA
*
6639024 TTATAAAATTCTAAAATAGTAA
1 TTATAAAATTCCAAAATAGTAA
6639046 TTA
1 TTA
6639049 AATTTCAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (22 bp):
TTATAAAATTCCAAAATAGTAA
Found at i:6639158 original size:23 final size:22
Alignment explanation
Indices: 6639132--6639176 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6639122 TAATTATTTG
6639132 TTTTAGAATTTTATAAAAAATAT
1 TTTTA-AATTTTATAAAAAATAT
* * *
6639155 TTTTAATTTTTTTTAAAAATAT
1 TTTTAAATTTTATAAAAAATAT
6639177 ATATTATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTTAAATTTTATAAAAAATAT
Found at i:6639382 original size:20 final size:21
Alignment explanation
Indices: 6639349--6639397 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
6639339 TATTTAGATA
6639349 TTTAATATTATAAT-TTTCTATT
1 TTTAA-ATTATAATGTTTCTA-T
*
6639371 TTTAAATT-TAATGTTTTTAT
1 TTTAAATTATAATGTTTCTAT
6639391 TTTAAAT
1 TTTAAAT
6639398 AAACCTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 12 0.48
21 8 0.32
22 5 0.20
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTAAATTATAATGTTTCTAT
Found at i:6645812 original size:24 final size:24
Alignment explanation
Indices: 6645765--6645813 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6645755 ATGCATGCCT
* *
6645765 TTAACGGGTAGCTCTGAAGGGCCA
1 TTAACGGGAAGCTCTGAAGAGCCA
* *
6645789 TTAACGGGAAGCTCTGGATAGCCA
1 TTAACGGGAAGCTCTGAAGAGCCA
6645813 T
1 T
6645814 ATATCAGGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (24 bp):
TTAACGGGAAGCTCTGAAGAGCCA
Found at i:6646642 original size:324 final size:324
Alignment explanation
Indices: 6646053--6646686 Score: 1259
Period size: 324 Copynumber: 2.0 Consensus size: 324
6646043 TGTTTCTGCA
6646053 ACATATGCAAGACCATAACCAATACGGGAAATTCTGTATCTATTGAATTTCGTTCATTCATACGA
1 ACATATGCAAGACCATAACCAATACGGGAAATTCTGTATCTATTGAATTTCGTTCATTCATACGA
6646118 GATTTTATACTTGTTGGACATTATCGGATATTCAGTCAATTTTATATACATGTCAATAATAAAAA
66 GATTTTATACTTGTTGGACATTATCGGATATTCAGTCAATTTTATATACATGTCAATAATAAAAA
6646183 TACATGCATACAATTCAATTAACACATAAATTCTCAATTTAGTTACACAAACTTACCTCAACACT
131 TACATGCATACAATTCAATTAACACATAAATTCTCAATTTAGTTACACAAACTTACCTCAACACT
6646248 TGCTCGTGTATGAAAATCTACTAATCTGACACTTTTTCTTTTCCTCGATCTAACTCCTTATTTGG
196 TGCTCGTGTATGAAAATCTACTAATCTGACACTTTTTCTTTTCCTCGATCTAACTCCTTATTTGG
6646313 TCTTTTCGAATCTATATAAATGAATTTAATCATCAATTTATTACATTTCAAATCAACCCAACTC
261 TCTTTTCGAATCTATATAAATGAATTTAATCATCAATTTATTACATTTCAAATCAACCCAACTC
6646377 ACATATGCAAGACCATAACCAATACGGGAAATTCTGTATCTATTGAATTTCGTTCATTCATACGA
1 ACATATGCAAGACCATAACCAATACGGGAAATTCTGTATCTATTGAATTTCGTTCATTCATACGA
6646442 GATTTTATACTTGTTGGACATTATCGGATATTCAGTCAATTTTATATACATGTCAATAATAAAAA
66 GATTTTATACTTGTTGGACATTATCGGATATTCAGTCAATTTTATATACATGTCAATAATAAAAA
6646507 TACATGCATACAATTCAATTAACACATAAATTCTCAATTTAGTTACACAAACTTACCTCAACACT
131 TACATGCATACAATTCAATTAACACATAAATTCTCAATTTAGTTACACAAACTTACCTCAACACT
*
6646572 TGCTCGTGTATGAAAATCTACTAATCTGACACTTTTTCTTTTCCTCGATCTAACTTCTTATTTGG
196 TGCTCGTGTATGAAAATCTACTAATCTGACACTTTTTCTTTTCCTCGATCTAACTCCTTATTTGG
6646637 TCTTTTCGAATCTATATAAATGAATTTAATCATCAATTTATTACATTTCA
261 TCTTTTCGAATCTATATAAATGAATTTAATCATCAATTTATTACATTTCA
6646687 TATTCAAATC
Statistics
Matches: 309, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
324 309 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.37
Consensus pattern (324 bp):
ACATATGCAAGACCATAACCAATACGGGAAATTCTGTATCTATTGAATTTCGTTCATTCATACGA
GATTTTATACTTGTTGGACATTATCGGATATTCAGTCAATTTTATATACATGTCAATAATAAAAA
TACATGCATACAATTCAATTAACACATAAATTCTCAATTTAGTTACACAAACTTACCTCAACACT
TGCTCGTGTATGAAAATCTACTAATCTGACACTTTTTCTTTTCCTCGATCTAACTCCTTATTTGG
TCTTTTCGAATCTATATAAATGAATTTAATCATCAATTTATTACATTTCAAATCAACCCAACTC
Found at i:6654009 original size:56 final size:56
Alignment explanation
Indices: 6653949--6654077 Score: 154
Period size: 56 Copynumber: 2.2 Consensus size: 56
6653939 CAAAATTGTG
* * *
6653949 AAATTTTATAACAATCATGA-AAAATTAT-AAAATATATAGAAATATAAAATTTTATA
1 AAATTTTATAA-AATCATAAGAAAATTATAAAAATATAAAGAAATAT-AAATTTCATA
*
6654005 AAATTTTATAAAATCATAAGAAAATTATACAAAATGTAAAGAAATATAAATTTCATA
1 AAATTTTATAAAATCATAAGAAAATTATA-AAAATATAAAGAAATATAAATTTCATA
