Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 371 of 427
Found at i:107652606 original size:38 final size:38
Alignment explanation
Indices: 107652524--107652752 Score: 314
Period size: 38 Copynumber: 6.0 Consensus size: 38
107652514 GAATCCAGTC
* * *
107652524 ACCAGCACAAAGCCTGCGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGAC-TTAA-CCCAGATATATT
* * * *
107652564 ACCAGCACTAAGCCTGCAGGATTTAACCAAGATATATT
1 ACCAGCACGAAGCCTGCGGGACTTAACCCAGATATATT
* *
107652602 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGACTTAACCCAGATATATT
*
107652640 ACCAGCACGAAGCTTGCGGGACTTAACCCAGATATATT
1 ACCAGCACGAAGCCTGCGGGACTTAACCCAGATATATT
** *
107652678 ACCAGCACGAAGCCTGTAGGACTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGACTTAACCCAGATATATT
*
107652716 ACCAGCATGAAGCCTGCGGGACTTAACCCAGATATAT
1 ACCAGCACGAAGCCTGCGGGACTTAACCCAGATATAT
107652753 ATCGAGTGCT
Statistics
Matches: 168, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
38 145 0.86
39 4 0.02
40 19 0.11
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGACTTAACCCAGATATATT
Found at i:107660100 original size:38 final size:39
Alignment explanation
Indices: 107660055--107660205 Score: 204
Period size: 38 Copynumber: 4.0 Consensus size: 39
107660045 AAATGCAGTC
* * *
107660055 ACCAGCACAAAGCCTGCGAGACTTTAAGCTCGGATA-A-T
1 ACCAGCACGAAGCCTGCGGGACTTTAA-CCCGGATATATT
* *
107660093 ACCAGCACTAAGCCTGTGGGA-TTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATATT
107660131 ACCAGCACGAAGCCTGCGGGAC-TTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATATT
*
107660169 ACCAGCACGAAGCCTGCGGGAC-TTAACCCAGATATAT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATAT
107660206 ATCGAGTGCT
Statistics
Matches: 103, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
36 7 0.07
37 6 0.06
38 90 0.87
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (39 bp):
ACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATATT
Found at i:107666677 original size:40 final size:40
Alignment explanation
Indices: 107666567--107666690 Score: 189
Period size: 39 Copynumber: 3.1 Consensus size: 40
107666557 ACCCAAGTAT
* *
107666567 CTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
*
107666606 CTTCGGGTCTTAGCCC-GATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
107666645 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
107666685 CTTCGG
1 CTTCGG
107666691 ATCTTAGTCC
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 47 0.61
40 30 0.39
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:107674560 original size:40 final size:40
Alignment explanation
Indices: 107674493--107674669 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
107674483 ACCCAAGTAT
*
107674493 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
107674532 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
107674572 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
107674612 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
107674652 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
107674670 TTATCATCCG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 104 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:107677777 original size:43 final size:38
Alignment explanation
Indices: 107677667--107677745 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
107677657 CACATATCGT
107677667 ACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATC
1 ACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATC
*
107677705 ACAATGCCAACGTCCCAGATGTGGTCTTACATGTAATC
1 ACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATC
107677743 ACA
1 ACA
107677746 TATCGATGCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (38 bp):
ACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATC
Found at i:107677830 original size:56 final size:56
Alignment explanation
Indices: 107677770--107677962 Score: 316
Period size: 56 Copynumber: 3.4 Consensus size: 56
107677760 TCCCAGACAA
* * **
107677770 GGTCTTACTTGCACACATATAACGGAATCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATTAAACGT
107677826 GGTCTTACTCGCACACATATATCGGAATCACATATCGAT-CGCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGC-CAACATATTAAACGT
* *
107677882 AGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATTAAACGT
107677938 GGTCTTACTCGCACACATATATCGG
1 GGTCTTACTCGCACACATATATCGG
107677963 TGTCATGGCC
Statistics
Matches: 127, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
55 1 0.01
56 125 0.98
57 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATTAAACGT
Found at i:107684840 original size:56 final size:56
Alignment explanation
Indices: 107684780--107684970 Score: 258
Period size: 56 Copynumber: 3.4 Consensus size: 56
107684770 TCCTAGACAA
* * * * *
107684780 GGTCTTACTTGCACACATATGA-CGGAATCACATATCAATGCCAATGTATTAAATGT
1 GGTCTTACTCGCACACATAT-ATCAGAATCACATATCGATGCCAACGTATTAAACGT
* * *
107684836 GGTCTTACTCACATACATATATCAGAATCACATATCGATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* * *
107684892 GGTCTTACTTGCACACATATATCAAAATCATATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
*
107684948 GATCTTACTCGCACACATATATC
1 GGTCTTACTCGCACACATATATC
107684971 GATGCCATGG
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
55 1 0.01
56 117 0.99
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.30
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:107693007 original size:2 final size:2
Alignment explanation
Indices: 107693000--107693028 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
107692990 AACCGTCCAT
107693000 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
107693029 TTCCCTCCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:107705648 original size:13 final size:13
Alignment explanation
Indices: 107705630--107705655 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107705620 ACGAACATGC
107705630 ACATGGCTGTGCG
1 ACATGGCTGTGCG
107705643 ACATGGCTGTGCG
1 ACATGGCTGTGCG
107705656 CACCACACGT
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:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (13 bp):
ACATGGCTGTGCG
Found at i:107707825 original size:40 final size:40
Alignment explanation
Indices: 107707421--107707813 Score: 545
Period size: 40 Copynumber: 9.8 Consensus size: 40
107707411 CGAATACACG
* * * *
107707421 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** ** *
107707461 ACACCAGCACGAATGCTCTTCGGGGTTTAGTACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
107707501 TCACTAGTACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
107707541 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
107707581 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
107707621 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
107707661 TCACTAGCATGAATGCTCTTCGGGATTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
** *
107707701 TCACTAGCACAAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
107707741 TCACTAGCATGAATGCTCTTCGGGACTTAGCCTAGG-TACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCC-CGGATACA
107707781 TCACTAGCATGAATGCTCTTCGGGACTTAGCCC
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCC
107707814 AGGTATATCA
Statistics
Matches: 316, Mismatches: 36, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
40 314 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:107709321 original size:47 final size:47
Alignment explanation
Indices: 107709252--107709565 Score: 529
Period size: 47 Copynumber: 6.7 Consensus size: 47
107709242 TTCGGGACTT
* * *
107709252 ATCACATCGGCCTTTAGGCCTTATCACATATATACGCTTCCACATTC
1 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
* *
107709299 ATCACATGGGCCATTCGGCCTTATCACATATATACACTTTCACATTC
1 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
* *
107709346 ATCACATCGGCCATTCGGCCTTATCACATATATGCACTTTCACATTC
1 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
107709393 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
1 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
*
107709440 GTCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
1 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
107709487 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
1 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
* * *
107709534 ATCACATTGGCCATTCGGTCTTATCACATATA
1 ATCACATCGGCCATTAGGCCTTATCACATATA
107709566 CTATCATGTA
Statistics
Matches: 253, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 253 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
Found at i:107710840 original size:2 final size:2
Alignment explanation
Indices: 107710833--107710885 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
107710823 TTAATCGTTA
107710833 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
107710875 AT AT AT AT AT A
1 AT AT AT AT AT A
107710886 GCATTAACAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:107722546 original size:21 final size:21
Alignment explanation
Indices: 107722506--107722555 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
107722496 CTGTTCCCAT
*
107722506 GGCCATGTCCTTGGTCCACAC
1 GGCCATGTCCTTAGTCCACAC
*
107722527 GGGCATGTACCTTAGT-CACAC
1 GGCCATGT-CCTTAGTCCACAC
107722548 GGCCATGT
1 GGCCATGT
107722556 GCTTCTCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.18, C:0.32, G:0.26, T:0.24
Consensus pattern (21 bp):
