Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 293 of 318
Found at i:92206117 original size:16 final size:16
Alignment explanation
Indices: 92206098--92206128 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92206088 CCTCTCTCCT
92206098 TTCTCCCCTCCCTCTC
1 TTCTCCCCTCCCTCTC
*
92206114 TTCTCCCCTCTCTCT
1 TTCTCCCCTCCCTCT
92206129 TTTTCTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (16 bp):
TTCTCCCCTCCCTCTC
Found at i:92207244 original size:20 final size:18
Alignment explanation
Indices: 92207219--92207255 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
92207209 TGTTAGTTCA
92207219 TATATTTTATTATATGTATT
1 TATATTTT-TTATA-GTATT
92207239 TATATTTTTTATAGTAT
1 TATATTTTTTATAGTAT
92207256 CATTTTCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
TATATTTTTTATAGTATT
Found at i:92207645 original size:14 final size:15
Alignment explanation
Indices: 92207624--92207653 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
92207614 TACTAATTAT
92207624 ATATATATATATGTAA
1 ATATATAT-TATGTAA
92207640 ATATATATTATGTA
1 ATATATATTATGTA
92207654 CATACTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
ATATATATTATGTAA
Found at i:92209309 original size:42 final size:42
Alignment explanation
Indices: 92209245--92209337 Score: 177
Period size: 42 Copynumber: 2.2 Consensus size: 42
92209235 AGGCTAACAC
*
92209245 CAAGCCTTCGATCGCCTCCGTGACTGATTGCGACGACCGGAG
1 CAAGGCTTCGATCGCCTCCGTGACTGATTGCGACGACCGGAG
92209287 CAAGGCTTCGATCGCCTCCGTGACTGATTGCGACGACCGGAG
1 CAAGGCTTCGATCGCCTCCGTGACTGATTGCGACGACCGGAG
92209329 CAAGGCTTC
1 CAAGGCTTC
92209338 CCATGGTGCG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.19, C:0.32, G:0.29, T:0.19
Consensus pattern (42 bp):
CAAGGCTTCGATCGCCTCCGTGACTGATTGCGACGACCGGAG
Found at i:92211637 original size:28 final size:28
Alignment explanation
Indices: 92211605--92211659 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
92211595 TTATTTTTAC
* **
92211605 CTTGAACCCTGACTCTTAAATTTAGAAT
1 CTTGAACCCTGACCCAAAAATTTAGAAT
*
92211633 CTTGAATCCTGACCCAAAAATTTAGAA
1 CTTGAACCCTGACCCAAAAATTTAGAA
92211660 CCCCAAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (28 bp):
CTTGAACCCTGACCCAAAAATTTAGAAT
Found at i:92213613 original size:31 final size:31
Alignment explanation
Indices: 92213569--92213627 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
92213559 TTTTCCATAT
* *
92213569 ACTTTTCTATTTTTTATAATATATATGACTG
1 ACTTTTCTATTTTTGATAACATATATGACTG
* * *
92213600 ACTTTTTTTTTTTTGGTAACATATATGA
1 ACTTTTCTATTTTTGATAACATATATGA
92213628 TTAGATATGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.56
Consensus pattern (31 bp):
ACTTTTCTATTTTTGATAACATATATGACTG
Found at i:92216866 original size:6 final size:6
Alignment explanation
Indices: 92216855--92216892 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
92216845 CACACTGATT
92216855 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CT
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CT
92216893 TATCGTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (6 bp):
CTCTCC
Found at i:92225441 original size:126 final size:126
Alignment explanation
Indices: 92225280--92225519 Score: 435
Period size: 126 Copynumber: 1.9 Consensus size: 126
92225270 TTACCTTAAT
* *
92225280 AGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTCGGGCACGATTCTTC
1 AGGATATTCAAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATTCTTC
*
92225345 GAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGGTAAG
66 GAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGGTAAG
* *
92225406 AGGATATTCAAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTATGTTAGGGCACGATTCTTC
1 AGGATATTCAAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATTCTTC
92225471 GAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 GAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
92225520 AAGATCAATG
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 109 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
AGGATATTCAAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATTCTTC
GAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGGTAAG
Found at i:92225633 original size:10 final size:10
Alignment explanation
Indices: 92225618--92225687 Score: 54
Period size: 10 Copynumber: 6.7 Consensus size: 10
92225608 TTAACCATAT
92225618 ATAAATAATA
1 ATAAATAATA
92225628 ATAAATAATA
1 ATAAATAATA
92225638 ATAATAGTAATTA
1 ATAA-A-TAA-TA
* *
92225651 ATAGA-GATA
1 ATAAATAATA
*
92225660 ATTAATAA-A
1 ATAAATAATA
92225669 ATAACAGTAATA
1 ATAA-A-TAATA
92225681 ATAAATA
1 ATAAATA
92225688 CAATAATGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
9 9 0.19
10 19 0.40
11 5 0.11
12 9 0.19
13 5 0.11
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (10 bp):
ATAAATAATA
Found at i:92225640 original size:16 final size:16
Alignment explanation
Indices: 92225621--92225687 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
92225611 ACCATATATA
92225621 AATAATAATAAATAAT
1 AATAATAATAAATAAT
* *
92225637 AATAATAGTAATTAAT
1 AATAATAATAAATAAT
*
92225653 AGAGATAATTAATAAAATAAC
1 --A-ATAA-TAAT-AAATAAT
*
92225674 AGTAATAATAAATA
1 AATAATAATAAATA
92225688 CAATAATGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
16 19 0.47
17 4 0.10
18 4 0.10
19 5 0.12
20 3 0.08
21 5 0.12
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (16 bp):
AATAATAATAAATAAT
Found at i:92225687 original size:21 final size:20
Alignment explanation
Indices: 92225618--92225701 Score: 57
Period size: 21 Copynumber: 4.0 Consensus size: 20
92225608 TTAACCATAT
92225618 ATAAATAATAATAAA-TAATA
1 ATAAATAA-AATAAAGTAATA
*
92225638 AT-AATAGTAATTAATAG-AGATA
1 ATAAATA--AAATAA-AGTA-ATA
*
92225660 ATTAATAAAATAACAGTAATA
1 ATAAATAAAATAA-AGTAATA
* *
92225681 ATAAATACAATAATGTAATA
1 ATAAATAAAATAAAGTAATA
92225701 A
1 A
92225702 ACATTGTGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
19 4 0.08
20 13 0.25
21 24 0.47
22 6 0.12
23 4 0.08
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (20 bp):
ATAAATAAAATAAAGTAATA
Found at i:92226375 original size:18 final size:18
Alignment explanation
Indices: 92226349--92226384 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
92226339 ATAACAAGTA
* *
92226349 GGGTGATGGAGTTAGTGG
1 GGGTAATGGAGGTAGTGG
92226367 GGGTAATGGAGGTAGTGG
1 GGGTAATGGAGGTAGTGG
92226385 ATGGTTTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.56, T:0.25
Consensus pattern (18 bp):
GGGTAATGGAGGTAGTGG
Found at i:92226795 original size:85 final size:86
Alignment explanation
Indices: 92226666--92227053 Score: 590
Period size: 85 Copynumber: 4.6 Consensus size: 86
92226656 CAACGAAGAT
* *
92226666 AAGATCTGT-AATTTTAGCCTGTTACCCTACTGCTTAGGAGGTTAAGGGGAGTCTTCGACCTGCT
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCT
*
92226730 CCACCACTGCTCGGAGAG-CC
66 CCACCACTGCTCGGCGAGCCC
* *
92226750 AGGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCT
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCT
*
92226815 CTACCACTGCTCGGCGAGCCC
66 CCACCACTGCTCGGCGAGCCC
* *
92226836 AAG-TCTGTAAACTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCT
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCT
92226900 CCACCACTGCTCGGCGAGCCC
66 CCACCACTGCTCGGCGAGCCC
* * * * *
92226921 AAG-TCTGTAAACTTTAGCCTATTACCCTACTGCTTAGAGGGTTAAAGCGAGTCTTCGACCTACT
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCT
* *
92226985 CCGCCACTGCTCGGGGAGCCC
66 CCACCACTGCTCGGCGAGCCC
*
92227006 -AGATCTGTAAATTTTAGCCTGTTACCCTACTGTTTA-GGGGTTAAGGCG
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG
92227054 TGTATCTTTG
Statistics
Matches: 280, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
84 20 0.07
85 256 0.91
86 4 0.01
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (86 bp):
AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCT
CCACCACTGCTCGGCGAGCCC
Found at i:92226825 original size:41 final size:41
Alignment explanation
Indices: 92226779--92226910 Score: 101
Period size: 41 Copynumber: 3.1 Consensus size: 41
92226769 CTGTTACCCT
92226779 ACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCTCTACC
1 ACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCTCTACC
* *** * **
92226820 ACTGC-TCGGCGAGCCCAAGTCTGTAAACTTT-AGCCTG-T-TACCC
1 ACTGCTTAGG-G-GGTTAAGGC-G-AGTCTTTGA-CCTGCTCTA-CC
*
92226863 TACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCTCCACC
1 -ACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCTCTACC
92226905 ACTGCT
1 ACTGCT
92226911 CGGCGAGCCC
Statistics
Matches: 65, Mismatches: 15, Indels: 22
0.64 0.15 0.22
Matches are distributed among these distances:
40 3 0.05
41 21 0.32
42 12 0.18
43 11 0.17
44 15 0.23
45 3 0.05
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.28
Consensus pattern (41 bp):
ACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCTCTACC
Found at i:92227123 original size:44 final size:44
Alignment explanation
Indices: 92227074--92227215 Score: 157
Period size: 44 Copynumber: 3.2 Consensus size: 44
92227064 ATCTGCTTCA
*
92227074 CTATTGCTTAGGGAGATAAGATCTATAATCTTCAGCTTGTTACC
1 CTATTGCTTAGGGAGATAAGATCTGTAATCTTCAGCTTGTTACC
* * * * * *
