Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 274 of 295
Found at i:93496830 original size:56 final size:56
Alignment explanation
Indices: 93496765--93496877 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
93496755 CCATTTGAGT
93496765 TGGCTTGATTTATATGTTGACAAATGATATATGTGATGTTTATAATTTACCATGTG
1 TGGCTTGATTTATATGTTGACAAATGATATATGTGATGTTTATAATTTACCATGTG
*
93496821 TGGCTTGATTTATATGTTGATAAATGATATATGTGATGTTTATAATTTACCATGTG
1 TGGCTTGATTTATATGTTGACAAATGATATATGTGATGTTTATAATTTACCATGTG
93496877 T
1 T
93496878 TTTGGCATGT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.28, C:0.06, G:0.19, T:0.46
Consensus pattern (56 bp):
TGGCTTGATTTATATGTTGACAAATGATATATGTGATGTTTATAATTTACCATGTG
Found at i:93500093 original size:18 final size:18
Alignment explanation
Indices: 93500070--93500121 Score: 77
Period size: 18 Copynumber: 2.8 Consensus size: 18
93500060 AATTATTTTC
93500070 ATTTTTTCTTATTTAATT
1 ATTTTTTCTTATTTAATT
*
93500088 ATTTTTTATTATTTAATT
1 ATTTTTTCTTATTTAATT
*
93500106 ATTTTCTTCTTCTTTA
1 ATTTT-TTCTTATTTA
93500122 TTCTTTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 22 0.73
19 8 0.27
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTTCTTATTTAATT
Found at i:93502403 original size:25 final size:26
Alignment explanation
Indices: 93502375--93502425 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
93502365 GTCGTAAATC
*
93502375 AGAAAAATATCTTTAGA-AATTTTCT
1 AGAAAAATATCTTCAGAGAATTTTCT
* *
93502400 AGAATAATCTCTTCAGAGAATTTTCT
1 AGAAAAATATCTTCAGAGAATTTTCT
93502426 CTCTACAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (26 bp):
AGAAAAATATCTTCAGAGAATTTTCT
Found at i:93502682 original size:48 final size:48
Alignment explanation
Indices: 93502612--93502735 Score: 133
Period size: 48 Copynumber: 2.5 Consensus size: 48
93502602 AGATAATCAC
* * *
93502612 TTTAGTATTAAATTAATAAAATACA-ATTAAGATAAGTATTAAATTAAA
1 TTTAATATTAAATTATTAAAATA-ATATTAAGATAAATATTAAATTAAA
* *** *
93502660 TTTACTATTAAATTATTAAAATAATATTATTTTAAATATTAGATTAAA
1 TTTAATATTAAATTATTAAAATAATATTAAGATAAATATTAAATTAAA
*
93502708 TTTAATAGTAAATCTTATTAAAATAATA
1 TTTAATATTAAA--TTATTAAAATAATA
93502736 GAATGTTTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 1 0.02
48 49 0.77
50 14 0.22
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (48 bp):
TTTAATATTAAATTATTAAAATAATATTAAGATAAATATTAAATTAAA
Found at i:93502818 original size:175 final size:175
Alignment explanation
Indices: 93502527--93502867 Score: 664
Period size: 175 Copynumber: 1.9 Consensus size: 175
93502517 TCACTTTAAT
93502527 ATTAAATTTAATAGTAAATCTTATTAAAATAATAGAATGTTTATCAAGATAAACATTAAATTAAA
1 ATTAAATTTAATAGTAAATCTTATTAAAATAATAGAATGTTTATCAAGATAAACATTAAATTAAA
93502592 TTTAATATTAAGATAATCACTTTAGTATTAAATTAATAAAATACAATTAAGATAAGTATTAAATT
66 TTTAATATTAAGATAATCACTTTAGTATTAAATTAATAAAATACAATTAAGATAAGTATTAAATT
*
93502657 AAATTTACTATTAAATTATTAAAATAATATTATTTTAAATATTAG
131 AAATTTACTATTAAACTATTAAAATAATATTATTTTAAATATTAG
*
93502702 ATTAAATTTAATAGTAAATCTTATTAAAATAATAGAATGTTTATCAAGATAAAGATTAAATTAAA
1 ATTAAATTTAATAGTAAATCTTATTAAAATAATAGAATGTTTATCAAGATAAACATTAAATTAAA
93502767 TTTAATATTAAGATAATCACTTTAGTATTAAATTAATAAAATACAATTAAGATAAGTATTAAATT
66 TTTAATATTAAGATAATCACTTTAGTATTAAATTAATAAAATACAATTAAGATAAGTATTAAATT
93502832 AAATTTACTATTAAACTATTAAAATAATATTATTTT
131 AAATTTACTATTAAACTATTAAAATAATATTATTTT
93502868 TGGAATAATT
Statistics
Matches: 164, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
175 164 1.00
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.40
Consensus pattern (175 bp):
ATTAAATTTAATAGTAAATCTTATTAAAATAATAGAATGTTTATCAAGATAAACATTAAATTAAA
TTTAATATTAAGATAATCACTTTAGTATTAAATTAATAAAATACAATTAAGATAAGTATTAAATT
AAATTTACTATTAAACTATTAAAATAATATTATTTTAAATATTAG
Found at i:93512310 original size:27 final size:27
Alignment explanation
Indices: 93512255--93512451 Score: 229
Period size: 27 Copynumber: 7.4 Consensus size: 27
93512245 GGGGCAAAAT
* * * * *
93512255 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
93512282 GGTAATTCTACCCTACAGGGGAATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
93512309 GGTATTTCTA-CCT-TA-GGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
93512333 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
93512360 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
93512387 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
93512414 GGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
93512441 GGTAATTCTAC
1 GGTAATTCTAC
93512452 AACTTATCCA
Statistics
Matches: 147, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
24 15 0.10
25 4 0.03
26 4 0.03
27 124 0.84
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:93515738 original size:40 final size:40
Alignment explanation
Indices: 93515501--93515747 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
93515491 AGATTGATAC
* *
93515501 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
93515541 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
93515580 TCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
93515620 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
93515660 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
93515700 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
93515740 CC-GGCTAA
1 CCGGGCTAA
93515748 ACTCCGAAGG
Statistics
Matches: 192, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
39 42 0.22
40 150 0.78
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:93522437 original size:41 final size:41
Alignment explanation
Indices: 93522389--93522635 Score: 287
Period size: 41 Copynumber: 6.0 Consensus size: 41
93522379 GAAAATGCCA
*
93522389 CTAAAAACTGAGCAATAGCGGTGTTTCTGGTCCAAACGCCG
1 CTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGCCG
* * * *
93522430 CTTAAAACAGAGCAATAGCGGCGTTTTTGGTCCAAACGCCA
1 CTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGCCG
* * *
93522471 CTAAAAACTGAGCAATAGCGACGTTTCTGGTCCAAATGCCA
1 CTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGCCG
* * * * * **
93522512 TTAAAAATTGAACAATAGCGGCTTTTTTGGTCCAAACGCTA
1 CTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGCCG
* ** * * *
93522553 CAAAAAAACTGAGCAATAGTAGCATTTTTGGTCCAAACGCTG
1 C-TAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGCCG
*
93522595 CTAAAAACTGAGCAATAGCGGCATTTCTGGTCCAAACGCCG
1 CTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGCCG
93522636 ACACTCATTT
Statistics
Matches: 174, Mismatches: 31, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
41 140 0.80
42 34 0.20
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (41 bp):
CTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGCCG
Found at i:93522600 original size:124 final size:123
Alignment explanation
Indices: 93522381--93522630 Score: 331
Period size: 124 Copynumber: 2.0 Consensus size: 123
93522371 GTTTGCAAGA
* * **
93522381 AAATGCCACTAAAAACTGAGCAATAGCGGTGTTTCTGGTCCAAACGCCGCTTAAAACAGAGCAAT
1 AAATGCCACTAAAAACTGAACAATAGCGGTGTTTCTGGTCCAAACGCCACAAAAAACAGAGCAAT
* * *
93522446 AGCGGCGTTTTTGGTCCAAACGCCACTAAAAACTGAGCAATAGCGACGTTTCTGGTCC
66 AGCAGCATTTTTGGTCCAAACGCCACTAAAAACTGAGCAATAGCGACATTTCTGGTCC
* * * * *
93522504 AAATGCCATTAAAAATTGAACAATAGCGGCT-TTTTTGGTCCAAACGCTACAAAAAAACTGAGCA
1 AAATGCCACTAAAAACTGAACAATAGCGG-TGTTTCTGGTCCAAACGCCAC-AAAAAACAGAGCA
* ** *
93522568 ATAGTAGCATTTTTGGTCCAAACGCTGCTAAAAACTGAGCAATAGCGGCATTTCTGGTCC
64 ATAGCAGCATTTTTGGTCCAAACGCCACTAAAAACTGAGCAATAGCGACATTTCTGGTCC
93522628 AAA
1 AAA
93522631 CGCCGACACT
Statistics
Matches: 109, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
123 42 0.39
124 67 0.61
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (123 bp):
AAATGCCACTAAAAACTGAACAATAGCGGTGTTTCTGGTCCAAACGCCACAAAAAACAGAGCAAT
AGCAGCATTTTTGGTCCAAACGCCACTAAAAACTGAGCAATAGCGACATTTCTGGTCC
Found at i:93522701 original size:18 final size:18
Alignment explanation
Indices: 93522676--93522710 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
93522666 TTCATATTAT
*
93522676 TTTTTTTTTGA-ATTTGA
1 TTTTATTTTGATATTTGA
93522693 TTTTATTTTGATATTTGA
1 TTTTATTTTGATATTTGA
93522711 AACTGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (18 bp):
TTTTATTTTGATATTTGA
Found at i:93522911 original size:14 final size:14
Alignment explanation
Indices: 93522878--93522904 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
93522868 TCTCTAAGCC
93522878 CTTAAACCCTAAAG
1 CTTAAACCCTAAAG
93522892 CTTAAACCCTAAA
1 CTTAAACCCTAAA
93522905 TTTTAAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.30, G:0.04, T:0.22
Consensus pattern (14 bp):
CTTAAACCCTAAAG
Found at i:93523204 original size:35 final size:35
Alignment explanation
Indices: 93523123--93523205 Score: 85
Period size: 35 Copynumber: 2.4 Consensus size: 35
93523113 AGTATGTTAA
* * * * *
93523123 GTTTATGGCTTAAGGTTTGTTATTTTGGGTTTGGG
1 GTTTAAGGTTTAAAGTTTGTTATTTGGGGTTTAGG
* * *
93523158 GTTTAAAGTTTAAAGTTTGTTGTTTGGGGTTTAGT
1 GTTTAAGGTTTAAAGTTTGTTATTTGGGGTTTAGG
*
93523193 GTTTAGGGTTTAA
1 GTTTAAGGTTTAA
