Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 68 of 290
Found at i:22434588 original size:18 final size:18
Alignment explanation
Indices: 22434565--22434624 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
22434555 ATAAAACAAG
22434565 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
22434583 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
22434600 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
22434618 TTACATT
1 TTACATT
22434625 AGAATACATA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:22439174 original size:40 final size:40
Alignment explanation
Indices: 22439116--22439214 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
22439106 TTGCGTCGTG
* *
22439116 TTTCAAAAAGCGCCGCTAATG-CTTGATCTATATCGGCGTT
1 TTTCAAAAAGCGCCGCTAATGAC-TCATCTATAACGGCGTT
*
22439156 TTTCAAAAAGCGCTGCTAATGACTCATCTATAACGGCGTT
1 TTTCAAAAAGCGCCGCTAATGACTCATCTATAACGGCGTT
*
22439196 TTT-ATAAAAGTGCCGCTAA
1 TTTCA-AAAAGCGCCGCTAA
22439215 GGCCATCAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.02
40 50 0.96
41 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (40 bp):
TTTCAAAAAGCGCCGCTAATGACTCATCTATAACGGCGTT
Found at i:22439285 original size:40 final size:40
Alignment explanation
Indices: 22439241--22439411 Score: 177
Period size: 40 Copynumber: 4.3 Consensus size: 40
22439231 CGGTTTTTTT
* * * * *
22439241 GCGGCATTTTTCAAAAGGCGTCGGTAATGCTTGACCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTTGATCTATA
* * * * *
22439281 GCGGCGCTTTCCAAAAAACGCCGCTAATGCTAGTTCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTTGATCTATA
* *
22439321 GCGGCCTTTTTTAAAAAGCGCCGCTAATGCTTGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTTGATCTATA
22439361 GCGGCGTTTTT-AAAGAAGCGCCGCTAATG--TGATATCTATA
1 GCGGCGTTTTTCAAA-AAGCGCCGCTAATGCTTG--ATCTATA
*
22439401 GTGGCGTTTTT
1 GCGGCGTTTTT
22439412 TATCCAAACG
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
38 2 0.02
39 3 0.03
40 104 0.95
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTTGATCTATA
Found at i:22439344 original size:133 final size:133
Alignment explanation
Indices: 22439101--22439347 Score: 311
Period size: 133 Copynumber: 1.9 Consensus size: 133
22439091 TTGTGCTAAT
* * * * * * *
22439101 TTTTTTTGCGTCGTGTTTCAAAAAGCGCCGCTAATGCTTGATCTATATCGGCGTTTTTCAAAAAG
1 TTTTTTTGCGGCATGTTTCAAAAAGCGCCGCTAATGCTTGACCTATAGCGGCGCTTTCCAAAAAA
* *
22439166 CGCTGCTAATGACTCATCTATAACGGCGTTTTTATAAAAGTGCCGCTAAGGCCATCAAAGCTCGA
66 CGCCGCTAATGACTCATCTATAACGGCGTTTTTATAAAAGCGCCGCTAAGGCCATCAAAGCTCGA
22439231 CGG
131 CGG
* * * *
22439234 TTTTTTTGCGGCATTTTTCAAAAGGCGTCGGTAATGCTTGACCTATAGCGGCGCTTTCCAAAAAA
1 TTTTTTTGCGGCATGTTTCAAAAAGCGCCGCTAATGCTTGACCTATAGCGGCGCTTTCCAAAAAA
* *
22439299 CGCCGCTAATG-CT-AGTTCTATAGCGGCCTTTTT-TAAAAAGCGCCGCTAA
66 CGCCGCTAATGACTCA--TCTATAACGGCGTTTTTAT-AAAAGCGCCGCTAA
22439348 TGCTTGATCT
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
131 1 0.01
132 3 0.03
133 92 0.96
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (133 bp):
TTTTTTTGCGGCATGTTTCAAAAAGCGCCGCTAATGCTTGACCTATAGCGGCGCTTTCCAAAAAA
CGCCGCTAATGACTCATCTATAACGGCGTTTTTATAAAAGCGCCGCTAAGGCCATCAAAGCTCGA
CGG
Found at i:22439413 original size:80 final size:80
Alignment explanation
Indices: 22439241--22439389 Score: 201
Period size: 80 Copynumber: 1.9 Consensus size: 80
22439231 CGGTTTTTTT
* * * * *
22439241 GCGGCATTTTTCAAAAGGCGTCGGTAATGCTTGACCTATAGCGGCGCTTTCCAAAAAACGCCGCT
1 GCGGCCTTTTTTAAAAAGCGCCGCTAATGCTTGACCTATAGCGGCGCTTTCCAAAAAACGCCGCT
22439306 AATGCTAGTTCTATA
66 AATGCTAGTTCTATA
* ** *
22439321 GCGGCCTTTTTTAAAAAGCGCCGCTAATGCTTGATCTATAGCGGCG-TTTTTAAAGAAGCGCCGC
1 GCGGCCTTTTTTAAAAAGCGCCGCTAATGCTTGACCTATAGCGGCGCTTTCCAAA-AAACGCCGC
22439385 TAATG