GGCCATGTCCTTAGTCCACAC
Found at i:107722578 original size:22 final size:21
Alignment explanation
Indices: 107722542--107722634 Score: 132
Period size: 22 Copynumber: 4.2 Consensus size: 21
107722532 TGTACCTTAG
* *
107722542 TCACACGGCCATGTGCTTCTCT
1 TCACACGG-CGTGTGCCTCTCT
107722564 TCACACAGGCGTGTGCCTCTCT
1 TCACAC-GGCGTGTGCCTCTCT
107722586 TCACACGAGCGTGTGCCTCTCT
1 TCACACG-GCGTGTGCCTCTCT
107722608 TCACACGAGCGTGTGCCTCTCT
1 TCACACG-GCGTGTGCCTCTCT
107722630 TCACA
1 TCACA
107722635 TGGGTGTATG
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
21 1 0.01
22 64 0.96
23 2 0.03
ACGTcount: A:0.15, C:0.37, G:0.20, T:0.28
Consensus pattern (21 bp):
TCACACGGCGTGTGCCTCTCT
Found at i:107722650 original size:22 final size:22
Alignment explanation
Indices: 107722553--107722670 Score: 139
Period size: 22 Copynumber: 5.4 Consensus size: 22
107722543 CACACGGCCA
*
107722553 TGTGCTTCTCTTCACAC-AGGCG
1 TGTGCCTCTCTTCACACGA-GCG
107722575 TGTGCCTCTCTTCACACGAGCG
1 TGTGCCTCTCTTCACACGAGCG
107722597 TGTGCCTCTCTTCACACGAGCG
1 TGTGCCTCTCTTCACACGAGCG
* * *
107722619 TGTGCCTCTCTTCACATGGGTG
1 TGTGCCTCTCTTCACACGAGCG
* * * * *
107722641 TATGCTTCTCTTTACACAAGCA
1 TGTGCCTCTCTTCACACGAGCG
107722663 TGTGCCTC
1 TGTGCCTC
107722671 AGCTACACAG
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
22 80 0.99
23 1 0.01
ACGTcount: A:0.14, C:0.32, G:0.21, T:0.32
Consensus pattern (22 bp):
TGTGCCTCTCTTCACACGAGCG
Found at i:107728248 original size:35 final size:35
Alignment explanation
Indices: 107728181--107728348 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
107728171 TCCTCATTGA
*** *
107728181 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
107728217 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
107728257 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
107728292 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
107728327 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
107728349 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:107728307 original size:75 final size:73
Alignment explanation
Indices: 107728176--107728348 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
107728166 GGTTTTCCTC
*** * * **
107728176 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
107728241 TCAGTATGG
65 TCAGTATGG
*
107728250 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
107728314 ACTCAGTATGG
63 ACTCAGTATGG
107728325 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
107728349 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:107735747 original size:35 final size:35
Alignment explanation
Indices: 107735680--107735847 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
107735670 TCCTCATTGA
*** *
107735680 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
107735716 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
107735756 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
107735791 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
107735826 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
107735848 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:107735806 original size:75 final size:73
Alignment explanation
Indices: 107735675--107735847 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
107735665 GGTTTTCCTC
*** * * **
107735675 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
107735740 TCAGTATGG
65 TCAGTATGG
*
107735749 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
107735813 ACTCAGTATGG
63 ACTCAGTATGG
107735824 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
107735848 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:107740808 original size:31 final size:31
Alignment explanation
Indices: 107740770--107740846 Score: 154
Period size: 31 Copynumber: 2.5 Consensus size: 31
107740760 AAAATTCGAA
107740770 TCGAATCCAGTGAAATGAAATCTGAGTTGAT
1 TCGAATCCAGTGAAATGAAATCTGAGTTGAT
107740801 TCGAATCCAGTGAAATGAAATCTGAGTTGAT
1 TCGAATCCAGTGAAATGAAATCTGAGTTGAT
107740832 TCGAATCCAGTGAAA
1 TCGAATCCAGTGAAA
107740847 CTGTTCAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.27
Consensus pattern (31 bp):
TCGAATCCAGTGAAATGAAATCTGAGTTGAT
Found at i:107741110 original size:39 final size:41
Alignment explanation
Indices: 107741038--107741149 Score: 115
Period size: 39 Copynumber: 2.7 Consensus size: 41
107741028 ATCCCAAAAT
107741038 TATTATTTTAGAATATTTTTAAATTTTTAACTTTCTTTAAA
1 TATTATTTTAGAATATTTTTAAATTTTTAACTTTCTTTAAA
* * *
107741079 TATT-TTTTAG-ATTTTTTTTAA-TTTTATACTTTTTTTAAA
1 TATTATTTTAGAATATTTTTAAATTTTTA-ACTTTCTTTAAA
* *
107741118 TATAAATTTTGGAAT-TTTTATAAATATTTTAA
1 TAT-TATTTTAGAATATTTT-TAAAT-TTTTAA
107741150 ATTTTTTTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
38 5 0.09
39 23 0.40
40 6 0.10
41 13 0.22
42 5 0.09
43 1 0.02
44 5 0.09
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.61
Consensus pattern (41 bp):
TATTATTTTAGAATATTTTTAAATTTTTAACTTTCTTTAAA
Found at i:107744883 original size:15 final size:15
Alignment explanation
Indices: 107744863--107744892 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
107744853 TTGAATAAAT
*
107744863 TATTAAAAATAAAAA
1 TATTAAAAAGAAAAA
107744878 TATTAAAAAGAAAAA
1 TATTAAAAAGAAAAA
107744893 AAAACTTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
TATTAAAAAGAAAAA
Found at i:107751295 original size:23 final size:24
Alignment explanation
Indices: 107751238--107751296 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
107751228 ATCATATTAT
107751238 TTATATTATTATATATTCTATTTA
1 TTATATTATTATATATTCTATTTA
* *
107751262 TAAATTTTATTATATA-TCT-TTTA
1 T-TATATTATTATATATTCTATTTA
107751285 TTATATGTATTA
1 TTATAT-TATTA
107751297 ACCCTTACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
22 3 0.10
23 10 0.34
24 4 0.14
25 12 0.41
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (24 bp):
TTATATTATTATATATTCTATTTA
Found at i:107751335 original size:15 final size:15
Alignment explanation
Indices: 107751312--107751345 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
107751302 TACTTTATTT
*
107751312 TTATTTTATTATATA
1 TTATGTTATTATATA
*
107751327 TTATGTTATTATTTA
1 TTATGTTATTATATA
107751342 TTAT
1 TTAT
107751346 TAATATACAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TTATGTTATTATATA
Found at i:107756131 original size:27 final size:28
Alignment explanation
Indices: 107756094--107756233 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
107756084 AGCATGGCTG
* *
107756094 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
107756120 CCAGATACAGATA-ATCGTGGCAGGGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
107756148 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
107756175 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
107756202 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
107756229 CCAGA
1 CCAGA
107756234 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 83 0.80
28 16 0.15
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:107756657 original size:8 final size:8
Alignment explanation
Indices: 107756649--107756685 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
107756639 AAAATACCGA
*
107756649 CTTTTCGA
1 CTTTTCGG
*
107756657 CATTTCGG
1 CTTTTCGG
107756665 CTTTTCGG
1 CTTTTCGG
107756673 CTTTTCGG
1 CTTTTCGG
107756681 CTTTT
1 CTTTT
107756686 GCCAATCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.05, C:0.24, G:0.19, T:0.51
Consensus pattern (8 bp):
CTTTTCGG
Found at i:107757895 original size:26 final size:26
Alignment explanation
Indices: 107757859--107757994 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
107757849 CATGAAATTC
107757859 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
107757885 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
107757911 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
107757937 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
107757963 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
107757989 TTATCA
1 TTATCA
107757995 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:107766180 original size:5 final size:5
Alignment explanation
Indices: 107766170--107766198 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
107766160 AGATTTCTGC
107766170 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
107766199 ACCGAGAGGC
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:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:107767127 original size:44 final size:44
Alignment explanation
Indices: 107767071--107767657 Score: 642
Period size: 44 Copynumber: 13.3 Consensus size: 44
107767061 TATAGATCAC
* * *
107767071 AGATAACAGATTTGGCGTCTCTATATTGTCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGA
* * * *
107767115 CGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGA
1 AGATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGA
* *
107767159 AGATAACAAATTTGGAATCTCTGTATTGTCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGA
* *
107767203 CGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGA
107767247 AGATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGA
* *
107767291 TA-ATAACAGATTTGGCATCTCTGTATTGTCAGAGAGTAGATCGG
1 -AGATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGA
* *
107767335 AGATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAA
1 AGATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGA
* * *
107767379 AAATAACAAATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGA
* * * * *
107767423 CGATAGCAAATTTGGCATCTCTGTATTGTCAGAGAGTAGATCGG
1 AGATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGA
*** ** * * * *
107767467 AGATAGTTGATTTGGGGTCTCTGTATTAAT-AGGGAGCAGATTGG
1 AGATAACAGATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCGA
* * * *
107767511 AGA-AAGCACATCTGGCATCTCTGTATTGACAGAGAACAGATCGA
1 AGATAA-CAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGA
* * ** * * *
107767555 AGATAGCTGATTTGGTGTCTCTATATTGAT-GGGGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTATTG-TCAGAGAGCAGATCGA
* * * * * *
107767599 AGATGATAGATTTGGTATCTTTGTATTAGACAGGGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCGA
* *
107767644 AGATAGCATATTTG
1 AGATAACAGATTTG
107767658 ACATTCGTAT
Statistics
Matches: 455, Mismatches: 79, Indels: 17
0.83 0.14 0.03
Matches are distributed among these distances:
43 2 0.00
44 426 0.94
45 27 0.06
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (44 bp):
AGATAACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGA
Found at i:107767683 original size:45 final size:45
Alignment explanation
Indices: 107767634--107767747 Score: 165
Period size: 45 Copynumber: 2.5 Consensus size: 45
107767624 TTAGACAGGG
*
107767634 AGCAGATCGAAGATAGCATATTTGACATTCGTATGTTCACATCGA
1 AGCAGATCGAAGATAGCAGATTTGACATTCGTATGTTCACATCGA
* ** * *
107767679 AGCAGATTGAAGATAGTGGATCTGACATTCGTGTGTTCACATCGA
1 AGCAGATCGAAGATAGCAGATTTGACATTCGTATGTTCACATCGA
*
107767724 AGCAGATCGAAGATAACAGATTTG
1 AGCAGATCGAAGATAGCAGATTTG
107767748 GCGTTTCTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (45 bp):
AGCAGATCGAAGATAGCAGATTTGACATTCGTATGTTCACATCGA
Found at i:107769449 original size:23 final size:24
Alignment explanation
Indices: 107769392--107769499 Score: 68
Period size: 23 Copynumber: 4.5 Consensus size: 24
107769382 ATCATATTAT
107769392 TTATATTATTATATATTCTATTTA
1 TTATATTATTATATATTCTATTTA
* *
107769416 TAAATTTTATTATATA-TCT-TTTA
1 T-TATATTATTATATATTCTATTTA
107769439 TTATATGTATTA-ACCCTTACTT-TATTT-
1 TTATAT-TATTATA----TA-TTCTATTTA
* *
107769466 TTATTTTATTATATATTAT-TTTA
1 TTATATTATTATATATTCTATTTA
107769489 TTAT-TTATTAT
1 TTATATTATTAT
107769500 TAATATATAG
Statistics
Matches: 67, Mismatches: 5, Indels: 26
0.68 0.05 0.27
Matches are distributed among these distances:
22 16 0.24
23 17 0.25
24 4 0.06
25 12 0.18
26 7 0.10
27 7 0.10
28 4 0.06
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.63
Consensus pattern (24 bp):
TTATATTATTATATATTCTATTTA
Found at i:107769486 original size:15 final size:15
Alignment explanation
Indices: 107769466--107769500 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
107769456 TACTTTATTT
107769466 TTATTTTATTATATA
1 TTATTTTATTATATA
*
107769481 TTATTTTATTATTTA
1 TTATTTTATTATATA
107769496 TTATT
1 TTATT
107769501 AATATATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTTATTATATA
Found at i:107771510 original size:14 final size:14
Alignment explanation
Indices: 107771489--107771529 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
107771479 CTTACCTAAT
*
107771489 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTAA
*
107771503 TTTGCAAGTTGTAA
1 TGTGCAAGTTGTAA
107771517 TGTGCAAGTTGTA
1 TGTGCAAGTTGTA
107771530 CAAGCTGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.24, C:0.07, G:0.29, T:0.39
Consensus pattern (14 bp):
TGTGCAAGTTGTAA
Found at i:107775613 original size:40 final size:40
Alignment explanation
Indices: 107775564--107775784 Score: 329
Period size: 40 Copynumber: 5.5 Consensus size: 40
107775554 CGGATGTAAC
* *
107775564 AACCAGCACGAATGCCTTCGGGACTTAGCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
107775604 AACCCGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
107775644 AACTCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
107775684 AACCCGCACGAATGCCTTCGAGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
** **
107775724 AACTAGCAC-AATTGCCTTC-GGATCTTAGTCCGGTTATAAT
1 AACCCGCACGAA-TGCCTTCGGGA-CTTAACCCGGTTATAAT
107775764 AACCCGCACGAATGCCTTCGG
1 AACCCGCACGAATGCCTTCGG
107775785 ATCTTAGTCC
Statistics
Matches: 163, Mismatches: 14, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
39 4 0.02
40 156 0.96
41 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:107777327 original size:13 final size:13
Alignment explanation
Indices: 107777311--107777338 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
107777301 TTTATTATTT
107777311 TTAACACAAAATA
1 TTAACACAAAATA
107777324 TTAACACAAAATA
1 TTAACACAAAATA
107777337 TT
1 TT
107777339 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:107784303 original size:61 final size:61
Alignment explanation
Indices: 107784238--107784375 Score: 176
Period size: 61 Copynumber: 2.3 Consensus size: 61
107784228 TTTAATTCAT
* * * *
107784238 ATAATAATTATATTAAGAATGTTATTGAA-T-TGTA-TATTA-TTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATATGATTGAATTATGTATTATTATTTTTAATAAAATATATTTA
* *
107784296 ATAATAATTATGTTAAAATATGATTGAATTATTTATTATTATTTTTAATAAAATATATTTA
1 ATAATAATTATATTAAAATATGATTGAATTATGTATTATTATTTTTAATAAAATATATTTA
*
107784357 ATAATAATTTTATTAAAAT
1 ATAATAATTATATTAAAAT
107784376 TTAATAACAA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
57 10 0.15
58 16 0.24
59 3 0.04
60 5 0.07
61 34 0.50
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (61 bp):
ATAATAATTATATTAAAATATGATTGAATTATGTATTATTATTTTTAATAAAATATATTTA
Found at i:107785134 original size:24 final size:24
Alignment explanation
Indices: 107785089--107785135 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
107785079 ATTTATTAAT
*
107785089 ATAATATATTTTGCATTTATTAGC
1 ATAATATATTTTGCATTGATTAGC
107785113 ATAATATA-TTTGACATTGATTAG
1 ATAATATATTTTG-CATTGATTAG
107785136 AATTAGACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (24 bp):
ATAATATATTTTGCATTGATTAGC
Found at i:107786613 original size:51 final size:51
Alignment explanation
Indices: 107786535--107786642 Score: 171
Period size: 51 Copynumber: 2.1 Consensus size: 51
107786525 AAGTTATCCG
* * * *
107786535 GATGAAATATGAATCTCTTGTTGAAGCTAGAGTAACAAAGTAATAATTCCA
1 GATGAAATACGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAATTCCA
*
107786586 GATGAAATACGAAGCTCTTGTTAAAGCTAGGGCAACAAAGTAATAATTCCA
1 GATGAAATACGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAATTCCA
107786637 GATGAA
1 GATGAA
107786643 GTATGAAGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (51 bp):
GATGAAATACGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAATTCCA
Found at i:107787535 original size:46 final size:46
Alignment explanation
Indices: 107787468--107787695 Score: 298
Period size: 46 Copynumber: 5.0 Consensus size: 46
107787458 GGTTTCTGAA
*
107787468 ATGAAATA-TGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAA-AGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
107787514 ATGAAAAGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAA
1 ATGAAAAGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
107787560 ATGAAATGTGTAAGACCATAGTTGAAGGATACCATGGCAACATGAC
1 ATGAAAAGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* **
107787606 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAAAGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
107787652 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATGAAAA-GTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
107787696 TCGAAGATAA
Statistics
Matches: 163, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 5 0.03
46 158 0.97
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (46 bp):
ATGAAAAGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:107787621 original size:92 final size:92
Alignment explanation
Indices: 107787464--107787695 Score: 331
Period size: 92 Copynumber: 2.5 Consensus size: 92
107787454 GTGTGGTTTC
* * * **
107787464 TGAAATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAAGTGTAAGA
1 TGAAATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGA
107787529 CCATGGTTGAAAGATACCATGACAACA
66 CCATGGTTGAAAGATACCATGACAACA
* *
107787556 TGAAATGAAATGTGTAAGACCATAGTTGAAGGATACCATGGCAACATGACATGAAATGAATAAGA
1 TGAAATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGA
*
107787621 CCATGGTTGAAAGATACCATGGCAACA
66 CCATGGTTGAAAGATACCATGACAACA
* * * * *
107787648 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TGAAATG-AAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACATG
107787696 TCGAAGATAA
Statistics
Matches: 125, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
91 1 0.01
92 124 0.99
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (92 bp):
TGAAATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGA
CCATGGTTGAAAGATACCATGACAACA
Found at i:107794887 original size:11 final size:11
Alignment explanation
Indices: 107794871--107794905 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
107794861 ACTAAATAAT
107794871 TAATAATAAAA
1 TAATAATAAAA
107794882 TAATAATAAAA
1 TAATAATAAAA
*
107794893 AAATAATAAAA
1 TAATAATAAAA
107794904 TA
1 TA
107794906 TCTCATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:107795779 original size:69 final size:69
Alignment explanation
Indices: 107795668--107795805 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
107795658 TCATAGATCG
*
107795668 AGTTAATGCGACAATAAGGGTTTTAATTAGAAAGAGATTTCAATCAATCAACCTAGAGTCAGTTG