92227118 TTATTGCTTAGGGAGTTAA-AGCGTGT-ATCTT-TGATCTGCT-CC
1 CTATTGCTTAGGGAGATAAGATC-TGTAATCTTCAGCT-TGTTACC
*
92227160 ACTATTACTTAGGGAGATAAGATCTGTAATCTTCAGCTTGTTACC
1 -CTATTGCTTAGGGAGATAAGATCTGTAATCTTCAGCTTGTTACC
92227205 CTATTGCTTAG
1 CTATTGCTTAG
92227216 AGAGTTAAAG
Statistics
Matches: 76, Mismatches: 15, Indels: 14
0.72 0.14 0.13
Matches are distributed among these distances:
42 4 0.05
43 29 0.38
44 39 0.51
45 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.38
Consensus pattern (44 bp):
CTATTGCTTAGGGAGATAAGATCTGTAATCTTCAGCTTGTTACC
Found at i:92227172 original size:43 final size:43
Alignment explanation
Indices: 92227039--92227175 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 43
92227029 ACCCTACTGT
* *
92227039 TTAGGG-GTTAAGGCGTGTATCTTTGATCTGCTTCACTATTGC
1 TTAGGGAGTTAAAGCGTGTATCTTTGATCTGCTCCACTATTGC
* * * * * * *
92227081 TTAGGGAGATAAGATC-TATAATC-TTCAGCTTGTTACC-TTATTGC
1 TTAGGGAGTTAA-AGCGTGT-ATCTTTGATC-TGCT-CCACTATTGC
*
92227125 TTAGGGAGTTAAAGCGTGTATCTTTGATCTGCTCCACTATTAC
1 TTAGGGAGTTAAAGCGTGTATCTTTGATCTGCTCCACTATTGC
92227168 TTAGGGAG
1 TTAGGGAG
92227176 ATAAGATCTG
Statistics
Matches: 70, Mismatches: 17, Indels: 15
0.69 0.17 0.15
Matches are distributed among these distances:
42 8 0.11
43 31 0.44
44 30 0.43
45 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (43 bp):
TTAGGGAGTTAAAGCGTGTATCTTTGATCTGCTCCACTATTGC
Found at i:92227291 original size:88 final size:86
Alignment explanation
Indices: 92226662--92227304 Score: 397
Period size: 85 Copynumber: 7.5 Consensus size: 86
92226652 TGCTCAACGA
* * *
92226662 AGATAAGATCTGTAAT-TTTAGCCTGTTACCCTACTGCTTAGGAGGTT-AAG-G-GGAGTCTTCG
1 AGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGGA-GTTAAAGCGTGTA-TCTTTG
* * * *
92226723 ACCTGCTCCACCACTGC-TCGGAG
64 ATCTGCTCCACTATTGCTTAGG-G
** * * * * *
92226746 AGCCAGGATCTGTAAAT-TTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAG--TCTTTG
1 AGATAAGATCTGT-AATCTTCAGCCTGTTACCCTACTGCTTA-GGAGTTAAAGCGTGTATCTTTG
* * * * *
92226808 ACCTGCTCTACCACTGC-TCGGCG
64 ATCTGCTCCACTATTGCTTAGG-G
** * * * * *
92226831 AGCCCAAG-TCTGTAAACTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAG--TCTTTG
1 AG-ATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTA-GGAGTTAAAGCGTGTATCTTTG
* * * *
92226893 ACCTGCTCCACCACTGC-TCGGCG
64 ATCTGCTCCACTATTGCTTAGG-G
** * * * * * *
92226916 AGCCCAAG-TCTGTAAACTTTAGCCTATTACCCTACTGCTTAGAGGGTTAAAGCGAG--TCTTCG
1 AG-ATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAG-GAGTTAAAGCGTGTATCTTTG
* * * * * **
92226978 ACCTACTCCGCCACTGCTCGGGG
64 ATCTGCTCCACTATTGCTTAGGG
*** * * * *
92227001 AGCCCAGATCTGTAAAT-TTTAGCCTGTTACCCTACTGTTTAGGGGTTAAGGCGTGTATCTTTGA
1 AGATAAGATCTGT-AATCTTCAGCCTGTTACCCTACTGCTTAGGAGTTAAAGCGTGTATCTTTGA
*
92227065 TCTGCTTCACTATTGCTTAGGG
65 TCTGCTCCACTATTGCTTAGGG
* * * *
92227087 AGATAAGATCTATAATCTTCAGCTTGTTACCTTATTGCTTAGGGAGTTAAAGCGTGTATCTTTGA
1 AGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTA-GGAGTTAAAGCGTGTATCTTTGA
*
92227152 TCTGCTCCACTATTACTTAGGG
65 TCTGCTCCACTATTGCTTAGGG
* * * *
92227174 AGATAAGATCTGTAATCTTCAGCTTGTTACCCTATTGCTTAGAGAGTTAAAGCCTGCTGT-TTTC
1 AGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAG-GAGTTAAAGCGTG-TATCTTT-
*
92227238 GATCTG-TCCCACTATTGCTTAAGG
63 GATCTGCT-CCACTATTGCTTAGGG
* * * *
92227262 AGACAAGATCTGTAGTTTTTAGCCTGTTACCCTACTGCTTAGG
1 AGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGG
92227305 GGGTTAAGAC
Statistics
Matches: 482, Mismatches: 58, Indels: 35
0.84 0.10 0.06
Matches are distributed among these distances:
84 28 0.06
85 236 0.49
86 61 0.13
87 98 0.20
88 59 0.12
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (86 bp):
AGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGGAGTTAAAGCGTGTATCTTTGAT
CTGCTCCACTATTGCTTAGGG
Found at i:92227599 original size:89 final size:88
Alignment explanation
Indices: 92227506--92227792 Score: 235
Period size: 89 Copynumber: 3.2 Consensus size: 88
92227496 AAAATTTGAT
* *
92227506 CTGCTCTGCTCCTGCTCAGCGAAGATAAGATCTGTCGAAATTTGATTTGTTCCACTCCAGCCAGT
1 CTGCTCTACTCCTGCTCAGCGAAGATAAGATCTGTCGAAATTTGATTTATT-CACTCCAGCCAGT
92227571 GGGATGAGATTTGCTATATTTAGC
65 GGGATGAGATTTGCTATATTTAGC
* * * * * * * * * **
92227595 CTGCT-TCACTCCTGCTCAGTGAAGATAAGGCTGATGGTTGAAATCTGCTTCATT--GTCGATAC
1 CTGCTCT-ACTCCTGCTCAGCGAAGATAA-GAT-CT-GTCGAAATTTGATTTATTCACTCCAGCC
* * * *
92227657 A-TGAAGGA-AAGATTTGCCAAAATTT-GAT
62 AGTG--GGATGAGATTTG-CTATATTTAG-C
* * *
92227685 CTGCTCTGCTCCTGCTCAGCGAAGATAAGATCTGTCGAAATTTGATCTATTTCACTCCTGCCAGT
1 CTGCTCTACTCCTGCTCAGCGAAGATAAGATCTGTCGAAATTTGATTTA-TTCACTCCAGCCAGT
*
92227750 GGGATGAGATATGCTATATTTAGC
65 GGGATGAGATTTGCTATATTTAGC
* *
92227774 CTGTTCCACTCCTGCTCAG
1 CTGCTCTACTCCTGCTCAG
92227793 TGGGATAAGG
Statistics
Matches: 144, Mismatches: 39, Indels: 30
0.68 0.18 0.14
Matches are distributed among these distances:
87 11 0.08
88 6 0.04
89 64 0.44
90 46 0.32
91 4 0.03
92 13 0.09
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (88 bp):
CTGCTCTACTCCTGCTCAGCGAAGATAAGATCTGTCGAAATTTGATTTATTCACTCCAGCCAGTG
GGATGAGATTTGCTATATTTAGC
Found at i:92227702 original size:179 final size:178
Alignment explanation
Indices: 92227350--92227804 Score: 682
Period size: 179 Copynumber: 2.6 Consensus size: 178
92227340 CGATACATGG
* * * * * *
92227350 AGATAAGATCCG-CTGAAATTTGATCTGTTCCACTCTTGCCAATAGGATGAAATCTGCTATATTT
1 AGATAAGATCTGTC-GAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATATGCTATATTT
** * *
92227414 AGCCTGTTCCACTCCTGCTCAGTGGGATAATACTGGTGGTTTAAATCTGCTCCATTGTCGATACA
65 AGCCTGTTCCACTCCTGCTCAGTGGGATAAGGCTGATGGTTGAAATCTGCTCCATTGTCGATACA
* *
92227479 TGTAGATAAGATTTGTCAAAATTTGATCTGCTCTGCTCCTGCTCAGCGA
130 TGAAGATAAGATTTGCCAAAATTTGATCTGCTCTGCTCCTGCTCAGCGA
* * *
92227528 AGATAAGATCTGTCGAAATTTGATTTGTTCCACTCCAGCCAGTGGGATGAGATTTGCTATATTTA
1 AGATAAGATCTGTCGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATATGCTATATTTA
* *
92227593 GCCTGCTT-CACTCCTGCTCAGTGAAGATAAGGCTGATGGTTGAAATCTGCTTCATTGTCGATAC
66 GCCTG-TTCCACTCCTGCTCAGTG-GGATAAGGCTGATGGTTGAAATCTGCTCCATTGTCGATAC
92227657 ATGAAGGA-AAGATTTGCCAAAATTTGATCTGCTCTGCTCCTGCTCAGCGA
129 ATGAA-GATAAGATTTGCCAAAATTTGATCTGCTCTGCTCCTGCTCAGCGA
* *
92227707 AGATAAGATCTGTCGAAATTTGATCTATTTCACTCCTGCCAGTGGGATGAGATATGCTATATTTA
1 AGATAAGATCTGTCGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATATGCTATATTTA
92227772 GCCTGTTCCACTCCTGCTCAGTGGGATAAGGCT
66 GCCTGTTCCACTCCTGCTCAGTGGGATAAGGCT
92227805 TGCCAAAATC
Statistics
Matches: 250, Mismatches: 22, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
178 86 0.34
179 162 0.65
180 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (178 bp):
AGATAAGATCTGTCGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATATGCTATATTTA
GCCTGTTCCACTCCTGCTCAGTGGGATAAGGCTGATGGTTGAAATCTGCTCCATTGTCGATACAT
GAAGATAAGATTTGCCAAAATTTGATCTGCTCTGCTCCTGCTCAGCGA
Found at i:92229075 original size:24 final size:24
Alignment explanation
Indices: 92229048--92229102 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
92229038 TCGCCTTGGC
*
92229048 CTCTCCTTTGCTTTTCTTTTCTTT
1 CTCTCCTTTGCTTTTCTCTTCTTT
** *
92229072 CTCTTTTTTGTTTTTCTCTTCTTT
1 CTCTCCTTTGCTTTTCTCTTCTTT
92229096 -T-TCCTTT
1 CTCTCCTTT
92229103 TCCTTTTTTC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 4 0.16
23 1 0.04
24 20 0.80
ACGTcount: A:0.00, C:0.25, G:0.04, T:0.71
Consensus pattern (24 bp):
CTCTCCTTTGCTTTTCTCTTCTTT
Found at i:92229112 original size:14 final size:15
Alignment explanation
Indices: 92229083--92229132 Score: 59
Period size: 14 Copynumber: 3.3 Consensus size: 15
92229073 TCTTTTTTGT
92229083 TTTTCTCTTCTTTTTCC
1 TTTTC-CTT-TTTTTCC
92229100 TTTTCC-TTTTTT-C
1 TTTTCCTTTTTTTCC
92229113 TCTTTCCTTTTTTTCC
1 T-TTTCCTTTTTTTCC
92229129 TTTT
1 TTTT
92229133 TTTTTTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 2 0.07
14 10 0.33
15 10 0.33
16 3 0.10
17 5 0.17
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTCCTTTTTTTCC
Found at i:92229140 original size:14 final size:14
Alignment explanation
Indices: 92229058--92229139 Score: 66
Period size: 15 Copynumber: 5.9 Consensus size: 14
92229048 CTCTCCTTTG
92229058 CTTTTCTTTTCTTTC
1 CTTTTCTTTT-TTTC
92229073 TCTTTT-TTGTTTTT-
1 -CTTTTCTT-TTTTTC
*
92229087 CTCTTC--TTTTTC
1 CTTTTCTTTTTTTC
*
92229099 CTTTTCCTTTTTTC
1 CTTTTCTTTTTTTC
*
92229113 TCTTTCCTTTTTTTC
1 -CTTTTCTTTTTTTC
92229128 CTTTT-TTTTTTT
1 CTTTTCTTTTTTT
92229140 TGAAAGTGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
11 5 0.09
12 5 0.09
13 11 0.20
14 10 0.18
15 17 0.31
16 7 0.13
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.77
Consensus pattern (14 bp):
CTTTTCTTTTTTTC
Found at i:92232659 original size:65 final size:65
Alignment explanation
Indices: 92232555--92232711 Score: 296
Period size: 65 Copynumber: 2.4 Consensus size: 65
92232545 ATGGCCACGT
92232555 GGAGGTGAAAACCTCACGAAGACATAGGTACGGATGTATCCCGGAAGCGATCCCCTAGCCCATGC
1 GGAGGTGAAAACCTCACGAAGACATAGGTACGGATGTATCCCGGAAGCGATCCCCTAGCCCATGC
*
92232620 GGAGGTGAAAACCTCACGAAGACATAGGTACGGATGTATCCCGGAAGTGATCCCCTAGCCCATGC
1 GGAGGTGAAAACCTCACGAAGACATAGGTACGGATGTATCCCGGAAGCGATCCCCTAGCCCATGC
*
92232685 GGAGGTGAAAACCTCACGAAGGCATAG
