Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 110 of 204
Found at i:33419734 original size:51 final size:52
Alignment explanation
Indices: 33419615--33419743 Score: 190
Period size: 51 Copynumber: 2.5 Consensus size: 52
33419605 ACTAGTGACT
33419615 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
* * *
33419667 TAAGTGTGGTATTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTTTGG-CTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTC-A
* *
33419718 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
33419744 CGGGTATCCG
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
50 1 0.01
51 35 0.51
52 33 0.48
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
Found at i:33421461 original size:22 final size:23
Alignment explanation
Indices: 33421436--33421484 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
33421426 GAAAACATGG
* *
33421436 AAATG-AATTCCTACAAGTGGCC
1 AAATGAAATTCCTACAACTGACC
33421458 AAATGAAAATTCCTACAACTGACC
1 AAATG-AAATTCCTACAACTGACC
33421482 AAA
1 AAA
33421485 CAAAAGATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
24 18 0.78
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.20
Consensus pattern (23 bp):
AAATGAAATTCCTACAACTGACC
Found at i:33423261 original size:41 final size:43
Alignment explanation
Indices: 33423216--33423358 Score: 125
Period size: 43 Copynumber: 3.4 Consensus size: 43
33423206 CTTGGTGGAG
* * *
33423216 TCAGCACTTAGAAACCACCTT-ATATTC-AGTGATACGG-AGAA
1 TCAGCACTTAGCAACCACCTTCACAATCAAG-GATACGGTAGAA
* *
33423257 TCAGCACATAGCAACC-CCTTTCACAATCAAGGATACGGTGGAA
1 TCAGCACTTAGCAACCACC-TTCACAATCAAGGATACGGTAGAA
* * ** * *
33423300 TCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGG-GGAA
1 TCAGCACTTAGCAACCACCTTCACAATCAAGGATACGGTAGAA
*
33423342 TCAGCACTTACCAACCA
1 TCAGCACTTAGCAACCA
33423359 ACTTTAGAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
40 2 0.02
41 16 0.19
42 31 0.36
43 34 0.40
44 2 0.02
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.22
Consensus pattern (43 bp):
TCAGCACTTAGCAACCACCTTCACAATCAAGGATACGGTAGAA
Found at i:33423303 original size:43 final size:42
Alignment explanation
Indices: 33423216--33423364 Score: 151
Period size: 42 Copynumber: 3.5 Consensus size: 42
33423206 CTTGGTGGAG
* * * *
33423216 TCAGCACTTAGAAACCACC-TTATATTC-AGTGATACGGAGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAAG-GATACGGGGAA
*
33423257 TCAGCACATAGCAACC-CCTTTCACAATCAAGGATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATCAAGGATACGG-GGAA
* ** *
33423300 TCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAAGGATACGGGGAA
* *
33423342 TCAGCACTTACCAACCAACTTTA
1 TCAGCACTTAGCAACCACCTTTA
33423365 GAATAAATAA
Statistics
Matches: 91, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
40 2 0.02
41 16 0.18
42 36 0.40
43 32 0.35
44 5 0.05
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTACAATCAAGGATACGGGGAA
Found at i:33423365 original size:42 final size:42
Alignment explanation
Indices: 33423296--33423399 Score: 154
Period size: 42 Copynumber: 2.5 Consensus size: 42
33423286 AGGATACGGT
* * *
33423296 GGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGG
1 GGAATCAGCACTTAGCAACCAACTTTAGAATAAATAATTCAG
*
33423338 GGAATCAGCACTTACCAACCAACTTTAGAATAAATAATTCAG
1 GGAATCAGCACTTAGCAACCAACTTTAGAATAAATAATTCAG
* *
33423380 GCAATCACCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
33423400 CCTCGGGGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.22
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCAACTTTAGAATAAATAATTCAG
Found at i:33423460 original size:41 final size:41
Alignment explanation
Indices: 33423402--33423592 Score: 224
Period size: 41 Copynumber: 4.7 Consensus size: 41
33423392 TAGCAACCCC
* * *
33423402 TCGGGGAATCTGTACTTAGCAACCCCTTTTTTATCAGAGTT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGAT
* * *
33423443 TCGGGGAATTTGCACTTAGCAACCCCTTTTTTATCAGAGTT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGAT
* * *
33423484 TCGGGGAATCTGCACTTAGCAACCCCATCTTGATCAGTGAT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGAT
* * * * *
33423525 TCGGGGTATCTACATTTAGCAA-CCCTTTTTGGATTAGTGAT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTT-GATCAGAGAT
*
33423566 TCGGGGAA-CTGCACTTAGCAGCCCCTT
1 TCGGGGAATCTGCACTTAGCAACCCCTT
33423593 ACATTCAATG
Statistics
Matches: 130, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
40 16 0.12
41 114 0.88
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (41 bp):
TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGAT
Found at i:33423683 original size:19 final size:20
Alignment explanation
Indices: 33423634--33423684 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
33423624 TTCAATCGGG
* *
33423634 AACCTTATTTTACAACATTT
1 AACCATATTTTTCAACATTT
*
33423654 TACCA-ACTTTTTCAA-ATTT
1 AACCATA-TTTTTCAACATTT
33423673 AACCATATTTTT
1 AACCATATTTTT
33423685 GTAATCTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (20 bp):
AACCATATTTTTCAACATTT
Found at i:33431244 original size:41 final size:41
Alignment explanation
Indices: 33431186--33431289 Score: 136
Period size: 41 Copynumber: 2.5 Consensus size: 41
33431176 GATACGGTGT
* * *
33431186 AATCAGCACTTAGCAACCCCTTTTTGAACAGAGTTTCGGGG
1 AATCTGCACTTAGCAACCCCTTTTTGAACAGAGATTCAGGG
* *
33431227 AATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCAGGG
1 AATCTGCACTTAGCAACCCCTTTTTGAACAGAGATTCAGGG
* * *
33431268 AATTTGCACTTAGTAGCCCCTT
1 AATCTGCACTTAGCAACCCCTT
33431290 ACATTCAATG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (41 bp):
AATCTGCACTTAGCAACCCCTTTTTGAACAGAGATTCAGGG
Found at i:33433766 original size:16 final size:17
Alignment explanation
Indices: 33433745--33433781 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
33433735 CTCTCAAATT
*
33433745 TCTTAAA-CCTTAAAAC
1 TCTTAAATCCTAAAAAC
33433761 TCTTAAATCCTAAAAAC
1 TCTTAAATCCTAAAAAC
33433778 -CTTA
1 TCTTA
33433782 TTTGTTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.32
Consensus pattern (17 bp):
TCTTAAATCCTAAAAAC
Found at i:33435304 original size:5 final size:5
Alignment explanation
Indices: 33435294--33435327 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
33435284 TAAAAAGTAG
33435294 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
33435328 TATTAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:33436892 original size:21 final size:22
Alignment explanation
Indices: 33436853--33436902 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
33436843 CAAGAAGAAG
*
33436853 AGAAGCAAGAGAGTGATGAGCA
1 AGAAGAAAGAGAGTGATGAGCA
* *
33436875 AGAAGAAAGCGAG-GATGAGGA
1 AGAAGAAAGAGAGTGATGAGCA
*
33436896 AGGAGAA
1 AGAAGAA
33436903 GGGAATGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.48, C:0.06, G:0.40, T:0.06
Consensus pattern (22 bp):
AGAAGAAAGAGAGTGATGAGCA
Found at i:33440892 original size:30 final size:30
Alignment explanation
Indices: 33440831--33441243 Score: 322
Period size: 30 Copynumber: 13.8 Consensus size: 30
33440821 TTTATAGTTC
* * ** *
33440831 GATAGCCGAAGCTATCCCTTACCATATTTT
1 GATAGTCGAAGCCATCCCTTTTCATAATTT
* *
33440861 GATAGTTGAAGCCATCCCTTGTCATAATTT
1 GATAGTCGAAGCCATCCCTTTTCATAATTT
* * *
33440891 GATGGTCGTCA-CCATCTCTTTTCAT--TGTT
1 GATAGTCG-AAGCCATCCCTTTTCATAAT-TT
* * *
33440920 GATGGTTGTTA-CCATCCCTTTTCATAATTT
1 GATAGTCG-AAGCCATCCCTTTTCATAATTT
* *
33440950 GATAGTCGAAGCCATCCCTTGTCATAATTC
1 GATAGTCGAAGCCATCCCTTTTCATAATTT
* * *
33440980 GATGGTCG-TGACCATCTCTTTTCAT--TGTT
1 GATAGTCGAAG-CCATCCCTTTTCATAAT-TT
* * *
33441009 GATGGTTGTTA-CCATCCCTTTTCATAATTT
1 GATAGTCG-AAGCCATCCCTTTTCATAATTT
* * * *
33441039 GATAGCCGAACCCATCCCTTTTCACAATTC
1 GATAGTCGAAGCCATCCCTTTTCATAATTT
* * * * * *
33441069 AATAGTTGAAGCTATCCTTTTTGATAATTC
1 GATAGTCGAAGCCATCCCTTTTCATAATTT
* * *
33441099 GATAGCCGAAGCTACCCCTTTTCATAATTT
1 GATAGTCGAAGCCATCCCTTTTCATAATTT
*
33441129 GATAGTCGAAGCTATCCCTTTTCATAATTT
1 GATAGTCGAAGCCATCCCTTTTCATAATTT
* * * *
33441159 GATAGAT-GAAGTCATCTCTTTCCATATTTT
1 GATAG-TCGAAGCCATCCCTTTTCATAATTT
* *
33441189 GATAGTCGAAGCCATCCCTTTCCATATTTT
1 GATAGTCGAAGCCATCCCTTTTCATAATTT
*
33441219 GATAGCCGAAGCCATCCCTTTTCAT
1 GATAGTCGAAGCCATCCCTTTTCAT
33441244 TAGTCGATGA
Statistics
Matches: 310, Mismatches: 59, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
28 2 0.01
29 49 0.16
30 255 0.82
31 4 0.01
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (30 bp):
GATAGTCGAAGCCATCCCTTTTCATAATTT
Found at i:33440995 original size:89 final size:89
Alignment explanation
Indices: 33440844--33441068 Score: 360
Period size: 89 Copynumber: 2.5 Consensus size: 89
33440834 AGCCGAAGCT
** * * *
33440844 ATCCCTTACCATATTTTGATAGTTGAAGCCATCCCTTGTCATAATTTGATGGTCGTCACCATCTC
1 ATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTGTCATAATTCGATGGTCGTCACCATCTC
33440909 TTTTCATTGTTGATGGTTGTTACC
66 TTTTCATTGTTGATGGTTGTTACC
*
33440933 ATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTGTCATAATTCGATGGTCGTGACCATCTC
1 ATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTGTCATAATTCGATGGTCGTCACCATCTC
33440998 TTTTCATTGTTGATGGTTGTTACC
66 TTTTCATTGTTGATGGTTGTTACC
* * * *
33441022 ATCCCTTTTCATAATTTGATAGCCGAACCCATCCCTTTTCACAATTC
1 ATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTGTCATAATTC
33441069 AATAGTTGAA
Statistics
Matches: 126, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 126 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (89 bp):
ATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTGTCATAATTCGATGGTCGTCACCATCTC
TTTTCATTGTTGATGGTTGTTACC
Found at i:33448625 original size:30 final size:30
Alignment explanation
Indices: 33448591--33448670 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 30
33448581 ATAGTCAAAG
* *
33448591 CCATCCCTTTTCATAATTCAATTATTGTCA
1 CCATCCCTTTTCATAATTCAATGATCGTCA
* * *
33448621 CCATCCCTTTTCAAAATTCGATGGTCGTCA
1 CCATCCCTTTTCATAATTCAATGATCGTCA
* *
33448651 CCATCCTTTTTCATTATTCA
1 CCATCCCTTTTCATAATTCA
33448671 TGGTCGTTAC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.24, C:0.29, G:0.06, T:0.41
Consensus pattern (30 bp):
CCATCCCTTTTCATAATTCAATGATCGTCA
Found at i:33448673 original size:29 final size:30
Alignment explanation
Indices: 33448617--33448691 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
33448607 TTCAATTATT
*
33448617 GTCACCATCCCTTTTCAAAATTCGATGGTC