6654062 AATTTATTTTATAAAA
1 AA---ATTTTATAAAA
6654078 ATTATCGTAC
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
55 7 0.11
56 19 0.30
57 11 0.17
58 15 0.24
60 11 0.17
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (56 bp):
AAATTTTATAAAATCATAAGAAAATTATAAAAATATAAAGAAATATAAATTTCATA
Found at i:6654295 original size:10 final size:9
Alignment explanation
Indices: 6654221--6654344 Score: 74
Period size: 9 Copynumber: 13.6 Consensus size: 9
6654211 GGTTGTTAAT
*
6654221 TTTTTATGA
1 TTTTTATAA
6654230 TTTTTATAAA
1 TTTTTAT-AA
* *
6654240 ATTTTACAA
1 TTTTTATAA
*
6654249 TTTTT-TATT
1 TTTTTATA-A
*
6654258 TTTTTACAA
1 TTTTTATAA
6654267 TTTTTATAAA
1 TTTTTAT-AA
***
6654277 AAATTATAA
1 TTTTTATAA
6654286 TTTTTAATAA
1 TTTTT-ATAA
*
6654296 ATTTTAT-A
1 TTTTTATAA
6654304 TTTTTATTAA
1 TTTTTA-TAA
* *
6654314 ATTTTATTA
1 TTTTTATAA
6654323 TTTTTA-AA
1 TTTTTATAA
*
6654331 TTTTTAAAA
1 TTTTTATAA
6654340 TTTTT
1 TTTTT
6654345 TTTTCTAATT
Statistics
Matches: 86, Mismatches: 21, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
8 14 0.16
9 45 0.52
10 27 0.31
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:6654307 original size:37 final size:36
Alignment explanation
Indices: 6654222--6654329 Score: 108
Period size: 37 Copynumber: 2.9 Consensus size: 36
6654212 GTTGTTAATT
* * **
6654222 TTTTATGATTTTTATAAAATTTTACAATTTTTTATTT
1 TTTTAT-ATTTTTATAAAATTTTATAATTTTTAATAA
* **
6654259 TTTTACAATTTTTATAAAAAATTATAATTTTTAATAAA
1 TTTTA-TATTTTTATAAAATTTTATAATTTTTAAT-AA
* *
6654297 TTTTATATTTTTATTAAATTTTATTATTTTTAA
1 TTTTATATTTTTATAAAATTTTATAATTTTTAA
6654330 ATTTTTAAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
37 52 0.91
38 5 0.09
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (36 bp):
TTTTATATTTTTATAAAATTTTATAATTTTTAATAA
Found at i:6654324 original size:19 final size:19
Alignment explanation
Indices: 6654222--6654328 Score: 94
Period size: 19 Copynumber: 5.7 Consensus size: 19
6654212 GTTGTTAATT
* *
6654222 TTTTATGATTTTTATAAAA
1 TTTTATAATTTTTATTAAA
* *
6654241 TTTTACAATTTTTTATT--T
1 TTTTATAA-TTTTTATTAAA
* *
6654259 TTTTACAATTTTTATAAAA
1 TTTTATAATTTTTATTAAA
** *
6654278 AATTATAATTTTTAATAAA
1 TTTTATAATTTTTATTAAA
6654297 TTTTAT-ATTTTTATTAAA
1 TTTTATAATTTTTATTAAA
*
6654315 TTTTATTATTTTTA
1 TTTTATAATTTTTA
6654329 AATTTTTAAA
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
17 7 0.10
18 25 0.36
19 31 0.44
20 7 0.10
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTATTAAA
Found at i:6654344 original size:18 final size:17
Alignment explanation
Indices: 6654222--6654345 Score: 70
Period size: 19 Copynumber: 6.8 Consensus size: 17
6654212 GTTGTTAATT
*
6654222 TTTTATGATTTTTATAAAA
1 TTTTATAATTTTT-T-AAA
* **
6654241 TTTTACAATTTTTTATTT
1 TTTTATAATTTTTTA-AA
*
6654259 TTTTACAATTTTTATAAAA
1 TTTTATAATTTTT-T-AAA
**
6654278 AATTATAATTTTTAATAAA
1 TTTTATAATTTTT--TAAA
*
6654297 TTTTATATTTTTATTAAA
1 TTTTATAATTTT-TTAAA
*
6654315 TTTTATTA-TTTTTAAA
1 TTTTATAATTTTTTAAA
*
6654331 TTTTTAAAATTTTTT
1 -TTTTATAATTTTTT
6654346 TTTCTAATTT
Statistics
Matches: 82, Mismatches: 16, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
16 5 0.06
17 10 0.12
18 29 0.35
19 34 0.41
20 4 0.05
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (17 bp):
TTTTATAATTTTTTAAA
Found at i:6656467 original size:14 final size:14
Alignment explanation
Indices: 6656448--6656481 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
6656438 AAAGTAAGTC
6656448 ATTTTCC-AGAAATT
1 ATTTTCCGA-AAATT
6656462 ATTTTCCGAAAATT
1 ATTTTCCGAAAATT
6656476 ATTTTC
1 ATTTTC
6656482 AGTGAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 18 0.95
15 1 0.05
ACGTcount: A:0.32, C:0.15, G:0.06, T:0.47
Consensus pattern (14 bp):
ATTTTCCGAAAATT
Found at i:6657724 original size:3 final size:3
Alignment explanation
Indices: 6657718--6657750 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6657708 ATTTTTCTTC
6657718 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6657751 ATTTTCACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6660491 original size:23 final size:22
Alignment explanation