93523206 GATCTTAGTG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.17, C:0.01, G:0.31, T:0.51
Consensus pattern (35 bp):
GTTTAAGGTTTAAAGTTTGTTATTTGGGGTTTAGG
Found at i:93523235 original size:22 final size:21
Alignment explanation
Indices: 93523188--93523256 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 21
93523178 TGTTTGGGGT
**
93523188 TTAGTGTTTAGGGTTTAAGATC
1 TTAGTGTTTAGGGTTTAAG-GG
*
93523210 TTAGTGTTTATGGTTTTAAGGG
1 TTAGTGTTTA-GGGTTTAAGGG
*
93523232 TTAG-GTATTAGGGTTTAATGG
1 TTAGTGT-TTAGGGTTTAAGGG
93523253 TTAG
1 TTAG
93523257 GGTTATTGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 15 0.38
22 17 0.43
23 8 0.20
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.46
Consensus pattern (21 bp):
TTAGTGTTTAGGGTTTAAGGG
Found at i:93523381 original size:22 final size:22
Alignment explanation
Indices: 93523353--93523394 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
93523343 TAATATATAT
93523353 ATATTTAGGGTTTAGGGTTTAA
1 ATATTTAGGGTTTAGGGTTTAA
93523375 ATATTTAGGGTTTAGGGTTT
1 ATATTTAGGGTTTAGGGTTT
93523395 GGTTTCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.48
Consensus pattern (22 bp):
ATATTTAGGGTTTAGGGTTTAA
Found at i:93523667 original size:20 final size:20
Alignment explanation
Indices: 93523642--93523679 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
93523632 TGAAAAACGC
93523642 TGCTAAAGATCAAGAATTGG
1 TGCTAAAGATCAAGAATTGG
*
93523662 TGCTAAAGATCGAGAATT
1 TGCTAAAGATCAAGAATT
93523680 AACGGCACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (20 bp):
TGCTAAAGATCAAGAATTGG
Found at i:93523720 original size:41 final size:40
Alignment explanation
Indices: 93523663--93523739 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 40
93523653 AAGAATTGGT
93523663 GCTAAAGATCGAGAATTAACG-GCACTTTTTTGAAAAACGCC
1 GCTAAAGATCGAGAATT-A-GTGCACTTTTTTGAAAAACGCC
*
93523704 GCTAAAGATCGAGAATTAGTGCGCTTTTTTGAAAAA
1 GCTAAAGATCGAGAATTAGTGCACTTTTTTGAAAAA
93523740 TGCTGCAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
39 1 0.03
40 16 0.47
41 17 0.50
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (40 bp):
GCTAAAGATCGAGAATTAGTGCACTTTTTTGAAAAACGCC
Found at i:93530052 original size:28 final size:28
Alignment explanation
Indices: 93530010--93530071 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
93530000 TTGTTTGACT
*
93530010 GAAAATGGTTATCGGAAAATGATTTTTG
1 GAAAATGGTTATCGGAAAATGATTTCTG
* *
93530038 GAAAATGGTTTTCGGAAATTGATTTCTG
1 GAAAATGGTTATCGGAAAATGATTTCTG
93530066 GAAAAT
1 GAAAAT
93530072 TGCTTACTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (28 bp):
GAAAATGGTTATCGGAAAATGATTTCTG
Found at i:93530056 original size:13 final size:14
Alignment explanation
Indices: 93530010--93530055 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
93530000 TTGTTTGACT
*
93530010 GAAAATGGTTATCG
1 GAAAATGGTTTTCG
* *
93530024 GAAAATGATTTTTG
1 GAAAATGGTTTTCG
93530038 GAAAATGGTTTTCG
1 GAAAATGGTTTTCG
93530052 GAAA
1 GAAA
93530056 TTGATTTCTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (14 bp):
GAAAATGGTTTTCG
Found at i:93530068 original size:14 final size:13
Alignment explanation
Indices: 93530023--93530071 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
93530013 AATGGTTATC
93530023 GGAAAATGATTTTT
1 GGAAAATGA-TTTT
*
93530037 GGAAAATGGTTTT
1 GGAAAATGATTTT
*
93530050 CGGAAATTGATTTCT
1 -GGAAAATGATTT-T
93530065 GGAAAAT
1 GGAAAAT
93530072 TGCTTACTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 4 0.14
14 24 0.83
15 1 0.03
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (13 bp):
GGAAAATGATTTT
Found at i:93531830 original size:19 final size:19
Alignment explanation
Indices: 93531808--93531846 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
93531798 TTTTAAATAG
*
93531808 ATACACATGTATTAATAAT
1 ATACACATGTATAAATAAT
93531827 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
93531846 A
1 A
93531847 AATAAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Found at i:93531997 original size:13 final size:14
Alignment explanation
Indices: 93531965--93531997 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
93531955 AGAGGGAAGG
93531965 AAGGAAAGAAAGAA
1 AAGGAAAGAAAGAA
93531979 AA-GAAAGAAA-AA
1 AAGGAAAGAAAGAA
93531991 AAGGAAA
1 AAGGAAA
93531998 AATTTAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.22
13 12 0.67
14 2 0.11
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAGGAAAGAAAGAA
Found at i:93532545 original size:10 final size:10
Alignment explanation
Indices: 93532530--93532555 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
93532520 AAGTCGACGA
93532530 GGAAAAGCTT
1 GGAAAAGCTT
93532540 GGAAAAGCTT
1 GGAAAAGCTT
93532550 GGAAAA
1 GGAAAA
93532556 TACGGTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.31, T:0.15
Consensus pattern (10 bp):
GGAAAAGCTT
Found at i:93532740 original size:15 final size:15
Alignment explanation
Indices: 93532692--93532741 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
93532682 TTTATCAAAT
93532692 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* * *
93532707 TCATTTTGATTGAAT
1 TTATATTGATTGAAA
93532722 TTATATTGATTGAAA
1 TTATATTGATTGAAA
93532737 TTATA
1 TTATA
93532742 ATATATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:93536685 original size:17 final size:17
Alignment explanation
Indices: 93536663--93536695 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
93536653 TTTAATCAAC
93536663 AAATCAATATATTAAAA
1 AAATCAATATATTAAAA
*
93536680 AAATCAATATTTTAAA
1 AAATCAATATATTAAA
93536696 TTTCAAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATCAATATATTAAAA
Found at i:93536857 original size:33 final size:33
Alignment explanation
Indices: 93536820--93536883 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
93536810 TTACTCAAAG
* *
93536820 AATAAAGGGAAAATATTTAATAAAATAGAAAAA
1 AATAAAGAGAAAATATTGAATAAAATAGAAAAA
* *
93536853 AATAAAGATAAATTATTGAATAAAATAGAAA
1 AATAAAGAGAAAATATTGAATAAAATAGAAA
93536884 CATTAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (33 bp):
AATAAAGAGAAAATATTGAATAAAATAGAAAAA
Found at i:93537574 original size:20 final size:19
Alignment explanation
Indices: 93537539--93537576 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
93537529 TATCAATTAA
*
93537539 AAATAATTATAGATAATAC
1 AAATAATTATAAATAATAC
93537558 AAATAATATATAAATAATA
1 AAATAAT-TATAAATAATA
93537577 TTTAATGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATAATTATAAATAATAC
Found at i:93539290 original size:29 final size:29
Alignment explanation
Indices: 93539257--93539339 Score: 87
Period size: 31 Copynumber: 2.8 Consensus size: 29
93539247 TTTTTAAAAT
93539257 TTATATACATG-AACTTTAATTTGATGTAA
1 TTATATACATGAAACTTTAATTTG-TGTAA
* * *
93539286 TTATAAACATGAAATTTTAATTATTGTTTAA
1 TTATATACATGAAACTTTAA-T-TTGTGTAA
* *
93539317 TTGTATACTTGAAACTTTAATTT
1 TTATATACATGAAACTTTAATTT
93539340 TTATTTAATC
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
29 12 0.27
30 8 0.18
31 21 0.48
32 3 0.07
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.48
Consensus pattern (29 bp):
TTATATACATGAAACTTTAATTTGTGTAA
Found at i:93539525 original size:29 final size:30
Alignment explanation
Indices: 93539482--93539538 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
93539472 GAATTTGATC
*
93539482 AAATCAAAATCTCATGTATAAAATTGCACA
1 AAATCAAAATCTCATATATAAAATTGCACA
* *
93539512 AAATCAAAGT-TCATATATACAATTGCA
1 AAATCAAAATCTCATATATAAAATTGCA
93539539 TATTAAACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.28
Consensus pattern (30 bp):
AAATCAAAATCTCATATATAAAATTGCACA
Found at i:93547758 original size:92 final size:92
Alignment explanation
Indices: 93547601--93547776 Score: 334
Period size: 92 Copynumber: 1.9 Consensus size: 92
93547591 TCGTGTTTTG
* *
93547601 TAATGGTTAGTTCTAATCATAGGCTTTTGGATGTATTTGATATATATATTATTTCAAGGTTTTAG
1 TAATGGTTAGTTCTAATCATAGGCTTTTGGATGTATATCATATATATATTATTTCAAGGTTTTAG
93547666 CTCCCGATTGATATAAACACTCTAATT
66 CTCCCGATTGATATAAACACTCTAATT
93547693 TAATGGTTAGTTCTAATCATAGGCTTTTGGATGTATATCATATATATATTATTTCAAGGTTTTAG
1 TAATGGTTAGTTCTAATCATAGGCTTTTGGATGTATATCATATATATATTATTTCAAGGTTTTAG
93547758 CTCCCGATTGATATAAACA
66 CTCCCGATTGATATAAACA
93547777 ACTAGGGGAC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 82 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (92 bp):
TAATGGTTAGTTCTAATCATAGGCTTTTGGATGTATATCATATATATATTATTTCAAGGTTTTAG
CTCCCGATTGATATAAACACTCTAATT
Found at i:93550116 original size:20 final size:20
Alignment explanation
Indices: 93550091--93550131 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
93550081 ATTTTAAGAT
93550091 GTGTCATTGTTGATAATATG
1 GTGTCATTGTTGATAATATG
93550111 GTGTCATTGTTGATAATATG
1 GTGTCATTGTTGATAATATG
93550131 G
1 G
93550132 GTTTTATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.27, T:0.44
Consensus pattern (20 bp):
GTGTCATTGTTGATAATATG
Found at i:93550849 original size:43 final size:44
Alignment explanation
Indices: 93550739--93550861 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 44