1 GTCACCATCCATTTTCAAAATTCGATGGTC
* **
33448647 GTCACCATCCTTTTTCATTATTC-ATGGTC
1 GTCACCATCCATTTTCAAAATTCGATGGTC
* *
33448676 GTTACTATCCATTTTC
1 GTCACCATCCATTTTC
33448692 TAAAGCCGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 19 0.49
30 20 0.51
ACGTcount: A:0.20, C:0.28, G:0.11, T:0.41
Consensus pattern (30 bp):
GTCACCATCCATTTTCAAAATTCGATGGTC
Found at i:33452743 original size:27 final size:25
Alignment explanation
Indices: 33452713--33452767 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
33452703 CTCTTTTGAG
* *
33452713 TTAATAAATTCTCTTTGGGTTTTTCTT
1 TTAAGAAATTCTC-TTGAG-TTTTCTT
*
33452740 TTAAGAATTTCTCTTGAGTTTTCTT
1 TTAAGAAATTCTCTTGAGTTTTCTT
33452765 TTA
1 TTA
33452768 GAAGAGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.40
26 4 0.16
27 11 0.44
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.58
Consensus pattern (25 bp):
TTAAGAAATTCTCTTGAGTTTTCTT
Found at i:33455853 original size:21 final size:21
Alignment explanation
Indices: 33455828--33455871 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
33455818 ATCTTTGAGG
33455828 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
33455849 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
33455870 AT
1 AT
33455872 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:33455877 original size:19 final size:19
Alignment explanation
Indices: 33455827--33455882 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
33455817 AATCTTTGAG
33455827 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33455846 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
33455867 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
33455883 AGATGTGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33456096 original size:19 final size:21
Alignment explanation
Indices: 33456074--33456112 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
33456064 GTGGCTTACT
*
33456074 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
33456093 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
33456113 TTAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:33456548 original size:20 final size:20
Alignment explanation
Indices: 33456500--33456655 Score: 68
Period size: 20 Copynumber: 7.6 Consensus size: 20
33456490 TACGTATATA
*
33456500 TATATATATATTATACTTTC
1 TATATATATATTATAATTTC
** *
33456520 TATCCATATTTTATAATTTC
1 TATATATATATTATAATTTC
*
33456540 TATATATATATGTAATCATTATC
1 TATATATATAT-T-ATAATT-TC
* * * *
33456563 TTTATGATCTATATATTTATTAAC
1 TATAT-ATATAT-TA-TAATT-TC
*
33456587 T-TATATATA-TAT-ATGTAC
1 TATATATATATTATAAT-TTC
* *
33456605 -GTATATATATTATACTTTC
1 TATATATATATTATAATTTC
** *
33456624 TATCCATATTTTATAATTTC
1 TATATATATATTATAATTTC
*
33456644 TATATGTATATT
1 TATATATATATT
33456656 TTTCTTTATT
Statistics
Matches: 101, Mismatches: 25, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
18 12 0.12
19 7 0.07
20 49 0.49
21 1 0.01
22 9 0.09
23 10 0.10
24 13 0.13
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.53
Consensus pattern (20 bp):
TATATATATATTATAATTTC
Found at i:33456594 original size:50 final size:47
Alignment explanation
Indices: 33456494--33456654 Score: 128
Period size: 50 Copynumber: 3.2 Consensus size: 47
33456484 TATATGTACG
* * * *
33456494 TATATATATATAT-ATATTATACTTTCTATCCATATTTTATAATTTC
1 TATATATATATGTAATATTATACTTTATATCCATATTTTATAACTTA
*
33456540 TATATATATATGTAATCATTAT-CTTTATGATCTATATATTTATTAACTTA
1 TATATATATATGTAAT-ATTATACTTTAT-ATCCATAT-TTTA-TAACTTA
* * *
33456590 TATATATATATGTACGTATATATATTATACTTTCTATCCATATTTTATAATTTC
1 TATATATATA--T--G--TA-ATATTATACTTTATATCCATATTTTATAACTTA
*
33456644 TATATGTATAT
1 TATATATATAT
33456655 TTTTCTTTAT
Statistics
Matches: 92, Mismatches: 10, Indels: 20
0.75 0.08 0.16
Matches are distributed among these distances:
46 12 0.13
47 7 0.08
48 12 0.13
49 4 0.04
50 15 0.16
52 2 0.02
54 15 0.16
55 4 0.04
56 14 0.15
57 7 0.08
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (47 bp):
TATATATATATGTAATATTATACTTTATATCCATATTTTATAACTTA
Found at i:33456595 original size:18 final size:18
Alignment explanation
Indices: 33456572--33456615 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
33456562 CTTTATGATC
*
33456572 TATATATTTAT-TAACTTA
1 TATATATTTATGT-ACGTA
*
33456590 TATATATATATGTACGTA
1 TATATATTTATGTACGTA
33456608 TATATATT
1 TATATATT
33456616 ATACTTTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (18 bp):
TATATATTTATGTACGTA
Found at i:33456634 original size:104 final size:106
Alignment explanation
Indices: 33456436--33456654 Score: 334
Period size: 104 Copynumber: 2.1 Consensus size: 106
33456426 TTTTTAAGTT
* * * * *
33456436 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATATATATGTACGTATATAT
1 TATATATGTAATCATTATCTTTATGATCTATATATTTATTAACTTATATATA-GTAC-TATATAC
33456501 ATATATATATTATACTTTCTATCCATATTTTATAATTTCTATA
64 ATATATATATTATACTTTCTATCCATATTTTATAATTTCTATA
* *
33456544 TATATATGTAATCATTATCTTTATGATCTATATATTTATTAACTTATATATA-TA-TATGTACGT
1 TATATATGTAATCATTATCTTTATGATCTATATATTTATTAACTTATATATAGTACTATATACAT
33456607 ATATATATTATACTTTCTATCCATATTTTATAATTTCTATA
66 ATATATATTATACTTTCTATCCATATTTTATAATTTCTATA
*
33456648 TGTATAT
1 TATATAT
33456655 TTTTCTTTAT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
104 53 0.51
106 2 0.02
108 48 0.47
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.53
Consensus pattern (106 bp):
TATATATGTAATCATTATCTTTATGATCTATATATTTATTAACTTATATATAGTACTATATACAT
ATATATATTATACTTTCTATCCATATTTTATAATTTCTATA
Found at i:33460323 original size:25 final size:25
Alignment explanation
Indices: 33460281--33460329 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
33460271 TTGATTTTGA
*
33460281 TAGTATATCCTAAAACTACTATAGG
1 TAGTATATACTAAAACTACTATAGG
* *
33460306 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTAAAACTACTATAG
33460330 ATAGGCTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (25 bp):
TAGTATATACTAAAACTACTATAGG
Found at i:33460341 original size:25 final size:25
Alignment explanation
Indices: 33460295--33460343 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
33460285 ATATCCTAAA
* *
33460295 ACTACTATAGGTAGTATATACTGAG
1 ACTACTATAGATAGGATATACTGAG
* *
33460320 ACTACTATAGATAGGCTGTACTGA
1 ACTACTATAGATAGGATATACTGA
33460344 AAACACTTAA
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:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (25 bp):
ACTACTATAGATAGGATATACTGAG
Found at i:33466333 original size:39 final size:39
Alignment explanation
Indices: 33466290--33466415 Score: 107
Period size: 39 Copynumber: 3.2 Consensus size: 39
33466280 TTACTCTTGC
33466290 GTTAGAAATATATTGTTTGACATTAAGTTAGTCTCTCTA
1 GTTAGAAATATATTGTTTGACATTAAGTTAGTCTCTCTA
* *** * * * * *
33466329 GTTAGAAAT-T-TTATCAAAAATTAAAACTT-TTACTGT-TGC
1 GTTAGAAATATATTGTTTGACATT--AAGTTAGT-CTCTCT-A
33466368 GTTAGAAATATATTGTTTGACATTAAGTTAGTCTCTCTA
1 GTTAGAAATATATTGTTTGACATTAAGTTAGTCTCTCTA
33466407 GTTAGAAAT
1 GTTAGAAAT
33466416 TTTATCAAAA
Statistics
Matches: 61, Mismatches: 18, Indels: 16
0.64 0.19 0.17
Matches are distributed among these distances:
37 7 0.11
38 3 0.05
39 41 0.67
40 3 0.05
41 7 0.11
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (39 bp):
GTTAGAAATATATTGTTTGACATTAAGTTAGTCTCTCTA
Found at i:33466398 original size:78 final size:78
Alignment explanation
Indices: 33466269--33466427 Score: 309
Period size: 78 Copynumber: 2.0 Consensus size: 78
33466259 TAAATGTTCC
33466269 AATTAAAACTTTTACTCTTGCGTTAGAAATATATTGTTTGACATTAAGTTAGTCTCTCTAGTTAG
1 AATTAAAACTTTTACTCTTGCGTTAGAAATATATTGTTTGACATTAAGTTAGTCTCTCTAGTTAG
33466334 AAATTTTATCAAA
66 AAATTTTATCAAA
*
33466347 AATTAAAACTTTTACTGTTGCGTTAGAAATATATTGTTTGACATTAAGTTAGTCTCTCTAGTTAG
1 AATTAAAACTTTTACTCTTGCGTTAGAAATATATTGTTTGACATTAAGTTAGTCTCTCTAGTTAG
33466412 AAATTTTATCAAA
66 AAATTTTATCAAA
33466425 AAT
1 AAT
33466428 GCCTCCGAAA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (78 bp):
AATTAAAACTTTTACTCTTGCGTTAGAAATATATTGTTTGACATTAAGTTAGTCTCTCTAGTTAG
AAATTTTATCAAA
Found at i:33470303 original size:17 final size:17
Alignment explanation
Indices: 33470274--33470307 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
33470264 AGATGATAGC
33470274 CTTTTCATCTTTTAATT
1 CTTTTCATCTTTTAATT
33470291 CTTTTACAT-TTTTAATT
1 CTTTT-CATCTTTTAATT
33470308 AATTATCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.65
Consensus pattern (17 bp):
CTTTTCATCTTTTAATT
Found at i:33470899 original size:19 final size:19
Alignment explanation
Indices: 33470859--33470899 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
33470849 CTTAGCCCAG
*
33470859 CAAAACCCAATATCCAAAA
1 CAAAACCCAATACCCAAAA
33470878 CAAAACCCAA-ACCCAAATA
1 CAAAACCCAATACCCAAA-A
33470897 CAA
1 CAA
33470900 CTAAACCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.59, C:0.34, G:0.00, T:0.07
Consensus pattern (19 bp):
CAAAACCCAATACCCAAAA
Found at i:33474658 original size:19 final size:19
Alignment explanation
Indices: 33474634--33474680 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
33474624 AACGTCTCTT
33474634 TTTGCATT-CATTCCATGCA
1 TTTGCATTACATTCCAT-CA
*
33474653 TTTGCATTACATTGCATCA
1 TTTGCATTACATTCCATCA
*
33474672 TATGCATTA
1 TTTGCATTA
33474681 GATTTTCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCATCA
Found at i:33477464 original size:15 final size:14
Alignment explanation
Indices: 33477445--33477486 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
33477435 GCAAAAAAGC
*
33477445 CAAAAAAATGAAAA
1 CAAAAAAAAGAAAA
33477459 CAAAAAACAAGAAAA
1 CAAAAAA-AAGAAAA
*
33477474 -GAAAAAAAGAAAA
1 CAAAAAAAAGAAAA
33477487 AAACATCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 7 0.28
14 12 0.48
15 6 0.24
ACGTcount: A:0.81, C:0.07, G:0.10, T:0.02
Consensus pattern (14 bp):
CAAAAAAAAGAAAA
Found at i:33477949 original size:19 final size:19
Alignment explanation
Indices: 33477922--33477966 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
33477912 ACTTCACTTG
33477922 AAAAA-AAAAAAGAA-ACAA
1 AAAAAGAAAAAAGAAGA-AA
*
33477940 AAAAAGAAAAGAGAAGAAA
1 AAAAAGAAAAAAGAAGAAA
33477959 AAAAAGAA
1 AAAAAGAA
33477967 GAACGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 18 0.75
20 1 0.04
ACGTcount: A:0.84, C:0.02, G:0.13, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAAAGAAGAAA
Found at i:33477961 original size:12 final size:12
Alignment explanation
Indices: 33477921--33477979 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
33477911 TACTTCACTT
*
33477921 GAAAAAAAAAAA
1 GAAAAAAAAGAA
33477933 GAAACAAAAA-AA
1 GAAA-AAAAAGAA
*
33477945 G--AAAAGAGAA
1 GAAAAAAAAGAA
33477955 GAAAAAAAAGAA
1 GAAAAAAAAGAA
*
33477967 GAACGAAAAAGAA
1 GAA-AAAAAAGAA
33477980 AAAGGAGAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
9 4 0.10
10 4 0.10
12 18 0.46
13 13 0.33
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (12 bp):
GAAAAAAAAGAA
Found at i:33477963 original size:14 final size:16
Alignment explanation
Indices: 33477921--33477976 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
33477911 TACTTCACTT
*
33477921 GAAAAAAAAAAAGAAAC
1 GAAAAAAAAGAAG-AAC
* *
33477938 -AAAAAAAGAAAAGAGAA
1 GAAAAAAA-AGAAGA-AC
33477955 GAAAAAAAAGAAGAAC
1 GAAAAAAAAGAAGAAC
33477971 GAAAAA
1 GAAAAA
33477977 GAAAAAGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 15 0.45
17 11 0.33
18 7 0.21
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (16 bp):
GAAAAAAAAGAAGAAC
Found at i:33477978 original size:22 final size:19
Alignment explanation
Indices: 33477922--33477982 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 19
33477912 ACTTCACTTG
33477922 AAAA-AAAAAAAGAAACAAA
1 AAAAGAAAAAAAGAAA-AAA
33477941 AAAAGAAAAGAGAAGAAAAAA
1 AAAAGAAAA-A-AAGAAAAAA
33477962 AAGAAGAACGAAAAAGAAAAA
1 AA-AAGAA--AAAAAGAAAAA
33477983 GGAGAGGCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
19 4 0.11
20 4 0.11
21 6 0.17
22 19 0.53
23 1 0.03
24 2 0.06
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAAAGAAAAAA
Found at i:33478413 original size:97 final size:93
Alignment explanation
Indices: 33478298--33478479 Score: 267
Period size: 97 Copynumber: 1.9 Consensus size: 93
33478288 ATTCTCATTC
* *
33478298 TAGCAAAAATTTGTTATCTTGATTGATTCATTCATTTCAAGCTTTATTCTCAATAAAATTTCACC
1 TAGCAAAAATTTGCTATCTTGATTAATTCATTCATTTCAAGCTTTATTCTCAATAAAA-TT----
33478363 TTATCCATTGTGATAATCTTTTTCATCTTATCT
61 TTATCCATTGTGATAATCTTTTTCATCTTATCT
* * *
33478396 TAGC-AAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTTTATC
1 TAGCAAAAATTTGCTATCTTGATTAATTCATTCATTTCAAGCTTTATTCTCAATAAAATTTTATC
33478460 CATTGTGATAATCTTTTTCA
66 CATTGTGATAATCTTTTTCA
33478480 AGCATTTTTG
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
92 25 0.32
96 2 0.03
97 48 0.61
98 4 0.05
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (93 bp):
TAGCAAAAATTTGCTATCTTGATTAATTCATTCATTTCAAGCTTTATTCTCAATAAAATTTTATC
CATTGTGATAATCTTTTTCATCTTATCT
Found at i:33478984 original size:24 final size:24
Alignment explanation
Indices: 33478952--33479009 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
33478942 ATGTCCCTAA
33478952 ATTACAGTGGATTGAACCTTGAAG
1 ATTACAGTGGATTGAACCTTGAAG
* *
33478976 ATTATAGTGGATTGAACTTTGAAG
1 ATTACAGTGGATTGAACCTTGAAG
33479000 ATTACAGTGG
1 ATTACAGTGG
33479010 GGCAGTCCGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.33
Consensus pattern (24 bp):
ATTACAGTGGATTGAACCTTGAAG
Found at i:33479386 original size:50 final size:50
Alignment explanation
Indices: 33479290--33479386 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
33479280 TGAAGTTACC
* * **
33479290 TTCCCTGGCAGTGCAGTGGAGCAGATTGAAGCTACAACGGTGAATCTCAT
1 TTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACAACGGCAAATCTCAT
* *
33479340 TTCCCTGGCAGTACAGTGTAGCAGATTAAAGCTACGACGGCAAATCT
1 TTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACAACGGCAAATCT
33479387 TGCTTCCCTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (50 bp):
TTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACAACGGCAAATCTCAT
Found at i:33479394 original size:50 final size:50
Alignment explanation
Indices: 33479289--33479396 Score: 135
Period size: 50 Copynumber: 2.2 Consensus size: 50
33479279 ATGAAGTTAC
* * **
33479289 CTTCCCTGGCAGTGCAGTGGAGCAGATTGAAGCTACAACGGTGAATCTCA
1 CTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACAACGGCAAATCTCA
* * * **
33479339 TTTCCCTGGCAGTACAGTGTAGCAGATTAAAGCTACGACGGCAAATCTTG
1 CTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACAACGGCAAATCTCA
33479389 CTTCCCTG
1 CTTCCCTG
33479397 ATATTGCAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (50 bp):
CTTCCCTGGCAGTACAGTGGAGCAGATTAAAGCTACAACGGCAAATCTCA
Found at i:33479416 original size:50 final size:50
Alignment explanation
Indices: 33479362--33479740 Score: 201
Period size: 50 Copynumber: 7.6 Consensus size: 50
33479352 ACAGTGTAGC
* * * * *
33479362 AGATTAAAGCTACGACGGCAAATCTTGCTTCCCTGATATTGCAATTTAAA
1 AGATTAAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
* * * * ** * * *
33479412 AGATTGAAGCCACAATGGCGAATCTTACTTCCCAGGTGA-TGCAGTGGATCA
1 AGATTAAAGCTACAACGGCGAATCTTACTTCCC-TGACATTGCAATTGA-AA
* * * * * *
33479463 A-ATTGAAGCTACAACGGTGAATCTT-GTTCCCCGACATTACAATTTAAA
1 AGATTAAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
* ** * * * * * * * ***
33479511 AGATTGAAGCCGCAATGGCCAATCTTACTTCCATGGCAATGCAGTGGGGC
1 AGATTAAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
* * * * *
33479561 AGATTAAAGCTACGACGGCAAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTAAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
* * * * * **
33479611 AGATTAAAGCTGCAACGACGAATCTTACTTCCCTGGCGA-TGCAGTGGAGC
1 AGATTAAAGCTACAACGGCGAATCTTACTTCCCTGAC-ATTGCAATTGAAA
* * * * ** *
33479661 AGATTAAAGCTACGATGCCGAATCTTGCTTCCCCAACATTGCAATTAAAA
1 AGATTAAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
* *
33479711 AGATTGAAG-TCACAACGGCGGATCTTACTT
1 AGATTAAAGCT-ACAACGGCGAATCTTACTT
33479741 TCCTAACAGT
Statistics
Matches: 231, Mismatches: 90, Indels: 16
0.69 0.27 0.05
Matches are distributed among these distances:
48 4 0.02
49 31 0.13
50 191 0.83
51 5 0.02
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (50 bp):
AGATTAAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTGAAA
Found at i:33479472 original size:100 final size:100
Alignment explanation
Indices: 33479312--33479740 Score: 495
Period size: 100 Copynumber: 4.3 Consensus size: 100
33479302 GCAGTGGAGC
* * * * * * *
33479312 AGATTGAAGCTACAACGGTGAATCTCATTTCCCTGGC-AGTACAGTGTAGCAGATTAAAGCTACG
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGTGGAGCAGATTAAAGCTACG
* * *
33479376 ACGGCAAATCTTGCTTCCCTGATATTGCAATTTAAA
65 ACGGCAAATCTTGCTTCCCCGACATTGCAATTAAAA
* * * * * *
33479412 AGATTGAAGCCACAATGGCGAATCTTACTTCCCAGGTGATGCAGTGGATCAAATTGAAGCTACAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGGAGCAGATTAAAGCTACGA
** * *
33479477 CGGTGAATCTTG-TTCCCCGACATTACAATTTAAA
66 CGGCAAATCTTGCTTCCCCGACATTGCAATTAAAA
* * * * *
33479511 AGATTGAAGCCGCAATGGCCAATCTTACTT-CCATGGCAATGCAGTGGGGCAGATTAAAGCTACG
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCA-GGCGATGCAGTGGAGCAGATTAAAGCTACG
33479575 ACGGCAAATCTTGCTTCCCCGACATTGCAATTAAAA
65 ACGGCAAATCTTGCTTCCCCGACATTGCAATTAAAA
* ** * *
33479611 AGATTAAAGCTGCAACGACGAATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACGA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGGAGCAGATTAAAGCTACGA
* * * *
33479676 TGCCGAATCTTGCTTCCCCAACATTGCAATTAAAA
66 CGGCAAATCTTGCTTCCCCGACATTGCAATTAAAA
* *
33479711 AGATTGAAGTCACAACGGCGGATCTTACTT
1 AGATTGAAGCCACAACGGCGAATCTTACTT
33479741 TCCTAACAGT
Statistics
Matches: 276, Mismatches: 49, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
98 3 0.01
99 81 0.29
100 189 0.68
101 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (100 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGGAGCAGATTAAAGCTACGA
CGGCAAATCTTGCTTCCCCGACATTGCAATTAAAA
Found at i:33479654 original size:199 final size:200
Alignment explanation
Indices: 33479360--33479719 Score: 533
Period size: 199 Copynumber: 1.8 Consensus size: 200
33479350 GTACAGTGTA
* * * *
33479360 GCAGATTAAAGCTACGACGGCAAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCCAC
1 GCAGATTAAAGCTACGACGGCAAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTAAAGCCAC
* * * * * **
33479425 AATGGCGAATCTTACTTCCCAGGTGATGCAGTGGATCAAATTGAAGCTACAACGGTGAATCTTG-
66 AACGACGAATCTTACTTCCCAGGCGATGCAGTGGAGCAAATTAAAGCTACAACGCCGAATCTTGC
* *
33479489 TTCCCCGACATTACAATTTAAAAGATTGAAGCCGCAATGGCCAATCTTACTTCCATGGCAATGCA
131 TTCCCCAACATTACAATTAAAAAGATTGAAGCCGCAATGGCCAATCTTACTTCCATGGCAATGCA
33479554 GTGGG
196 GTGGG
**
33479559 GCAGATTAAAGCTACGACGGCAAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTAAAGCTGC
1 GCAGATTAAAGCTACGACGGCAAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTAAAGCCAC
* * * *
33479624 AACGACGAATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACGATGCCGAATCTTGC
66 AACGACGAATCTTACTTCCCAGGCGATGCAGTGGAGCAAATTAAAGCTACAACGCCGAATCTTGC
*
33479689 TTCCCCAACATTGCAATTAAAAAGATTGAAG
131 TTCCCCAACATTACAATTAAAAAGATTGAAG
33479720 TCACAACGGC
Statistics
Matches: 140, Mismatches: 20, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
199 112 0.80
200 28 0.20
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (200 bp):
GCAGATTAAAGCTACGACGGCAAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTAAAGCCAC
AACGACGAATCTTACTTCCCAGGCGATGCAGTGGAGCAAATTAAAGCTACAACGCCGAATCTTGC
TTCCCCAACATTACAATTAAAAAGATTGAAGCCGCAATGGCCAATCTTACTTCCATGGCAATGCA
GTGGG
Found at i:33479819 original size:40 final size:40
Alignment explanation
Indices: 33479742--33480085 Score: 383
Period size: 40 Copynumber: 8.4 Consensus size: 40
33479732 ATCTTACTTT
* *
33479742 CCTAA-CAGTAGTGGAGCAGACAGAAC-CACAGATCTTATCTC
1 CCTAAGCAGTAGTGGAGCAGATAG-CCTCA-AG-TCTTATCTC
* * * *
33479783 CCTAAGTAGTACTGAAGCAGATTGCCTCAAGTCTTATCTC
1 CCTAAGCAGTAGTGGAGCAGATAGCCTCAAGTCTTATCTC
* *
33479823 CCTAAGTAGTAGTGGAGCAGATAGAAC-CACAGATCTTATCTC
1 CCTAAGCAGTAGTGGAGCAGATAG-CCTCA-AG-TCTTATCTC
*
33479865 CCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTC
1 CCTAAGCAGTAGTGGAGCAGATAGCCTCAAGTCTTATCTC
* *
33479905 CCTAAGCAGTAGTGGAGCAGACAGAAC-CACAGATCTTATCTC
1 CCTAAGCAGTAGTGGAGCAGATAG-CCTCA-AG-TCTTATCTC
*
33479947 CTTAAGCAGTAGTGGAGCAGATAGCCTCAAGTCTTATCTC
1 CCTAAGCAGTAGTGGAGCAGATAGCCTCAAGTCTTATCTC
* * * *
33479987 CCTAAGCAATAGTAGAGCAGACAGAAC-CACAGATCTTATCTC
1 CCTAAGCAGTAGTGGAGCAGATAG-CCTCA-AG-TCTTATCTC
* *
33480029 CCTAAGAAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTC
1 CCTAAGCAGTAGTGGAGCAGATAGCCTCAAGTCTTATCTC
33480069 CCTAAGCAGTAGTGGAG
1 CCTAAGCAGTAGTGGAG
33480086 TAGACGAAAT