Indices: 6660448--6660505 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
6660438 AAAGGGTATC
* *
6660448 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
6660469 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
6660492 TACATATCATATCT
1 TACAAATCATATCT
6660506 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:6660508 original size:19 final size:19
Alignment explanation
Indices: 6660461--6660558 Score: 115
Period size: 19 Copynumber: 4.8 Consensus size: 19
6660451 AAATTAAATC
*
6660461 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
6660481 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
6660503 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
6660524 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
6660543 TCTAAGATTACATATC
1 TCTAAGATTACATATC
6660559 CTCGAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
19 32 0.47
21 18 0.26
22 7 0.10
23 11 0.16
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:6660521 original size:21 final size:21
Alignment explanation
Indices: 6660495--6660557 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
6660485 CTAAGATTAC
6660495 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
6660516 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
*
6660535 ATATCATATCTAAGATTACAT
1 ATATCATATCTAAGATTGCAT
6660556 AT
1 AT
6660558 CCTCGAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 18 0.46
21 21 0.54
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:6661228 original size:132 final size:132
Alignment explanation
Indices: 6661053--6661589 Score: 885
Period size: 132 Copynumber: 4.1 Consensus size: 132
6661043 CTCTGCAACT
* ** **
6661053 TCAGGGAGATAAGATTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTTCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * * * *
6661118 TTTTTGATCTGCTCCACTACTGCTTGGGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTACT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
6661183 GC
131 GC
* *
6661185 TCAAGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* *
6661250 TCTTTGATCTGCTCCATTACTGCTTAGGGAGATAAGATTTACAATCTTCAACCTACTCCGCTGCT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
6661315 GC
131 GC
6661317 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
6661382 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
6661447 GC
131 GC
* *
6661449 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCTCACTATCTTAGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
** * *
6661514 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTGCAACCTACTCCGCTGTT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
6661579 GC
131 GC
*
6661581 TTAGGGAGA
1 TCAGGGAGA
6661590 TAAGATCTAC
Statistics
Matches: 380, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 380 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (132 bp):
TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
GC
Found at i:6661283 original size:44 final size:44
Alignment explanation
Indices: 6661055--6661989 Score: 216
Period size: 44 Copynumber: 21.3 Consensus size: 44
6661045 CTGCAACTTC
** * *
6661055 AGGGAGATAAGATTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAAGATTTGCCGTCTTTAATCTGC-T-CCACTACTGCTT
* ** * *
6661099 -GGAAAGATAAGATTTTTCGTTTTTGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTT
* * **** * * * * *
6661143 GGGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTACTGCTC
1 AGGGAGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTT
* * * * * *
6661187 AAGGAGACAAGGCTTTG-TGGCTTAAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAA-GATTTGCCGTCTTTAATCTGC-T-CCACTACTGCTT
* * *
6661231 -GGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCATTACTGCTT
1 AGG-GAGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTT
* ** * * * * * *
6661275 AGGGAGATAAGATTTACAATCTTCAACCTACTCCGCTGCTGCTC
1 AGGGAGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTT
* ** ** * *
6661319 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAAGATTTGCCGTCTTTAATCTGC-T-CCACTACTGCTT
* *
6661363 -GGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTT
* * ** * * * * * *