93550729 TAAGACAATA
93550739 TTTGGGACATCGGCATC-A-ATTTGAGATTTACGTGTAA-AACCATG
1 TTTGGGACATCGGCATCGATATTT--GATTT-CGTGTAAGAACCATG
* *
93550783 TCTGGGACATCGGCATCG-TATTTGATTTCGTGTAAGATCC-TG
1 TTTGGGACATCGGCATCGATATTTGATTTCGTGTAAGAACCATG
* *
93550825 TTTGGGACAGT-GGCATCGATATTTGATTACATGTAAG
1 TTTGGGACA-TCGGCATCGATATTTGATTTCGTGTAAG
93550862 GAGGGACGTT
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
42 24 0.35
43 25 0.36
44 16 0.23
45 4 0.06
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (44 bp):
TTTGGGACATCGGCATCGATATTTGATTTCGTGTAAGAACCATG
Found at i:93555063 original size:24 final size:24
Alignment explanation
Indices: 93555033--93555102 Score: 88
Period size: 24 Copynumber: 2.8 Consensus size: 24
93555023 AGCTTACCGA
93555033 TTCAGCTCGAAAGAGCTTACTGTT
1 TTCAGCTCGAAAGAGCTTACTGTT
*
93555057 TTCAGCTC-AATGGAGCTTACTGTT
1 TTCAGCTCGAA-AGAGCTTACTGTT
*
93555081 TATCAGCTCAGTAAGAGCTTAC
1 T-TCAGCTC-GAAAGAGCTTAC
93555103 CGACCATGAC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
23 2 0.05
24 21 0.54
25 7 0.18
26 8 0.21
27 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (24 bp):
TTCAGCTCGAAAGAGCTTACTGTT
Found at i:93555541 original size:8 final size:8
Alignment explanation
Indices: 93555528--93555553 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
93555518 ATTAGTATTT
93555528 TGAACTTA
1 TGAACTTA
93555536 TGAACTTA
1 TGAACTTA
93555544 TGAACTTA
1 TGAACTTA
93555552 TG
1 TG
93555554 TAAATATGAC
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:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (8 bp):
TGAACTTA
Found at i:93564134 original size:10 final size:10
Alignment explanation
Indices: 93564113--93564156 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
93564103 TCTAAAAGAG
*
93564113 AAATACAAAT
1 AAATAAAAAT
*
93564123 AAATAAATAT
1 AAATAAAAAT
* *
93564133 AATTAAAGAT
1 AAATAAAAAT
93564143 AAATAAAAAT
1 AAATAAAAAT
93564153 AAAT
1 AAAT
93564157 CCTAAATTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:93565996 original size:5 final size:5
Alignment explanation
Indices: 93565965--93566048 Score: 61
Period size: 5 Copynumber: 16.8 Consensus size: 5
93565955 ATTATCACCC
* * *
93565965 AAAA- AAAAT AAAGT AATAA- ATAAT AAAAT AAAAT AAAGT AATGAAT
1 AAAAT AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AA--AAT
93566011 -AAAT -AAAT AATAA- AATAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AA-AAT AA-AAT AAAAT AAAAT AAAAT AAAA
93566049 ATTGGGTTGC
Statistics
Matches: 66, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
4 13 0.20
5 45 0.68
6 6 0.09
7 2 0.03
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:93566033 original size:8 final size:8
Alignment explanation
Indices: 93565966--93566046 Score: 60
Period size: 8 Copynumber: 9.9 Consensus size: 8
93565956 TTATCACCCA
*
93565966 AAAAAAAT
1 AAAATAAT
*
93565974 AAAGTAAT
1 AAAATAAT
93565982 -AAATAAT
1 AAAATAAT
93565989 AAAATAAAAT
1 AAAAT--AAT
*
93565999 AAAGTAAT
1 AAAATAAT
*
93566007 -GAATAA-
1 AAAATAAT
93566013 ATAAATAAT
1 A-AAATAAT
93566022 AAAATAAT
1 AAAATAAT
93566030 AAAATAAAAT
1 AAAAT--AAT
93566040 AAAATAA
1 AAAATAA
93566047 AAATTGGGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
7 10 0.17
8 32 0.55
9 1 0.02
10 15 0.26
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (8 bp):
AAAATAAT
Found at i:93577131 original size:15 final size:15
Alignment explanation
Indices: 93577106--93577141 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
93577096 CTGATTGCTT
93577106 TTTCC-TTAGCTTTG
1 TTTCCTTTAGCTTTG
93577120 TTTCCTTTAGCTTTG
1 TTTCCTTTAGCTTTG
93577135 TTTCCTT
1 TTTCCTT
93577142 GCGATTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.06, C:0.22, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCCTTTAGCTTTG
Found at i:93578275 original size:10 final size:10
Alignment explanation
Indices: 93578248--93578290 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
93578238 TTAAATTCTA
93578248 AAAGATAAAT
1 AAAGATAAAT
93578258 ACAA-ATAAAT
1 A-AAGATAAAT
*
93578268 AAAGATAATT
1 AAAGATAAAT
93578278 AAAGATAAAT
1 AAAGATAAAT
93578288 AAA
1 AAA
93578291 AAAAATCCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.07
10 25 0.86
11 2 0.07
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:93580804 original size:60 final size:61
Alignment explanation
Indices: 93580728--93580867 Score: 180
Period size: 60 Copynumber: 2.3 Consensus size: 61
93580718 TAGTGTTAAC
* *
93580728 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTACAGTATC-AGAGTATAT
1 TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAG-ATCGAGA-TATAT
* * *
93580789 TGGG-CTTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAGGTCGAGATATAT
1 TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAGATCGAGATATAT
*
93580849 TGGGTCTT-GCCCATATCAA
1 TGGGCCTTAGCCCATATCAA
93580868 CACAGTTGGG
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
60 54 0.77
61 16 0.23
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (61 bp):
TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAGATCGAGATATAT
Found at i:93580828 original size:28 final size:28
Alignment explanation
Indices: 93580727--93580828 Score: 82
Period size: 28 Copynumber: 3.5 Consensus size: 28
93580717 TTAGTGTTAA
* *
93580727 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCTTAGCCCATATCAGTATCAAT
* *
93580755 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCCTTAGCCCATAT-CAGTATC--A--AT
*
93580787 ATTGGG-CTTAGCCCATATCAGTATCAAT
1 -CTGGGCCTTAGCCCATATCAGTATCAAT
*
93580815 CTGGGCCGTAGCCC
1 CTGGGCCTTAGCCC
93580829 TATTACAGGT
Statistics
Matches: 57, Mismatches: 9, Indels: 16
0.70 0.11 0.20
Matches are distributed among these distances:
27 5 0.09
28 28 0.49
30 2 0.04
32 17 0.30
33 5 0.09
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (28 bp):
CTGGGCCTTAGCCCATATCAGTATCAAT
Found at i:93583516 original size:33 final size:33
Alignment explanation
Indices: 93583454--93583517 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 33
93583444 ATTAACAACA
* *
93583454 ATAATTTTATAAATATATTCGTATCTAATAATT
1 ATAATTTTATAAAAATATTCGTATATAATAATT
93583487 ATAATTTTTATAAAAATA-TCAGTA-ATAATAA
1 ATAA-TTTTATAAAAATATTC-GTATATAATAA
93583518 CAGAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 12 0.44
34 15 0.56
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (33 bp):
ATAATTTTATAAAAATATTCGTATATAATAATT
Found at i:93589363 original size:41 final size:41
Alignment explanation
Indices: 93589282--93589387 Score: 115
Period size: 41 Copynumber: 2.6 Consensus size: 41
93589272 TTAAGCTACG
* * ** * *
93589282 AGCCTAGCAAGCTTTGTGCTGGTGAATTTAATCGGGCTTTA
1 AGCCTAGCAGGCTTTGTGCCGGTGAATAAAATCAGACTTTA
*
93589323 TGCCTAGCAGGCTTAT-TGCCGGTGAATAAAATCAGACTTTA
1 AGCCTAGCAGGCTT-TGTGCCGGTGAATAAAATCAGACTTTA
* *
93589364 AGTCTAGCAGGCCTTGTGCCGGTG
1 AGCCTAGCAGGCTTTGTGCCGGTG
93589388 TGTGATTCAG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
40 1 0.02
41 51 0.96
42 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (41 bp):
AGCCTAGCAGGCTTTGTGCCGGTGAATAAAATCAGACTTTA
Found at i:93589935 original size:35 final size:35
Alignment explanation
Indices: 93589880--93589959 Score: 133
Period size: 35 Copynumber: 2.3 Consensus size: 35
93589870 GATACGTGAT
* *
93589880 ATTCGTGACAGGTTTTAATGATTTATGAAAGAATC
1 ATTCTTGAGAGGTTTTAATGATTTATGAAAGAATC
*
93589915 GTTCTTGAGAGGTTTTAATGATTTATGAAAGAATC
1 ATTCTTGAGAGGTTTTAATGATTTATGAAAGAATC
93589950 ATTCTTGAGA
1 ATTCTTGAGA
93589960 CTAACTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (35 bp):
ATTCTTGAGAGGTTTTAATGATTTATGAAAGAATC
Found at i:93591151 original size:30 final size:30
Alignment explanation
Indices: 93591117--93591178 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
93591107 TTCAGTCCGT
93591117 TTCTCACTCTTTTTACTCTCCTATGCTCTC
1 TTCTCACTCTTTTTACTCTCCTATGCTCTC
93591147 TTCTCACTCTTTTTACTCTCCTATGCTCTC
1 TTCTCACTCTTTTTACTCTCCTATGCTCTC
93591177 TT
1 TT
93591179 AGGTATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.10, C:0.35, G:0.03, T:0.52
Consensus pattern (30 bp):
TTCTCACTCTTTTTACTCTCCTATGCTCTC
Found at i:93606582 original size:18 final size:18
Alignment explanation
Indices: 93606559--93606595 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
93606549 TTTGAATAAG
93606559 ATTAATTTGAAATTGTAT
1 ATTAATTTGAAATTGTAT
93606577 ATTAATTTGAAATTGTAT
1 ATTAATTTGAAATTGTAT
93606595 A
1 A
93606596 GATCAAGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
ATTAATTTGAAATTGTAT
Found at i:93613159 original size:43 final size:43
Alignment explanation
Indices: 93613096--93613177 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
93613086 ATGTAACACG
*
93613096 TCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGCTCTCA
1 TCCATAATGAACTCAGACCTCTCAACGAGCTCGAATGCTCTCA
93613139 TCCATAATGAACTC-GAACCTCTCAACGAGCTCGAATGCT
1 TCCATAATGAACTCAG-ACCTCTCAACGAGCTCGAATGCT
93613178 ACATATCTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
42 1 0.03
43 36 0.97