1 GGAGGTGAAAACCTCACGAAGACATAG
92232712 TTCCTCACTC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 90 1.00
ACGTcount: A:0.31, C:0.25, G:0.29, T:0.15
Consensus pattern (65 bp):
GGAGGTGAAAACCTCACGAAGACATAGGTACGGATGTATCCCGGAAGCGATCCCCTAGCCCATGC
Found at i:92233558 original size:126 final size:126
Alignment explanation
Indices: 92233396--92233636 Score: 437
Period size: 126 Copynumber: 1.9 Consensus size: 126
92233386 ATTTTTGCCT
*
92233396 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGTGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
92233461 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCAAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
* *
92233522 TAAGAGGATATTCGAATATTCAAGATAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
92233587 CTTTGAATTCTTTAAATACCAAACATTGCCTTTATTTTGAAAATTTTTGA
66 CTTCGAATTCTTTAAATACCAAACATTGCCTTTATTTTGAAAATTTTTGA
92233637 AAGAAAATCA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 110 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAATTCTTTAAATACCAAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
Found at i:92234581 original size:29 final size:29
Alignment explanation
Indices: 92234548--92234610 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
92234538 TAGGATGTGG
92234548 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
1 GGGTGATGGAGGTAGTGG-TCGGTTTAGTA
* *
92234577 GGGTGATGGAGTTAGTGGTCGGTTTAGTG
1 GGGTGATGGAGGTAGTGGTCGGTTTAGTA
92234606 GGGTG
1 GGGTG
92234611 TTTAATTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.16, C:0.02, G:0.51, T:0.32
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGTCGGTTTAGTA
Found at i:92245625 original size:26 final size:27
Alignment explanation
Indices: 92245590--92245646 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
92245580 TGAATAACAT
* *
92245590 AAAAAAAGTTTAGGTA-CCACTTGTGA
1 AAAAAAAGTTTAGGTATCAACTTGGGA
92245616 AAAAAAAGTTTAGGTATCAACTTGGGA
1 AAAAAAAGTTTAGGTATCAACTTGGGA
92245643 AAAA
1 AAAA
92245647 TGGTATAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (27 bp):
AAAAAAAGTTTAGGTATCAACTTGGGA
Found at i:92247596 original size:29 final size:29
Alignment explanation
Indices: 92247551--92247606 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
92247541 TTAAGGCAAA
*
92247551 GTGACCAAAATAGAAATGATGTAAATCGT
1 GTGACCAAAATAAAAATGATGTAAATCGT
*
92247580 GTGACCAAAATAAAAATGATTTAAATC
1 GTGACCAAAATAAAAATGATGTAAATC
92247607 CTTAGCTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (29 bp):
GTGACCAAAATAAAAATGATGTAAATCGT
Found at i:92250574 original size:8 final size:8
Alignment explanation
Indices: 92250563--92250588 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
92250553 ATAAGCTCAT
92250563 AAAATATA
1 AAAATATA
92250571 AAAATATA
1 AAAATATA
92250579 AAAATATA
1 AAAATATA
92250587 AA
1 AA
92250589 CAGATCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAATATA
Found at i:92253591 original size:98 final size:98
Alignment explanation
Indices: 92253467--92253658 Score: 348
Period size: 98 Copynumber: 2.0 Consensus size: 98
92253457 ACTTTTGTTG
* *
92253467 GTTTATGTGAATAACTTAAATAGAAATGGTGGGAGATGAAATTAGGGAAGGACTTGATAAATAAT
1 GTTTATGTGAATAACTTAAATAGAAATGGTGGGAGATGAAATTAGGGAAGGACTTGAGAAACAAT
92253532 TAACCCTAAATATTAAAAAGTAAAAGAAAGTTC
66 TAACCCTAAATATTAAAAAGTAAAAGAAAGTTC
* *
92253565 GTTTATGTGAATAACTTAAATGGAAATGGTGGGAGGTGAAATTAGGGAAGGACTTGAGAAACAAT
1 GTTTATGTGAATAACTTAAATAGAAATGGTGGGAGATGAAATTAGGGAAGGACTTGAGAAACAAT
92253630 TAACCCTAAATATTAAAAAGTAAAAGAAA
66 TAACCCTAAATATTAAAAAGTAAAAGAAA
92253659 ATTCATAGAG
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.46, C:0.06, G:0.22, T:0.26
Consensus pattern (98 bp):
GTTTATGTGAATAACTTAAATAGAAATGGTGGGAGATGAAATTAGGGAAGGACTTGAGAAACAAT
TAACCCTAAATATTAAAAAGTAAAAGAAAGTTC
Found at i:92270298 original size:2 final size:2
Alignment explanation
Indices: 92270291--92270327 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
92270281 TTAAATTCTT
*
92270291 TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
92270328 TAATGTTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:92271310 original size:46 final size:46
Alignment explanation
Indices: 92271235--92271555 Score: 358
Period size: 46 Copynumber: 7.0 Consensus size: 46
92271225 TTATCTTTGA
* * * * *
92271235 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTCTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* **
92271281 CATGTTGCCATGGTATCTTGCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
** * * * * **
92271327 CACATTGCCATAGTCTCTTTAAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* **
92271373 CATGTTGCCATGGTATTTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
92271419 CACT-TTGCCATGGTATCTTTCAACCATGGTCTTACAT-ATTTCATGT
1 CA-TGTTGCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCATGT
* * * *
92271465 CACGTTGCCAAGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * *
92271511 CATGTTGCAATTGGTATCTTTCAACTATAGTCTTACACATTTCAT
1 CATGTTGCCA-TGGTATCTTTCAACCATGGTCTTACTCATTTCAT
92271556 TTCAGAAAGC
Statistics
Matches: 232, Mismatches: 38, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
46 199 0.86
47 33 0.14
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:92273402 original size:11 final size:11
Alignment explanation
Indices: 92273388--92273446 Score: 73
Period size: 11 Copynumber: 5.2 Consensus size: 11
92273378 CTTTCCTTCC
92273388 TAATAAAATAA
1 TAATAAAATAA
92273399 TAATAAAATAA
1 TAATAAAATAA
*
92273410 TAATAAAATATCT
1 TAATAAAATA--A
* *
92273423 TATTAAAATAT
1 TAATAAAATAA
92273434 TAATAAAATAA
1 TAATAAAATAA
92273445 TA
1 TA
92273447 TTTATCTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
11 33 0.79
13 9 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:92273883 original size:18 final size:19
Alignment explanation
Indices: 92273847--92273884 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
92273837 AACTCAAAAT
92273847 TTTCCTTTTTGTCACTTTA
1 TTTCCTTTTTGTCACTTTA
92273866 TTTCCTTATTT-T-ACTTTA
1 TTTCCTT-TTTGTCACTTTA
92273884 T
1 T
92273885 CAAAGATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 8 0.44
20 3 0.17
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTCCTTTTTGTCACTTTA
Found at i:92275802 original size:12 final size:12
Alignment explanation
Indices: 92275785--92275809 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92275775 TATATGTGAC
92275785 ATGAAAGATTTA
1 ATGAAAGATTTA
92275797 ATGAAAGATTTA
1 ATGAAAGATTTA
92275809 A
1 A
92275810 CTTTTGGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
ATGAAAGATTTA
Found at i:92276265 original size:21 final size:21
Alignment explanation
Indices: 92276239--92276281 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
92276229 GCGTGTCAAG
92276239 AGATAGTATTGTAAAGTATAT
1 AGATAGTATTGTAAAGTATAT
92276260 AGATAGTATTGTAAAGTATAT
1 AGATAGTATTGTAAAGTATAT
92276281 A
1 A
92276282 CAGAGTACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (21 bp):
AGATAGTATTGTAAAGTATAT
Found at i:92276288 original size:21 final size:21
Alignment explanation
Indices: 92276243--92276288 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
92276233 GTCAAGAGAT
* *
92276243 AGTATTGTAAAGTATATAGAT
1 AGTATTGTAAAGTATATACAG
92276264 AGTATTGTAAAGTATATACAG
1 AGTATTGTAAAGTATATACAG
92276285 AGTA
1 AGTA
92276289 CCTCAATATC
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:0.43, C:0.02, G:0.20, T:0.35
Consensus pattern (21 bp):
AGTATTGTAAAGTATATACAG
Found at i:92282387 original size:21 final size:21
Alignment explanation
Indices: 92282348--92282388 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
92282338 TATTTTTTAT
*
92282348 TTTTTAATATTTATGAAAATA
1 TTTTTAATATTTATCAAAATA
92282369 TTTTTAATAATTT-TCAAAAT
1 TTTTTAAT-ATTTATCAAAAT
92282389 TTAATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTTTAATATTTATCAAAATA
Found at i:92283338 original size:94 final size:94
Alignment explanation
Indices: 92283172--92283366 Score: 239
Period size: 94 Copynumber: 2.1 Consensus size: 94
92283162 TTGTTAATTT
* * * * * *
92283172 ATATATTTAATTAATAACTCTTTTATTTATATAAATAAAATAATAAATATGGATTTGTACAATAA
1 ATATTTTTAATTAATAACTATTTTATTGATATAAACAAAATAATAAATATGGAGTTATACAATAA
* * *
92283237 AAATATAT-CTATCTTTCATTATGTTGAAA
66 AAATATATACTATATGT-ATTATGTTAAAA
* * * *
92283266 ATATTTTTAATTAATAATTATTTTATTGATGTAAACAAAATAATAAATATGGAGTTATATAATGA
1 ATATTTTTAATTAATAACTATTTTATTGATATAAACAAAATAATAAATATGGAGTTATACAATAA
* *
92283331 GAATATATATTATATGTATTATGTTAAAA
66 AAATATATACTATATGTATTATGTTAAAA
92283360 ATATTTT
1 ATATTTT
92283367 ATTTTTTTGA
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
94 80 0.94
95 5 0.06
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (94 bp):
ATATTTTTAATTAATAACTATTTTATTGATATAAACAAAATAATAAATATGGAGTTATACAATAA
AAATATATACTATATGTATTATGTTAAAA
Found at i:92283562 original size:33 final size:34
Alignment explanation
Indices: 92283495--92283562 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
92283485 ATCAAATAGT
* * *
92283495 TATTTTAAATATTATTATTTTTTTAAATATAAAA
1 TATTTTAAAAATTATTATTTTTATAAATAAAAAA
**
92283529 TATTTTAAAAATTA-TATTTTTATATGTAAAAAA