6661407 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTC
1 AGGGAGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTT
* ** ** * *
6661451 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCTCACTA-T-CTT
1 AGGGAGATAAGATTTGCCGTCTTTAATCTGC-TC-CACTACTGCTT
** *
6661495 AGAAAGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTT
* * ** ** * * * **
6661539 AGGGAGATAAGATCTACAATCTGCAACCTACTCCGCTGTTGCTT
1 AGGGAGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTT
* * ** * * * * ** *
6661583 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGTTGCTC
1 AGGGAGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTT
* ** * *
6661627 AGGGAGACAAGGCTTG--GTGGTTTAAATCTGCTTCCCATTA-T-CTT
1 AGGGAGATAAGATTTGCCGT-CTTT-AATCTGC-T-CCACTACTGCTT
* * * **
6661671 -GGAAAGATAAGATTTTCCATCTTCGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTT
* * ** * * * * * *
6661715 AGGGAGATAAGATCTACAATCTTCAA-CGTTCTCCGCTGCTACTC
1 AGGGAGATAAGATTTGCCGTCTTTAATC-TGCTCCACTACTGCTT
** * * * *
6661759 AGGGAGGCAAGGCTTTG-TGGCTTAAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAA-GATTTGCCGTCTTTAATCTGC-T-CCACTACTGCTT
* * *
6661803 -GGAAAGATAAGATTTTCCGTCTTTGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTT
* * ** * * * ** *
6661847 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGTTGCTC
1 AGGGAGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTT
* * * * *
6661891 A--GAGACAAGACTTTG-TGGCTTAAATCTACTTCCCACTA-T-CTT
1 AGGGAGATAAGA-TTTGCCGTCTTTAATCTGC-T-CCACTACTGCTT
* * *
6661933 -GGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTT
6661977 AGGGAGATAAGAT
1 AGGGAGATAAGAT
6661990 CTACAATCTT
Statistics
Matches: 624, Mismatches: 215, Indels: 104
0.66 0.23 0.11
Matches are distributed among these distances:
42 58 0.09
43 44 0.07
44 470 0.75
45 32 0.05
46 20 0.03
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (44 bp):
AGGGAGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTT
Found at i:6661593 original size:176 final size:176
Alignment explanation
Indices: 6661402--6661752 Score: 603
Period size: 176 Copynumber: 2.0 Consensus size: 176
6661392 GCTCCACTAC
6661402 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
1 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
* *
6661467 GTGGCTTAAATCTGCTTCTCACTATCTTAGAAAGATAAGATTTGCCGTCTTCAATCTGCTCCACT
66 GTGGCTTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCCATCTTCAATCTGCTCCACT
6661532 ACTGCTTAGGGAGATAAGATCTACAATCTGCAACCTACTCCGCTGT
131 ACTGCTTAGGGAGATAAGATCTACAATCTGCAACCTACTCCGCTGT
*
6661578 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGTTGCTCAGGGAGACAAGGCTTG
1 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
* * * * *
6661643 GTGGTTTAAATCTGCTTCCCATTATCTTGGAAAGATAAGATTTTCCATCTTCGATCTGCTCCACT
66 GTGGCTTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCCATCTTCAATCTGCTCCACT
* * *
6661708 ACTGCTTAGGGAGATAAGATCTACAATCTTCAACGTTCTCCGCTG
131 ACTGCTTAGGGAGATAAGATCTACAATCTGCAACCTACTCCGCTG
6661753 CTACTCAGGG
Statistics
Matches: 164, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
176 164 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (176 bp):
TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
GTGGCTTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCCATCTTCAATCTGCTCCACT
ACTGCTTAGGGAGATAAGATCTACAATCTGCAACCTACTCCGCTGT
Found at i:6661634 original size:308 final size:308
Alignment explanation
Indices: 6661270--6661889 Score: 1060
Period size: 308 Copynumber: 2.0 Consensus size: 308
6661260 GCTCCATTAC
*
6661270 TGCTTAGGGAGATAAGATTTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
1 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
* *
6661335 GTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACT
66 GTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTCGATCTGCTCCACT
*
6661400 ACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCT
131 ACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTCAGGGAGACAAGGCT
*
6661465 TGGTGGCTTAAATCTGCTTCTCACTATCTTAGAAAGATAAGATTTGCCGTCTTCAATCTGCTCCA
196 TGGTGGCTTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCCGTCTTCAATCTGCTCCA
*