1 AGTTAATGCGACAATAAGGGTTTTAATTAGAAAGAGATTTCAATCAATCAACCTAGAGTCAATTG
107795733 TTCT
66 TTCT
107795737 AGTTAATGCGACAATAAGGGTTTTAATTAGAAAGAGATTTCAATCAATCAACCTAGAGTCAATTG
1 AGTTAATGCGACAATAAGGGTTTTAATTAGAAAGAGATTTCAATCAATCAACCTAGAGTCAATTG
107795802 TTCT
66 TTCT
107795806 TACTCTCGAA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (69 bp):
AGTTAATGCGACAATAAGGGTTTTAATTAGAAAGAGATTTCAATCAATCAACCTAGAGTCAATTG
TTCT
Found at i:107796009 original size:14 final size:14
Alignment explanation
Indices: 107795988--107796054 Score: 54
Period size: 14 Copynumber: 4.9 Consensus size: 14
107795978 TGTTTGTAGT
107795988 TAAA-TTAGATTAG
1 TAAATTTAGATTAG
*
107796001 TAAATTTAGATTAAA
1 TAAATTTAGATT-AG
*
107796016 AACAATTT-G--TAG
1 TA-AATTTAGATTAG
107796028 TTAAA-TTAGATTAG
1 -TAAATTTAGATTAG
107796042 TAAATTTAGATTA
1 TAAATTTAGATTA
107796055 AAAACAATCA
Statistics
Matches: 42, Mismatches: 4, Indels: 15
0.69 0.07 0.25
Matches are distributed among these distances:
11 2 0.05
12 4 0.10
13 10 0.24
14 18 0.43
15 3 0.07
16 5 0.12
ACGTcount: A:0.46, C:0.01, G:0.12, T:0.40
Consensus pattern (14 bp):
TAAATTTAGATTAG
Found at i:107796025 original size:41 final size:41
Alignment explanation
Indices: 107795980--107796062 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
107795970 CTCTGTTGTG
107795980 TTTGTAGTTAAATTAGATTAGTAAATTTAGATTAAAAACAA
1 TTTGTAGTTAAATTAGATTAGTAAATTTAGATTAAAAACAA
107796021 TTTGTAGTTAAATTAGATTAGTAAATTTAGATTAAAAACAA
1 TTTGTAGTTAAATTAGATTAGTAAATTTAGATTAAAAACAA
107796062 T
1 T
107796063 CACTTCAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.40
Consensus pattern (41 bp):
TTTGTAGTTAAATTAGATTAGTAAATTTAGATTAAAAACAA
Found at i:107796268 original size:6 final size:6
Alignment explanation
Indices: 107796257--107796321 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 6
107796247 TAATTTAGCC
* * * *
107796257 ATTTTT ATTTTT A-TTAT ATTTTT ATTTTT AGTTTA ATTTTT GTTTTCT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTT-T
*
107796305 AATTTTT -CTTTT ATTTT
1 -ATTTTT ATTTTT ATTTT
107796322 CTTCTGACAG
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
5 8 0.18
6 31 0.69
7 2 0.04
8 4 0.09
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:107796296 original size:17 final size:17
Alignment explanation
Indices: 107796259--107796296 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
107796249 ATTTAGCCAT
*
107796259 TTTTATTTTTATTATAT
1 TTTTATTTTTATTATAA
107796276 TTTTATTTTTAGTT-TAA
1 TTTTATTTTTA-TTATAA
107796293 TTTT
1 TTTT
107796297 TGTTTTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTATTATAA
Found at i:107801910 original size:6 final size:6
Alignment explanation
Indices: 107801899--107801991 Score: 156
Period size: 6 Copynumber: 15.8 Consensus size: 6
107801889 AGTTTATTTG
107801899 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
107801946 TTTTA- TTTT-T TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT GTTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTTA
107801992 ACCCGTATCC
Statistics
Matches: 84, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
5 13 0.15
6 66 0.79
7 5 0.06
ACGTcount: A:0.16, C:0.00, G:0.01, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:107801914 original size:1 final size:1
Alignment explanation
Indices: 107801899--107801983 Score: 53
Period size: 1 Copynumber: 85.0 Consensus size: 1
107801889 AGTTTATTTG
* * * * * * * * * *
107801899 TTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTATTTTTTTTTATTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
107801964 TTATTTTTATTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTT
107801984 ATGTTTTAAC
Statistics
Matches: 58, Mismatches: 26, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:107806629 original size:30 final size:30
Alignment explanation
Indices: 107806593--107806650 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
107806583 CTGGGCATTT
* *
107806593 CCACACGGGTTGGCCACACACCCGTGTGAG
1 CCACACGGGCTGGCCACACACCCATGTGAG
*
107806623 CCACACGGGCTGGCCACACGCCCATGTG
1 CCACACGGGCTGGCCACACACCCATGTG
107806651 CCAGCCCATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.40, G:0.29, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTGGCCACACACCCATGTGAG
Found at i:107806798 original size:23 final size:23
Alignment explanation
Indices: 107806748--107806798 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
107806738 TATCAATTAG
* *
107806748 AAGAAGACTTAAGGGGACACTGA
1 AAGAAGACTTAAGGGAACACTCA
*
107806771 GAGAAGA-TTGAAGGGAACACTCA
1 AAGAAGACTT-AAGGGAACACTCA
107806794 AAGAA
1 AAGAA
107806799 CACCATTAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.47, C:0.12, G:0.29, T:0.12
Consensus pattern (23 bp):
AAGAAGACTTAAGGGAACACTCA
Found at i:107818826 original size:87 final size:87
Alignment explanation
Indices: 107818680--107818956 Score: 491
Period size: 87 Copynumber: 3.2 Consensus size: 87
107818670 CCGTTGGAGT
*
107818680 TGGAGGCCGAGAAGGTTGACATGAGGGAGGTAATGTACGAGGCGGTGGATATGAAGGAGTACGTC
1 TGGAGGCCGAGAAGGTTGACATGAGGGAGGAAATGTACGAGGCGGTGGATATGAAGGAGTACGTC
*
107818745 TAATAGGTGGAAGACTTTGTGG
66 TAATAGGTGGACGACTTTGTGG
* *
107818767 TGGAGGCCGAGGAGGTTGACATGAGGGAGGAAATGTACGAGGCGGTGGAAATGAAGGAGTACGTC
1 TGGAGGCCGAGAAGGTTGACATGAGGGAGGAAATGTACGAGGCGGTGGATATGAAGGAGTACGTC
107818832 TAATAGGTGGACGACTTTGTGG
66 TAATAGGTGGACGACTTTGTGG
*
107818854 TGGAGGCCGAGGAGGTTGACATGAGGGAGGAAATGTACGAGGCGGTGGATATGAAGGAGTACGTC
1 TGGAGGCCGAGAAGGTTGACATGAGGGAGGAAATGTACGAGGCGGTGGATATGAAGGAGTACGTC
*
107818919 TAATAGGTGGACGACTTCGTGG
66 TAATAGGTGGACGACTTTGTGG
*
107818941 TGGAGACCGAGAAGGT
1 TGGAGGCCGAGAAGGT
107818957 GATCGAGTAT
Statistics
Matches: 182, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 182 1.00
ACGTcount: A:0.27, C:0.10, G:0.42, T:0.20
Consensus pattern (87 bp):
TGGAGGCCGAGAAGGTTGACATGAGGGAGGAAATGTACGAGGCGGTGGATATGAAGGAGTACGTC
TAATAGGTGGACGACTTTGTGG
Found at i:107819902 original size:17 final size:17
Alignment explanation
Indices: 107819879--107819914 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
107819869 AATATTATAA
*
107819879 ATAAATTTAAATTATTTT
1 ATAATTTTAAATT-TTTT
107819897 ATAATTTTAAATTTTTT
1 ATAATTTTAAATTTTTT
107819914 A
1 A
107819915 ATTTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATAATTTTAAATTTTTT
Found at i:107819907 original size:28 final size:28
Alignment explanation
Indices: 107819821--107819908 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 28
107819811 GTATGAACTA
*
107819821 AAATATATTAAAATTATTTTATAATTTT
1 AAATAAATTAAAATTATTTTATAATTTT
* * ** * *
107819849 ATATAAA-TGACTTTATGATTA-ATATTAT
1 AAATAAATTAAAATTAT-TTTATA-ATTTT
*
107819877 AAATAAATTTAAATTATTTTATAATTTT
1 AAATAAATTAAAATTATTTTATAATTTT
107819905 AAAT
1 AAAT
107819909 TTTTTAATTT
Statistics
Matches: 43, Mismatches: 13, Indels: 8
0.67 0.20 0.12
Matches are distributed among these distances:
27 7 0.16
28 29 0.67
29 7 0.16
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (28 bp):
AAATAAATTAAAATTATTTTATAATTTT
Found at i:107823321 original size:41 final size:39
Alignment explanation
Indices: 107823233--107823321 Score: 90
Period size: 41 Copynumber: 2.2 Consensus size: 39
107823223 ATTTTTTCTG
*
107823233 AATTTTTGTATATATTTTGTAGTGTTAATTATGAGTTTT
1 AATTTTTGTATATATTTTGTAGTATTAATTATGAGTTTT
* * *
107823272 ATATTTTTTGTGA-ATATTTTGTATTATTAATTGTAGGGCTTTT
1 A-A-TTTTTGT-ATATATTTTGTAGTATTAATTAT-GAG-TTTT
107823315 AATTTTT
1 AATTTTT
107823322 TTTTCCATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
39 1 0.02
40 1 0.02
41 30 0.73
42 4 0.10
43 5 0.12
ACGTcount: A:0.25, C:0.01, G:0.15, T:0.60
Consensus pattern (39 bp):
AATTTTTGTATATATTTTGTAGTATTAATTATGAGTTTT
Found at i:107823419 original size:34 final size:34
Alignment explanation
Indices: 107823371--107823436 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
107823361 CTCTTGTTAG
* *
107823371 AGTTTTAAGTCTTATTATTTTTATTTCATTTTTT
1 AGTTTTAAGCCTTATCATTTTTATTTCATTTTTT
*
107823405 AGTTTTAAGCCTTATCATTTTTGTTTCATTTT
1 AGTTTTAAGCCTTATCATTTTTATTTCATTTT
107823437 GGTGAATACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.20, C:0.09, G:0.08, T:0.64
Consensus pattern (34 bp):
AGTTTTAAGCCTTATCATTTTTATTTCATTTTTT
Found at i:107833776 original size:18 final size:18
Alignment explanation
Indices: 107833755--107833798 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
107833745 GCGTCTAACA
*
107833755 GGTGGAGGCGAAGAAGGT
1 GGTGGAGGCCAAGAAGGT
107833773 GGTGGAGGCCAAGAAGGT
1 GGTGGAGGCCAAGAAGGT
107833791 GGTGGAGG
1 GGTGGAGG
107833799 TGGACTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.25, C:0.07, G:0.57, T:0.11
Consensus pattern (18 bp):
GGTGGAGGCCAAGAAGGT
Found at i:107849145 original size:37 final size:37
Alignment explanation
Indices: 107849095--107849169 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
107849085 CAAACATGTC
107849095 TTGGTTCAAAGCTTGATGTTTTCCAACGTTACTGGAA
1 TTGGTTCAAAGCTTGATGTTTTCCAACGTTACTGGAA
107849132 TTGGTTCAAAGCTTGATGTTTTCCAACGTTACTGGAA
1 TTGGTTCAAAGCTTGATGTTTTCCAACGTTACTGGAA
107849169 T
1 T
107849170 GTGAACAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (37 bp):
TTGGTTCAAAGCTTGATGTTTTCCAACGTTACTGGAA
Found at i:107856902 original size:26 final size:24
Alignment explanation
Indices: 107856852--107856904 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 24