1 TATTTTAAAAATTATTATTTTTATAAATAAAAAA
92283562 T
1 T
92283563 TAATTGATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 16 0.55
34 13 0.45
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (34 bp):
TATTTTAAAAATTATTATTTTTATAAATAAAAAA
Found at i:92283924 original size:2 final size:2
Alignment explanation
Indices: 92283911--92283940 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
92283901 AGGAAGAGGC
*
92283911 AG AG AG AC AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
92283941 CGGGGAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:92300501 original size:126 final size:128
Alignment explanation
Indices: 92300348--92300581 Score: 364
Period size: 127 Copynumber: 1.8 Consensus size: 128
92300338 ATTCATGCAT
* ** *
92300348 TGAAATTTTTAAAAGGATATTCGGTTATTTGGTC-AACGAAAAATCGAAACCCAGCACGTTAGGG
1 TGAAATTTTTAAAAGGATATTCAGTTATTCAGTCAAACGAAAAATCGAAACCCAGCACGTGAGGG
92300412 CACGATTTCTCGAATTTCCAAACACGAAATATTACCTTATTTTTTAATTTAAGAAAACGTAGA
66 CACGATTTCTCGAATTTCCAAACACGAAATATTACCTTATTTTTTAATTTAAGAAAACGTAGA
* * *
92300475 TGAAA-TTTTGAAAGGATATTTAGTTATTCAGTCAAACGGAAAATCGAAACCCAGCACGTGAGGG
1 TGAAATTTTTAAAAGGATATTCAGTTATTCAGTCAAACGAAAAATCGAAACCCAGCACGTGAGGG
* * *
92300539 CACGATTTCTCGAATTTCCTAACACGAAATATTGCCTTGTTTT
66 CACGATTTCTCGAATTTCCAAACACGAAATATTACCTTATTTT
92300582 GAGAAACTTT
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
126 23 0.24
127 73 0.76
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (128 bp):
TGAAATTTTTAAAAGGATATTCAGTTATTCAGTCAAACGAAAAATCGAAACCCAGCACGTGAGGG
CACGATTTCTCGAATTTCCAAACACGAAATATTACCTTATTTTTTAATTTAAGAAAACGTAGA
Found at i:92300908 original size:15 final size:15
Alignment explanation
Indices: 92300861--92300902 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
92300851 TAATGAAATT
92300861 TTAAAATATAA-CAAA
1 TTAAAATA-AAGCAAA
92300876 TATAAAAATAAAGCAAA
1 T-T-AAAATAAAGCAAA
92300893 TTAAAATAAA
1 TTAAAATAAA
92300903 TGAAATATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 9 0.38
16 4 0.17
17 11 0.46
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (15 bp):
TTAAAATAAAGCAAA
Found at i:92301070 original size:6 final size:6
Alignment explanation
Indices: 92301059--92301093 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
92301049 AAATTATAAA
*
92301059 AAAATG AAAATG AAAATG AAAATA AAAATG AAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT
92301094 AAATAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:92301074 original size:12 final size:12
Alignment explanation
Indices: 92301058--92301096 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
92301048 TAAATTATAA
92301058 AAAAATGAAAAT
1 AAAAATGAAAAT
*
92301070 GAAAATGAAAAT
1 AAAAATGAAAAT
92301082 AAAAATGAAAAT
1 AAAAATGAAAAT
92301094 AAA
1 AAA
92301097 TAATATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.15
Consensus pattern (12 bp):
AAAAATGAAAAT
Found at i:92301075 original size:23 final size:23
Alignment explanation
Indices: 92301049--92301108 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
92301039 AGTTTAAAAT
*
92301049 AAATTATAAAAAAATGAAAATGA
1 AAATTATAAAAAAATGAAAATAA
* *
92301072 AAATGAAAATAAAAATGAAAATAA
1 AAATTATAA-AAAAATGAAAATAA
92301096 ATAATATATAAAA
1 A-AAT-TATAAAA
92301109 TAGTAGCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 7 0.24
24 14 0.48
25 5 0.17
26 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (23 bp):
AAATTATAAAAAAATGAAAATAA
Found at i:92301227 original size:20 final size:20
Alignment explanation
Indices: 92301204--92301242 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
92301194 ATCTAAAATA
92301204 AATAATATACATA-AAATAAG
1 AATAATATA-ATATAAATAAG
*
92301224 AATAATTTAATATAAATAA
1 AATAATATAATATAAATAA
92301243 TGTATATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (20 bp):
AATAATATAATATAAATAAG
Found at i:92302066 original size:27 final size:27
Alignment explanation
Indices: 92302036--92302095 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
92302026 ATTTGGTCTC
92302036 TTGTTGGGTTTAGAATTGGGTTTACTT
1 TTGTTGGGTTTAGAATTGGGTTTACTT
92302063 TTGTTGGGTTTAGAATTGGGTTTACTT
1 TTGTTGGGTTTAGAATTGGGTTTACTT
92302090 TTGTTG
1 TTGTTG
92302096 ATGAGTCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.13, C:0.03, G:0.30, T:0.53
Consensus pattern (27 bp):
TTGTTGGGTTTAGAATTGGGTTTACTT
Found at i:92314902 original size:24 final size:25
Alignment explanation
Indices: 92314847--92314908 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
92314837 TTATATTATA
92314847 AAAATATTAT-TTAATTAAAACATT
1 AAAATATTATATTAATTAAAACATT
*
92314871 ATAA-ATTATATTAATT-AAA-ATT
1 AAAATATTATATTAATTAAAACATT
92314893 AAAGATATTATATTAA
1 AAA-ATATTATATTAA
92314909 AGGAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 5 0.15
23 9 0.27
24 19 0.58
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
AAAATATTATATTAATTAAAACATT
Found at i:92321607 original size:28 final size:28
Alignment explanation
Indices: 92321570--92321624 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
92321560 ACTGAGCAAT
92321570 TTGCTCAACGTATGATTTGTTTTCTCCG
1 TTGCTCAACGTATGATTTGTTTTCTCCG
*
92321598 TTGCTGAACGTATGATTTGTTTTCTCC
1 TTGCTCAACGTATGATTTGTTTTCTCC
92321625 ATCATATAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (28 bp):
TTGCTCAACGTATGATTTGTTTTCTCCG
Found at i:92321749 original size:27 final size:27
Alignment explanation
Indices: 92321709--92321762 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
92321699 CATATATTTA
*
92321709 TGTTAAAGTGTGGTATGTACCTAGTTT
1 TGTTAAAGTCTGGTATGTACCTAGTTT
92321736 TGTTAAAGTCTGGTATGTACCTAGTTT
1 TGTTAAAGTCTGGTATGTACCTAGTTT
92321763 AGGTAAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.44
Consensus pattern (27 bp):
TGTTAAAGTCTGGTATGTACCTAGTTT
Found at i:92321769 original size:27 final size:27
Alignment explanation
Indices: 92321712--92321769 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
92321702 ATATTTATGT
* * *
92321712 TAAAGTGTGGTATGTACCTAGTTTTGT
1 TAAAGTCTGGTATGTACCTAGTTTAGG
92321739 TAAAGTCTGGTATGTACCTAGTTTAGG
1 TAAAGTCTGGTATGTACCTAGTTTAGG
92321766 TAAA
1 TAAA
92321770 CTTTTGAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.40
Consensus pattern (27 bp):
TAAAGTCTGGTATGTACCTAGTTTAGG
Found at i:92322936 original size:26 final size:26
Alignment explanation
Indices: 92322900--92323035 Score: 229
Period size: 26 Copynumber: 5.2 Consensus size: 26
92322890 TTATACAAAT
92322900 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
92322926 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
92322952 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
92322978 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
92323004 TGATAAT-GAGTTAGGTAAATGTTTCA
1 TGATAATAG-GTTAGGTAAATGTTTCA
92323030 TGATAA
1 TGATAA
92323036 GAATTTCATG
Statistics
Matches: 106, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
25 1 0.01
26 105 0.99
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:92324689 original size:27 final size:27
Alignment explanation
Indices: 92324648--92324760 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
92324638 GAGGAAGCGT
*
92324648 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
92324675 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
92324702 TCTGGTGGCTCTGCAACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
92324730 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
92324756 TCTGG
1 TCTGG
92324761 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.74
28 14 0.19
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:92324753 original size:54 final size:54
Alignment explanation
Indices: 92324646--92324760 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
92324636 TGGAGGAAGC
* *
92324646 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCAACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
92324700 GTTCTGGTGGCTCTGCAACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCAACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
92324754 GTTCTGG
1 GTTCTGG
92324761 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCAACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:92327036 original size:26 final size:26
Alignment explanation
Indices: 92327000--92327058 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
92326990 TCAACCTGTT
* * * *
92327000 TGTATTTCTGTTATGTATTTCTATTA
1 TGTATGTCTGTTAGGTATGTATATTA
92327026 TGTATGTCTGTTAGGTATGTATATTA
1 TGTATGTCTGTTAGGTATGTATATTA
92327052 TGTATGT
1 TGTATGT
92327059 TATGTATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.20, C:0.05, G:0.19, T:0.56
Consensus pattern (26 bp):
TGTATGTCTGTTAGGTATGTATATTA
Found at i:92327044 original size:13 final size:13
Alignment explanation
Indices: 92326995--92327058 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
92326985 AAAGGTCAAC
*
92326995 CTGTT-TGTATTT
1 CTGTTATGTATGT
*
92327007 CTGTTATGTATTT
1 CTGTTATGTATGT
*
92327020 CTATTATGTATGT
1 CTGTTATGTATGT
*
92327033 CTGTTAGGTATGT
1 CTGTTATGTATGT
* *
92327046 ATATTATGTATGT
1 CTGTTATGTATGT
92327059 TATGTATATT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