65 TAATG
22439390 TGATATCTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
79 6 0.10
80 53 0.90
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (80 bp):
GCGGCCTTTTTTAAAAAGCGCCGCTAATGCTTGACCTATAGCGGCGCTTTCCAAAAAACGCCGCT
AATGCTAGTTCTATA
Found at i:22439762 original size:41 final size:41
Alignment explanation
Indices: 22439688--22439779 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 41
22439678 ACCAGCTCTT
*
22439688 AGCCTGCTAGACTTATAGTCCGAAATATATCACCGGCATTA
1 AGCCTGCTAGACGTATAGTCCGAAATATATCACCGGCATTA
* * *
22439729 AGCCTGCTAGACGTA-AGGTCTGAATTATTTCACCGGCATTA
1 AGCCTGCTAGACGTATA-GTCCGAAATATATCACCGGCATTA
22439770 AGCCTGCTAG
1 AGCCTGCTAG
22439780 GCACATAGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 1 0.02
41 45 0.98
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACGTATAGTCCGAAATATATCACCGGCATTA
Found at i:22440423 original size:21 final size:21
Alignment explanation
Indices: 22440397--22440438 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
22440387 TCATAAAATC
22440397 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
*
22440418 AAATTCGGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
22440439 TATATATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (21 bp):
AAATTCAGCTTATAGAACATA
Found at i:22447414 original size:41 final size:41
Alignment explanation
Indices: 22447342--22447431 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
22447332 CAGCTCTTAG
* *
22447342 CCTGCTGGACCTAAAGTCCGAAATATATCACCGGCATTAAA
1 CCTGCTAGACATAAAGTCCGAAATATATCACCGGCATTAAA
* * * * *
22447383 CCTGCTAGACATAAGGTCTGAATTATTTCACCGGCATTAAG
1 CCTGCTAGACATAAAGTCCGAAATATATCACCGGCATTAAA
*
22447424 CCTACTAG
1 CCTGCTAG
22447432 GCACATAGCC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (41 bp):
CCTGCTAGACATAAAGTCCGAAATATATCACCGGCATTAAA
Found at i:22448067 original size:21 final size:21
Alignment explanation
Indices: 22448041--22448082 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
22448031 TCATAAAATC
22448041 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
22448062 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
22448083 TATATATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (21 bp):
AAATTCAGCTTATAGAACATA
Found at i:22456622 original size:22 final size:22
Alignment explanation
Indices: 22456597--22456639 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22456587 TAATAAAAAG
22456597 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
22456619 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
22456640 CACTCCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:22459434 original size:30 final size:32
Alignment explanation
Indices: 22459400--22459458 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
22459390 AATATTTATT
* *
22459400 TTATAT-ATTTTAGTTATTAA-ATATAATTCA
1 TTATATGATTTTAATAATTAATATATAATTCA
22459430 TTATATGATTTTAATAATTAATATATAAT
1 TTATATGATTTTAATAATTAATATATAAT
22459459 AATATTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.24
31 12 0.48
32 7 0.28
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (32 bp):
TTATATGATTTTAATAATTAATATATAATTCA
Found at i:22470800 original size:26 final size:26
Alignment explanation
Indices: 22470771--22470831 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
22470761 ACGAATTTTC
**
22470771 TCAAAATTTTATTAGGGGTAAAATCG
1 TCAAAATTTTACCAGGGGTAAAATCG
* **
22470797 TCAAAAATTTACCAGGGGTAAAATTT
1 TCAAAATTTTACCAGGGGTAAAATCG
22470823 TCAAAATTT
1 TCAAAATTT
22470832 AACTGGGATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACCAGGGGTAAAATCG
Found at i:22471571 original size:13 final size:13
Alignment explanation
Indices: 22471553--22471577 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22471543 TAAGATGAAA