107856842 CGTTGTTGTT
*
107856852 AAAAAAAACAACGAAATTGACCAA
1 AAAAAAAACAACGAAATGGACCAA
107856876 AAAAAAAATCAAGCGGAAATGGA-CAA
1 AAAAAAAA-CAA-C-GAAATGGACCAA
107856902 AAA
1 AAA
107856905 GGACATGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 8 0.32
25 3 0.12
26 7 0.28
27 7 0.28
ACGTcount: A:0.66, C:0.13, G:0.13, T:0.08
Consensus pattern (24 bp):
AAAAAAAACAACGAAATGGACCAA
Found at i:107858041 original size:44 final size:45
Alignment explanation
Indices: 107857992--107858080 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
107857982 CAATATTATG
107857992 ATTTTAACTAAAGTTAAATTT-TTTTTATAATAATTTTTAATAAA
1 ATTTTAACTAAAGTTAAATTTATTTTTATAATAATTTTTAATAAA
* *
107858036 ATTTTAATTAAAGTTTAATTTATTTTTATAATAATTTTTAATAAA
1 ATTTTAACTAAAGTTAAATTTATTTTTATAATAATTTTTAATAAA
107858081 TATATTTGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 19 0.45
45 23 0.55
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (45 bp):
ATTTTAACTAAAGTTAAATTTATTTTTATAATAATTTTTAATAAA
Found at i:107867232 original size:58 final size:58
Alignment explanation
Indices: 107867142--107867251 Score: 166
Period size: 58 Copynumber: 1.9 Consensus size: 58
107867132 ATATACTTTG
* * * *
107867142 ATGCTCACATAGAGCTACTGTAGTCCACAACTTATGCGGAATTACTGCCAATACATTA
1 ATGCTCACACAGAGCTACGGTAGCCCACAACTTATGCGGAATTACTACCAATACATTA
* *
107867200 ATGCTCACACAGAGCTACGGTAGCCCACAACTTATGTGGAATTGCTACCAAT
1 ATGCTCACACAGAGCTACGGTAGCCCACAACTTATGCGGAATTACTACCAAT
107867252 CACTATATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (58 bp):
ATGCTCACACAGAGCTACGGTAGCCCACAACTTATGCGGAATTACTACCAATACATTA
Found at i:107868153 original size:4 final size:4
Alignment explanation
Indices: 107868144--107868168 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
107868134 CCTTTTTCTT
107868144 TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
107868169 CTCCTGTTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:107868220 original size:8 final size:8
Alignment explanation
Indices: 107868202--107868274 Score: 53
Period size: 8 Copynumber: 8.9 Consensus size: 8
107868192 TGTTTCTTAT
107868202 TATATATAA
1 TATA-ATAA
107868211 TATAATAA
1 TATAATAA
107868219 TATAATAA
1 TATAATAA
107868227 TATAAATTAA
1 TAT-AA-TAA
* *
107868237 TATATTAC
1 TATAATAA
*
107868245 T-TAATTA
1 TATAATAA
107868252 T-TAAGTTAA
1 TATAA--TAA
107868261 TATAAT-A
1 TATAATAA
107868268 TATAATA
1 TATAATA
107868275 TATTTTTTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
7 14 0.27
8 19 0.37
9 10 0.19
10 9 0.17
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (8 bp):
TATAATAA
Found at i:107869859 original size:22 final size:23
Alignment explanation
Indices: 107869834--107869879 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
107869824 CAACCAATTC
107869834 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
107869856 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
107869879 A
1 A
107869880 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:107869885 original size:23 final size:23
Alignment explanation
Indices: 107869841--107869885 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
107869831 TTCAATTCAA
*
107869841 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
107869864 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
107869886 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:107877538 original size:46 final size:46
Alignment explanation
Indices: 107877437--107877524 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 46
107877427 TGTAACCCGC
* * * * *
107877437 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
107877483 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
107877525 AACCATCCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:107885010 original size:45 final size:45
Alignment explanation
Indices: 107884914--107885036 Score: 228
Period size: 45 Copynumber: 2.7 Consensus size: 45
107884904 TGTAACCCGC
*
107884914 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCGGGCGTTCGCAT
107884960 CCATAAGTGAACTCGGACTCAACTCAACGAGTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTCGGGCGTTCGCAT
107885005 CCATAAGTGAACTCGGACTCAACTCAACGAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT
107885037 TCGGATGCTC
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
45 46 0.61
46 30 0.39
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTCGGGCGTTCGCAT
Found at i:107898905 original size:35 final size:35
Alignment explanation
Indices: 107898861--107899027 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
107898851 TCCTCATTGA
** *
107898861 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
107898896 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
107898936 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
107898971 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
107899006 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
107899028 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:107898944 original size:75 final size:73
Alignment explanation
Indices: 107898856--107899027 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
107898846 GGTTTTCCTC
** * * **
107898856 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
107898920 TCAGTATGG
65 TCAGTATGG
*
107898929 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
107898994 CTCAGTATGG
64 CTCAGTATGG
107899004 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
107899028 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:107906452 original size:35 final size:36
Alignment explanation
Indices: 107906324--107906455 Score: 151
Period size: 35 Copynumber: 3.6 Consensus size: 36
107906314 TCCTCATTGA
** *
107906324 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
* **
107906359 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTATGG----GAT
*
107906399 AATACCATACCTACATTTCACAGCTCAGTAT-GGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
107906434 AATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
107906456 CTTTGCCATG
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
35 54 0.64
39 3 0.04
40 27 0.32
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (36 bp):
AATACCATACCTACATTTCACAACTCAGTATGGGAT
Found at i:107909088 original size:3 final size:3
Alignment explanation
Indices: 107909080--107909155 Score: 50
Period size: 3 Copynumber: 25.7 Consensus size: 3
107909070 TTAATTTATT
* * ** *
107909080 TAA TAA TAA TAC TAA TAA TAA TAA T-C TAA T-A TAA -AA CCA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
107909125 TAA TTAA TAA TTA TAA TAA TTA TATA TAA TA
1 TAA -TAA TAA TAA TAA TAA TAA TA-A TAA TA
107909156 TTTAAATATA
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
2 5 0.09
3 44 0.80
4 6 0.11
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:107913158 original size:12 final size:13
Alignment explanation
Indices: 107913132--107913170 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
107913122 ATATTTTTTT
107913132 TAAAAAAGTATATA
1 TAAAAAAGTA-ATA
107913146 TAAAAAA-TAATA
1 TAAAAAAGTAATA
*
107913158 TAAAAAATTAATA
1 TAAAAAAGTAATA
107913171 CGGGCCAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 10 0.42
13 7 0.29
14 7 0.29
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (13 bp):
TAAAAAAGTAATA
Found at i:107921356 original size:9 final size:9
Alignment explanation
Indices: 107921342--107921371 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
107921332 AGATGACGAG
107921342 AAATGGTAC
1 AAATGGTAC
107921351 AAATGGTAC
1 AAATGGTAC
107921360 AAATGGTAC
1 AAATGGTAC
107921369 AAA
1 AAA
107921372 GGCTCCGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (9 bp):
AAATGGTAC
Found at i:107931668 original size:38 final size:37
Alignment explanation
Indices: 107931626--107931701 Score: 84
Period size: 38 Copynumber: 2.0 Consensus size: 37
107931616 ACTTATAAAT
107931626 ATTATTAAAAATAA-AAAAAAT-CTAACAAATTTTAATAA
1 ATTA-TAAAAATAATAAAAAATACTAA-AAATTTT-ATAA
** *
107931664 ATTATAAAGTTAATAAAAAATACTTAAAATTTTATAA
1 ATTATAAAAATAATAAAAAATACTAAAAATTTTATAA
107931701 A
1 A
107931702 AATGTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
37 12 0.36
38 18 0.55
39 3 0.09
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (37 bp):
ATTATAAAAATAATAAAAAATACTAAAAATTTTATAA
Found at i:107931727 original size:29 final size:30
Alignment explanation
Indices: 107931677--107931733 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
107931667 ATAAAGTTAA
*
107931677 TAAAAAATACTTAAAATTTTA-TAAAAATG
1 TAAAAAATACTTAAAATCTTATTAAAAATG
*
107931706 TAAAAAATTCTTAACAA-CTTATTAAAAA
1 TAAAAAATACTTAA-AATCTTATTAAAAA
107931734 AATCATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (30 bp):
TAAAAAATACTTAAAATCTTATTAAAAATG
Found at i:107932327 original size:9 final size:9
Alignment explanation
Indices: 107932305--107932512 Score: 72
Period size: 10 Copynumber: 22.0 Consensus size: 9
107932295 CAATTCAAGT
*
107932305 TTTTTATGAT
1 TTTTTAT-AA
107932315 TTTTTATAA
1 TTTTTATAA
107932324 TTTTTATAA
1 TTTTTATAA
*
107932333 GTTTATATCAA
1 -TTTTTAT-AA
*
107932344 -TTTAAT-A
1 TTTTTATAA
107932351 TTTTTAATAA
1 TTTTT-ATAA
*
107932361 TTTTTATGAT
1 TTTTTAT-AA
107932371 TTTTTATAA
1 TTTTTATAA
*
107932380 TTTTTTAAGAA
1 -TTTTT-ATAA
*
107932391 TTTTTATACG
1 TTTTTATA-A
107932401 TTTTTATAAA