Statistics
Matches: 258, Mismatches: 31, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
40 121 0.47
41 26 0.10
42 111 0.43
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTAAGCAGTAGTGGAGCAGATAGCCTCAAGTCTTATCTC
Found at i:33479869 original size:82 final size:82
Alignment explanation
Indices: 33479742--33480090 Score: 583
Period size: 82 Copynumber: 4.3 Consensus size: 82
33479732 ATCTTACTTT
* * * *
33479742 CCTAA-CAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGTAGTACTGAAGCAGATT
1 CCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
33479806 GCCTCAAGTCTTATCTC
66 GCCTCAAGTCTTATCTC
* *
33479823 CCTAAGTAGTAGTGGAGCAGATAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 CCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
33479888 GCCTCAAGTCTTATCTC
66 GCCTCAAGTCTTATCTC
* *
33479905 CCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATA
1 CCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
33479970 GCCTCAAGTCTTATCTC
66 GCCTCAAGTCTTATCTC
* * *
33479987 CCTAAGCAATAGTAGAGCAGACAGAACCACAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATC
1 CCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
33480052 GCCTCAAGTCTTATCTC
66 GCCTCAAGTCTTATCTC
*
33480069 CCTAAGCAGTAGTGGAGTAGAC
1 CCTAAGCAGTAGTGGAGCAGAC
33480091 GAAATAAACC
Statistics
Matches: 249, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
81 5 0.02
82 244 0.98
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (82 bp):
CCTAAGCAGTAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
GCCTCAAGTCTTATCTC
Found at i:33489518 original size:15 final size:16
Alignment explanation
Indices: 33489498--33489527 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33489488 AAACTCAAAT
33489498 TTTCTT-AGTTTGAAC
1 TTTCTTGAGTTTGAAC
33489513 TTTCTTGAGTTTGAA
1 TTTCTTGAGTTTGAA
33489528 TTTTTCTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.10, G:0.17, T:0.53
Consensus pattern (16 bp):
TTTCTTGAGTTTGAAC
Found at i:33489595 original size:33 final size:33
Alignment explanation
Indices: 33489526--33489595 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 33
33489516 CTTGAGTTTG
* * * *
33489526 AATTTTTCTCATACTTAAATTATTAGGAATTTA
1 AATTTTTCTCAAACTTAAATTATTAGAAACTCA
* * *
33489559 AATTTTTTTCAAACTTAGATTATTATAAACTCA
1 AATTTTTCTCAAACTTAAATTATTAGAAACTCA
33489592 AATT
1 AATT
33489596 GGTATAAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (33 bp):
AATTTTTCTCAAACTTAAATTATTAGAAACTCA
Found at i:33489977 original size:2 final size:2
Alignment explanation
Indices: 33489970--33489997 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
33489960 CGCAGGTGTT
33489970 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33489998 AAATTATAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33494801 original size:18 final size:16
Alignment explanation
Indices: 33494778--33494812 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
33494768 CCTTGACTAA
33494778 CTATCCAATTAATAAAAT
1 CTATCCAA-TAA-AAAAT
33494796 CTATCCAATAAAAAAT
1 CTATCCAATAAAAAAT
33494812 C
1 C
33494813 ACCATAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 8 0.47
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (16 bp):
CTATCCAATAAAAAAT
Found at i:33496616 original size:86 final size:86
Alignment explanation
Indices: 33496464--33496751 Score: 267
Period size: 86 Copynumber: 3.3 Consensus size: 86
33496454 TCCCAATCTG
* * * * * * * *
33496464 GCAC-TGTAGTGTATCATCGGATAAACT-GAAGGAAATATACTGACATATACAGTGCATCATCAG
1 GCACATGTAGTGCATCATCAGATAAA-TAAAAAGAAATATAATGGCACACACAGTGCATCATCAG
33496527 ACAAGCCAAAGCAATTATACTA
65 ACAAGCCAAAGCAATTATACTA
* * * *
33496549 TCACATGTAGTGCATCATCAGATAAATAAAAAGAAATATAATGTCACACATAGTGCATCATCGGA
1 GCACATGTAGTGCATCATCAGATAAATAAAAAGAAATATAATGGCACACACAGTGCATCATCAGA
* *
33496614 CAAGCCGAAGCGATTATACTA
66 CAAGCCAAAGCAATTATACTA
** ** ** * * * *** *
33496635 GCATGTGTAGTGCATCATTGGATAAACCAAAGGAAATATACTGGCACAGACAACACATCATCAAA
1 GCACATGTAGTGCATCATCAGATAAATAAAAAGAAATATAATGGCACACACAGTGCATCATCAGA
*
33496700 CAAGCTGAAA-CAATTATACTA
66 CAAGC-CAAAGCAATTATACTA
*
33496721 GCACACGTAGTGCATCATCAGATAAACTAAA
1 GCACATGTAGTGCATCATCAGATAAA-TAAA
33496752 GCAATTATGC
Statistics
Matches: 159, Mismatches: 40, Indels: 6
0.78 0.20 0.03
Matches are distributed among these distances:
85 4 0.03
86 151 0.95
87 4 0.03
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (86 bp):
GCACATGTAGTGCATCATCAGATAAATAAAAAGAAATATAATGGCACACACAGTGCATCATCAGA
CAAGCCAAAGCAATTATACTA
Found at i:33496757 original size:43 final size:43
Alignment explanation
Indices: 33496514--33496871 Score: 183
Period size: 43 Copynumber: 8.4 Consensus size: 43
33496504 TGACATATAC
* * * * *
33496514 AGTGCATCATCAGACAAGCCAAAGCAATTATACTATCACATGT
1 AGTGCATCATCGGATAAACCAAAGCAATTATACTAGCACACGT
* ** * * *
33496557 AGTGCATCATCAGATAAATAAAAAG-AAATATAAT-GTCACACAT
1 AGTGCATCATCGGATAAA-CCAAAGCAATTATACTAG-CACACGT
* * * * ***
33496600 AGTGCATCATCGGACAAGCCGAAGCGATTATACTAGCATGTGT
1 AGTGCATCATCGGATAAACCAAAGCAATTATACTAGCACACGT
* * * * *
33496643 AGTGCATCATTGGATAAACCAAAGGAAATATACTGGCACA-GAC
1 AGTGCATCATCGGATAAACCAAAGCAATTATACTAGCACACG-T
*** ** * * *
33496686 AACACATCATCAAACAAGCTGAAA-CAATTATACTAGCACACGT
1 AGTGCATCATCGGATAAAC-CAAAGCAATTATACTAGCACACGT
* * * *
33496729 AGTGCATCATCAGATAAACTAAAGCAATTATGC-AG-GCACGT
1 AGTGCATCATCGGATAAACCAAAGCAATTATACTAGCACACGT
* ** * * * *
33496770 GAGTGCATCACCGGATGTACCGAAGAAAATATACT-G-ACACAT
1 -AGTGCATCATCGGATAAACCAAAGCAATTATACTAGCACACGT
* * * * *
33496812 AAATGCATCATCGGATATACCAAAGCAATTATACTGGCACGCGC
1 -AGTGCATCATCGGATAAACCAAAGCAATTATACTAGCACACGT
33496856 AGTGCATCATCGGATA
1 AGTGCATCATCGGATA
33496872 TACCGGAGTA
Statistics
Matches: 226, Mismatches: 77, Indels: 24
0.69 0.24 0.07
Matches are distributed among these distances:
41 5 0.02
42 66 0.29
43 143 0.63
44 12 0.05
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (43 bp):
AGTGCATCATCGGATAAACCAAAGCAATTATACTAGCACACGT
Found at i:33499394 original size:3 final size:3
Alignment explanation
Indices: 33499386--33499419 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
33499376 TTCCGATCCT
*
33499386 TGA TGA TGA TGA TAA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
33499420 AATAAACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:33503076 original size:52 final size:55
Alignment explanation
Indices: 33502946--33503078 Score: 145
Period size: 54 Copynumber: 2.5 Consensus size: 55
33502936 TGAGACACAC
33502946 GCCCGTGTCTCAGGCCGTGTAAC-CT-TCGAACTAGGGACACACGACCGTGTCCCA
1 GCCCGTGTCTCAGGCCGTGTAACTCTCTCGAACTAGGGACACACGACCGTGT-CCA
* * * *
33503000 GCCCGTGTCCTCA-CCCGTGTAACTCTCT-G-AGTA-GGATCACACGGCTGTGT-CA
1 GCCCGTGT-CTCAGGCCGTGTAACTCTCTCGAACTAGGGA-CACACGACCGTGTCCA
*
33503052 GCCCGTGTGTCAGGCCGTGTAACTCTC
1 GCCCGTGTCTCAGGCCGTGTAACTCTC
33503079 AAAATAGCCC
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
51 3 0.04
52 23 0.34
53 3 0.04
54 31 0.46
55 7 0.10
56 1 0.01
ACGTcount: A:0.17, C:0.34, G:0.26, T:0.23
Consensus pattern (55 bp):
GCCCGTGTCTCAGGCCGTGTAACTCTCTCGAACTAGGGACACACGACCGTGTCCA
Found at i:33506397 original size:11 final size:11
Alignment explanation
Indices: 33506383--33506458 Score: 54
Period size: 11 Copynumber: 6.8 Consensus size: 11
33506373 GATAATCACT
33506383 TTAATATTAAA
1 TTAATATTAAA
33506394 TTAATA--AAA
1 TTAATATTAAA
33506403 -TAATATTAAGA
1 TTAATATTAA-A
33506414 -TAAGTATTAAA
1 TTAA-TATTAAA
33506425 TTAA-ATTTAATA
1 TTAATA-TTAA-A
33506437 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
33506450 ATAATATTA
1 TTAATATTA
33506459 TTTTTAGAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
8 5 0.09
9 3 0.06
10 3 0.06
11 20 0.37
12 14 0.26
13 4 0.07
14 4 0.07
15 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:33509492 original size:16 final size:16
Alignment explanation
Indices: 33509471--33509511 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
33509461 ATATTTGATA
33509471 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
33509487 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
33509503 TAGTTTTAA
1 TAATTTTAA
33509512 GAAAAAAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:33513827 original size:15 final size:15
Alignment explanation
Indices: 33513809--33513867 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 15
33513799 TTTTCTTTTC
33513809 TTTCTTTTTCACTTA
1 TTTCTTTTTCACTTA
33513824 TTTCTTTTTCAATCCCTT-
1 TTTCTTTTTC-A---CTTA
* *
33513842 TTTCTTTTTGACTCA
1 TTTCTTTTTCACTTA
33513857 TTTCTTTTTCA
1 TTTCTTTTTCA
33513868 ATCTCTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
14 2 0.06
15 20 0.56
16 1 0.03
17 1 0.03
18 9 0.25
19 3 0.08
ACGTcount: A:0.12, C:0.22, G:0.02, T:0.64
Consensus pattern (15 bp):
TTTCTTTTTCACTTA
Found at i:33513847 original size:18 final size:18
Alignment explanation
Indices: 33513824--33513883 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
33513814 TTTTCACTTA
*
33513824 TTTCTTTTTCAATCCCTT
1 TTTCTTTTTCAATCTCTT
* *
33513842 TTTCTTTTT-GA-CTC-A
1 TTTCTTTTTCAATCTCTT
33513857 TTTCTTTTTCAATCTCTT
1 TTTCTTTTTCAATCTCTT
33513875 TTTCTTTTT
1 TTTCTTTTT
33513884 GTTTTCTCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 9 0.26
16 3 0.09
17 4 0.12
18 18 0.53
ACGTcount: A:0.10, C:0.22, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTCTTTTTCAATCTCTT
Found at i:33513860 original size:33 final size:33
Alignment explanation
Indices: 33513809--33513884 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
33513799 TTTTCTTTTC
* *
33513809 TTTCTTTTTCACTTATTTCTTTTTCAATCCCTT
1 TTTCTTTTTGACTCATTTCTTTTTCAATCCCTT
*
33513842 TTTCTTTTTGACTCATTTCTTTTTCAATCTCTT
1 TTTCTTTTTGACTCATTTCTTTTTCAATCCCTT
33513875 TTTCTTTTTG
1 TTTCTTTTTG
33513885 TTTTCTCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.11, C:0.21, G:0.03, T:0.66
Consensus pattern (33 bp):
TTTCTTTTTGACTCATTTCTTTTTCAATCCCTT
Found at i:33520798 original size:26 final size:27
Alignment explanation
Indices: 33520756--33520855 Score: 64
Period size: 26 Copynumber: 3.7 Consensus size: 27
33520746 TTTCTAGATG
*
33520756 TTTAATAA-ATAATTTATATTTT-TATT
1 TTTAATAATATTA-TTATATTTTATATT
* *
33520782 TTTAATAATATTATTAT-TTTTCTAAT
1 TTTAATAATATTATTATATTTTATATT
* * *
33520808 TTTCA-AATATTTTTAAATTTTGATAATT
1 TTTAATAATATTATTATATTTT-AT-ATT
* *
33520836 TTTTATAATAATTTTTATAT