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (43 bp):
TCCATAATGAACTCAGACCTCTCAACGAGCTCGAATGCTCTCA
Found at i:93615717 original size:49 final size:49
Alignment explanation
Indices: 93615645--93615742 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
93615635 TTGGTGTTCA
93615645 GCCTTTACTTGTTGGCAAATCAAGCATCTCGATACAAATTTGGATATAT
1 GCCTTTACTTGTTGGCAAATCAAGCATCTCGATACAAATTTGGATATAT
93615694 GCCTTTACTTGTTGGCAAATCAAGCATCTCGATACAAATTTGGATATAT
1 GCCTTTACTTGTTGGCAAATCAAGCATCTCGATACAAATTTGGATATAT
93615743 CTCTTTTCAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (49 bp):
GCCTTTACTTGTTGGCAAATCAAGCATCTCGATACAAATTTGGATATAT
Found at i:93621376 original size:29 final size:29
Alignment explanation
Indices: 93621301--93621415 Score: 90
Period size: 29 Copynumber: 4.0 Consensus size: 29
93621291 TACATACATG
* * *
93621301 CATATAGCCCACTAGGCCCAATT-TTATT
1 CATATGGCCCACTACGCCCAATTCATATT
* * * *
93621329 CAAATGGTCCATCT-GGCCCAGTTCATATT
1 CATATGGCCCA-CTACGCCCAATTCATATT
* **
93621358 CTTATGGCCCACTACGCCCAATTCACCTT
1 CATATGGCCCACTACGCCCAATTCATATT
* * *
93621387 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCACTACGCCCAATTCATATT
93621416 ATACTCATGC
Statistics
Matches: 66, Mismatches: 18, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
28 18 0.27
29 48 0.73
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.30
Consensus pattern (29 bp):
CATATGGCCCACTACGCCCAATTCATATT
Found at i:93622979 original size:43 final size:43
Alignment explanation
Indices: 93622918--93623044 Score: 193
Period size: 43 Copynumber: 3.0 Consensus size: 43
93622908 ACATGAATCA
* *
93622918 CATCCATTATGAACTCGGACCTCTTATCGAGCTCGGGTGCTCG
1 CATCCATAATGAACTCGGACCTCTCATCGAGCTCGGGTGCTCG
93622961 CATCCATAATGAACTCGGACCTCTCGAT-GAGCTCGGGTGCTCG
1 CATCCATAATGAACTCGGACCTCTC-ATCGAGCTCGGGTGCTCG
* * *
93623004 CATCCATAATGAACTCGAACCTCTCAACGAGCTCGGATGCT
1 CATCCATAATGAACTCGGACCTCTCATCGAGCTCGGGTGCT
93623045 ACATATCTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
42 1 0.01
43 74 0.96
44 2 0.03
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (43 bp):
CATCCATAATGAACTCGGACCTCTCATCGAGCTCGGGTGCTCG
Found at i:93630482 original size:24 final size:24
Alignment explanation
Indices: 93630455--93630503 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
93630445 CTCTTACATA
93630455 TAATAATTATC-CTA-TTATAATTAT
1 TAATAA-TATCACTATTTAT-ATTAT
*
93630479 TAATGATATCACTATTTATATTAT
1 TAATAATATCACTATTTATATTAT
93630503 T
1 T
93630504 CTCATACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 4 0.18
24 14 0.64
25 4 0.18
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (24 bp):
TAATAATATCACTATTTATATTAT
Found at i:93640983 original size:46 final size:46
Alignment explanation
Indices: 93640930--93641105 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
93640920 TATTTGGGCA
93640930 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
93640976 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
93641023 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
93641069 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACCTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93641106 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:93641085 original size:93 final size:93
Alignment explanation
Indices: 93640926--93641097 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
93640916 AGGATATTTG
*
93640926 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
93640991 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
93641019 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
93641084 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
93641098 ACCTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:93644023 original size:21 final size:21
Alignment explanation
Indices: 93643981--93644034 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
93643971 AAACTACTAC
*
93643981 TAAACATATACAAATTCATAAA
1 TAAA-ATATACAAAATCATAAA
93644003 TAAAATATACAAAAATC-TAAA
1 TAAAATATAC-AAAATCATAAA
*
93644024 TACAATCATAC
1 TAAAAT-ATAC
93644035 CATATGAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAAATATACAAAATCATAAA
Found at i:93648864 original size:16 final size:17
Alignment explanation
Indices: 93648843--93648874 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
93648833 GAATTTACTT
93648843 ATTATATA-AGTAAATA
1 ATTATATACAGTAAATA
93648859 ATTATATACAGTAAAT
1 ATTATATACAGTAAAT
93648875 TATATTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (17 bp):
ATTATATACAGTAAATA
Found at i:93652968 original size:6 final size:6
Alignment explanation
Indices: 93652941--93652987 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
93652931 TTCTAAATGA
* *
93652941 TTTCAT TTCTTAT TTCTCAT TTTCAT TTTCAT TTTCAT TTCCAT TTT
1 TTTCAT TT-TCAT TT-TCAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
93652988 GGAGAAAGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
6 25 0.69
7 11 0.31
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTCAT
Found at i:93663641 original size:26 final size:26
Alignment explanation
Indices: 93663586--93663641 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
93663576 CAACCTTAAC
* * *
93663586 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGCGGTAAATCAGTAATTTTACA
*
93663612 CCTAGCGGTAAATCTGTAATTTGT-CA
1 CCTAGCGGTAAATCAGTAATTT-TACA
93663638 CCTA
1 CCTA
93663642 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (26 bp):
CCTAGCGGTAAATCAGTAATTTTACA
Found at i:93677007 original size:39 final size:40
Alignment explanation
Indices: 93676907--93677130 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
93676897 TTGAATGATG
*
93676907 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
93676946 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
93676987 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
93677026 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
93677065 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
93677104 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
93677131 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
39 74 0.45
40 77 0.47
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:93677094 original size:79 final size:81
Alignment explanation
Indices: 93676907--93677130 Score: 291
Period size: 79 Copynumber: 2.8 Consensus size: 81
93676897 TTGAATGATG
* * * *
93676907 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
93676969 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
93676987 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
93677049 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * *
93677065 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
93677129 TG
66 TG
93677131 AACGAGGAGC
Statistics
Matches: 129, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
78 38 0.29
79 54 0.42
80 36 0.28
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:93679166 original size:93 final size:93
Alignment explanation
Indices: 93679007--93679179 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
93678997 CGCCCATAAG
* * * * *
93679007 TGAACTCGGACTCCACTCAATGAGCTCGGGCGTTCGCATGCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
93679072 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
93679100 TGAACTCGGACTCAACTCCACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
93679165 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
93679180 CAAACATCCA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:93679175 original size:46 final size:46
Alignment explanation
Indices: 93679000--93679175 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
93678990 TGTAACCCGC
* * * *
93679000 CCATAAGTGAACTCGGACTCCACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
93679046 GCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
93679096 CTC-T---TGAACTCGGACTCAACTCCACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
93679139 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
93679176 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 11, Indels: 22
0.77 0.08 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 1 0.01
46 62 0.57
47 28 0.26
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:93679193 original size:46 final size:46
Alignment explanation
Indices: 93679050--93679194 Score: 145
Period size: 46 Copynumber: 3.1 Consensus size: 46
93679040 TCGCATGCAT
* *
93679050 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-C
* * * * *
93679099 --TTGAACTCGGACTCAACTCCACGAGTTCGGACATTCGCATCCAT--
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCC
*
93679143 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCC
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC
93679189 AAGTGA
1 AAGTGA
93679195 CATGTCACTT
Statistics
Matches: 77, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
44 8 0.10
46 34 0.44
47 31 0.40
49 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC
Found at i:93684640 original size:93 final size:93
Alignment explanation