1 TTTTTAT-AA
*
107932411 ATTTTA-AA
1 TTTTTATAA
*
107932419 TATTTACT-A
1 TTTTTA-TAA
107932428 TTAATTT-TAA
1 TT--TTTATAA
*
107932438 TTTATTAAAA
1 TTT-TTATAA
*
107932448 TTTATTA-GA
1 TTT-TTATAA
*
107932457 TTTATTAGT-T
1 TTT-TTA-TAA
107932467 TTTTTATAA
1 TTTTTATAA
*
107932476 TATTTA-AA
1 TTTTTATAA
*
107932484 GTTTTTAGTAG
1 -TTTTTA-TAA
107932495 TTTTTATAA
1 TTTTTATAA
*
107932504 TTTTCATAA
1 TTTTTATAA
107932513 GCCTTGTAGA
Statistics
Matches: 151, Mismatches: 24, Indels: 47
0.68 0.11 0.21
Matches are distributed among these distances:
7 1 0.01
8 13 0.09
9 57 0.38
10 70 0.46
11 10 0.07
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:107932329 original size:19 final size:19
Alignment explanation
Indices: 107932305--107932398 Score: 93
Period size: 19 Copynumber: 4.9 Consensus size: 19
107932295 CAATTCAAGT
107932305 TTTTTATGATTTTTTATAA
1 TTTTTATGATTTTTTATAA
* * *
107932324 TTTTTATAAGTTTATATCAA
1 TTTTTATGATTTTTTAT-AA
* *
107932344 -TTTAAT-ATTTTTAATAA
1 TTTTTATGATTTTTTATAA
107932361 TTTTTATGATTTTTTATAA
1 TTTTTATGATTTTTTATAA
* *
107932380 TTTTTTAAGAATTTTTATA
1 -TTTTTATGATTTTTTATA
107932399 CGTTTTTATA
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
17 2 0.03
18 11 0.18
19 29 0.48
20 18 0.30
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTTTATGATTTTTTATAA
Found at i:107932405 original size:30 final size:31
Alignment explanation
Indices: 107932346--107932415 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
107932336 TATATCAATT
* *
107932346 TAATATTTTTAATAATTTTTATGATTTTTTA
1 TAATATTTTTAAGAATTTTTATGAGTTTTTA
107932377 TAAT-TTTTTAAGAATTTTTAT-ACGTTTTTA
1 TAATATTTTTAAGAATTTTTATGA-GTTTTTA
*
107932407 TAAAATTTT
1 TAATATTTT
107932416 AAATATTTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 1 0.03
30 25 0.74
31 8 0.24
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (31 bp):
TAATATTTTTAAGAATTTTTATGAGTTTTTA
Found at i:107942419 original size:145 final size:146
Alignment explanation
Indices: 107942155--107942449 Score: 400
Period size: 145 Copynumber: 2.0 Consensus size: 146
107942145 AAATAGTTAG
*
107942155 TATTTAGTACACAAGCAACCTTAAAAAATTGATATATGTCTCTTTTTTAAAATGTTTTATTAATA
1 TATTTAGTACACAAGCAACCTTAAAAAATTGACATATGTCTCTTTTTTAAAATGTTTTATTAATA
* * * * *
107942220 TTTTATATACCTCTATAAGACACTTGTCATCCCATTGATGTTACTTGTATAGTCTAAAAATTTCA
66 CTTTATATACCTCTATAAGACACTTGTCATCCCATTGACGTTACTTGTAGAGTCTAAAAACTCCA
107942285 CTGACAATATACCGAA
131 CTGACAATATACCGAA
* * * * * *
107942301 TATTTGGTACGCAAGTAACCTTAAAAAATTGACATGTTTCTCGTTTTTTAATTAT-TTTT-TT-A
1 TATTTAGTACACAAGCAACCTTAAAAAATTGACATATGTCTC-TTTTTTAA-AATGTTTTATTAA
*
107942363 TACTTTATATACCTCTATAAGACACTTGTCAATCCC-TTGACGTTGCTTGTAGAGTCTAAAAACT
64 TACTTTATATACCTCTATAAGACACTTGTC-ATCCCATTGACGTTACTTGTAGAGTCTAAAAACT
* *
107942427 CCACTGATAATGTACCGAA
128 CCACTGACAATATACCGAA
107942446 TATT
1 TATT
107942450 ATTCCATAAA
Statistics
Matches: 131, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
145 74 0.56
146 43 0.33
147 12 0.09
148 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.40
Consensus pattern (146 bp):
TATTTAGTACACAAGCAACCTTAAAAAATTGACATATGTCTCTTTTTTAAAATGTTTTATTAATA
CTTTATATACCTCTATAAGACACTTGTCATCCCATTGACGTTACTTGTAGAGTCTAAAAACTCCA
CTGACAATATACCGAA
Found at i:107942569 original size:14 final size:14
Alignment explanation
Indices: 107942550--107942580 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
107942540 GTAATTATAA
107942550 AAACAAAGAATATT
1 AAACAAAGAATATT
107942564 AAACAAAGAATATT
1 AAACAAAGAATATT
107942578 AAA
1 AAA
107942581 ATTTAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.19
Consensus pattern (14 bp):
AAACAAAGAATATT
Found at i:107947621 original size:18 final size:18
Alignment explanation
Indices: 107947595--107947641 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
107947585 TTAATTATTA
107947595 ATAAAAATTATAATAAAT
1 ATAAAAATTATAATAAAT
* *
107947613 ATAAGAATTATCATAAATTT
1 ATAAAAATTATAATAAA--T
107947633 ATAAAAATT
1 ATAAAAATT
107947642 GAGACAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
20 9 0.38
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
ATAAAAATTATAATAAAT
Found at i:107948179 original size:20 final size:19
Alignment explanation
Indices: 107948155--107948213 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
107948145 ATTATAAAAA
107948155 ATAAAAATAAATAAAAATT
1 ATAAAAATAAATAAAAATT
** *
107948174 ATTAAATTTTAATAAAAA-T
1 A-TAAAAATAAATAAAAATT
*
107948193 ATAATAAATAATTAAAAATT
1 ATAA-AAATAAATAAAAATT
107948213 A
1 A
107948214 GAATAAATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
18 3 0.10
19 12 0.40
20 15 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAAAATAAATAAAAATT
Found at i:107948219 original size:31 final size:30
Alignment explanation
Indices: 107948154--107948226 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
107948144 AATTATAAAA
* **
107948154 AATAAAAATAAATAAAAATTATTAAATTTT
1 AATAAAAATAAATAAAAATTATAAAATTAG
107948184 AATAAAAATATAATAAATAATTA-AAAATTAG
1 AATAAAAATA-AATAAA-AATTATAAAATTAG
*
107948215 AATAAATATAAA
1 AATAAAAATAAA
107948227 ATTACATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 12 0.32
31 20 0.54
32 5 0.14
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (30 bp):
AATAAAAATAAATAAAAATTATAAAATTAG
Found at i:107948332 original size:21 final size:21
Alignment explanation
Indices: 107948308--107948373 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
107948298 GATTTTTGTA
*
107948308 ATTTGTTCTCTAATTTTTAAT
1 ATTTGTTTTCTAATTTTTAAT
107948329 ATTT-TTTTACT-ATTTTT-AT
1 ATTTGTTTT-CTAATTTTTAAT
*
107948348 GATGTGTTTTCTAATTTTTAAT
1 -ATTTGTTTTCTAATTTTTAAT
107948370 ATTT
1 ATTT
107948374 TTATATTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
19 2 0.05
20 14 0.38
21 19 0.51
22 2 0.05
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (21 bp):
ATTTGTTTTCTAATTTTTAAT
Found at i:107948344 original size:41 final size:41
Alignment explanation
Indices: 107948283--107948375 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
107948273 CTTTATAAAA
* *
107948283 TTTT-ATA-TTTTTTACGATTTTTGTAATTTGTTCTCTAAT
1 TTTTAATATTTTTTTACGATTTTTATAATGTGTTCTCTAAT
* * *
107948322 TTTTAATATTTTTTTACTATTTTTATGATGTGTTTTCTAAT
1 TTTTAATATTTTTTTACGATTTTTATAATGTGTTCTCTAAT
107948363 TTTTAATATTTTT
1 TTTTAATATTTTT
107948376 ATATTTTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 4 0.09
40 3 0.06
41 40 0.85
ACGTcount: A:0.22, C:0.05, G:0.06, T:0.67
Consensus pattern (41 bp):
TTTTAATATTTTTTTACGATTTTTATAATGTGTTCTCTAAT
Found at i:107948405 original size:9 final size:9
Alignment explanation
Indices: 107948354--107948424 Score: 56
Period size: 9 Copynumber: 7.7 Consensus size: 9
107948344 TTATGATGTG
*
107948354 TTTTCTAAT
1 TTTTATAAT
107948363 TTTTA-ATAT
1 TTTTATA-AT
107948372 TTTTAT-AT
1 TTTTATAAT
*
107948380 TTTTATTAAAA
1 TTTTA-T-AAT
107948391 TTTTATAAT
1 TTTTATAAT
*
107948400 TTTTATAAG
1 TTTTATAAT
*
107948409 TTTAATTAAT
1 TTTTA-TAAT
107948419 TTTTAT
1 TTTTAT
107948425 TTTTCATCCT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
8 8 0.16
9 27 0.55
10 8 0.16
11 6 0.12
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:107948422 original size:28 final size:28
Alignment explanation
Indices: 107948359--107948424 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
107948349 ATGTGTTTTC
* *
107948359 TAATTTTTA-ATATTTTTATATTTTTAT
1 TAATTTTTATATATTTTTATAGTTTAAT
*
107948386 TAAAATTTTATA-ATTTTTATAAGTTTAAT
1 T-AATTTTTATATATTTTTAT-AGTTTAAT
107948415 TAATTTTTAT
1 TAATTTTTAT
107948425 TTTTCATCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
27 1 0.03
28 23 0.72
29 8 0.25
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (28 bp):
TAATTTTTATATATTTTTATAGTTTAAT
Found at i:107949264 original size:15 final size:16
Alignment explanation
Indices: 107949246--107949279 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
107949236 TTTAAACACG
*
107949246 ATATAGTT-ATATAAA
1 ATATAGTTAAAATAAA
107949261 ATATAGTTAAAATAAA
1 ATATAGTTAAAATAAA
107949277 ATA
1 ATA
107949280 AAATAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
ATATAGTTAAAATAAA
Found at i:107950044 original size:9 final size:8
Alignment explanation
Indices: 107950007--107950043 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
107949997 AAATTTAATC
*
107950007 TTTAATAT
1 TTTAACAT
107950015 TTTAACAT
1 TTTAACAT
107950023 TTTAACAT
1 TTTAACAT
107950031 TTTATACAT
1 TTTA-ACAT
107950040 TTTA
1 TTTA
107950044 TCAATTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
8 19 0.70
9 8 0.30
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (8 bp):
TTTAACAT
Found at i:107950215 original size:23 final size:24
Alignment explanation
Indices: 107950189--107950239 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
107950179 TATAAAGTTT
107950189 AAATTAAAAATT-AAAAACATATA
1 AAATTAAAAATTAAAAAACATATA
*
107950212 AAA-TATAAATTAAAAAACATATA
1 AAATTAAAAATTAAAAAACATATA
107950235 AAATT
1 AAATT
107950240 GGTAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 7 0.28
23 17 0.68
24 1 0.04
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (24 bp):
AAATTAAAAATTAAAAAACATATA
Found at i:107953707 original size:2 final size:2
Alignment explanation
Indices: 107953700--107953736 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
107953690 CAAAAACTTA