12 5 0.11
13 39 0.89
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.56
Consensus pattern (13 bp):
CTGTTATGTATGT
Found at i:92327055 original size:9 final size:9
Alignment explanation
Indices: 92327041--92327176 Score: 91
Period size: 9 Copynumber: 14.7 Consensus size: 9
92327031 GTCTGTTAGG
92327041 TATGTATAT
1 TATGTATAT
*
92327050 TATGTATGT
1 TATGTATAT
92327059 TATGTATAT
1 TATGTATAT
*
92327068 TACTGTTTAT
1 TA-TGTATAT
*
92327078 GCATGTATAT
1 -TATGTATAT
* *
92327088 TATGTTTGT
1 TATGTATAT
92327097 TATGTA-AT
1 TATGTATAT
92327105 ATAT-TACTATT
1 -TATGTA-TA-T
*
92327116 TATGTATTT
1 TATGTATAT
*
92327125 TATGTATGTT
1 TATGTAT-AT
92327135 ATATAGTATAT
1 -TAT-GTATAT
92327146 TAT-TAT-T
1 TATGTATAT
* *
92327153 TATATATTT
1 TATGTATAT
92327162 TATGTATAT
1 TATGTATAT
92327171 TATGTA
1 TATGTA
92327177 GTGTTTATGT
Statistics
Matches: 101, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
7 4 0.04
8 9 0.09
9 54 0.53
10 22 0.22
11 8 0.08
12 4 0.04
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (9 bp):
TATGTATAT
Found at i:92327135 original size:37 final size:36
Alignment explanation
Indices: 92327041--92327176 Score: 132
Period size: 37 Copynumber: 3.7 Consensus size: 36
92327031 GTCTGTTAGG
*
92327041 TATGTATATTATGTATGTTATG--TATATTACTGTTT
1 TATGTATATTATGTATGTTATGTATATATTACT-ATT
*
92327076 ATGCATGTATATTATGTTTGTTATGTAATATATTACTATT
1 -T--ATGTATATTATGTATGTTATGT-ATATATTACTATT
* * *
92327116 TATGTATTTTATGTATGTTATATAGTATATTATTATT
1 TATGTATATTATGTATGTTATGTA-TATATTACTATT
* * *
92327153 TATATATTTTATGTATATTATGTA
1 TATGTATATTATGTATGTTATGTA
92327177 GTGTTTATGT
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
36 2 0.02
37 51 0.60
38 20 0.24
39 1 0.01
40 2 0.02
41 9 0.11
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (36 bp):
TATGTATATTATGTATGTTATGTATATATTACTATT
Found at i:92327324 original size:13 final size:13
Alignment explanation
Indices: 92327298--92327347 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
92327288 AAGGTCAGTT
*
92327298 TGTTA-GTATTTC
1 TGTTATGTATGTC
92327310 TGTTATGTATGTC
1 TGTTATGTATGTC
*
92327323 TGTTATGTATGTA
1 TGTTATGTATGTC
*
92327336 TATTATGTATGT
1 TGTTATGTATGT
92327348 TATGTATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
12 5 0.15
13 29 0.85
ACGTcount: A:0.20, C:0.04, G:0.20, T:0.56
Consensus pattern (13 bp):
TGTTATGTATGTC
Found at i:92327385 original size:13 final size:13
Alignment explanation
Indices: 92327312--92327385 Score: 57
Period size: 13 Copynumber: 5.8 Consensus size: 13
92327302 AGTATTTCTG
*
92327312 TTATGTATGTCTG
1 TTATGTATGTCTA
*
92327325 TTATGTATGTATA
1 TTATGTATGTCTA
92327338 TTATGTATGT-TA
1 TTATGTATGTCTA
92327350 TGTA--TAT-TACTA
1 T-TATGTATGT-CTA
* *
92327362 TTTATGCATGTGTA
1 -TTATGTATGTCTA
92327376 TTATGTATGT
1 TTATGTATGT
92327386 TATGTAATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
10 1 0.02
11 3 0.06
12 7 0.14
13 33 0.67
14 4 0.08
15 1 0.02
ACGTcount: A:0.24, C:0.04, G:0.18, T:0.54
Consensus pattern (13 bp):
TTATGTATGTCTA
Found at i:92327388 original size:22 final size:21
Alignment explanation
Indices: 92327317--92327389 Score: 66
Period size: 22 Copynumber: 3.6 Consensus size: 21
92327307 TTCTGTTATG
*
92327317 TATGTCTGTTATGTATGTATAT
1 TATGTATGTTATG-ATGTATAT
92327339 TATGTATG-T-T-ATGTATAT
1 TATGTATGTTATGATGTATAT
* *
92327357 TA-CTAT-TTATGCATGTGTAT
1 TATGTATGTTATG-ATGTATAT
92327377 TATGTATGTTATG
1 TATGTATGTTATG
92327390 TAATATATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
17 4 0.10
18 11 0.27
20 10 0.24
21 4 0.10
22 12 0.29
ACGTcount: A:0.25, C:0.04, G:0.18, T:0.53
Consensus pattern (21 bp):
TATGTATGTTATGATGTATAT
Found at i:92327409 original size:19 final size:19
Alignment explanation
Indices: 92327385--92327447 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
92327375 ATTATGTATG
92327385 TTATGTAATATATTACTGT
1 TTATGTAATATATTACTGT
* *
92327404 TTATGTATTTTATGTA-TG-
1 TTATGTAATATAT-TACTGT
* *
92327422 TTATGCAGTATATTACTGT
1 TTATGTAATATATTACTGT
92327441 TTATGTA
1 TTATGTA
92327448 TTTTATGTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 2 0.06
18 12 0.34
19 19 0.54
20 2 0.06
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.54
Consensus pattern (19 bp):
TTATGTAATATATTACTGT
Found at i:92327426 original size:37 final size:36
Alignment explanation
Indices: 92327330--92327465 Score: 168
Period size: 37 Copynumber: 3.7 Consensus size: 36
92327320 GTCTGTTATG
* *
92327330 TATGTATATTATGTATGTTATG--TATATTACTATT
1 TATGTATTTTATGTATGTTATGTATATATTACTGTT
*
92327364 TATGCATGTGTATTATGTATGTTATGTAATATATTACTGTT
1 TATG--TAT-T-TTATGTATGTTATGT-ATATATTACTGTT
*
92327405 TATGTATTTTATGTATGTTATGCAGTATATTACTGTT
1 TATGTATTTTATGTATGTTATGTA-TATATTACTGTT
92327442 TATGTATTTTATGTATGTTATGTA
1 TATGTATTTTATGTATGTTATGTA
92327466 GTGCTTATGT
Statistics
Matches: 88, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
34 4 0.05
36 3 0.03
37 49 0.56
38 15 0.17
39 2 0.02
41 15 0.17
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.54
Consensus pattern (36 bp):
TATGTATTTTATGTATGTTATGTATATATTACTGTT
Found at i:92327475 original size:11 final size:9
Alignment explanation
Indices: 92327310--92327477 Score: 83
Period size: 9 Copynumber: 19.1 Consensus size: 9
92327300 TTAGTATTTC
92327310 TGTTATGTA
1 TGTTATGTA
*
92327319 TG-TCTGTTA
1 TGTTATG-TA
92327328 TG-TATGTA
1 TGTTATGTA
*
92327336 TATTATGTA
1 TGTTATGTA
92327345 TGTTATGTA
1 TGTTATGTA
* *
92327354 TATTA-CTA
1 TGTTATGTA
*
92327362 T-TTATGCA
1 TGTTATGTA
92327370 TG---TGTA
1 TGTTATGTA
92327376 --TTATGTA
1 TGTTATGTA
92327383 TGTTATGTAA
1 TGTTATGT-A
*
92327393 T-ATAT-TA
1 TGTTATGTA
92327400 CTGTTTATGTA
1 -TG-TTATGTA
*
92327411 TTTTATGTA
1 TGTTATGTA
*
92327420 TGTTATGCA
1 TGTTATGTA
92327429 -GTATAT-TA
1 TGT-TATGTA
92327437 CTGTTTATGTA
1 -TG-TTATGTA
*
92327448 TTTTATGTA
1 TGTTATGTA
92327457 TGTTATGTA
1 TGTTATGTA
92327466 GTGCTTATGTA
1 -TG-TTATGTA
92327477 T
1 T
92327478 TATAACTAAT
Statistics
Matches: 121, Mismatches: 17, Indels: 41
0.68 0.09 0.23
Matches are distributed among these distances:
6 3 0.02
7 8 0.07
8 16 0.13
9 68 0.56
10 14 0.12
11 12 0.10
ACGTcount: A:0.24, C:0.04, G:0.17, T:0.54
Consensus pattern (9 bp):
TGTTATGTA
Found at i:92327615 original size:13 final size:13
Alignment explanation
Indices: 92327586--92327638 Score: 72
Period size: 13 Copynumber: 4.2 Consensus size: 13
92327576 TAAAAGGCCA
92327586 GTCTGTTA-GTAT
1 GTCTGTTATGTAT
*
92327598 TTCTGTTATGTAT
1 GTCTGTTATGTAT
92327611 GTCTGTTATGTAT
1 GTCTGTTATGTAT
* *
92327624 GTATATTATGTAT
1 GTCTGTTATGTAT
92327637 GT
1 GT
92327639 TATGTAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
12 7 0.19
13 29 0.81
ACGTcount: A:0.19, C:0.06, G:0.21, T:0.55
Consensus pattern (13 bp):
GTCTGTTATGTAT
Found at i:92327670 original size:37 final size:37
Alignment explanation
Indices: 92327621--92327717 Score: 149
Period size: 37 Copynumber: 2.6 Consensus size: 37
92327611 GTCTGTTATG
* **
92327621 TATGTATATTATGTATGTTATGTAATATATTGTTGTT
1 TATGTATTTTATGTATGTTATGTAATATATTACTGTT
**
92327658 TATGTATTTTATGTATGTTATACAATATATTACTGTT
1 TATGTATTTTATGTATGTTATGTAATATATTACTGTT
92327695 TATGTATTTTATGTATGTTATGT
1 TATGTATTTTATGTATGTTATGT
92327718 TACTGTTTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (37 bp):
TATGTATTTTATGTATGTTATGTAATATATTACTGTT
Found at i:92327732 original size:25 final size:25
Alignment explanation
Indices: 92327704--92327818 Score: 107
Period size: 25 Copynumber: 4.6 Consensus size: 25
92327694 TTATGTATTT
92327704 TATGTATGTTATGTTACTGTTTATG
1 TATGTATGTTATGTTACTGTTTATG
92327729 TATGTATGTTATGTTTACTACTGTTTATG
1 TATGTATGTTATG--T--TACTGTTTATG
* * *
92327758 TATGTTATGTT-TATTATTGTTTCTG
1 TATG-TATGTTATGTTACTGTTTATG
*
92327783 TATGAATG-TATG-TA-TG--TATG
1 TATGTATGTTATGTTACTGTTTATG
92327803 TATGTATGTTATGTTA
1 TATGTATGTTATGTTA
92327819 TGGTACTTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 19
0.74 0.07 0.19
Matches are distributed among these distances:
20 10 0.13
21 4 0.05
22 4 0.05
23 3 0.04
24 4 0.05
25 26 0.35
27 2 0.03
29 16 0.21
30 6 0.08
ACGTcount: A:0.22, C:0.03, G:0.19, T:0.56
Consensus pattern (25 bp):
TATGTATGTTATGTTACTGTTTATG
Found at i:92327767 original size:9 final size:9
Alignment explanation
Indices: 92327601--92327816 Score: 89
Period size: 9 Copynumber: 23.9 Consensus size: 9
92327591 TTAGTATTTC
92327601 TGTTATGTA
1 TGTTATGTA
*
92327610 TG-TCTGTTA
1 TGTTATG-TA
92327619 TG-TATGTA
1 TGTTATGTA
*
92327627 TATTATGTA
1 TGTTATGTA
92327636 TGTTATGTAA
1 TGTTATGT-A
*
92327646 T-ATATTGT-
1 TGTTA-TGTA
92327654 TGTTTATGTA
1 TG-TTATGTA
*
92327664 TTTTATGTA
1 TGTTATGTA
**
92327673 TGTTATACAA
1 TGTTAT-GTA
*
92327683 T-ATAT-TA
1 TGTTATGTA
92327690 CTGTTTATGTA
1 -TG-TTATGTA
*
92327701 TTTTATGTA
1 TGTTATGTA
92327710 TGTTATGTTA
1 TGTTATG-TA
92327720 CTGTTTATGTA
1 -TG-TTATGTA
92327731 TG-TATGTTA
1 TGTTATG-TA
*
92327740 TGTT-TACTA
1 TGTTAT-GTA
92327749 CTGTTTATGTA
1 -TG-TTATGTA
*
92327760 TGTTATGTT
1 TGTTATGTA
* *
92327769 TATTAT-TG
1 TGTTATGTA
*
92327777 T-TTCTGTA
1 TGTTATGTA
*
92327785 TG-AATGTA
1 TGTTATGTA
92327793 TG-TATGTA
1 TGTTATGTA
92327801 TG-TATGTA
1 TGTTATGTA