Indices: 93684530--93684701 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
93684520 GCCCATAAGT
* * * *
93684530 GAACTCGGACTCGACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
93684595 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
93684623 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
93684688 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
93684702 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:93684697 original size:46 final size:46
Alignment explanation
Indices: 93684522--93684697 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
93684512 TGTAACCCGC
* * * *
93684522 CCATAAGTGAACTCGGACTCGACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
93684568 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
93684614 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
93684661 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
93684698 TGCCCAAACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.62
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:93684716 original size:46 final size:46
Alignment explanation
Indices: 93684573--93684716 Score: 143
Period size: 46 Copynumber: 3.1 Consensus size: 46
93684563 CGCATCCATA
* *
93684573 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * *
93684622 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
*
93684666 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
93684712 AGTGA
1 AGTGA
93684717 CATGTCACTT
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
44 8 0.11
46 33 0.43
47 31 0.41
49 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:93685999 original size:26 final size:25
Alignment explanation
Indices: 93685950--93686000 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
93685940 GATTTTGTGG
*
93685950 TCACGAAAACTCTTTTCGACTAGGC
1 TCACGAAAACTCTTTCCGACTAGGC
93685975 TCACG-AAACTGCTATTCCGACTAGGC
1 TCACGAAAACT-CT-TTCCGACTAGGC
93686001 CCAAAATCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 5 0.22
25 7 0.30
26 11 0.48
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (25 bp):
TCACGAAAACTCTTTCCGACTAGGC
Found at i:93702155 original size:47 final size:47
Alignment explanation
Indices: 93702084--93702433 Score: 549
Period size: 47 Copynumber: 7.4 Consensus size: 47
93702074 CCCTTTGGGA
* * * * * *
93702084 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
93702131 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93702178 CTTATCACATATATACACTTTCACATTCATCACATCGGCTC-TTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGC-CATTAGGC
*
93702225 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
93702272 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
93702321 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93702368 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93702415 CTTATCACATATATACACT
1 CTTATCACATATATACACT
93702434 CACATCACAA
Statistics
Matches: 283, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 236 0.83
48 1 0.00
49 45 0.16
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:93702162 original size:25 final size:25
Alignment explanation
Indices: 93702134--93702212 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
93702124 ACTCGGCCCT
93702134 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
93702159 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
93702181 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
93702206 ATCACAT
1 ATCACAT
93702213 CGGCTCTTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:93702345 original size:143 final size:143
Alignment explanation
Indices: 93702084--93702429 Score: 597
Period size: 143 Copynumber: 2.4 Consensus size: 143
93702074 CCCTTTGGGA
* * * * * * *
93702084 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
93702147 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
*
93702212 TCGGCTCTTAGGC
131 TCGGCTATTAGGC
*
93702225 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
93702290 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
93702355 TCGGCTATTAGGC
131 TCGGCTATTAGGC
93702368 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
93702430 CACTCACATC
Statistics
Matches: 193, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
141 47 0.24
143 146 0.76
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCTATTAGGC
Found at i:93708653 original size:35 final size:35
Alignment explanation
Indices: 93708607--93708677 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
93708597 TCTAAACATA
93708607 CAATATCATGTTTCCATCCATTTGGTTAAATTTGC
1 CAATATCATGTTTCCATCCATTTGGTTAAATTTGC
93708642 CAATATCATGTTTCCATCCATTTGGTTAAATTTGC
1 CAATATCATGTTTCCATCCATTTGGTTAAATTTGC
93708677 C
1 C
93708678 TAAGCACGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.42
Consensus pattern (35 bp):
CAATATCATGTTTCCATCCATTTGGTTAAATTTGC
Found at i:93708789 original size:38 final size:38
Alignment explanation
Indices: 93708738--93708814 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
93708728 ATCAAGTAAC
93708738 ATAGATGAGCCCATCAAGCAATATTCTATCTAGTCATT
1 ATAGATGAGCCCATCAAGCAATATTCTATCTAGTCATT
93708776 ATAGATGAGCCCATCAAGCAATATTCTATCTAGTCATT
1 ATAGATGAGCCCATCAAGCAATATTCTATCTAGTCATT
93708814 A
1 A
93708815 CTATTTCATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (38 bp):
ATAGATGAGCCCATCAAGCAATATTCTATCTAGTCATT
Found at i:93712503 original size:5 final size:5
Alignment explanation
Indices: 93712493--93712520 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
93712483 AGAAAAATGA
93712493 GAGAG GAGAG GAGAG GAGAG GAGAG GAG
1 GAGAG GAGAG GAGAG GAGAG GAGAG GAG
93712521 CAGCTAGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (5 bp):
GAGAG
Found at i:93714785 original size:40 final size:40
Alignment explanation
Indices: 93714708--93714912 Score: 281
Period size: 40 Copynumber: 5.2 Consensus size: 40
93714698 ACCCAAGTAT
* * *
93714708 CTTCGGGATTTAG-CCGGATATCG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
93714747 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
93714787 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
93714827 CTTCGAGACTTAGCCCGGGTATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
93714867 CTCCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
93714907 CTTCGG
1 CTTCGG
93714913 ATATTAGTCC
Statistics
Matches: 147, Mismatches: 16, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
39 12 0.08
40 134 0.91
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:93714840 original size:80 final size:80
Alignment explanation
Indices: 93714708--93714911 Score: 322
Period size: 80 Copynumber: 2.6 Consensus size: 80
93714698 ACCCAAGTAT
* * * *
93714708 CTTCGGGATTTAG-CCGGATATCGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGT
93714772 CACTAGCATAAATGC
66 CACTAGCATAAATGC
* *
93714787 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGAGACTTAGCCCGGGTATAG
1 CTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAG
93714851 TCACTAGCATAAATGC
65 TCACTAGCATAAATGC
*
93714867 CTCCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCG
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCG
93714912 GATATTAGTC
Statistics
Matches: 114, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
79 13 0.11
80 100 0.88
81 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGT
CACTAGCATAAATGC
Found at i:93722909 original size:80 final size:80
Alignment explanation
Indices: 93722793--93723009 Score: 321
Period size: 80 Copynumber: 2.7 Consensus size: 80
93722783 AACCAAGTAT
* * *
93722793 CTTCGGGATTTAG-CCGGATATCGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
93722857 CACTAGCATAAATGC
66 CACTAGCATAAATGC
* * * *
93722872 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGAGACTTAGCCCGGGTATAG
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
93722936 TCACTAGCATAAATGC
65 TCACTAGCATAAATGC
* * *
93722952 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
93723010 TTATCATCCG
Statistics
Matches: 122, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
79 13 0.11
80 108 0.89
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCATAAATGC
Found at i:93723004 original size:40 final size:40
Alignment explanation
Indices: 93722793--93722997 Score: 281
Period size: 40 Copynumber: 5.2 Consensus size: 40
93722783 AACCAAGTAT
* * *
93722793 CTTCGGGATTTAG-CCGGATATCG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
93722832 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
93722872 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
93722912 CTTCGAGACTTAGCCCGGGTATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
93722952 CTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
93722992 CTTCGG
1 CTTCGG
93722998 ATCTTAGTCC
Statistics
Matches: 147, Mismatches: 16, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
39 12 0.08
40 134 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:93730608 original size:16 final size:17
Alignment explanation