107953700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107953737 AAGGAGCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:107955663 original size:25 final size:22
Alignment explanation
Indices: 107955605--107955648 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
107955595 ATAAAAGTTC
*
107955605 AAATGCAAAATAATATTATTAT
1 AAATGAAAAATAATATTATTAT
107955627 AAATGAAAAATAATATTATTAT
1 AAATGAAAAATAATATTATTAT
107955649 CTACATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (22 bp):
AAATGAAAAATAATATTATTAT
Found at i:107962143 original size:24 final size:22
Alignment explanation
Indices: 107962109--107962153 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
107962099 AATTAGATTA
*
107962109 CATATACATATAACATCTATAC
1 CATATACATATAACATATATAC
*
107962131 CATATATCAATATATCATATATA
1 CATATA-C-ATATAACATATATA
107962154 AACCATTCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 1 0.05
24 12 0.63
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.36
Consensus pattern (22 bp):
CATATACATATAACATATATAC
Found at i:107966222 original size:87 final size:86
Alignment explanation
Indices: 107966063--107966225 Score: 209
Period size: 87 Copynumber: 1.9 Consensus size: 86
107966053 TGTACATGCA
* * * *
107966063 TAAGGTTTAGTTATTACTTTTAATGAATTCATAGCCCAGAGTTTGGGTGGTATTATTAAGACAGA
1 TAAGGTTGAGTTATTACTCTTAATGAATTCATAGACCAGAGTTTGGGTGGTACTATTAAGACAGA
107966128 CTTGATGAATTTACCGACGTG
66 CTTGATGAATTTACCGACGTG
* * * * * * **
107966149 TAAGGTTGAGTTTCTTACTCTTAATGAGTTCATATACTAGAGTTTGGGTGGTCCTATTGAGATGG
1 TAAGGTTGAG-TTATTACTCTTAATGAATTCATAGACCAGAGTTTGGGTGGTACTATTAAGACAG
107966214 ACTTGATGAATT
65 ACTTGATGAATT
107966226 CACCAAACTT
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
86 9 0.14
87 55 0.86
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (86 bp):
TAAGGTTGAGTTATTACTCTTAATGAATTCATAGACCAGAGTTTGGGTGGTACTATTAAGACAGA
CTTGATGAATTTACCGACGTG
Found at i:107970364 original size:26 final size:25
Alignment explanation
Indices: 107970335--107970399 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
107970325 CCCTCCCAAA
107970335 AAAAAAACCTAACCCAAAAAAAAGAG
1 AAAAAAACCTAACCCAAAAAAAA-AG
**
107970361 AAAAAAACCTAACCCCCCAAAAAAAG
1 AAAAAAACCTAA-CCCAAAAAAAAAG
107970387 --AAAAACCTAACCC
1 AAAAAAACCTAACCC
107970400 CCCCAAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 3 0.08
24 10 0.28
26 14 0.39
27 9 0.25
ACGTcount: A:0.63, C:0.28, G:0.05, T:0.05
Consensus pattern (25 bp):
AAAAAAACCTAACCCAAAAAAAAAG
Found at i:107971208 original size:11 final size:11
Alignment explanation
Indices: 107971190--107971219 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
107971180 GTGTATATTG
107971190 TATATATTATA
1 TATATATTATA
*
107971201 TTTATATTATA
1 TATATATTATA
107971212 TATATATT
1 TATATATT
107971220 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:107971634 original size:16 final size:15
Alignment explanation
Indices: 107971610--107971644 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
107971600 TAATTATTAT
107971610 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
107971626 TATTTTAATATTTTA
1 TATTCTAATATTTTA
107971641 TATT
1 TATT
107971645 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:107973229 original size:12 final size:12
Alignment explanation
Indices: 107973212--107973247 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
107973202 ATTCATTTGA
107973212 CATTCATGCATT
1 CATTCATGCATT
*
107973224 CATTCATGCATC
1 CATTCATGCATT
*
107973236 CATTCATTCATT
1 CATTCATGCATT
107973248 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:107973241 original size:16 final size:17
Alignment explanation
Indices: 107973220--107973251 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
107973210 GACATTCATG
107973220 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
107973236 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
107973252 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:107980121 original size:12 final size:12
Alignment explanation
Indices: 107980101--107980133 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
107980091 AGCAGCCAAT
*
107980101 AAGAATATTAAA
1 AAGATTATTAAA
107980113 AAGATTATTAAA
1 AAGATTATTAAA
107980125 AAGATTATT
1 AAGATTATT
107980134 GGGAAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (12 bp):
AAGATTATTAAA
Found at i:107981615 original size:72 final size:72
Alignment explanation
Indices: 107981539--107982237 Score: 1006
Period size: 72 Copynumber: 9.6 Consensus size: 72
107981529 CTGTTTCAAA
*
107981539 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
*
107981604 TGTTGTC
66 TGTTTTC
* *
107981611 AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
107981676 TCTGTTTTC
64 TCTGTTTTC
**
107981685 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
107981750 TGTTTTC
66 TGTTTTC
* ** * * * *
107981757 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-AACACGTTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
107981821 TGTCTTTC
66 TGT-TTTC
*
107981829 AAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
*
107981894 TTCTGTTGTTAA
63 TTCTGTT-TT-C
** *
107981906 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTAAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
107981971 TGTTTTC
66 TGTTTTC
* * * ** * * * *
107981978 TAAATTCAATTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
107982043 TGTTTTTC
66 TG-TTTTC
*
107982051 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
107982116 TCTGTTTTC
64 TCTGTTTTC
107982125 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGACACGCTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTAATTTCAATTT
107982189 CTGTTTTC
65 CTGTTTTC
*
107982197 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
107982238 ATCACACATG
Statistics
Matches: 564, Mismatches: 48, Indels: 26
0.88 0.08 0.04
Matches are distributed among these distances:
71 25 0.04
72 237 0.42
73 44 0.08
74 139 0.25
75 93 0.16
76 26 0.05
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:107981875 original size:147 final size:145
Alignment explanation
Indices: 107981539--107982232 Score: 1027
Period size: 147 Copynumber: 4.7 Consensus size: 145
107981529 CTGTTTCAAA
*
107981539 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* *
107981604 TGTTGTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTAAT
66 TGTTTTC-AAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGACACGCTGAGGTAAT
107981669 TTCAATTTCTGTTTTC
130 TTCAATTTCTGTTTTC
**
107981685 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * * * *
107981750 TGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC-AAACACGTTGAGGTATTT
66 TGTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGACACGCTGAGGTAATT
*
107981813 TCAATTTTTGTCTTTC
131 TCAATTTCTGT-TTTC
*
107981829 AAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
* * *
107981894 TTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-AGGACACGCTAAGG
63 TTCTGTT-TTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGA-GACACGCTGAGG
107981958 TAATTTCAATTTCTGTTTTC
126 TAATTTCAATTTCTGTTTTC
* * * ** * * * *
107981978 TAAATTCAATTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* *
107982043 TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAA
66 TG-TTTTC-AAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGACACGCTGAGGTAA
107982108 TTTCAATTTCTGTTTTC
129 TTTCAATTTCTGTTTTC
107982125 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGACACGCTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTAATTTCAATTT
*
107982189 CTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
65 CTGTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGC
107982233 TTCAGATCAC
Statistics
Matches: 492, Mismatches: 45, Indels: 23
0.88 0.08 0.04
Matches are distributed among these distances:
143 24 0.05
144 40 0.08
145 36 0.07
146 132 0.27
147 193 0.39
148 2 0.00
149 42 0.09
150 23 0.05
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (145 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGACACGCTGAGGTAATT
TCAATTTCTGTTTTC
Found at i:107982131 original size:293 final size:291
Alignment explanation
Indices: 107981538--107982237 Score: 1066
Period size: 293 Copynumber: 2.4 Consensus size: 291
107981528 TCTGTTTCAA
107981538 AAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
* * *
107981603 CTGTTGTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTAA
66 CTGTTGTTAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTAAGGTAA
** ***
107981668 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCT
131 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
*
107981733 GAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAA
196 GAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAA
* * *
107981798 CACGTTGAGGTATTTTCAATTTTTGTCTTTC
261 CACGCTGAGGTAATTTCAATTTCTGTCTTTC
107981829 AAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 --AAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
*
107981894 TTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTAAGGT
64 TTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTAAGGT
* * * *
107981959 AATTTCAATTTCTGTTTTCTAAATTCAATTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATG
129 AATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
* * **
107982024 CTGAGGTATTTTCAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