92327809 TGTTATGT
1 TGTTATGT
92327817 TATGGTACTT
Statistics
Matches: 158, Mismatches: 25, Indels: 48
0.68 0.11 0.21
Matches are distributed among these distances:
7 4 0.03
8 37 0.23
9 78 0.49
10 23 0.15
11 10 0.06
12 6 0.04
ACGTcount: A:0.23, C:0.03, G:0.18, T:0.56
Consensus pattern (9 bp):
TGTTATGTA
Found at i:92327768 original size:30 final size:31
Alignment explanation
Indices: 92327683--92327768 Score: 115
Period size: 30 Copynumber: 2.9 Consensus size: 31
92327673 TGTTATACAA
* *
92327683 TATATTACTGTTTATGTATTTTATG-TATGT
1 TATACTACTGTTTATGTATGTTATGTTATGT
**
92327713 TATGTTACTGTTTATGTATG-TATGTTATGT
1 TATACTACTGTTTATGTATGTTATGTTATGT
92327743 T-TACTACTGTTTATGTATGTTATGTT
1 TATACTACTGTTTATGTATGTTATGTT
92327769 TATTATTGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.40
30 30 0.60
ACGTcount: A:0.21, C:0.05, G:0.16, T:0.58
Consensus pattern (31 bp):
TATACTACTGTTTATGTATGTTATGTTATGT
Found at i:92327786 original size:29 final size:28
Alignment explanation
Indices: 92327685--92327795 Score: 120
Period size: 25 Copynumber: 4.0 Consensus size: 28
92327675 TTATACAATA
*
92327685 TATTACTGTTTATGTATTTTATGTATGTT
1 TATTACTGTTTATGTA-TGTATGTATGTT
*
92327714 ATGTTACTGTTTATGTATGTATGTTATGTT
1 -TATTACTGTTTATGTATGTATG-TATGTT
*
92327744 TACTACTGTTTATGTATG--T-TATGTT
1 TATTACTGTTTATGTATGTATGTATGTT
* * *
92327769 TATTATTGTTTCTGTATGAATGTATGT
1 TATTACTGTTTATGTATGTATGTATGT
92327796 ATGTATGTAT
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
25 21 0.30
27 2 0.03
28 5 0.07
29 21 0.30
30 21 0.30
ACGTcount: A:0.21, C:0.05, G:0.17, T:0.58
Consensus pattern (28 bp):
TATTACTGTTTATGTATGTATGTATGTT
Found at i:92327797 original size:4 final size:4
Alignment explanation
Indices: 92327781--92327816 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
92327771 TTATTGTTTC
*
92327781 TGTA TGAA TGTA TGTA TGTA TGTA TGTA TGTTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG-TA TGT
92327817 TATGGTACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:92327865 original size:21 final size:20
Alignment explanation
Indices: 92327848--92327892 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
92327838 TAATATGTAT
92327848 GTTTATCATGTATGTATGTTACA
1 GTTTAT-AT-TATGTATG-TACA
*
92327871 GTTTATATTATGTATGTGCA
1 GTTTATATTATGTATGTACA
92327891 GT
1 GT
92327893 GTTTTATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 2 0.10
23 6 0.29
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (20 bp):
GTTTATATTATGTATGTACA
Found at i:92335050 original size:16 final size:16
Alignment explanation
Indices: 92335029--92335062 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
92335019 GACACACACA
92335029 TTATTTAGCTTTAGGT
1 TTATTTAGCTTTAGGT
**
92335045 TTATTTTTCTTTAGGT
1 TTATTTAGCTTTAGGT
92335061 TT
1 TT
92335063 TCTTTAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.15, T:0.65
Consensus pattern (16 bp):
TTATTTAGCTTTAGGT
Found at i:92341365 original size:26 final size:26
Alignment explanation
Indices: 92341329--92341438 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
92341319 TGATACAAAT
92341329 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
92341355 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
92341381 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
92341407 TGATAAT-GAGTTAGGTAAATGTTTCA
1 TGATAATAG-GTTAGGTAAATGTTCCA
92341433 TGATAA
1 TGATAA
92341439 GAATTTCATG
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 1 0.01
26 80 0.99
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:92343099 original size:27 final size:27
Alignment explanation
Indices: 92343058--92343197 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
92343048 GAGGAAGCGT
*
92343058 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
92343085 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
92343112 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
92343139 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
92343167 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
92343193 TCTGG
1 TCTGG
92343198 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:92343143 original size:54 final size:55
Alignment explanation
Indices: 92343058--92343197 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 55
92343048 GAGGAAGCGT
* * *
92343058 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
92343112 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
92343167 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
92343198 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:92346966 original size:2 final size:2
Alignment explanation
Indices: 92346959--92346988 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
92346949 ATATGTATTT
92346959 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
92346989 CATTAATGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:92350050 original size:23 final size:24
Alignment explanation
Indices: 92350022--92350082 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 24
92350012 TCGGCTCTAT
92350022 TGAGCTTCCTGTTATAGC-CTGGA
1 TGAGCTTCCTGTTATAGCTCTGGA
* * * **
92350045 TTAGCTTCCTGATATTGCTCTTTA
1 TGAGCTTCCTGTTATAGCTCTGGA
92350069 TGAGCTTCCTGTTA
1 TGAGCTTCCTGTTA
92350083 AATAGCTCGA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 15 0.50
24 15 0.50
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.43
Consensus pattern (24 bp):
TGAGCTTCCTGTTATAGCTCTGGA
Found at i:92350371 original size:46 final size:46
Alignment explanation
Indices: 92350319--92350546 Score: 269
Period size: 46 Copynumber: 5.0 Consensus size: 46
92350309 AGTGTGCTCT
* *
92350319 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATTGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
92350365 CTGATATGAAATGTGTAAGACCATGGCTGAAAGATATTATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
92350411 CTGATATGAAATGAATATGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * *
92350457 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
92350503 GTGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
92350547 TCATGTCAAA
Statistics
Matches: 159, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 1 0.01
46 158 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:92356579 original size:8 final size:8
Alignment explanation
Indices: 92356568--92356599 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
92356558 TTAAACTCTT
92356568 AAATATAA
1 AAATATAA
92356576 AAATATAA
1 AAATATAA
92356584 AAATATAA
1 AAATATAA
92356592 AAAT-TAA
1 AAATATAA
92356599 A
1 A
92356600 TTCTGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.17
8 20 0.83
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AAATATAA
Found at i:92357150 original size:21 final size:21
Alignment explanation
Indices: 92357126--92357165 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
92357116 TAAAATAAAC
92357126 AAAAGTAGTAAA-AGAATATTA
1 AAAAGTA-TAAAGAGAATATTA
*
92357147 AAAATTATAAAGAGAATAT
1 AAAAGTATAAAGAGAATAT
92357166 GAATTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (21 bp):
AAAAGTATAAAGAGAATATTA
Found at i:92358594 original size:15 final size:16
Alignment explanation
Indices: 92358557--92358609 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 16
92358547 TTTAAAAATA
92358557 TTTATATTATATATTTT
1 TTTAT-TTATATATTTT
**
92358574 AATATTTA-ATATTTT
1 TTTATTTATATATTTT
* *
92358589 TTTATTTATAAAATTT
1 TTTATTTATATATTTT
92358605 TTTAT
1 TTTAT
92358610 ATAGTAATCT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 13 0.45
16 13 0.45
17 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTATTTATATATTTT
Found at i:92359119 original size:2 final size:2
Alignment explanation
Indices: 92359112--92359139 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
92359102 TTCATCTATG
92359112 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
92359140 ACAATTAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:92360728 original size:12 final size:13
Alignment explanation
Indices: 92360701--92360733 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
92360691 AAATCAAGCC
92360701 TAATATTATTATAT
1 TAATATTA-TATAT
92360715 TAATATTA-ATAT
1 TAATATTATATAT
92360727 TAATATT
1 TAATATT
92360734 TATTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
14 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TAATATTATATAT
Found at i:92363057 original size:13 final size:13
Alignment explanation
Indices: 92363041--92363078 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
92363031 AAAATTCTTT
92363041 TAATATTTTATTA
1 TAATATTTTATTA
*
92363054 TAAT-TTTCATTTA
1 TAATATTTTA-TTA
92363067 TAATATTTTATT
1 TAATATTTTATT
92363079 GATACAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 4 0.19
13 13 0.62
14 4 0.19
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (13 bp):
TAATATTTTATTA
Found at i:92363345 original size:30 final size:30
Alignment explanation
Indices: 92363311--92363367 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
92363301 AAAAGCCAAT
*
92363311 TGATTTTAATGTTTA-ATTTTTTTCAAAAAG
1 TGATTTTAA-GTTTATATGTTTTTCAAAAAG
*
92363341 TGATTTTGAGTTTATATGTTTTTCAAA