1 TTTAATAAT-ATTATTATAT
33520856 ATTCATTTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
25 13 0.22
26 23 0.40
27 4 0.07
28 6 0.10
29 3 0.05
30 9 0.16
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (27 bp):
TTTAATAATATTATTATATTTTATATT
Found at i:33521078 original size:42 final size:42
Alignment explanation
Indices: 33521015--33521094 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
33521005 AACAATGGTA
* **
33521015 AAATAATTTAATTGATGTATTTTTTTAATTTAAGTATTTGAT
1 AAATAATTTAATTGATATATTTTTACAATTTAAGTATTTGAT
33521057 AAATAATTTAATTGATATATTTTTACAATTTAAGTATT
1 AAATAATTTAATTGATATATTTTTACAATTTAAGTATT
33521095 CAATTAAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (42 bp):
AAATAATTTAATTGATATATTTTTACAATTTAAGTATTTGAT
Found at i:33522248 original size:16 final size:16
Alignment explanation
Indices: 33522227--33522260 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33522217 ACTATTTTTT
33522227 AAATATAAAATTAAAA
1 AAATATAAAATTAAAA
* *
33522243 AAATATTAACTTAAAA
1 AAATATAAAATTAAAA
33522259 AA
1 AA
33522261 TAGTTATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATATAAAATTAAAA
Found at i:33522451 original size:36 final size:38
Alignment explanation
Indices: 33522383--33522453 Score: 110
Period size: 36 Copynumber: 1.9 Consensus size: 38
33522373 AAAAATAGTT
*
33522383 TTTTTAAATTCTATTTATCTAATTAAACATTTATTTAA
1 TTTTTAAATTCTATTTACCTAATTAAACATTTATTTAA
*
33522421 TTTTTAAATT-T-TTTACCTAATTAAATATTTATT
1 TTTTTAAATTCTATTTACCTAATTAAACATTTATT
33522454 AAGTTAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 20 0.65
37 1 0.03
38 10 0.32
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (38 bp):
TTTTTAAATTCTATTTACCTAATTAAACATTTATTTAA
Found at i:33524423 original size:8 final size:8
Alignment explanation
Indices: 33524397--33524447 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
33524387 ATTATTATTT
33524397 TAAATATA
1 TAAATATA
*
33524405 TATA-ATA
1 TAAATATA
*
33524412 TAAATTTA
1 TAAATATA
33524420 TAAATATA
1 TAAATATA
33524428 TATAAT-TA
1 TA-AATATA
*
33524436 AAAATATA
1 TAAATATA
33524444 TAAA
1 TAAA
33524448 ATGCGTATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
7 9 0.26
8 22 0.65
9 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TAAATATA
Found at i:33524863 original size:57 final size:57
Alignment explanation
Indices: 33524792--33524907 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
33524782 ATTTAATACT
33524792 TGTTTTTAATATTTTCGAATTTAGTTTACACCTTATATGGTTTTTTATAATTATTAA
1 TGTTTTTAATATTTTCGAATTTAGTTTACACCTTATATGGTTTTTTATAATTATTAA
33524849 TGTTTTTAATATTTTCGAATTTAGTTTACACCTTATATGGTTTTTTATAATTATTAA
1 TGTTTTTAATATTTTCGAATTTAGTTTACACCTTATATGGTTTTTTATAATTATTAA
33524906 TG
1 TG
33524908 CCTTTGTATA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (57 bp):
TGTTTTTAATATTTTCGAATTTAGTTTACACCTTATATGGTTTTTTATAATTATTAA
Found at i:33529824 original size:20 final size:19
Alignment explanation
Indices: 33529797--33529835 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
33529787 ACAAGAGCAC
* *
33529797 CAAAGTGCAGACAGTGGCA
1 CAAAGTGCAAACAGGGGCA
33529816 CAAATGTGCAAACAGGGGCA
1 CAAA-GTGCAAACAGGGGCA
33529836 TCGTAGTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.38, C:0.21, G:0.31, T:0.10
Consensus pattern (19 bp):
CAAAGTGCAAACAGGGGCA
Found at i:33540188 original size:3 final size:3
Alignment explanation
Indices: 33540180--33540241 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
33540170 AGAGTTGGGA
33540180 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
33540228 AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AA
33540242 AGGGGAAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:33548806 original size:18 final size:19
Alignment explanation
Indices: 33548762--33548808 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
33548752 CAATAAATTT
33548762 TTCTTCTTC-AGCAACAAC
1 TTCTTCTTCGAGCAACAAC
**
33548780 TTCCGCTTCGA-CAACAAC
1 TTCTTCTTCGAGCAACAAC
33548798 TTCTTCTTCGA
1 TTCTTCTTCGA
33548809 TAGGATCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.23, C:0.34, G:0.09, T:0.34
Consensus pattern (19 bp):
TTCTTCTTCGAGCAACAAC
Found at i:33560767 original size:20 final size:21
Alignment explanation
Indices: 33560742--33560782 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33560732 AATTTGGTGT
*
33560742 CTCTGT-TTGCACTATGATGC
1 CTCTGTATAGCACTATGATGC
*
33560762 CTCTGTATAGCATTATGATGC
1 CTCTGTATAGCACTATGATGC
33560783 TCTTTGGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (21 bp):
CTCTGTATAGCACTATGATGC
Found at i:33562988 original size:21 final size:21
Alignment explanation
Indices: 33562962--33563030 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
33562952 TCACAACAGA
*
33562962 CATCCCAACATGGTCATATTC
1 CATCCCAACATGCTCATATTC
*
33562983 CATCCCATTATAATGCTC-T-TT-
1 CATCCCA--A-CATGCTCATATTC
*
33563004 -ATCCCAACATGTTCATATTC
1 CATCCCAACATGCTCATATTC
33563024 CATCCCA
1 CATCCCA
33563031 TTATAATGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
17 5 0.14
18 2 0.05
19 2 0.05
20 6 0.16
21 13 0.35
22 2 0.05
23 2 0.05
24 5 0.14
ACGTcount: A:0.28, C:0.33, G:0.06, T:0.33
Consensus pattern (21 bp):
CATCCCAACATGCTCATATTC
Found at i:33563008 original size:41 final size:41
Alignment explanation
Indices: 33562963--33563064 Score: 195
Period size: 41 Copynumber: 2.5 Consensus size: 41
33562953 CACAACAGAC
*
33562963 ATCCCAACATGGTCATATTCCATCCCATTATAATGCTCTTT
1 ATCCCAACATGTTCATATTCCATCCCATTATAATGCTCTTT
33563004 ATCCCAACATGTTCATATTCCATCCCATTATAATGCTCTTT
1 ATCCCAACATGTTCATATTCCATCCCATTATAATGCTCTTT
33563045 ATCCCAACATGTTCATATTC
1 ATCCCAACATGTTCATATTC
33563065 TAAAACACTC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.27, C:0.29, G:0.06, T:0.37
Consensus pattern (41 bp):
ATCCCAACATGTTCATATTCCATCCCATTATAATGCTCTTT
Found at i:33563009 original size:20 final size:20
Alignment explanation
Indices: 33562984--33563050 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 20
33562974 GTCATATTCC
33562984 ATCCCATTATAATGCTCTTT
1 ATCCCATTATAATGCTCTTT
* *
33563004 ATCCCA--A-CATGTTCATATT
1 ATCCCATTATAATGCTC-T-TT
33563023 CCATCCCATTATAATGCTCTTT
1 --ATCCCATTATAATGCTCTTT
33563045 ATCCCA
1 ATCCCA
33563051 ACATGTTCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
17 5 0.14
18 2 0.06
19 2 0.06
20 12 0.33
21 6 0.17
22 2 0.06
23 2 0.06
24 5 0.14
ACGTcount: A:0.27, C:0.30, G:0.04, T:0.39
Consensus pattern (20 bp):
ATCCCATTATAATGCTCTTT
Found at i:33566366 original size:14 final size:14
Alignment explanation
Indices: 33566349--33566410 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
33566339 GCCCATAGGC
*
33566349 ATGAATCTATATCT
1 ATGAATCTATATAT
***
33566363 ATGAATCCGCATAT
1 ATGAATCTATATAT
33566377 ATGAATCTATACT-T
1 ATGAATCTATA-TAT
*
33566391 ATGATTCTATATAT
1 ATGAATCTATATAT
33566405 ATGAAT
1 ATGAAT
33566411 TTGCAACTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
13 1 0.03
14 35 0.95
15 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (14 bp):
ATGAATCTATATAT
Found at i:33572389 original size:9 final size:10
Alignment explanation
Indices: 33572362--33572387 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
33572352 AGCAAATCTG
33572362 TCAAAAATAA
1 TCAAAAATAA
33572372 TCAAAAATAA
1 TCAAAAATAA
33572382 TCAAAA
1 TCAAAA
33572388 TATGATATAA
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:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (10 bp):
TCAAAAATAA
Found at i:33575053 original size:49 final size:50
Alignment explanation
Indices: 33574991--33575096 Score: 142
Period size: 49 Copynumber: 2.1 Consensus size: 50
33574981 GCATTTCAAC
* * * *
33574991 TGAAATGACCATATTGTGTAAGACCATAGCTGCTGGGCTATGGCATCTTA
1 TGAAATGACCATATCGTGTAAGACCATAACTGCTGGGCTATAGCATCATA
* *
33575041 TGAAA-GACCATATCGTGTAAGACCATAACTGGTGGGTTATAGCATCATA
1 TGAAATGACCATATCGTGTAAGACCATAACTGCTGGGCTATAGCATCATA
33575090 TGGAAAT
1 T-GAAAT
33575097 ATCTAAAGGA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 39 0.81
50 9 0.19
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (50 bp):
TGAAATGACCATATCGTGTAAGACCATAACTGCTGGGCTATAGCATCATA
Found at i:33575252 original size:29 final size:29
Alignment explanation
Indices: 33575213--33575312 Score: 98
Period size: 29 Copynumber: 3.4 Consensus size: 29
33575203 ATGAAAATGG
33575213 AAGCCTTTGTGGCAAATCATTAGAAAGGA
1 AAGCCTTTGTGGCAAATCATTAGAAAGGA
** *
33575242 AAGCCTTTGTGGTGAGT-ATTGAATGAAAGG-
1 AAGCCTTTGTGGCAAATCATT--A-GAAAGGA
* *
33575272 ATGCCTTTGTAGCAAATC-TCTAGAAAGGA
1 AAGCCTTTGTGGCAAATCAT-TAGAAAGGA
33575301 AAGCCTTTGTGG
1 AAGCCTTTGTGG
33575313 GGAATATCAA
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
28 9 0.16
29 25 0.45
30 14 0.25
31 7 0.13
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (29 bp):
AAGCCTTTGTGGCAAATCATTAGAAAGGA
Found at i:33575297 original size:59 final size:59
Alignment explanation
Indices: 33575215--33575353 Score: 194
Period size: 59 Copynumber: 2.4 Consensus size: 59
33575205 GAAAATGGAA
* * * **
33575215 GCCTTTGTGGCAAATCAT-TAGAAAGGAAAGCCTTTGTGGTGAGTATTGAATGAAAGGAT
1 GCCTTTGTAGCAAATC-TCTAGAAAGGAAAGCCTTTGTGGGGAATATCAAATGAAAGGAT
33575274 GCCTTTGTAGCAAATCTCTAGAAAGGAAAGCCTTTGTGGGGAATATCAAATGAAAGGAT
1 GCCTTTGTAGCAAATCTCTAGAAAGGAAAGCCTTTGTGGGGAATATCAAATGAAAGGAT
*
33575333 GCCTATG-A-CAAATCTCTAGAA
1 GCCTTTGTAGCAAATCTCTAGAA
33575354 TGGACTGTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
57 13 0.18
58 2 0.03
59 58 0.79
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.27
Consensus pattern (59 bp):
GCCTTTGTAGCAAATCTCTAGAAAGGAAAGCCTTTGTGGGGAATATCAAATGAAAGGAT
Found at i:33575329 original size:31 final size:30
Alignment explanation
Indices: 33575213--33575331 Score: 93
Period size: 29 Copynumber: 4.0 Consensus size: 30
33575203 ATGAAAATGG
*
33575213 AAGCCTTTGTGGC-AA-ATCATTAGAAAGGA
1 AAGCCTTTGTGGCGAATATCAAT-GAAAGGA
* * *
33575242 AAGCCTTTGTGGTGAGTATTGAATGAAAGG-
1 AAGCCTTTGTGGCGAATA-TCAATGAAAGGA
* * * * *
33575272 ATGCCTTTGTAGCAAATCTCTA-GAAAGGA
1 AAGCCTTTGTGGCGAATATCAATGAAAGGA
*
33575301 AAGCCTTTGTGGGGAATATCAAATGAAAGGA
1 AAGCCTTTGTGGCGAATATC-AATGAAAGGA
33575332 TGCCTATGAC
Statistics
Matches: 66, Mismatches: 18, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
28 6 0.09
29 29 0.44
30 14 0.21
31 14 0.21
32 3 0.05