194 CTGAGGTAATTTCAATTTCTG-TTTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
**
107982089 TCGGGACACGCTGAGGTAATTTCAATTTCTGT-TTTC
256 TC-AAACACGCTGAGGTAATTTCAATTTCTGTCTTTC
*
107982125 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGACACGCTGAGGTAATTTCAATT
1 AAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTAATTTCAATT
* * *
107982188 TCTGTT-TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
65 TCTGTTGTTAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAG
107982238 ATCACACATG
Statistics
Matches: 374, Mismatches: 28, Indels: 11
0.91 0.07 0.03
Matches are distributed among these distances:
292 41 0.11
293 265 0.71
294 5 0.01
296 39 0.10
297 24 0.06
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (291 bp):
AAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
CTGTTGTTAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTAAGGTAA
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
GAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAA
CACGCTGAGGTAATTTCAATTTCTGTCTTTC
Found at i:107983149 original size:26 final size:26
Alignment explanation
Indices: 107983089--107983139 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
107983079 CCCTGCCCCA
107983089 AAAAAAACCTAACCCAAAAAAAAAAG
1 AAAAAAACCTAACCCAAAAAAAAAAG
107983115 AAAAAAACCTAACCCAAAAAAAAAA
1 AAAAAAACCTAACCCAAAAAAAAAA
107983140 AAACCTAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.75, C:0.20, G:0.02, T:0.04
Consensus pattern (26 bp):
AAAAAAACCTAACCCAAAAAAAAAAG
Found at i:107983159 original size:26 final size:25
Alignment explanation
Indices: 107983088--107983161 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 25
107983078 GCCCTGCCCC
***
107983088 AAAAAAAACCTAACCCAAAAAAAAA
1 AAAAAAAACCTAACCCCCCAAAAAA
107983113 AGAAAAAAACCTAA---CCC-AAAAA
1 A-AAAAAAACCTAACCCCCCAAAAAA
*
107983135 AAAAAAAACCTAACCCCCCCAAAAA
1 AAAAAAAACCTAACCCCCCAAAAAA
107983160 AA
1 AA
107983162 CCAAGAAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
21 12 0.29
22 6 0.15
24 3 0.07
25 8 0.20
26 12 0.29
ACGTcount: A:0.69, C:0.26, G:0.01, T:0.04
Consensus pattern (25 bp):
AAAAAAAACCTAACCCCCCAAAAAA
Found at i:107983161 original size:21 final size:21
Alignment explanation
Indices: 107983088--107983150 Score: 81
Period size: 21 Copynumber: 2.8 Consensus size: 21
107983078 GCCCTGCCCC
107983088 AAAAAAAACCTAACCCAAAAAAAAA
1 AAAAAAAACCTAACCC----AAAAA
107983113 AGAAAAAAACCTAACCCAAAAA
1 A-AAAAAAACCTAACCCAAAAA
107983135 AAAAAAAACCTAACCC
1 AAAAAAAACCTAACCC
107983151 CCCCAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
21 15 0.41
22 6 0.16
25 1 0.03
26 15 0.41
ACGTcount: A:0.70, C:0.24, G:0.02, T:0.05
Consensus pattern (21 bp):
AAAAAAAACCTAACCCAAAAA
Found at i:107983433 original size:29 final size:31
Alignment explanation
Indices: 107983378--107983435 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
107983368 CTAAAGGTGA
*
107983378 TTTTATCTTCTTTATTTTACTCTTTTTTTAT
1 TTTTATCTTCTTTATTTTACTCCTTTTTTAT
**
107983409 TTTTAT-TT-TTTATTTTGTTCCTTTTTT
1 TTTTATCTTCTTTATTTTACTCCTTTTTT
107983436 CGAATCTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 2 0.08
31 6 0.25
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (31 bp):
TTTTATCTTCTTTATTTTACTCCTTTTTTAT
Found at i:107983505 original size:13 final size:12
Alignment explanation
Indices: 107983464--107983515 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 12
107983454 TATATACATC
*
107983464 ATAATAAAAAAT
1 ATAAAAAAAAAT
107983476 ATAATAAAAATATAT
1 ATAA-AAAAA-A-AT
*
107983491 ATACAAAACAAAT
1 ATA-AAAAAAAAT
107983504 ATAAAAAAAAAT
1 ATAAAAAAAAAT
107983516 TACCTTTTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
12 12 0.36
13 9 0.27
14 2 0.06
15 9 0.27
16 1 0.03
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (12 bp):
ATAAAAAAAAAT
Found at i:107983959 original size:11 final size:11
Alignment explanation
Indices: 107983941--107983970 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
107983931 GTGTATATTG
107983941 TATATATTATA
1 TATATATTATA
*
107983952 TTTATATTATA
1 TATATATTATA
107983963 TATATATT
1 TATATATT
107983971 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:107984383 original size:16 final size:15
Alignment explanation
Indices: 107984359--107984393 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
107984349 TAATTATTAT
107984359 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
107984375 TATTTTAATATTTTA
1 TATTCTAATATTTTA
107984390 TATT
1 TATT
107984394 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:107999229 original size:25 final size:25
Alignment explanation
Indices: 107999182--107999235 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
107999172 ACACACCACC
* *
107999182 GCTCTCATGAGCTTCCCGATATTTA
1 GCTCGCATGAGCTTCCCGATATTCA
107999207 GCTCGCATGAGCTTCCC-ATTATTCA
1 GCTCGCATGAGCTTCCCGA-TATTCA
107999232 GCTC
1 GCTC
107999236 AGAGGAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (25 bp):
GCTCGCATGAGCTTCCCGATATTCA
Found at i:108012875 original size:21 final size:22
Alignment explanation
Indices: 108012849--108012899 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
108012839 TTAAATTATC
108012849 ATTTTAATATTA-ATTAT-CAAT
1 ATTTTAATATTATA-TATGCAAT
* *
108012870 ATTTTAAAATTATATATGTAAT
1 ATTTTAATATTATATATGCAAT
108012892 ATTTTAAT
1 ATTTTAAT
108012900 TCTTTAATCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
ATTTTAATATTATATATGCAAT
Found at i:108013373 original size:19 final size:20
Alignment explanation
Indices: 108013341--108013380 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
108013331 ATATTTTAAT
108013341 AAATTTAATGATTTTTAAAAA
1 AAATTTAA-GATTTTTAAAAA
108013362 AAATTTAA-ATTTTTAAAAA
1 AAATTTAAGATTTTTAAAAA
108013381 TTAATTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
AAATTTAAGATTTTTAAAAA
Found at i:108013386 original size:20 final size:18
Alignment explanation
Indices: 108013351--108013390 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
108013341 AAATTTAATG
108013351 ATTTTTAAAAAAAATTTAA
1 ATTTTTAAAAAAAA-TTAA
*
108013370 ATTTTTAAAAATTAATTAA
1 ATTTTTAAAAA-AAATTAA
108013389 AT
1 AT
108013391 GTTAATGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTTTAAAAAAAATTAA
Found at i:108015642 original size:53 final size:53
Alignment explanation
Indices: 108015561--108015711 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
108015551 CTTACACGGT
* *
108015561 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
108015616 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
108015669 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
108015712 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:108023143 original size:53 final size:53
Alignment explanation
Indices: 108023062--108023212 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
108023052 CTTACACGGT
* *
108023062 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
108023117 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
108023170 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
108023213 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:108024997 original size:24 final size:24
Alignment explanation
Indices: 108024969--108025021 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
108024959 ATTAGCAAGT
*
108024969 TAAATAAACTATGCTAATAAATGC
1 TAAATAAACTATACTAATAAATGC
* *
108024993 TAAATATATTATACTAATAAATGC
1 TAAATAAACTATACTAATAAATGC
108025017 TAAAT
1 TAAAT
108025022 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (24 bp):
TAAATAAACTATACTAATAAATGC
Found at i:108025602 original size:20 final size:20
Alignment explanation
Indices: 108025572--108025625 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
108025562 AGGGGCACAT
* *
108025572 GCCCATGTGGCCTGGGACAC
1 GCCCGTGTGGCCTGGAACAC
* *
108025592 GCCTGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAC
108025612 GCCCGTGTGGCCTG
1 GCCCGTGTGGCCTG
108025626 CCCATGGACA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.11, C:0.31, G:0.37, T:0.20
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAC
Found at i:108029407 original size:24 final size:24
Alignment explanation
Indices: 108029379--108029430 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
108029369 TTTGTAAGTA
* *
108029379 AAATAAACTATGCTAATAAATGTT
1 AAATAAACTATACTAATAAATATT
* *
108029403 AAATATATTATACTAATAAATATT
1 AAATAAACTATACTAATAAATATT
108029427 AAAT
1 AAAT
108029431 TTTCTAAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATATT
Found at i:108029720 original size:24 final size:23
Alignment explanation
Indices: 108029693--108029738 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
108029683 TATTATTTTG
108029693 AAATTAAAAATATAAAAAATTTAA
1 AAATTAAAAATAT-AAAAATTTAA
* *
108029717 AAATTTAAAATATATAAATTTA
1 AAATTAAAAATATAAAAATTTA
108029739 GTAAAAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATTAAAAATATAAAAATTTAA
Found at i:108029734 original size:17 final size:17
Alignment explanation
Indices: 108029693--108029734 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
108029683 TATTATTTTG
108029693 AAAT-TAAAAATATAAA
1 AAATATAAAAATATAAA
* *
108029709 AAATTTAAAAATTTAAA
1 AAATATAAAAATATAAA
*
108029726 ATATATAAA
1 AAATATAAA
108029735 TTTAGTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATATAAAAATATAAA
Done.