6661530 CTACTGCTTAGGGAGATAAGATCTACAATCTGCAACCTACTCCGCTGT
261 CTACTGCTTAGGGAGATAAGATCTACAATCTGCAACCTACTCCACTGT
*
6661578 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGTTGCTCAGGGAGACAAGGCTTG
1 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
* * *
6661643 GTGGTTTAAATCTGCTTCCCATTATCTTGGAAAGATAAGATTTTCCATCTTCGATCTGCTCCACT
66 GTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTCGATCTGCTCCACT
* * *
6661708 ACTGCTTAGGGAGATAAGATCTACAATCTTCAACGTTCTCCGCTGCTACTCAGGGAGGCAAGGCT
131 ACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTCAGGGAGACAAGGCT
* * * **
6661773 TTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCCA
196 TGGTGGCTTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCCGTCTTCAATCTGCTCCA
* *
6661838 CTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGT
261 CTACTGCTTAGGGAGATAAGATCTACAATCTGCAACCTACTCCACTGT
6661886 TGCT
1 TGCT
6661890 CAGAGACAAG
Statistics
Matches: 292, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
308 292 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (308 bp):
TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
GTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTCGATCTGCTCCACT
ACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTCAGGGAGACAAGGCT
TGGTGGCTTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCCGTCTTCAATCTGCTCCA
CTACTGCTTAGGGAGATAAGATCTACAATCTGCAACCTACTCCACTGT
Found at i:6661655 original size:132 final size:132
Alignment explanation
Indices: 6661578--6662131 Score: 819
Period size: 132 Copynumber: 4.2 Consensus size: 132
6661568 ACTCCGCTGT
* *
6661578 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGTTGCTCAGGGAGACAAGGCTTG
1 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGACTTG
* *
6661643 GTGGTTTAAATCTGCTTCCCATTATCTTGGAAAGATAAGATTTTCCATCTTCGATCTGCTCCACT
66 GTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCATCTTCGATCTGCTCCACT
6661708 AC
131 AC
* * * * * *
6661710 TGCTTAGGGAGATAAGATCTACAATCTTCAACGTTCTCCGCTGCTACTCAGGGAGGCAAGGCTTT
1 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGACTTG
* *
6661775 GTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCCACT
66 GTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCATCTTCGATCTGCTCCACT
6661840 AC
131 AC
* * * *
6661842 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGTTGCTCA--GAGACAAGACTTT
1 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGACTTG
* * *
6661905 GTGGCTTAAATCTACTTCCCACTATCTTGGAAAGATAAGATTTGT-CGTCTTTGATCTGCTCCAC
66 GTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT-TCCATCTTCGATCTGCTCCAC
6661969 TAC
130 TAC
* *
6661972 TGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAGGGAAACAAGACTTG
1 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGACTTG
* * * * * *
6662037 GTGACTTAAATCTACTTCCCACTATCTTGGAAAGATAATATTTACCGTCTTCGATCTGTTCCACT
66 GTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCATCTTCGATCTGCTCCACT
6662102 AC
131 AC
*
6662104 TGCTTAGGGAGATAATATCTAC-ATCTTC
1 TGCTTAGGGAGATAAGATCTACAATCTTC
6662132 GATCCACTTC
Statistics
Matches: 389, Mismatches: 29, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
130 121 0.31
131 7 0.02
132 261 0.67
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (132 bp):
TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGACTTG
GTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCATCTTCGATCTGCTCCACT
AC
Found at i:6661981 original size:262 final size:263
Alignment explanation
Indices: 6661578--6662131 Score: 853
Period size: 262 Copynumber: 2.1 Consensus size: 263
6661568 ACTCCGCTGT
* *
6661578 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGTTGCTCAGGGAGACAAGGCTTG
1 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGTTGCTCA-GGAGACAAGACTTG
* * *
6661643 GTGGTTTAAATCTGCTTCCCATTATCTTGGAAAGATAAGATTTTCCATCTTCGATCTGCTCCACT
65 GTGGCTTAAATCTACTTCCCACTATCTTGGAAAGATAAGATTTTCCATCTTCGATCTGCTCCACT
* * ** *
6661708 ACTGCTTAGGGAGATAAGATCTACAATCTTCAACGTTCTCCGCTGCTACTCAGGGAGGCAAGGCT
130 ACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTCAGGGAAACAAGACT
* * * * *
6661773 TTGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCCA
195 TGGTGACTTAAATCTACTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCA
6661838 CTAC
260 CTAC
* *
6661842 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGTTGCTCA-GAGACAAGACTTTG
1 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGTTGCTCAGGAGACAAGACTTGG
* *
6661906 TGGCTTAAATCTACTTCCCACTATCTTGGAAAGATAAGATTTGT-CGTCTTTGATCTGCTCCACT
66 TGGCTTAAATCTACTTCCCACTATCTTGGAAAGATAAGATTT-TCCATCTTCGATCTGCTCCACT
* *
6661970 ACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAGGGAAACAAGACT
130 ACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTCAGGGAAACAAGACT
* *
6662035 TGGTGACTTAAATCTACTTCCCACTATCTTGGAAAGATAATATTTACCGTCTTCGATCTGTTCCA
195 TGGTGACTTAAATCTACTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCA
6662100 CTAC
260 CTAC
*
6662104 TGCTTAGGGAGATAATATCTAC-ATCTTC
1 TGCTTAGGGAGATAAGATCTACAATCTTC
6662132 GATCCACTTC
Statistics
Matches: 265, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
261 6 0.02
262 210 0.79
263 1 0.00
264 48 0.18
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (263 bp):
TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGTTGCTCAGGAGACAAGACTTGG
TGGCTTAAATCTACTTCCCACTATCTTGGAAAGATAAGATTTTCCATCTTCGATCTGCTCCACTA
CTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTCAGGGAAACAAGACTT
GGTGACTTAAATCTACTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCAC
TAC
Found at i:6662178 original size:44 final size:44
Alignment explanation
Indices: 6662126--6662489 Score: 286
Period size: 44 Copynumber: 7.9 Consensus size: 44
6662116 TAATATCTAC
* * *
6662126 ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCT
1 ATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCT
* * * *
6662170 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATATGCT
1 ATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCT
* * * *
6662214 TTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATTTGC-
1 ATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTGCT
* *
6662258 ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCT
1 ATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCT
* * * *
6662302 ATCTTCGATCAACTTCACGCCAATACATGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCT
* * * * *
6662346 TTCTTCGATCTACTTCGCCACCAATATGGGAAGATAAGATCTAGGGAGATAAT
1 ATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCT-----G---CT
* *
6662399 ATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCT
1 ATCT---TC---GATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCT
* * *
6662449 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
1 ATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCT
6662490 ACTTTTTCAC
Statistics
Matches: 254, Mismatches: 44, Indels: 44
0.74 0.13 0.13
Matches are distributed among these distances:
42 1 0.00
43 22 0.09
44 143 0.56
45 43 0.17
47 2 0.01
50 6 0.02
53 5 0.02
56 2 0.01
57 1 0.00
58 20 0.08
59 9 0.04
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
ATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGCT
Found at i:6668027 original size:23 final size:22
Alignment explanation
Indices: 6667984--6668041 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
6667974 AAAGGGTATC
* *
6667984 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
6668005 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
6668028 TACATATCATATCT
1 TACAAATCATATCT
6668042 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:6668044 original size:19 final size:19
Alignment explanation
Indices: 6667997--6668068 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 19
6667987 AAATTAAATC
*
6667997 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
6668017 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
6668039 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
6668060 TCTAAGATT
1 TCTAAGATT
6668069 GTATATCCTC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
19 9 0.20
21 18 0.40
22 7 0.16
23 11 0.24
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:6668057 original size:21 final size:21
Alignment explanation
Indices: 6668031--6668074 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