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (30 bp):
AAGCCTTTGTGGCGAATATCAATGAAAGGA
Found at i:33579765 original size:27 final size:27
Alignment explanation
Indices: 33579676--33579785 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 27
33579666 ATTCAAAAAA
33579676 TATAATTTGTAAATATGATTATGTATC
1 TATAATTTGTAAATATGATTATGTATC
* * * * * *
33579703 TATGAATCTGCATATGTGATTTTGCAT-
1 TAT-AATTTGTAAATATGATTATGTATC
* **
33579730 AAGGA-TTGTAAATATGATTATGTATC
1 TATAATTTGTAAATATGATTATGTATC
33579756 TATAATTTGTAAATATGATTATGTATC
1 TATAATTTGTAAATATGATTATGTATC
33579783 TAT
1 TAT
33579786 GAATCCACAA
Statistics
Matches: 62, Mismatches: 18, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
25 14 0.23
26 3 0.05
27 28 0.45
28 17 0.27
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (27 bp):
TATAATTTGTAAATATGATTATGTATC
Found at i:33579786 original size:14 final size:14
Alignment explanation
Indices: 33579742--33579787 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
33579732 GGATTGTAAA
33579742 TATGATTATGTATC
1 TATGATTATGTATC
* **
33579756 TATAATT-TGTAAA
1 TATGATTATGTATC
33579769 TATGATTATGTATC
1 TATGATTATGTATC
33579783 TATGA
1 TATGA
33579788 ATCCACAATG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.48
Consensus pattern (14 bp):
TATGATTATGTATC
Found at i:33587888 original size:50 final size:50
Alignment explanation
Indices: 33587819--33588664 Score: 623
Period size: 50 Copynumber: 17.1 Consensus size: 50
33587809 TAACTTCAAT
* * * * *
33587819 CTGCAACGTTG-GAGAAGTAAGATTCACTGTTGTAGCTTTAACCTACTTCA
1 CTGCAACGTCGAG-GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* *
33587869 CTGCAACGTCGAGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTCCA
1 CTGCAACGTCGAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * * *
33587919 CTACACCG-CCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAA
1 CTGCAACGTCGA-GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * * * *
33587969 CTGCAATGTCGGGGAAGCAAGATTCGTTGTTGTAGCTTCAATCTGTTCCA
1 CTGCAACGTCGAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * ** * * * *
33588019 GTAC-ACCACCAGGGAAGTAAGATTCGTTGTTGTAGCTTCAATGTATTTAA
1 CTGCAACGTCGA-GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * * ** * *
33588069 TTGCAATGTCGGGGAAGCAAGATTCGCTAATGTAGCTTCAATCTGTTCCA
1 CTGCAACGTCGAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * *
33588119 CTAC-AC-TGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
1 CTGCAACGT-CGA-GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * * * * *
33588169 CTGCAATGTCGGGGAAGCAAGATTTGTTGTTGTAGCTTCAATCTGTTCCA
1 CTGCAACGTCGAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * * * *
33588219 GTAC-ACTGCCAAGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAA
1 CTGCAAC-GTCGAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * * * *
33588269 CTGCAATGTCGGGGAAGCAAGATTCGTTGTTGTAGCTTCAATCTGTTCCA
1 CTGCAACGTCGAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * * *
33588319 CTACACCG-CCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTAA
1 CTGCAACGTCGA-GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * * * *
33588369 TTGCAATGTC-AGGGAAGCAAGATTCGCTGATGTAGCTTCAATCTGTTCCA
1 CTGCAACGTCGA-GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * *
33588419 CTAC-AC-TGCCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTAA
1 CTGCAACGT-CGA-GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * * * * *
33588469 CTGCAATGTCGGGGAAGCAAGATTCGCTATTATAGCTTCAATCTGTTCCA
1 CTGCAACGTCGAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
** * * *
33588519 CAAC-ACCTCCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAA
1 CTGCAACGTCGA-GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * *
33588569 CTGCAATGTCGAGGAAGCAAGATTCGC-----T-G-TTCAATCTGTTCCA
1 CTGCAACGTCGAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
* * * * *
33588612 CTACACCG-CTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCA
1 CTGCAACGTCGA-GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
33588662 CTG
1 CTG
33588665 TAATGCCAAA
Statistics
Matches: 607, Mismatches: 162, Indels: 54
0.74 0.20 0.07
Matches are distributed among these distances:
42 2 0.00
43 30 0.05
44 1 0.00
45 1 0.00
48 3 0.00
49 14 0.02
50 540 0.89
51 14 0.02
52 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (50 bp):
CTGCAACGTCGAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTCA
Found at i:33588005 original size:100 final size:100
Alignment explanation
Indices: 33587832--33588655 Score: 1248
Period size: 100 Copynumber: 8.3 Consensus size: 100
33587822 CAACGTTGGA
* * * * * * * * *
33587832 GAAGTAAGATTCACTGTTGTAGCTTTAACCTACTTCACTGCAACGTCGAGGAAGTAAGATTCACT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
*
33587897 GTTGTAGCTTCAATCTATTCCACTACACCGCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
* *
33587932 GAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGTT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
* *
33587997 GTTGTAGCTTCAATCTGTTCCAGTACACCACCAGG
66 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
* * *
33588032 GAAGTAAGATTCGTTGTTGTAGCTTCAATGTATTTAATTGCAATGTCGGGGAAGCAAGATTCGCT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
** *
33588097 AATGTAGCTTCAATCTGTTCCACTACACTGCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
* *
33588132 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTTGTT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
* * *
33588197 GTTGTAGCTTCAATCTGTTCCAGTACACTGCCAAG
66 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
* *
33588232 GAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGTT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
33588297 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
* * *
33588332 GAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTAATTGCAATGTCAGGGAAGCAAGATTCGCT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
* *
33588397 GATGTAGCTTCAATCTGTTCCACTACACTGCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
*
33588432 GAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
* * * *
33588497 ATTATAGCTTCAATCTGTTCCACAACACCTCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
*
33588532 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGAGGAAGCAAGATTCGC-
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
*
33588596 ----T-G-TTCAATCTGTTCCACTACACCGCTAGG
66 GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
33588625 GAAGTAAGATTCGCTGTTGTAGCTTCAATCT
1 GAAGTAAGATTCGCTGTTGTAGCTTCAATCT
33588656 GTTCCACTGT
Statistics
Matches: 668, Mismatches: 56, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
93 55 0.08
94 1 0.00
95 1 0.00
100 611 0.91
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (100 bp):
GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTCGCT
GTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
Found at i:33592601 original size:25 final size:27
Alignment explanation
Indices: 33592567--33592632 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
33592557 ACATGTATGT
*
33592567 TCACACGAGCTGT-AAATTA-AAATAC
1 TCACACGAGCTGTGAAAATAGAAATAC
***
33592592 TCACACGAGCTGTGAAAATAGGCCTAC
1 TCACACGAGCTGTGAAAATAGAAATAC
33592619 TCACACGAGCTGTG
1 TCACACGAGCTGTG
33592633 GGTCAGAACG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 13 0.37
26 5 0.14
27 17 0.49
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (27 bp):
TCACACGAGCTGTGAAAATAGAAATAC
Found at i:33595502 original size:100 final size:102
Alignment explanation
Indices: 33595320--33595567 Score: 297
Period size: 99 Copynumber: 2.4 Consensus size: 102
33595310 TGATAATAAC
* * * * *
33595320 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTACTGCCAATGCCATATC
* **
33595385 CCAGATATGGTCTTACATGGGAGTTCTCAT-A-TC-G
66 CCAGACATGGTCTTACATGGGACCTCTCATAACTCAG
* * * * * *
33595419 GTGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAGTGCCAA-GACCATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCT-ACTGCCAATG-CCATA
33595483 TCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATG
64 TCCCAGACATGGTCTTACATGGGACCTCTCATAA-CTC-A-G
33595525 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
33595568 TTACCCAAAT
Statistics
Matches: 123, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
99 40 0.33
100 40 0.33
101 1 0.01
103 2 0.02
106 40 0.33
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (102 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTACTGCCAATGCCATATC
CCAGACATGGTCTTACATGGGACCTCTCATAACTCAG
Found at i:33595538 original size:56 final size:50
Alignment explanation
Indices: 33595321--33595567 Score: 273
Period size: 50 Copynumber: 4.8 Consensus size: 50
33595311 GATAATAACA
* ** * * * *
33595321 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGT-AC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * ** * *
33595370 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* *
33595420 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
33595470 TGCCAA-GACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATG
1 TGCCAATG-CCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---CTC-A-G
*
33595525 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
33595568 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
49 40 0.24
50 83 0.49
53 3 0.02
54 1 0.01
55 1 0.01
56 39 0.23
57 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:33602997 original size:50 final size:50
Alignment explanation
Indices: 33602916--33603036 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
33602906 TATCCTAGAT
* ** * * *
33602916 ATGGTCTTACATGGGAGTTCTCATATTGGTGCCCAT-GTCATGTCCCAGAC
1 ATGGTCTTACAGGGGACCTCTCATATCGGTG-CCATCGCCATGTACCAGAC
* *
33602966 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCATCGCCATGTACCAGAC
1 ATGGTCTTACAGGGGACCTCTCATATCGGTGCCATCGCCATGTACCAGAC
* * *
33603016 ATAGTCTTACATGGGATCTCT
1 ATGGTCTTACAGGGGACCTCT
33603037 TTACCCAAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
49 4 0.07
50 54 0.93
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (50 bp):
ATGGTCTTACAGGGGACCTCTCATATCGGTGCCATCGCCATGTACCAGAC
Found at i:33604961 original size:22 final size:22
Alignment explanation
Indices: 33604933--33604974 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
33604923 AAAGGGCACC
*