1 TGATTTTAAGTTTATATGTTTTTCAAA
92363368 TCTCAATTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (30 bp):
TGATTTTAAGTTTATATGTTTTTCAAAAAG
Found at i:92363957 original size:22 final size:22
Alignment explanation
Indices: 92363922--92364002 Score: 83
Period size: 22 Copynumber: 3.6 Consensus size: 22
92363912 TACACACTGC
*
92363922 ATTTGTGGAAAAACCACCAGTA
1 ATTTGTAGAAAAACCACCAGTA
* * *
92363944 ATTTGTAGATAAACTACTAGTAAA
1 ATTTGTAGAAAAACCACCAGT--A
*
92363968 AATTGT-GAAAAACCACCAGTA
1 ATTTGTAGAAAAACCACCAGTA
*
92363989 ATTTGTAGATAAAC
1 ATTTGTAGAAAAAC
92364003 TGTTAGTAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
21 6 0.13
22 23 0.50
23 11 0.24
24 6 0.13
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (22 bp):
ATTTGTAGAAAAACCACCAGTA
Found at i:92363989 original size:45 final size:46
Alignment explanation
Indices: 92363924--92364046 Score: 180
Period size: 45 Copynumber: 2.7 Consensus size: 46
92363914 CACACTGCAT
92363924 TTGTGGAAAAACCACCAGTAATTTGTAGATAAACTACTAGTAAAAA
1 TTGTGGAAAAACCACCAGTAATTTGTAGATAAACTACTAGTAAAAA
**
92363970 TTGT-GAAAAACCACCAGTAATTTGTAGATAAACTGTTAGTAAAAA
1 TTGTGGAAAAACCACCAGTAATTTGTAGATAAACTACTAGTAAAAA
* *
92364015 TTGTGGATAAACCACTAGT-ATTT-TCAGATAAA
1 TTGTGGAAAAACCACCAGTAATTTGT-AGATAAA
92364047 AAGTTTGCAG
Statistics
Matches: 71, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
44 1 0.01
45 54 0.76
46 16 0.23
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.29
Consensus pattern (46 bp):
TTGTGGAAAAACCACCAGTAATTTGTAGATAAACTACTAGTAAAAA
Found at i:92364033 original size:24 final size:23
Alignment explanation
Indices: 92363932--92364034 Score: 77
Period size: 24 Copynumber: 4.5 Consensus size: 23
92363922 ATTTGTGGAA
* *
92363932 AAACCACCAGT-AATTTGTAGAT
1 AAACCACTAGTAAAATTGTAGAT
* *
92363954 AAACTACTAGTAAAAATTGT-GAA
1 AAACCACTAGT-AAAATTGTAGAT
* *
92363977 AAACCACCAGT-AATTTGTAGAT
1 AAACCACTAGTAAAATTGTAGAT
*** *
92363999 AAACTGTTAGTAAAAATTGTGGAT
1 AAACCACTAGT-AAAATTGTAGAT
92364023 AAACCACTAGTA
1 AAACCACTAGTA
92364035 TTTTCAGATA
Statistics
Matches: 59, Mismatches: 17, Indels: 9
0.69 0.20 0.11
Matches are distributed among these distances:
21 6 0.10
22 18 0.31
23 12 0.20
24 23 0.39
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.27
Consensus pattern (23 bp):
AAACCACTAGTAAAATTGTAGAT
Found at i:92368302 original size:2 final size:2
Alignment explanation
Indices: 92368295--92368321 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
92368285 TAATCATTAA
92368295 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
92368322 CACACATACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:92376116 original size:17 final size:17
Alignment explanation
Indices: 92376096--92376131 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
92376086 TAATTAGTTA
92376096 AATT-AATTAATTTTCTC
1 AATTAAATT-ATTTTCTC
92376113 AATTAAATTATTTTCTC
1 AATTAAATTATTTTCTC
92376130 AA
1 AA
92376132 CCCAATTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTAAATTATTTTCTC
Found at i:92376635 original size:21 final size:21
Alignment explanation
Indices: 92376611--92376652 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
92376601 CTTAACCTTT
92376611 TTTGGGATAAAATTCGTTATC
1 TTTGGGATAAAATTCGTTATC
*
92376632 TTTGGGATAAAATTTGTTATC
1 TTTGGGATAAAATTCGTTATC
92376653 CCAATGTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.45
Consensus pattern (21 bp):
TTTGGGATAAAATTCGTTATC
Found at i:92380912 original size:13 final size:13
Alignment explanation
Indices: 92380894--92380922 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
92380884 CATAACAAAT
92380894 CTAAAAGAAGTAG
1 CTAAAAGAAGTAG
92380907 CTAAAAGAAGTAG
1 CTAAAAGAAGTAG
92380920 CTA
1 CTA
92380923 CCAACACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.10, G:0.21, T:0.17
Consensus pattern (13 bp):
CTAAAAGAAGTAG
Found at i:92395523 original size:2 final size:2
Alignment explanation
Indices: 92395516--92395543 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
92395506 TATTTACCAA
92395516 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
92395544 TTTAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92397761 original size:5 final size:5
Alignment explanation
Indices: 92397751--92397776 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
92397741 ATCTTTTACT
92397751 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
92397777 GTTTTTTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:92401296 original size:27 final size:27
Alignment explanation
Indices: 92401265--92401353 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
92401255 ATCTTGACTC
*
92401265 GAAAAATAGCATGACTCAAATTTATTT
1 GAAAAATAGAATGACTCAAATTTATTT
* * * * ** *
92401292 GAAAAATTAAAATAAATAAAATCAATTC
1 GAAAAA-TAGAATGACTCAAATTTATTT
92401320 GAAAAATAGAATGACTCAAATTTATTT
1 GAAAAATAGAATGACTCAAATTTATTT
92401347 GAAAAAT
1 GAAAAAT
92401354 TAAAATAAAT
Statistics
Matches: 46, Mismatches: 15, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
27 27 0.59
28 19 0.41
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.29
Consensus pattern (27 bp):
GAAAAATAGAATGACTCAAATTTATTT
Found at i:92401313 original size:28 final size:28
Alignment explanation
Indices: 92401282--92401368 Score: 104
Period size: 28 Copynumber: 3.1 Consensus size: 28
92401272 AGCATGACTC
92401282 AAATTTATTTGAAAAATTAAAATAAATA
1 AAATTTATTTGAAAAATTAAAATAAATA
** * * * * *
92401310 AAATCAATTCGAAAAA-TAGAATGACTC
1 AAATTTATTTGAAAAATTAAAATAAATA
92401337 AAATTTATTTGAAAAATTAAAATAAATA
1 AAATTTATTTGAAAAATTAAAATAAATA
92401365 AAAT
1 AAAT
92401369 CAATTAATTA
Statistics
Matches: 44, Mismatches: 14, Indels: 2
0.73 0.23 0.03
Matches are distributed among these distances:
27 20 0.45
28 24 0.55
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.31
Consensus pattern (28 bp):
AAATTTATTTGAAAAATTAAAATAAATA
Found at i:92401324 original size:55 final size:55
Alignment explanation
Indices: 92401263--92401373 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
92401253 AAATCTTGAC
*
92401263 TCGAAAAATAGCATGACTCAAATTTATTTGAAAAATTAAAATAAATAAAATCAAT
1 TCGAAAAATAGAATGACTCAAATTTATTTGAAAAATTAAAATAAATAAAATCAAT
92401318 TCGAAAAATAGAATGACTCAAATTTATTTGAAAAATTAAAATAAATAAAATCAAT
1 TCGAAAAATAGAATGACTCAAATTTATTTGAAAAATTAAAATAAATAAAATCAAT
92401373 T
1 T
92401374 AATTAAGAAT
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:0.55, C:0.08, G:0.07, T:0.30
Consensus pattern (55 bp):
TCGAAAAATAGAATGACTCAAATTTATTTGAAAAATTAAAATAAATAAAATCAAT
Found at i:92405306 original size:22 final size:23
Alignment explanation
Indices: 92405276--92405321 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
92405266 TGAATAATTT
92405276 TAATACTTTTAAAATTTTTAAAA
1 TAATACTTTTAAAATTTTTAAAA
* *
92405299 TAAT-CTTTTGAATTTTTTAAAA
1 TAATACTTTTAAAATTTTTAAAA
92405321 T
1 T
92405322 TTAAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (23 bp):
TAATACTTTTAAAATTTTTAAAA
Found at i:92407668 original size:48 final size:49
Alignment explanation
Indices: 92407595--92407690 Score: 153
Period size: 48 Copynumber: 2.0 Consensus size: 49
92407585 AAAATCTAAG
92407595 ATTTTATGTTTAATATATTATTATTATATTAT-TATATAAA-TAAAGAT
1 ATTTTATGTTTAATATATTATTATTATATTATATATATAAACTAAAGAT
92407642 ATTTTATGTTTTAATTATATTA-TATTATATTATATATATAAACTAAAGA
1 ATTTTATG-TTTAA-TATATTATTATTATATTATATATATAAACTAAAGA
92407691 AACAAAAGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
47 8 0.18
48 16 0.36
49 15 0.33
50 6 0.13
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (49 bp):
ATTTTATGTTTAATATATTATTATTATATTATATATATAAACTAAAGAT
Found at i:92407744 original size:5 final size:5
Alignment explanation
Indices: 92407734--92407767 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
92407724 GACGAAACAG
92407734 AAAGA AAAG- AAA-A AAAGA AAAGA AAAGA AAAGA A
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA A
92407768 GAAATTTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 6 0.22
5 21 0.78
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:92407757 original size:18 final size:18
Alignment explanation
Indices: 92407734--92407771 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
92407724 GACGAAACAG
92407734 AAAGAAAAGAAAAAAAGA
1 AAAGAAAAGAAAAAAAGA
*
92407752 AAAGAAAAGAAAAGAAGA
1 AAAGAAAAGAAAAAAAGA
92407770 AA
1 AA
92407772 TTTAGGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAGAAAAGAAAAAAAGA
Found at i:92407771 original size:13 final size:13
Alignment explanation
Indices: 92407734--92407759 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
92407724 GACGAAACAG
92407734 AAAGAAAAGAAAA
1 AAAGAAAAGAAAA
92407747 AAAGAAAAGAAAA
1 AAAGAAAAGAAAA
92407760 GAAAAGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGAAAA
Found at i:92408574 original size:37 final size:37
Alignment explanation
Indices: 92408525--92408596 Score: 85
Period size: 37 Copynumber: 1.9 Consensus size: 37
92408515 CATGATAAGT
**
92408525 ATTAGTATTGAATTGTATGAAAT-CAAATTGAATTGTG
1 ATTAGTATTGAATAAT-TGAAATGCAAATTGAATTGTG
*
92408562 ATTA-TATGTGAATAATTGAAATGCATATTGAATTG
1 ATTAGTAT-TGAATAATTGAAATGCAAATTGAATTG
92408597 AGAAAGTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