6668021 CTAAGATTAC
6668031 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
*
6668052 ATATCATATCTAAGATTGTAT
1 ATATCATATCTAAGATTGCAT
6668073 AT
1 AT
6668075 CCTCGAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:6668075 original size:19 final size:19
Alignment explanation
Indices: 6668020--6668075 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
6668010 AATCATATCT
**
6668020 TCTAAGATTACATATCATA
1 TCTAAGATTGTATATCATA
6668039 TCTAAGATTGCATATATCATA
1 TCTAAGATTG--TATATCATA
6668060 TCTAAGATTGTATATC
1 TCTAAGATTGTATATC
6668076 CTCGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
21 18 0.55
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGTATATCATA
Found at i:6671349 original size:1 final size:1
Alignment explanation
Indices: 6671343--6671380 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
6671333 CCCAAAGTTC
6671343 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6671381 CTAAAAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6676758 original size:86 final size:85
Alignment explanation
Indices: 6676655--6676889 Score: 344
Period size: 86 Copynumber: 2.7 Consensus size: 85
6676645 TAGCCCCCAA
* * *
6676655 AAAAAACATGTTGCTCATCTTGTACGATAAGAGCTGTATGATATTATATACAAATAAGCATTTAG
1 AAAAAGCATGTTACTCATCTTGTA-GATAAGAGTTGTATGATATTATATACAAATAAGCATTTAG
*
6676720 TCATATTTCAAAAATAACCCT
65 TCATATTTCAAAAATAACCCC
* * *
6676741 AAAAAGCATGTTACTCATATTGTAGAATAAGAGTTGTACGATATTATATACAAGTAAGCATTTAG
1 AAAAAGCATGTTACTCATCTTGTAG-ATAAGAGTTGTATGATATTATATACAAATAAGCATTTAG
*
6676806 TCATATTTCGAAAATAACCCC
65 TCATATTTCAAAAATAACCCC
* * *
6676827 AAAAAGCATGTTCCTCATCTTGTAGGATAAGAGTTGTATAATATTATATACAAACAAGCATTT
1 AAAAAGCATGTTACTCATCTTGTA-GATAAGAGTTGTATGATATTATATACAAATAAGCATTT
6676890 GGAACATTAT
Statistics
Matches: 133, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
85 1 0.01
86 131 0.98
87 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (85 bp):
AAAAAGCATGTTACTCATCTTGTAGATAAGAGTTGTATGATATTATATACAAATAAGCATTTAGT
CATATTTCAAAAATAACCCC
Found at i:6680091 original size:23 final size:23
Alignment explanation
Indices: 6680047--6680092 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6680037 ACATTGTTCG
* *
6680047 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
6680070 TGAACATGTTC-ATGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
6680093 CAAACGAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:6681582 original size:27 final size:27
Alignment explanation
Indices: 6681552--6681645 Score: 129
Period size: 27 Copynumber: 3.5 Consensus size: 27
6681542 AGACTTTCCT
6681552 CTTTCCTTTCATGTTTCGTCACAAAGA
1 CTTTCCTTTCATGTTTCGTCACAAAGA
*
6681579 CTTTCCTTTCATGTTTCGTCACAAAGG
1 CTTTCCTTTCATGTTTCGTCACAAAGA
*
6681606 TTTTCCTTTCATGATTT-G-CTACAAAGA
1 CTTTCCTTTCATG-TTTCGTC-ACAAAGA
*
6681633 CTTTTCTTTCATG
1 CTTTCCTTTCATG
6681646 ATTCACCAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 1 0.02
27 56 0.93
28 3 0.05
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (27 bp):
CTTTCCTTTCATGTTTCGTCACAAAGA
Found at i:6681665 original size:54 final size:54
Alignment explanation
Indices: 6681552--6681668 Score: 141
Period size: 54 Copynumber: 2.2 Consensus size: 54
6681542 AGACTTTCCT
* **
6681552 CTTTCCTTTCATGTTTCGTCACAAAGACTTTCCTTTCATGTTTCGTCACAAAGG
1 CTTTCCTTTCATGTTTCGTCACAAAGACTTTCCTTTCATGATTCACCACAAAGG
* *
6681606 TTTTCCTTTCATGATTT-G-CTACAAAGACTTTTCTTTCATGATTCACCA-ATAAGG
1 CTTTCCTTTCATG-TTTCGTC-ACAAAGACTTTCCTTTCATGATTCACCACA-AAGG
6681660 CTTTCCTTT
1 CTTTCCTTT
6681669 TCTAACGTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
53 2 0.04
54 49 0.91
55 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.44
Consensus pattern (54 bp):
CTTTCCTTTCATGTTTCGTCACAAAGACTTTCCTTTCATGATTCACCACAAAGG
Found at i:6686263 original size:20 final size:20
Alignment explanation
Indices: 6686226--6686265 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6686216 AGAAACTGAG
*
6686226 ACTTCTGAAAGATTTTTGAA
1 ACTTCTGAAAGATATTTGAA
6686246 ACTTCTGATAA-ATATTTGAA
1 ACTTCTGA-AAGATATTTGAA
6686266 GCATAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (20 bp):
ACTTCTGAAAGATATTTGAA