33604933 TTGTCTTTAGACCTAG-TTGAGG
1 TTGTCTTAAGA-CTAGCTTGAGG
33604955 TTGTCTTAAGACTAGCTTGA
1 TTGTCTTAAGACTAGCTTGA
33604975 CAAGTCTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.40
Consensus pattern (22 bp):
TTGTCTTAAGACTAGCTTGAGG
Found at i:33618335 original size:3 final size:3
Alignment explanation
Indices: 33618327--33618369 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
33618317 AATGTACATA
33618327 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
33618370 TTTTAGTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:33623960 original size:14 final size:14
Alignment explanation
Indices: 33623941--33623969 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33623931 AATACTGTTC
33623941 CTATCCCAAACTTG
1 CTATCCCAAACTTG
33623955 CTATCCCAAACTTG
1 CTATCCCAAACTTG
33623969 C
1 C
33623970 CAGCCGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.38, G:0.07, T:0.28
Consensus pattern (14 bp):
CTATCCCAAACTTG
Found at i:33628395 original size:18 final size:19
Alignment explanation
Indices: 33628372--33628412 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
33628362 ATGCAGAAAA
*
33628372 AAAACG-AAACCATGCAAG
1 AAAACGAAAAACATGCAAG
33628390 AAAACGTAAAAACATGCAAG
1 AAAACG-AAAAACATGCAAG
33628410 AAA
1 AAA
33628413 GATAAAGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
20 14 0.70
ACGTcount: A:0.61, C:0.17, G:0.15, T:0.07
Consensus pattern (19 bp):
AAAACGAAAAACATGCAAG
Found at i:33630956 original size:23 final size:23
Alignment explanation
Indices: 33630930--33631028 Score: 135
Period size: 23 Copynumber: 4.3 Consensus size: 23
33630920 ATAAGTGCCA
* *
33630930 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
33630953 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
33630976 CACTGATATGTAGTCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
33630999 CACTGAAATGTAGCCGAAGCTTC
1 CACTGATATGTAGCCGAAGCTAC
33631022 CACTGAT
1 CACTGAT
33631029 CAATAACACT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 65 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:33630997 original size:46 final size:46
Alignment explanation
Indices: 33630930--33631028 Score: 171
Period size: 46 Copynumber: 2.2 Consensus size: 46
33630920 ATAAGTGCCA
33630930 CACTGATACGTAGCCGTAGCTACCACTGAAATGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGTAGCTACCACTGAAATGTAGCCGAAGCTAC
* * *
33630976 CACTGATATGTAGTCGTAGCTACCACTGAAATGTAGCCGAAGCTTC
1 CACTGATACGTAGCCGTAGCTACCACTGAAATGTAGCCGAAGCTAC
33631022 CACTGAT
1 CACTGAT
33631029 CAATAACACT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (46 bp):
CACTGATACGTAGCCGTAGCTACCACTGAAATGTAGCCGAAGCTAC
Found at i:33631274 original size:17 final size:18
Alignment explanation
Indices: 33631252--33631292 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
33631242 CAATTTTCCT
33631252 TTCACAT-TC-AATATTAA
1 TTCACATATCAAATA-TAA
33631269 TTCACATATCAAATATAA
1 TTCACATATCAAATATAA
33631287 TTCACA
1 TTCACA
33631293 ATTTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 11 0.50
19 4 0.18
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (18 bp):
TTCACATATCAAATATAA
Found at i:33631523 original size:29 final size:30
Alignment explanation
Indices: 33631477--33631534 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
33631467 TCCTTGACTC
33631477 AAACTTTGGCAAAATTATA-ATTTTCCCCT
1 AAACTTTGGCAAAATTATACATTTTCCCCT
* * * *
33631506 AAACTTTTGCATATTTATACTTTTTCCCC
1 AAACTTTGGCAAAATTATACATTTTCCCC
33631535 AAAGCTCGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.43
Consensus pattern (30 bp):
AAACTTTGGCAAAATTATACATTTTCCCCT
Found at i:33639202 original size:12 final size:13
Alignment explanation
Indices: 33639177--33639205 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
33639167 AAGTACAAAA
33639177 GAAAACTAAAACT
1 GAAAACTAAAACT
33639190 GAAAACT-AAACT
1 GAAAACTAAAACT
33639202 GAAA
1 GAAA
33639206 GGAAAATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.62, C:0.14, G:0.10, T:0.14
Consensus pattern (13 bp):
GAAAACTAAAACT
Found at i:33647952 original size:46 final size:46
Alignment explanation
Indices: 33647896--33647991 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 46
33647886 ACTTCCAAAT
* *
33647896 CAGATATATATGGTCAAGCCACTAT-ATTGCAGCCAAGCTGCCAGTA
1 CAGATATATATGGTCAAGCCACCATAATTGCAGACAAGCTGCCAG-A
* * *
33647942 CAGATGTATATGGTCTAGCCACCATAATTGTAGACAAGCTGCCAGA
1 CAGATATATATGGTCAAGCCACCATAATTGCAGACAAGCTGCCAGA
33647988 CAGA
1 CAGA
33647992 ATTGTGGATA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
46 27 0.61
47 17 0.39
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (46 bp):
CAGATATATATGGTCAAGCCACCATAATTGCAGACAAGCTGCCAGA
Found at i:33652587 original size:14 final size:14
Alignment explanation
Indices: 33652568--33652594 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33652558 ATGTTATATC
33652568 AATAAATTTAATAA
1 AATAAATTTAATAA
33652582 AATAAATTTAATA
1 AATAAATTTAATA
33652595 GTATTAATAA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AATAAATTTAATAA
Found at i:33652644 original size:23 final size:23
Alignment explanation
Indices: 33652617--33652660 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
33652607 GAACATAAAT
33652617 ATTAAAATCTAAAAAATAAAAGA
1 ATTAAAATCTAAAAAATAAAAGA
** *
33652640 ATTAAGTTCTTAAAAATAAAA
1 ATTAAAATCTAAAAAATAAAA
33652661 ATACAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (23 bp):
ATTAAAATCTAAAAAATAAAAGA
Found at i:33652922 original size:5 final size:5
Alignment explanation
Indices: 33652912--33652946 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
33652902 AAAGGATCCC
33652912 ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT
33652947 CCTCAATTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:33662333 original size:21 final size:21
Alignment explanation
Indices: 33662307--33662347 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33662297 TAATGAGACT
*
33662307 GCTAATGTGGCAAGTTAACTA
1 GCTAATATGGCAAGTTAACTA
*
33662328 GCTAATATGGCTAGTTAACT
1 GCTAATATGGCAAGTTAACT
33662348 TACCATGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (21 bp):
GCTAATATGGCAAGTTAACTA
Found at i:33662598 original size:40 final size:40
Alignment explanation
Indices: 33662494--33662598 Score: 124
Period size: 44 Copynumber: 2.5 Consensus size: 40
33662484 GGCAAAAAAA
* *
33662494 TAATAGGGATTT-GGGTTAG-AAATCGATTCAGGAATTGAT
1 TAATAGGG-TTTAGGGTTAGAAAATCAATTCAAGAATTGAT
*
33662533 TAATAAGGTTGGTTTAGGGTTAGAAAATCAATTCAATAATTGAT
1 TAAT-A-G--GGTTTAGGGTTAGAAAATCAATTCAAGAATTGAT
33662577 TAATAGGGTTTAGGGTTAGAAA
1 TAATAGGGTTTAGGGTTAGAAA
33662599 TCGATTGATA
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
39 4 0.07
40 17 0.30
41 1 0.02
42 4 0.07
43 10 0.18
44 21 0.37
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (40 bp):
TAATAGGGTTTAGGGTTAGAAAATCAATTCAAGAATTGAT
Found at i:33663601 original size:10 final size:10
Alignment explanation
Indices: 33663586--33663616 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
33663576 ATAAAAAACT
33663586 AAGAAAGAAA
1 AAGAAAGAAA
33663596 AAGAAAGAAA
1 AAGAAAGAAA
33663606 AAGAAAAGAAA
1 AAG-AAAGAAA
33663617 GGGAGAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.65
11 7 0.35
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:33664001 original size:20 final size:20
Alignment explanation
Indices: 33663964--33664001 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33663954 ATGAAATTAG
*
33663964 TATAAAAATATAAGATTAAA
1 TATAAAAATATAAAATTAAA
33663984 TATAAAGAATA-AAAATTA
1 TATAAA-AATATAAAATTA
33664002 GTCTCGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
TATAAAAATATAAAATTAAA
Found at i:33666515 original size:15 final size:15
Alignment explanation
Indices: 33666497--33666556 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
33666487 TGTCTGATTT
33666497 TGATGTGTCTAATAG
1 TGATGTGTCTAATAG
* ** *
33666512 TGATGTCTCTGTTAA
1 TGATGTGTCTAATAG
*
33666527 TGATGTGTCTGATAG
1 TGATGTGTCTAATAG
33666542 TGATGTGTCTAATAG
1 TGATGTGTCTAATAG
33666557 GGTAAGGGTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.42
Consensus pattern (15 bp):
TGATGTGTCTAATAG
Found at i:33668879 original size:21 final size:21
Alignment explanation
Indices: 33668855--33668903 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
33668845 CAAGTGGTTA
* * *
33668855 CCCAACTCAATAATAGTCTAT
1 CCCAAATCAAGAATAGTCTAC
*
33668876 CCCAAATCAGGAATAGTCTAC
1 CCCAAATCAAGAATAGTCTAC
33668897 CCCAAAT
1 CCCAAAT
33668904 TACAAAGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.39, C:0.31, G:0.08, T:0.22
Consensus pattern (21 bp):
CCCAAATCAAGAATAGTCTAC
Found at i:33668932 original size:21 final size:21
Alignment explanation
Indices: 33668908--33668949 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
33668898 CCAAATTACA
*
33668908 AAGAGGCTACCCTAACTCAGT
1 AAGAGGCTACCCCAACTCAGT
*
33668929 AAGAGGCTGCCCCAACTCAGT
1 AAGAGGCTACCCCAACTCAGT
33668950 TACAAACTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.17
Consensus pattern (21 bp):
AAGAGGCTACCCCAACTCAGT
Found at i:33679451 original size:50 final size:50
Alignment explanation
Indices: 33679340--33679584 Score: 217
Period size: 50 Copynumber: 4.8 Consensus size: 50
33679330 ATTTAGGTAA
**
33679340 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG--T-ACCGAG---ATG
* *
33679396 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGTACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATG
* ** * * * * *
33679446 AGAGGTCCCCCGTAAGATCATGTTTGGGACATGGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATG
* * * * *
33679496 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGG--CAGTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCG-AGATG
* * *
33679545 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
33679585 CATGTTATTA
Statistics
Matches: 159, Mismatches: 27, Indels: 13
0.80 0.14 0.07
Matches are distributed among these distances:
48 2 0.01
49 37 0.23
50 77 0.48
53 4 0.03
54 1 0.01
56 38 0.24
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATG
Found at i:33680105 original size:21 final size:21
Alignment explanation
Indices: 33680081--33680123 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
33680071 TTGAATGTAT
33680081 GTTCTTATGATATTGCTAAAG
1 GTTCTTATGATATTGCTAAAG
33680102 GTTCTTATGATATTGCTAAAG