Indices: 93730577--93730614 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
93730567 ACAAAGTCCG
93730577 AATTTATTTCCCAATTT
1 AATTTATTTCCCAATTT
93730594 AATTTATTT-CCAATTT
1 AATTTATTTCCCAATTT
93730610 -ATTTA
1 AATTTA
93730615 ATTGTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.24
16 7 0.33
17 9 0.43
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTTATTTCCCAATTT
Found at i:93731419 original size:26 final size:26
Alignment explanation
Indices: 93731390--93731461 Score: 126
Period size: 26 Copynumber: 2.8 Consensus size: 26
93731380 GCTCATCCCA
93731390 ATTTTACCCATGGTAAAATTATGACG
1 ATTTTACCCATGGTAAAATTATGACG
93731416 ATTTTACCCATGGTAAAATTATGACG
1 ATTTTACCCATGGTAAAATTATGACG
* *
93731442 ATTTTACCCCTCGTAAAATT
1 ATTTTACCCATGGTAAAATT
93731462 GTTGAGAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (26 bp):
ATTTTACCCATGGTAAAATTATGACG
Found at i:93735025 original size:61 final size:62
Alignment explanation
Indices: 93734943--93735089 Score: 206
Period size: 61 Copynumber: 2.4 Consensus size: 62
93734933 TGACAGGTTA
* *
93734943 TGTAACTCACTATTTAAAATTAGAGGCACACGGGCGAAGGACACGGGCGTGTGTCCAGGCTG
1 TGTAACTCACTATTTAGAATTAGAGGCACACGGGCGAAGGACACGAGCGTGTGTCCAGGCTG
* * * * * *
93735005 TGTAACTCAC-AGTTAGAATTAGAGGCATAGGGGCTAGGGACACGAGCGTGTGTCTAGGCTG
1 TGTAACTCACTATTTAGAATTAGAGGCACACGGGCGAAGGACACGAGCGTGTGTCCAGGCTG
93735066 TGTAACTCACTATTTTAGAATTAG
1 TGTAACTCACTA-TTTAGAATTAG
93735090 GGTCACATGG
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
61 53 0.72
62 11 0.15
63 10 0.14
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (62 bp):
TGTAACTCACTATTTAGAATTAGAGGCACACGGGCGAAGGACACGAGCGTGTGTCCAGGCTG
Found at i:93740216 original size:27 final size:26
Alignment explanation
Indices: 93740172--93740223 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
93740162 CTCGCTGCAA
*
93740172 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACAT-TATCTGT
* *
93740199 TCTGGTGACTTCGTCACATTATCTG
1 TCTGGTGACCTCGCCACATTATCTG
93740224 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACATTATCTGT
Found at i:93740330 original size:27 final size:26
Alignment explanation
Indices: 93740278--93740336 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
93740268 AAATATATAT
*
93740278 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
93740304 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
93740331 ATATCT
1 ATATCT
93740337 AGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:93752752 original size:40 final size:40
Alignment explanation
Indices: 93752715--93752846 Score: 178
Period size: 40 Copynumber: 3.3 Consensus size: 40
93752705 GCTACTCGTT
* *
93752715 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
93752755 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
93752795 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
93752834 CAAATGCCTTCGG
1 CAAATGCCTTCGG
93752847 ATCTTAGTCC
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
39 35 0.41
40 48 0.56
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:93752832 original size:79 final size:82
Alignment explanation
Indices: 93752715--93752899 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
93752705 GCTACTCGTT
* * *
93752715 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
93752778 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
93752795 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
93752858 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
93752875 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
93752900 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:93758869 original size:43 final size:43
Alignment explanation
Indices: 93758788--93758872 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
93758778 AGATCATACA
**
93758788 ATGCCATCGTCCCAGACGTGGTCTTACATGTAGCCACATATCG
1 ATGCCATCGTCCCAGACGTGGTCTTACATGTAAACACATATCG
93758831 ATGCCA-CTGTCCCAGACAG-GGTCTTAC-TCGTAAACACATATC
1 ATGCCATC-GTCCCAGAC-GTGGTCTTACAT-GTAAACACATATC
93758873 AGAATCACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
42 2 0.05
43 34 0.92
44 1 0.03
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCATCGTCCCAGACGTGGTCTTACATGTAAACACATATCG
Found at i:93761934 original size:33 final size:34
Alignment explanation
Indices: 93761867--93761931 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
93761857 TCCGACCACC
*
93761867 CCTCTCCTCTTTCCCCTCCCTTTCTTTCTTTTCT
1 CCTCTCCTCCTTCCCCTCCCTTTCTTTCTTTTCT
93761901 CCTC-CCTCCTTCCTCCT-CCTTTCCTTTCTTT
1 CCTCTCCTCCTTCC-CCTCCCTTT-CTTTCTTT
93761932 CTCTTTTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 13 0.46
34 15 0.54
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (34 bp):
CCTCTCCTCCTTCCCCTCCCTTTCTTTCTTTTCT
Found at i:93765344 original size:29 final size:30
Alignment explanation
Indices: 93765297--93765375 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
93765287 TTTAGTAATC
93765297 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
93765327 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
93765356 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
93765376 ATCTCATGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:93773182 original size:29 final size:30
Alignment explanation
Indices: 93773135--93773213 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
93773125 TTTAGTGATC
93773135 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
93773165 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
93773194 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
93773214 ATCTCATGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:93774677 original size:17 final size:18
Alignment explanation
Indices: 93774650--93774683 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
93774640 GGGCCGTCAC
93774650 AATTATTATTTTCATTTA
1 AATTATTATTTTCATTTA
*
93774668 AATT-TTATTTTGATTT
1 AATTATTATTTTCATTT
93774684 TTATCTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
AATTATTATTTTCATTTA
Found at i:93778156 original size:21 final size:21
Alignment explanation
Indices: 93778115--93778157 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
93778105 GTGAGAAGTT
**
93778115 TACATATGTTATGAATGAATA
1 TACATATGTTATGAACAAATA
93778136 TACATA-GTTCATGAACAAATA
1 TACATATGTT-ATGAACAAATA
93778157 T
1 T
93778158 GCTAATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (21 bp):
TACATATGTTATGAACAAATA
Found at i:93780308 original size:18 final size:18
Alignment explanation
Indices: 93780285--93780320 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
93780275 TAACATATAA
93780285 AAGTATATAATACATACC
1 AAGTATATAATACATACC
93780303 AAGTATATAATACATACC
1 AAGTATATAATACATACC
93780321 TGACCAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (18 bp):
AAGTATATAATACATACC
Found at i:93780519 original size:39 final size:39
Alignment explanation
Indices: 93780453--93780717 Score: 401
Period size: 39 Copynumber: 6.8 Consensus size: 39
93780443 AAAAAGCATG
93780453 CGGGACTTTAAGCCCGGATATAATACCAGCATAAA-GCCTGT
1 CGGGAC-TT-AGCCCGGATATAATACCAGCATAAATGCCT-T
*
93780494 -GGGACTTTAGCTCGGATATAATACCAGCATAAATGCCTT
1 CGGGAC-TTAGCCCGGATATAATACCAGCATAAATGCCTT
* * *
93780533 CGGGACTTAGCCCGAATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCATAAATGCCTT
* *
93780572 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCATAAATGCCTT
* *
93780611 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCATAAATGCCTT
93780650 CGGGACTTAGCCCGGATATAATACCAGCATAAA-GCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCATAAATGCCTT
93780688 CGGGACTTAGCCCGGATATAATACCAGCAT
1 CGGGACTTAGCCCGGATATAATACCAGCAT
93780718 GAAGCCTGCG
Statistics
Matches: 214, Mismatches: 8, Indels: 7
0.93 0.03 0.03
Matches are distributed among these distances:
38 35 0.16
39 162 0.76
40 17 0.08
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCATAAATGCCTT
Found at i:93784605 original size:39 final size:39
Alignment explanation
Indices: 93784560--93784771 Score: 280
Period size: 39 Copynumber: 5.4 Consensus size: 39
93784550 AACATGTATT
* *
93784560 TGAGTATTCTGATATATGCTTGAATGTAATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * *
93784599 TAAGTATTGTGATATGTGCTTGAATGTTACGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
93784638 TGAGTATTGTGATATATGCTTGAGTGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
** * *
93784677 TGAGTATTGTGATATATATTTAAATGTTATGTGAATATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * * *
93784716 TGAGTGTTATGGTATATGCTTCAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
93784755 TGTGTAATGTGATATAT
1 TGAGTATTGTGATATAT
93784772 ACTTAAAGGT
Statistics
Matches: 147, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 147 1.00
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:93784723 original size:19 final size:19
Alignment explanation
Indices: 93784658--93784726 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
93784648 GATATATGCT
*
93784658 TGAGTGTTATGTGATTATA
1 TGAGTGTTATGTGAATATA