36 9 0.30
37 21 0.70
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.40
Consensus pattern (37 bp):
ATTAGTATTGAATAATTGAAATGCAAATTGAATTGTG
Found at i:92415075 original size:29 final size:29
Alignment explanation
Indices: 92415043--92415178 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
92415033 ATACCCTTCG
** * *
92415043 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
92415072 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
92415101 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
92415130 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
92415159 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
92415179 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:92415170 original size:58 final size:58
Alignment explanation
Indices: 92415018--92415177 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 58
92415008 AATTTAAGCC
* *** * * ** * *
92415018 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
92415076 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
92415134 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
92415178 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:92417791 original size:35 final size:35
Alignment explanation
Indices: 92417764--92417929 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
92417754 CATGGCAAAG
*
92417764 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
92417799 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
92417834 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
92417874 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
92417909 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
92417930 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:92417883 original size:75 final size:75
Alignment explanation
Indices: 92417764--92417934 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
92417754 CATGGCAAAG
** *
92417764 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
92417823 CCATACTGAGC
65 CCATACCGAGC
92417834 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
92417899 CATACCGAGT
66 CATACCGAGC
**
92417909 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
92417935 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:92421581 original size:26 final size:27
Alignment explanation
Indices: 92421545--92421598 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
92421535 GTATATATAT
*
92421545 TTTTAATA-TTTAAATAAATCAAA-ATC
1 TTTTAAAATTTTAAA-AAATCAAAGATC
92421571 TTTTAAAATTTTAAAAAATCAAAGATC
1 TTTTAAAATTTTAAAAAATCAAAGATC
92421598 T
1 T
92421599 AAACTGATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (27 bp):
TTTTAAAATTTTAAAAAATCAAAGATC
Found at i:92422267 original size:30 final size:31
Alignment explanation
Indices: 92422233--92422338 Score: 110
Period size: 30 Copynumber: 3.5 Consensus size: 31
92422223 TTTTATTTAT
*
92422233 ATTAATTATTTAAATAAT-ATATAAAATTAA
1 ATTAATTATTTAAATAATCATATATAATTAA
* * * *
92422263 ATTAAATTATTTAAATATTTCATGTATCATTAT
1 ATT-AATTATTTAAATA-ATCATATATAATTAA
* *
92422296 ATTAATTATTTAAA-AATCATTTATTATTAA
1 ATTAATTATTTAAATAATCATATATAATTAA
92422326 ATTAATT-TTTAAA
1 ATTAATTATTTAAA
92422339 ATATAATTTA
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
29 6 0.09
30 21 0.33
31 14 0.22
32 12 0.19
33 11 0.17
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (31 bp):
ATTAATTATTTAAATAATCATATATAATTAA
Found at i:92422348 original size:30 final size:30
Alignment explanation
Indices: 92422258--92422398 Score: 121
Period size: 30 Copynumber: 4.6 Consensus size: 30
92422248 AATATATAAA
* * *
92422258 ATTAAATTAAATTATTTAAATATTTCATGTATC
1 ATTAAATT-AATT-TTTAAA-ATATCATTTATT
*
92422291 ATTATATTAATTATTTAAAA-ATCATTTATT
1 ATTAAATTAATT-TTTAAAATATCATTTATT
*
92422321 ATTAAATTAATTTTTAAAATATAATTTATT
1 ATTAAATTAATTTTTAAAATATCATTTATT
*
92422351 ATTATATATAAGTTTTTAAAATAT--TTTA-T
1 ATTAAAT-TAA-TTTTTAAAATATCATTTATT
92422380 A-TAACATTAATTTTATAAA
1 ATTAA-ATTAATTTT-TAAA
92422399 TAATGTATAT
Statistics
Matches: 95, Mismatches: 8, Indels: 15
0.81 0.07 0.13
Matches are distributed among these distances:
27 4 0.04
28 9 0.09
29 11 0.12
30 37 0.39
31 4 0.04
32 23 0.24
33 7 0.07
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (30 bp):
ATTAAATTAATTTTTAAAATATCATTTATT
Found at i:92422379 original size:60 final size:59
Alignment explanation
Indices: 92422229--92422400 Score: 163
Period size: 63 Copynumber: 2.8 Consensus size: 59
92422219 TATTTTTTAT
* * * *
92422229 TTATATTAATTATTTAAATAATATATAAAATTAAATTAAATTATTTAAATATTTCATGTATCA
1 TTATATTAATTATTTAAA-AATAT-TTATATTAAATT-AATT-TTTAAATATATAATGTATCA
* *
92422292 TTATATTAATTATTTAAAAATCATTTATTATTAAATTAATTTTTAAA-ATATAATTTATTA
1 TTATATTAATTATTTAAAAAT-ATTTA-TATTAAATTAATTTTTAAATATATAATGTATCA
92422352 TTATATATAAGTT-TTT-AAAATATTT-TATATAACATTAATTTTATAAATA
1 TTATAT-TAA-TTATTTAAAAATATTTATAT-TAA-ATTAATTTT-TAAATA
92422401 ATGTATATCA
Statistics
Matches: 95, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
57 3 0.03
58 3 0.03
59 13 0.14
60 24 0.25
61 13 0.14
62 11 0.12
63 28 0.29
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (59 bp):
TTATATTAATTATTTAAAAATATTTATATTAAATTAATTTTTAAATATATAATGTATCA
Found at i:92422399 original size:27 final size:25
Alignment explanation
Indices: 92422364--92422417 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
92422354 ATATATAAGT
* *
92422364 TTTTAAAATATTTTATATAACATTAA
1 TTTTAAAATAATGTATATAA-ATTAA
*
92422390 TTTTATAAATAATGTATATCAATTAA
1 TTTTA-AAATAATGTATATAAATTAA
92422416 TT
1 TT
92422418 AAAATATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (25 bp):
TTTTAAAATAATGTATATAAATTAA
Found at i:92428546 original size:27 final size:27
Alignment explanation
Indices: 92428516--92428567 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
92428506 CCGCCATGAG
92428516 TTGCCGGTTAGCAGTACCGATGAACAA
1 TTGCCGGTTAGCAGTACCGATGAACAA
92428543 TTGCCGGTTAGCAGTACCGATGAAC
1 TTGCCGGTTAGCAGTACCGATGAAC
92428568 TATCTAGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (27 bp):
TTGCCGGTTAGCAGTACCGATGAACAA
Found at i:92430558 original size:10 final size:9
Alignment explanation
Indices: 92430542--92430658 Score: 53
Period size: 10 Copynumber: 12.8 Consensus size: 9
92430532 TAAAAGAAGC
92430542 ATAAAAATT
1 ATAAAAATT
92430551 ATTAAAAATT
1 A-TAAAAATT
*
92430561 ACAAAAA-T
1 ATAAAAATT
92430569 ATAAGAAATT
1 ATAA-AAATT
*
92430579 ACAGAAAATT
1 ATA-AAAATT
*
92430589 ATTAAAAATA
1 A-TAAAAATT
**
92430599 ATAGGAATT
1 ATAAAAATT
**
92430608 -TACAAAAAA
1 ATA-AAAATT
* *
92430617 ATATATA-T
1 ATAAAAATT
*
92430625 ATAAAAATG
1 ATAAAAATT
92430634 ATATAAAATT
1 ATA-AAAATT
*
92430644 ATGAAAA-T
1 ATAAAAATT
92430652 ATAAAAA
1 ATAAAAA
92430659 AAACTATAAT
Statistics
Matches: 78, Mismatches: 21, Indels: 19
0.66 0.18 0.16
Matches are distributed among these distances:
8 18 0.23
9 25 0.32
10 33 0.42
11 2 0.03
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (9 bp):
ATAAAAATT
Found at i:92430722 original size:18 final size:19
Alignment explanation
Indices: 92430684--92430723 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
92430674 TTCTAAGTAT
*
92430684 TAAAAAGTACAAAATATTA
1 TAAAAAGTACAAAATACTA
92430703 TAAAAAGTACAAAA-ACTA
1 TAAAAAGTACAAAATACTA
92430721 TAA
1 TAA
92430724 TTCTTTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (19 bp):
TAAAAAGTACAAAATACTA
Found at i:92431042 original size:18 final size:17
Alignment explanation
Indices: 92431002--92431059 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
92430992 TATTTATATA
*
92431002 TATTTATAAATTTTTGT
1 TATTTATAAATTTTTAT
*
92431019 AAATTTATAAATCTTTTAT
1 -TATTTATAAAT-TTTTAT
*
92431038 TATTTTTAGAATTTTTA-
1 TATTTATA-AATTTTTAT
92431055 TATTT
1 TATTT
92431060 TTTTATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
17 5 0.15
18 21 0.62
19 8 0.24
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (17 bp):
TATTTATAAATTTTTAT
Found at i:92431081 original size:19 final size:19
Alignment explanation
Indices: 92431035--92431074 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
92431025 ATAAATCTTT
*
92431035 TATTATTTTTAGAATTTTTA
1 TATT-TTTTTAGAATTTATA
*
92431055 TATTTTTTTATAATTTATA
1 TATTTTTTTAGAATTTATA
92431074 T
1 T
92431075 TCTTTTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TATTTTTTTAGAATTTATA
Found at i:92436684 original size:36 final size:36
Alignment explanation
Indices: 92436615--92436688 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
92436605 ATTTTGTCTC
*
92436615 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
92436652 TTTCTTA-ATTTATTTTGCTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
92436688 T
1 T
92436689 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:92436693 original size:18 final size:17
Alignment explanation
Indices: 92436642--92436689 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
92436632 TTTTTTAAGT
*
92436642 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
* *
92436660 TTTATTTTGCTTATTTAA
1 TTTATATT-ATTATTTAA
92436678 TTTATATTATTA
1 TTTATATTATTA
92436690 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Done.