1 GTTCTTATGATATTGCTAAAG
33680123 G
1 G
33680124 ATGATGTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (21 bp):
GTTCTTATGATATTGCTAAAG
Found at i:33684586 original size:18 final size:18
Alignment explanation
Indices: 33684563--33684597 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33684553 ATTAATTTTG
33684563 ATCAAATAAAATAAAATA
1 ATCAAATAAAATAAAATA
* *
33684581 ATCAAATTAATTAAAAT
1 ATCAAATAAAATAAAAT
33684598 TAATATGATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
ATCAAATAAAATAAAATA
Found at i:33688786 original size:51 final size:51
Alignment explanation
Indices: 33688710--33689105 Score: 251
Period size: 51 Copynumber: 7.6 Consensus size: 51
33688700 GATTAACACG
* * *
33688710 TGTGTAGTACTGTGAGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAACT-ATGGTCACA
* * * *
33688761 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGAG-CACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA-CTATG-GTCACA
* * ** * *
33688812 TGTGTAGTACTGTGTGAATGCTACTACGTGTATTGGTAAACTATGGTTACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAACTATGGTCACA
* * * * * * *
33688863 TGTGTAGTACTAAGTGAAGGCTACAATGGGTACCGA-ATAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATA-AACTATGGTCACA
*
33688914 TATGTAGTACTATGTGAAGGCTACTACGTG-AGCCG-TAAAACTTGATCACGTGTGTAGCACTA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGAT-AAAC----T-A--TG-GT--CAC-A
* * * *
33688976 TGTGAAG-GCTATGTGAAGGCTACTACGTG-AGCCG-TAAAACT-TGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGAT-AAACTATGGTCACA
* * * * *
33689025 TGTGTAGTACTATGTGAAGGCTACTATGTGAACTG-TAAA--ACTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAACTA-TGGTCACA
33689074 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
33689106 TCGAATGATA
Statistics
Matches: 272, Mismatches: 49, Indels: 50
0.73 0.13 0.13
Matches are distributed among these distances:
49 47 0.17
50 32 0.12
51 138 0.51
52 7 0.03
53 2 0.01
55 1 0.00
57 1 0.00
58 2 0.01
59 2 0.01
61 35 0.13
62 5 0.02
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAACTATGGTCACA
Found at i:33688882 original size:102 final size:102
Alignment explanation
Indices: 33688706--33688943 Score: 354
Period size: 102 Copynumber: 2.3 Consensus size: 102
33688696 TGTCGATTAA
*
33688706 CACGTGTGTAGTACTGTGAGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
* *
33688771 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGAG-
66 TAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTG-GT
* * * *
33688808 CACGTGTGTAGTACTGTGTGAATGCTACTACGTGTATTGGTAAACT-ATGGTTACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTA
*
33688872 CTAAGTGAAGGCTACAATGGGTACCGAATAGCTTTGGT
65 CTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGT
* *
33688910 CACGTATGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTG
33688944 AGCCGTAAAA
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
101 1 0.01
102 121 0.98
103 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGT
Found at i:33688955 original size:102 final size:102
Alignment explanation
Indices: 33688706--33688986 Score: 349
Period size: 102 Copynumber: 2.8 Consensus size: 102
33688696 TGTCGATTAA
*
33688706 CACGTGTGTAGTACTGTGAGAAGGCTACTACGTGTATCG-ATAAA-TAATGGTCACATGTGTAGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGTA-AAACT-ATGGTCACATGTGTAGT
* *
33688769 ACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGAG
64 ACTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGAG
* * *
33688808 CACGTGTGTAGTACTGTGTGAATGCTACTACGTGTATTGGT-AAACTATGGTTACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTA-TCGTAAAACTATGGTCACATGTGTAGTA
*
33688872 CTAAGTGAAGGCTACAATGGGTACCGAATAGCTTTG-G
65 CTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGAG
* * * * * *
33688909 TCACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACGTGTGTAGC
1 -CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTA-TCGTAAAACTATGGTCACATGTGTAGT
*
33688972 ACTATGTGAAGGCTA
64 ACTAAGTGAAGGCTA
33688987 TGTGAAGGCT
Statistics
Matches: 156, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
101 30 0.19
102 123 0.79
103 3 0.02
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGTAAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGAG
Found at i:33688988 original size:61 final size:61
Alignment explanation
Indices: 33688923--33689047 Score: 241
Period size: 61 Copynumber: 2.0 Consensus size: 61
33688913 GTATGTAGTA
33688923 CTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACGTGTGTAGCACTATGTGAAGG
1 CTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACGTGTGTAGCACTATGTGAAGG
*
33688984 CTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACGTGTGTAGTACTATGTGAAGG
1 CTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACGTGTGTAGCACTATGTGAAGG
33689045 CTA
1 CTA
33689048 CTATGTGAAC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (61 bp):
CTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACGTGTGTAGCACTATGTGAAGG
Found at i:33688989 original size:11 final size:11
Alignment explanation
Indices: 33688973--33688997 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33688963 GTGTGTAGCA
33688973 CTATGTGAAGG
1 CTATGTGAAGG
33688984 CTATGTGAAGG
1 CTATGTGAAGG
33688995 CTA
1 CTA
33688998 CTACGTGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (11 bp):
CTATGTGAAGG
Found at i:33689089 original size:49 final size:50
Alignment explanation
Indices: 33688984--33689103 Score: 206
Period size: 49 Copynumber: 2.4 Consensus size: 50
33688974 TATGTGAAGG
*
33688984 CTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACGTGTGTAGTA
1 CTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTA
* *
33689034 CTATGTGAAGGCTACTATGTGAACTGTAAAAC-TGATCACGTGTGTAGTA
1 CTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTA
33689083 CTATGTGAAGGCTACTACGTG
1 CTATGTGAAGGCTACTACGTG
33689104 TATCGAATGA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 37 0.56
50 29 0.44
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (50 bp):
CTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTA
Found at i:33696472 original size:51 final size:50
Alignment explanation
Indices: 33696396--33696572 Score: 162
Period size: 51 Copynumber: 3.5 Consensus size: 50
33696386 GATGAACACG
**
33696396 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACA
1 TGTGTAGTACTAAGTGAA-GCTACTACGTGTATCGATAAACT-ATGGTCACA
* * * * * *
33696447 TGTGTAGTACTAAGTGAAGATTACTATGTGTACCGA-AAAGCTTTTAG-CACG
1 TGTGTAGTACTAAGTGAAG-CTACTACGTGTATCGATAAA-C-TATGGTCACA
** * *
33696498 TGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGTAAACTATGGTTACA
1 TGTGTAGTACTAAGTGAA-GCTACTACGTGTATCGATAAACTATGGTCACA
33696549 TGTGTAGTACTAAGTGAAGGCTAC
1 TGTGTAGTACTAAGTGAA-GCTAC
33696573 AATGGGTACC
Statistics
Matches: 98, Mismatches: 21, Indels: 14
0.74 0.16 0.11
Matches are distributed among these distances:
50 7 0.07
51 84 0.86
52 6 0.06
53 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGAAGCTACTACGTGTATCGATAAACTATGGTCACA
Found at i:33696582 original size:102 final size:102
Alignment explanation
Indices: 33696392--33696583 Score: 305
Period size: 102 Copynumber: 1.9 Consensus size: 102
33696382 TGTCGATGAA
33696392 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
* * *
33696457 TAAGTGAAGATTACTATGTGTACCGAAAAGCTTTTAG
66 TAAGTGAAGACTACAATGGGTACCGAAAAGCTTTTAG
* * *
33696494 CACGTGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGTAAACT-ATGGTTACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTA
*
33696558 CTAAGTGAAGGCTACAATGGGTACCG
65 CTAAGTGAAGACTACAATGGGTACCG
33696584 GATAATTCTT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
102 81 0.99
103 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGACTACAATGGGTACCGAAAAGCTTTTAG
Found at i:33706046 original size:31 final size:31
Alignment explanation
Indices: 33706008--33706069 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
33705998 CGCACACACA
33706008 ATGTTGGTGGTAGATACTTCTGTGAATGGTG
1 ATGTTGGTGGTAGATACTTCTGTGAATGGTG
*
33706039 ATGTTGGTGGTAGATGCTTCTGTGAATGGTG
1 ATGTTGGTGGTAGATACTTCTGTGAATGGTG
33706070 TTCTCTTGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.06, G:0.37, T:0.39
Consensus pattern (31 bp):
ATGTTGGTGGTAGATACTTCTGTGAATGGTG
Found at i:33707330 original size:39 final size:39
Alignment explanation
Indices: 33707276--33707413 Score: 204
Period size: 39 Copynumber: 3.5 Consensus size: 39
33707266 AACATGTTTT
* *
33707276 TGAGTAATGTGATATATGCTTGAATGTTATGTGGTTATA
1 TGAGTAATGTGATATATGCTTAAATGTTATGTGATTATA
* *
33707315 TGAGTATTTTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTAATGTGATATATGCTTAAATGTTATGTGATTATA
* * *
33707354 TGAGTATTGTGATATATGTTTAAATGTTATGTAATTATA
1 TGAGTAATGTGATATATGCTTAAATGTTATGTGATTATA
*
33707393 TGTGTAATGTGATATATGCTT
1 TGAGTAATGTGATATATGCTT
33707414 GAAAGTGAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (39 bp):
TGAGTAATGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:33718627 original size:18 final size:18
Alignment explanation
Indices: 33718604--33718638 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33718594 TCCTCATCCT
* *
33718604 CTAAGGGGAAGTAGAAAG
1 CTAAGGGAAAGAAGAAAG
33718622 CTAAGGGAAAGAAGAAA
1 CTAAGGGAAAGAAGAAA
33718639 CCAACTGAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.34, T:0.09
Consensus pattern (18 bp):
CTAAGGGAAAGAAGAAAG
Found at i:33722035 original size:15 final size:15
Alignment explanation
Indices: 33722015--33722043 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33722005 TGCACGGCAA
33722015 AATTGTGATAAATGG
1 AATTGTGATAAATGG
33722030 AATTGTGATAAATG
1 AATTGTGATAAATG
33722044 ATGAATAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.34
Consensus pattern (15 bp):
AATTGTGATAAATGG
Found at i:33731475 original size:22 final size:22
Alignment explanation
Indices: 33731414--33731475 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
33731404 GCAAAGCTGC
*
33731414 CAATAACCAGAATGGCTAAGAA
1 CAATAAACAGAATGGCTAAGAA
* * *
33731436 CAATAAACAGGATAGCTATAG-G
1 CAATAAACAGAATGGCTA-AGAA
*
33731458 CTATAAACAGAATGGCTA
1 CAATAAACAGAATGGCTA
33731476 CAAGCCATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
22 30 0.94
23 2 0.06
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (22 bp):
CAATAAACAGAATGGCTAAGAA
Done.