*
93784677 TGAGT-AT-TGTGATATATA
1 TGAGTGTTATGTGA-ATATA
* *
93784695 TTTAAATGTTATGTGAATATA
1 --TGAGTGTTATGTGAATATA
93784716 TGAGTGTTATG
1 TGAGTGTTATG
93784727 GTATATGCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
17 5 0.13
18 5 0.13
19 14 0.37
20 3 0.08
21 6 0.16
22 5 0.13
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.46
Consensus pattern (19 bp):
TGAGTGTTATGTGAATATA
Found at i:93798070 original size:18 final size:18
Alignment explanation
Indices: 93798047--93798083 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
93798037 CTTAGCCCAT
93798047 TGCAGTAAAAGTAAACAG
1 TGCAGTAAAAGTAAACAG
*
93798065 TGCAGTAACAGTAAACAG
1 TGCAGTAAAAGTAAACAG
93798083 T
1 T
93798084 ATGCAAGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.19
Consensus pattern (18 bp):
TGCAGTAAAAGTAAACAG
Found at i:93798424 original size:27 final size:27
Alignment explanation
Indices: 93798357--93798639 Score: 309
Period size: 27 Copynumber: 10.5 Consensus size: 27
93798347 TATAAACATA
* * *
93798357 TATCACATAGGGGCAAAATAATCATTTT
1 TATCATATAAGGGCAAAATAGTCA-TTT
* * *
93798385 TACCACATAAGGGCAAAACT-GACATTT
1 TATCATATAAGGGCAAAA-TAGTCATTT
* * *
93798412 TATCATATGAGGGCAAAACAATCATTT
1 TATCATATAAGGGCAAAATAGTCATTT
* * *
93798439 TACCATTTAAGGG-AAAAGAGTCATTT
1 TATCATATAAGGGCAAAATAGTCATTT
** * *
93798465 TATCACGTAAGGTCAAAATAGTTATTT
1 TATCATATAAGGGCAAAATAGTCATTT
*
93798492 TATCATATAAGGGCAAAATAGTTATTT
1 TATCATATAAGGGCAAAATAGTCATTT
93798519 TATCATATAAGGGCAAAATAGTCATTT
1 TATCATATAAGGGCAAAATAGTCATTT
* *
93798546 TATCACATAAGGGTAAAATAGTCATTT
1 TATCATATAAGGGCAAAATAGTCATTT
* *
93798573 TACCATATAAGGGCAAAACAGTCATTT
1 TATCATATAAGGGCAAAATAGTCATTT
* * * *
93798600 TACCACATGAGGGAAAAATAGTCATTT
1 TATCATATAAGGGCAAAATAGTCATTT
93798627 TATCATATAAGGG
1 TATCATATAAGGG
93798640 GGTCTAGTTC
Statistics
Matches: 214, Mismatches: 38, Indels: 7
0.83 0.15 0.03
Matches are distributed among these distances:
26 20 0.09
27 175 0.82
28 18 0.08
29 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (27 bp):
TATCATATAAGGGCAAAATAGTCATTT
Found at i:93802520 original size:24 final size:23
Alignment explanation
Indices: 93802447--93802520 Score: 64
Period size: 24 Copynumber: 3.3 Consensus size: 23
93802437 TTAAAAATTA
* *
93802447 AATTATAATTATTTTTAAATGTCT
1 AATTATAATAATTTTT-AATGTAT
* * *
93802471 AAATATCACAATTTTT-AT-TA-
1 AATTATAATAATTTTTAATGTAT
93802491 AATTATAATAATTTTTAGATGTAT
1 AATTATAATAATTTTTA-ATGTAT
93802515 AATTAT
1 AATTAT
93802521 TAAAACTTTC
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 13 0.34
21 1 0.03
22 4 0.11
23 2 0.05
24 18 0.47
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (23 bp):
AATTATAATAATTTTTAATGTAT
Found at i:93807863 original size:42 final size:42
Alignment explanation
Indices: 93807797--93807927 Score: 210
Period size: 42 Copynumber: 3.1 Consensus size: 42
93807787 ATGCCACACG
* * *
93807797 GGCGTGTGGTCACCCGTATGGTAGGCCGTGTTCTCTAACATA
1 GGCGTGTGGTCACCCGTGTTGTAGGCCGTGTGCTCTAACATA
*
93807839 GGCGTGTGGTCACCCGTGTTGTAGGCCGTGTGCTCTAACATG
1 GGCGTGTGGTCACCCGTGTTGTAGGCCGTGTGCTCTAACATA
*
93807881 GGCGTATGGTCACCC-TGTTGTAGGCCGTGTGCTCTAACATA
1 GGCGTGTGGTCACCCGTGTTGTAGGCCGTGTGCTCTAACATA
93807922 GGCGTG
1 GGCGTG
93807928 CGATCGATGA
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 30 0.37
42 52 0.63
ACGTcount: A:0.15, C:0.24, G:0.34, T:0.28
Consensus pattern (42 bp):
GGCGTGTGGTCACCCGTGTTGTAGGCCGTGTGCTCTAACATA
Found at i:93809099 original size:27 final size:27
Alignment explanation
Indices: 93809069--93809121 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
93809059 ACGCAAATCA
93809069 TTTT-AAAAGCTTCCGATTGAAGAAATG
1 TTTTGAAAA-CTTCCGATTGAAGAAATG
** *
93809096 TTTTGAAAACTTTTGATTGAATAAAT
1 TTTTGAAAACTTCCGATTGAAGAAAT
93809122 AACACGATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (27 bp):
TTTTGAAAACTTCCGATTGAAGAAATG
Found at i:93809480 original size:25 final size:25
Alignment explanation
Indices: 93809434--93809482 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
93809424 TTGTTTTTGA
*
93809434 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATCCTGAAACTACTATAGG
** *
93809459 TAGTATATGTTGAGACTACTATAG
1 TAGTATATCCTGAAACTACTATAG
93809483 ATAGACTGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (25 bp):
TAGTATATCCTGAAACTACTATAGG
Found at i:93816271 original size:93 final size:93
Alignment explanation
Indices: 93816161--93816331 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
93816151 GCCCCTAAAT
* *
93816161 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
93816226 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
93816254 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
93816319 CGAGTTCGGATGC
66 CGAGTTCGGATGC
93816332 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:93816328 original size:46 final size:45
Alignment explanation
Indices: 93816158--93816328 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 45
93816148 CCCGCCCCTA
* * * *
93816158 AATGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT
1 AATGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
* *
93816203 AAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T
1 -AATGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCAT
* *
93816251 CACGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
1 AATGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
93816296 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AA-TGAACTCGGACTCAACTCAACGAGTTCGGA
93816329 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.56
47 30 0.28
48 1 0.01
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AATGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
Found at i:93823519 original size:19 final size:20
Alignment explanation
Indices: 93823495--93823532 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
93823485 GGTACCACCA
93823495 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
93823514 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
93823533 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:93828750 original size:38 final size:38
Alignment explanation
Indices: 93828699--93829061 Score: 179
Period size: 38 Copynumber: 8.8 Consensus size: 38
93828689 AAAAAATGTG
* * *
93828699 GTGCTAAGTGGATATACCATGATTATACGTGTAACGTA
1 GTGCTAAGTGGATATACCACGATTAAACATGTAACGTA
* *
93828737 GTGCTAAGTGGATATACCACGGTTAAACATGTAACGTG
1 GTGCTAAGTGGATATACCACGATTAAACATGTAACGTA
** * *
93828775 GTGCTAAGTGGATATGTCACGGTTACATATATTAATTCAT-TAACATG
1 GTGCTAAGTGGATATACCAC-G----AT-TA--AA--CATGTAACGTA
* * *
93828822 GTGCTAAGTGGATATACTACGGTTAAACATGTAACGTG
1 GTGCTAAGTGGATATACCACGATTAAACATGTAACGTA
** * * * *
93828860 GTGCTAAGTGGATATGTCACGGTTACATATATTGATTCATTAACATG
1 GTGCTAAGTGGATATACCACGATTA-A-ACA-TG------TAACGTA
* *
93828907 GTGCTAAGTGGATATACCACGGTTAAACATGTAACGTG
1 GTGCTAAGTGGATATACCACGATTAAACATGTAACGTA
* * * * * *
93828945 GTGCTAAATGGATATGCCACGGTTACATATATTGATTCATTAACATG
1 GTGCTAAGTGGATATACCACGATTA-A-ACA-TG------TAACGTA
* * *
93828992 GTGCTAAGTGGATATACCACGGTTAAACATTTAACGTG
1 GTGCTAAGTGGATATACCACGATTAAACATGTAACGTA
* * *
93829030 GTGCTAAGTGGATATGCCACGGTTATACATGT
1 GTGCTAAGTGGATATACCACGATTAAACATGT
93829062 TAATTTGAAA
Statistics
Matches: 261, Mismatches: 35, Indels: 58
0.74 0.10 0.16
Matches are distributed among these distances:
37 3 0.01
38 143 0.55
39 5 0.02
40 4 0.02
41 6 0.02
42 1 0.00
43 1 0.00
44 5 0.02
45 4 0.02
46 5 0.02
47 81 0.31
48 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (38 bp):
GTGCTAAGTGGATATACCACGATTAAACATGTAACGTA
Found at i:93828844 original size:47 final size:47
Alignment explanation
Indices: 93828768--93829016 Score: 232
Period size: 47 Copynumber: 5.7 Consensus size: 47
93828758 GTTAAACATG
* **
93828768 TAACGTGGTGCTAAGTGGATATGTCACGGTTACATATATTAATTCAT
1 TAACATGGTGCTAAGTGGATATACCACGGTTACATATATTAATTCAT
*
93828815 TAACATGGTGCTAAGTGGATATACTACGG-----T-TA--AA--CAT
1 TAACATGGTGCTAAGTGGATATACCACGGTTACATATATTAATTCAT
* ** *
93828852 GTAACGTGGTGCTAAGTGGATATGTCACGGTTACATATATTGATTCAT
1 -TAACATGGTGCTAAGTGGATATACCACGGTTACATATATTAATTCAT
93828900 TAACATGGTGCTAAGTGGATATACCACGG-----T-TA--AA--CAT
1 TAACATGGTGCTAAGTGGATATACCACGGTTACATATATTAATTCAT
* * * *
93828937 GTAACGTGGTGCTAAATGGATATGCCACGGTTACATATATTGATTCAT
1 -TAACATGGTGCTAAGTGGATATACCACGGTTACATATATTAATTCAT
93828985 TAACATGGTGCTAAGTGGATATACCACGGTTA
1 TAACATGGTGCTAAGTGGATATACCACGGTTA
93829017 AACATTTAAC
Statistics
Matches: 160, Mismatches: 20, Indels: 44
0.71 0.09 0.20
Matches are distributed among these distances:
37 6 0.04
38 51 0.32
39 3 0.02
41 4 0.03
42 2 0.01
43 2 0.01
44 4 0.03
46 2 0.01
47 80 0.50
48 6 0.04
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (47 bp):
TAACATGGTGCTAAGTGGATATACCACGGTTACATATATTAATTCAT
Found at i:93828880 original size:85 final size:85
Alignment explanation
Indices: 93828737--93829054 Score: 582
Period size: 85 Copynumber: 3.7 Consensus size: 85
93828727 GTGTAACGTA
*
93828737 GTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACA
1 GTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACA
*
93828802 TATATTAATTCATTAACATG
66 TATATTGATTCATTAACATG
* *
93828822 GTGCTAAGTGGATATACTACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACA
1 GTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACA
93828887 TATATTGATTCATTAACATG
66 TATATTGATTCATTAACATG
*
93828907 GTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAATGGATATGCCACGGTTACA
1 GTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACA
93828972 TATATTGATTCATTAACATG
66 TATATTGATTCATTAACATG
*
93828992 GTGCTAAGTGGATATACCACGGTTAAACATTTAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 GTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
93829055 TACATGTTAA
Statistics
Matches: 226, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 226 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (85 bp):
GTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACA
TATATTGATTCATTAACATG
Found at i:93829222 original size:13 final size:13
Alignment explanation
Indices: 93829204--93829232 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
93829194 AAATTTAATT
93829204 TGAAAAAAAAATG
1 TGAAAAAAAAATG
93829217 TGAAAAAAAAATG
1 TGAAAAAAAAATG
93829230 TGA
1 TGA
93829233 GATAACACCG
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:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (13 bp):
TGAAAAAAAAATG
Found at i:93839884 original size:46 final size:46
Alignment explanation
Indices: 93839834--93840006 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
93839824 TGGTTGAGCA
*
93839834 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
93839880 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
93839927 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
93839973 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
93840007 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:93839990 original size:93 final size:93
Alignment explanation
Indices: 93839831--93840001 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
93839821 GGATGGTTGA
* *
93839831 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
93839896 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
93839924 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
93839989 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
93840002 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:93850042 original size:33 final size:33
Alignment explanation
Indices: 93850005--93850071 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
93849995 ACCTATCACG
*
93850005 AAATCATACGATCAATAGGGACCTAATTTTATA
1 AAATCACACGATCAATAGGGACCTAATTTTATA
* *
93850038 AAATCACATGATCAATAGGGACCTAGTTTTATA
1 AAATCACACGATCAATAGGGACCTAATTTTATA
93850071 A
1 A
93850072 CATGTGTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (33 bp):
AAATCACACGATCAATAGGGACCTAATTTTATA
Found at i:93854143 original size:15 final size:15
Alignment explanation
Indices: 93854123--93854153 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
93854113 TTTCGCTGCG
93854123 TAGATTATGAAGAAT
1 TAGATTATGAAGAAT
93854138 TAGATTATGAAGAAT
1 TAGATTATGAAGAAT
93854153 T
1 T
93854154 TCGATGTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TAGATTATGAAGAAT
Found at i:93856315 original size:13 final size:13
Alignment explanation
Indices: 93856281--93856315 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
93856271 GGGCTCAGCA
*
93856281 GTGACACGCCCGT
1 GTGACACGGCCGT
93856294 GTGACACGGCCGT
1 GTGACACGGCCGT
93856307 GTGACACGG
1 GTGACACGG
93856316 TTGCCAGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.17, C:0.31, G:0.37, T:0.14
Consensus pattern (13 bp):
GTGACACGGCCGT
Found at i:93857468 original size:11 final size:11
Alignment explanation
Indices: 93857452--93857478 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
93857442 TGACATGAGT
93857452 GGGTTTACTAG
1 GGGTTTACTAG
93857463 GGGTTTACTAG
1 GGGTTTACTAG
93857474 GGGTT
1 GGGTT
93857479 AGGGGGTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.07, G:0.41, T:0.37
Consensus pattern (11 bp):
GGGTTTACTAG
Found at i:93874408 original size:13 final size:13
Alignment explanation
Indices: 93874370--93874409 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
93874360 GTATATTTTA
93874370 TTTTTTTATATAT
1 TTTTTTTATATAT
*
93874383 TTTACTTTA-ATAT
1 TTT-TTTTATATAT
93874396 TTTTTTTATATAT
1 TTTTTTTATATAT
93874409 T
1 T
93874410 ATGTATCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 4 0.17
13 15 0.65
14 4 0.17
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTTTATATAT
Found at i:93874420 original size:28 final size:25
Alignment explanation
Indices: 93874370--93874433 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 25
93874360 GTATATTTTA
*
93874370 TTTTTTTATATATTTTACTTTAATAT
1 TTTTTTTATATATTTTACTTTAA-AC
93874396 TTTTTTTATATATTATGTA-TCTTAAAC
1 TTTTTTTATATATT-T-TACT-TTAAAC
*
93874423 CTTTTTTATAT
1 TTTTTTTATAT
93874434 TATCTAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 14 0.42
27 13 0.39
28 6 0.18
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.66
Consensus pattern (25 bp):
TTTTTTTATATATTTTACTTTAAAC
Found at i:93874445 original size:25 final size:25
Alignment explanation
Indices: 93874398--93874463 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
93874388 TTTAATATTT
*
93874398 TTTTTATATATTATGTATCTTAAACC
1 TTTTT-TATATTATCTATCTTAAACC
*
93874424 TTTTTTATATTATCTAGT-TTAAATC
1 TTTTTTATATTATCTA-TCTTAAACC
* *
93874449 ATTTATATATTATCT
1 TTTTTTATATTATCT
93874464 TAAATGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 29 0.83
26 6 0.17
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (25 bp):
TTTTTTATATTATCTATCTTAAACC
Found at i:93874468 original size:21 final size:22
Alignment explanation
Indices: 93874442--93874483 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
93874432 ATTATCTAGT
*
93874442 TTAAATCATTT-ATATATTATC
1 TTAAATCATTTCATAAATTATC
*
93874463 TTAAATGATTTCATAAATTAT
1 TTAAATCATTTCATAAATTAT
93874484 TTACTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (22 bp):
TTAAATCATTTCATAAATTATC
Found at i:93875332 original size:16 final size:16
Alignment explanation
Indices: 93875311--93875361 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
93875301 GCGTAGACCA
93875311 AAATCATTATTTTAAT
1 AAATCATTATTTTAAT
* * *
93875327 AAATCA-AAATGT--T
1 AAATCATTATTTTAAT
93875340 AAATCATTATTTTAAT
1 AAATCATTATTTTAAT
93875356 AAATCA
1 AAATCA
93875362 AAATGTTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
13 7 0.27
14 3 0.12
15 3 0.12
16 13 0.50
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (16 bp):
AAATCATTATTTTAAT
Found at i:93875344 original size:29 final size:29
Alignment explanation
Indices: 93875311--93875368 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
93875301 GCGTAGACCA
93875311 AAATCATTATTTTAATAAATCAAAATGTT
1 AAATCATTATTTTAATAAATCAAAATGTT
93875340 AAATCATTATTTTAATAAATCAAAATGTT
1 AAATCATTATTTTAATAAATCAAAATGTT
93875369 TTATTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.41
Consensus pattern (29 bp):
AAATCATTATTTTAATAAATCAAAATGTT
Found at i:93878968 original size:43 final size:43
Alignment explanation
Indices: 93878924--93879085 Score: 150
Period size: 43 Copynumber: 3.8 Consensus size: 43
93878914 CCGAGATGTG
* *
93878924 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGTA
* * * ** * *
93878967 ATTACCTGTAAGACCAGGTCTGAGACATTTCCATCGTTAAT-CA
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATTGTA
* * *
93879010 ATTACGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGTA
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGTA
* * *
93879053 ATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATTACATGTAAGACCATGTCTGGGACATTGGCAT
93879086 TGTACAAGCT
Statistics
Matches: 93, Mismatches: 23, Indels: 7
0.76 0.19 0.06
Matches are distributed among these distances:
41 1 0.01
42 7 0.08
43 82 0.88
44 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (43 bp):
ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGTA
Found at i:93882927 original size:21 final size:21
Alignment explanation
Indices: 93882901--93882940 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
93882891 GAAGAGAAGG
93882901 TGAAAG-TGATTCGTGATAGTT
1 TGAAAGCTGATTC-TGATAGTT
*
93882922 TGAAAGCTGCTTCTGATAG
1 TGAAAGCTGATTCTGATAG
93882941 ATAGAAATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.35
Consensus pattern (21 bp):
TGAAAGCTGATTCTGATAGTT
Found at i:93884706 original size:25 final size:25
Alignment explanation
Indices: 93884678--93884743 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
93884668 GACTCACCAC
93884678 AGCTCGTATGAGCTTA-CGGATTCTT
1 AGCTCGTATGAGCTTACCGGATT-TT
* *
93884703 AGCTCATATGAGCTTACCGTATTTT
1 AGCTCGTATGAGCTTACCGGATTTT
* *
93884728 AGCTTGAATGAGCTTA
1 AGCTCGTATGAGCTTA
93884744 TTGATTATGG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 30 0.86
26 5 0.14
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGGATTTT
Done.