Found at i:6700377 original size:6 final size:6
Alignment explanation
Indices: 6700366--6701210 Score: 1690
Period size: 6 Copynumber: 140.8 Consensus size: 6
6700356 CCAAAAAATA
6700366 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
6700414 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
6700462 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
6700510 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
6700558 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
6700606 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
6700654 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
6700702 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
6700750 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
6700798 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
6700846 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
6700894 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
6700942 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
6700990 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
6701038 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
6701086 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
6701134 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
6701182 ATGTAT ATGTAT ATGTAT ATGTAT ATGTA
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTA
6701211 ACACCCCTCA
Statistics
Matches: 839, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 839 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:6705624 original size:24 final size:24
Alignment explanation
Indices: 6705592--6705650 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
6705582 AGAACTAATA
**
6705592 AAGATCATTTGTGTATATCCAATC
1 AAGATCATTCATGTATATCCAATC
**
6705616 AAGATCATTCATGTATATTTAATC
1 AAGATCATTCATGTATATCCAATC
*
6705640 AAAATCATTCA
1 AAGATCATTCA
6705651 GGTGTGCTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.37
Consensus pattern (24 bp):
AAGATCATTCATGTATATCCAATC
Found at i:6706913 original size:21 final size:18
Alignment explanation
Indices: 6706872--6706917 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 18
6706862 TTTTTACCTT
*
6706872 TTTAATTTTTTTATTAAC
1 TTTAATTTTTTAATTAAC
6706890 TTTAATTTAATTTAATTAAAC
1 TTTAATTT--TTTAATT-AAC
6706911 TTTAATT
1 TTTAATT
6706918 ATTAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 8 0.33
20 6 0.25
21 10 0.42
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAATTTTTTAATTAAC
Found at i:6709603 original size:50 final size:49
Alignment explanation
Indices: 6709534--6709642 Score: 121
Period size: 50 Copynumber: 2.2 Consensus size: 49
6709524 AGCATGTAAT
* * * *** *
6709534 CGGGAAGCTCTTTCGAGCC-ATGTAACTAGAAGCTCATGTGAGCTATATAA
1 CGGGAAGCTCTTGCAAGCCAAT-TAACAAGAAGCTCAAACGAGCCATA-AA
*
6709584 CGGGAAGCTCTTGCAAGCCAATTATCAAGAAGCTCAAACGAGCCATAAA
1 CGGGAAGCTCTTGCAAGCCAATTAACAAGAAGCTCAAACGAGCCATAAA
6709633 CGGGAAGCTC
1 CGGGAAGCTC
6709643 ATAAGAGCCA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
49 12 0.24
50 36 0.72
51 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (49 bp):
CGGGAAGCTCTTGCAAGCCAATTAACAAGAAGCTCAAACGAGCCATAAA
Found at i:6709698 original size:24 final size:25
Alignment explanation
Indices: 6709562--6709740 Score: 104
Period size: 24 Copynumber: 7.3 Consensus size: 25
6709552 CATGTAACTA
* *
6709562 GAAGCTCATGTGAGCTATATAA-CGG
1 GAAGCTCATGAGAGCCA-ATAATCGG
* * **
6709587 GAAGCTCTTGCA-AGCCAATTATCAA
1 GAAGCTCATG-AGAGCCAATAATCGG
* *
6709612 GAAGCTCA-AACGAGCC-ATAAACGG
1 GAAGCTCATGA-GAGCCAATAATCGG
*
6709636 GAAGCTCATAAGAGCC-ATAATCGG
1 GAAGCTCATGAGAGCCAATAATCGG
* *
6709660 AAAGCTCATGCGAGCCAAT-ATCGG
1 GAAGCTCATGAGAGCCAATAATCGG
* *
6709684 GAAGCTCGTGAGAGCCATGTAA-CGG
1 GAAGCTCATGAGAGCCA-ATAATCGG
* * *
6709709 GATGCTCATAAGAGCTAAATAA-CGG
1 GAAGCTCATGAGAGC-CAATAATCGG
*
6709734 GACGCTC
1 GAAGCTC
6709741 NACGCTCTTG
Statistics
Matches: 119, Mismatches: 26, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
23 1 0.01
24 59 0.50
25 57 0.48
26 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.18
Consensus pattern (25 bp):
GAAGCTCATGAGAGCCAATAATCGG
Done.