22471553 TTGCTTGTGTTTG
1 TTGCTTGTGTTTG
22471566 TTGCTTGTGTTT
1 TTGCTTGTGTTT
22471578 TAGATCCTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.28, T:0.64
Consensus pattern (13 bp):
TTGCTTGTGTTTG
Found at i:22473173 original size:25 final size:27
Alignment explanation
Indices: 22473113--22473173 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
22473103 CCAGGTAAGG
*
22473113 CTTCTTCTCCTTCATCCGTTCTTCATTC
1 CTTC-TCTTCTTCATCCGTTCTTCATTC
*
22473141 CTT-T-TTCTTCTTCCGTTCTTCA-T-
1 CTTCTCTTCTTCATCCGTTCTTCATTC
22473164 CTTCTCTTCT
1 CTTCTCTTCT
22473174 CAGCATATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 3 0.10
24 2 0.07
25 20 0.69
26 1 0.03
28 3 0.10
ACGTcount: A:0.05, C:0.36, G:0.03, T:0.56
Consensus pattern (27 bp):
CTTCTCTTCTTCATCCGTTCTTCATTC
Found at i:22473347 original size:15 final size:12
Alignment explanation
Indices: 22473312--22473343 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22473302 CGTTCTCACT
*
22473312 AAAATTGGTAAA
1 AAAATCGGTAAA
22473324 AAAATCGGTAAA
1 AAAATCGGTAAA
22473336 AAAATCGG
1 AAAATCGG
22473344 CGGTTCCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (12 bp):
AAAATCGGTAAA
Found at i:22473689 original size:12 final size:13
Alignment explanation
Indices: 22473666--22473691 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22473656 TCAATGAACC
22473666 CTTAATTTTTTTG
1 CTTAATTTTTTTG
22473679 CTTAATTTTTTTG
1 CTTAATTTTTTTG
22473692 GTACTCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
CTTAATTTTTTTG
Found at i:22477103 original size:21 final size:21
Alignment explanation
Indices: 22477077--22477127 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
22477067 CGCTGTTTCT
*
22477077 AATCTCACCGCTACAATATCC
1 AATCTCACCGCTACAATAACC
* *
22477098 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
22477119 AATCTCACC
1 AATCTCACC
22477128 ACCACCGCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.37, G:0.06, T:0.24
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:22479600 original size:22 final size:22
Alignment explanation
Indices: 22479572--22479616 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22479562 AATTTACGAA
22479572 TATGTAATTCACTAACACATTC
1 TATGTAATTCACTAACACATTC
22479594 TATGTAATTCACTAACACATTC
1 TATGTAATTCACTAACACATTC
22479616 T
1 T
22479617 GGTATACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (22 bp):
TATGTAATTCACTAACACATTC
Found at i:22482196 original size:51 final size:51
Alignment explanation
Indices: 22482138--22482328 Score: 210
Period size: 51 Copynumber: 3.8 Consensus size: 51
22482128 GATACGGGTT
* * *
22482138 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTA
* *
22482189 CACATAGTAGCCTACACATAGTACTACACACGTGATCGA--AGCTATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCTGGTA
* * *** *
22482240 CGCATAGTAGCCTGCACATAGTACTACAAATACGACCTATCA-T-TTTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGGTA
* *
22482290 CACGTAGTAGCCTGCATATAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
22482329 GACTTTCACT
Statistics
Matches: 115, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
49 2 0.02
50 38 0.33
51 72 0.63
52 2 0.02
53 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTA
Found at i:22482217 original size:12 final size:13
Alignment explanation
Indices: 22482138--22482218 Score: 50
Period size: 12 Copynumber: 6.3 Consensus size: 13
22482128 GATACGGGTT
*
22482138 CACATAGTAGCCTG
1 CACATAGTA-CCTA
22482152 CACATAGTA-CTA
1 CACATAGTACCTA
22482164 CACAT-GTGACC-A
1 CACATAGT-ACCTA
22482176 TCAC-TA-T-CCGATA
1 -CACATAGTACC--TA
22482189 CACATAGTAGCCTA
1 CACATAGTA-CCTA
22482203 CACATAGTA-CTA
1 CACATAGTACCTA
22482215 CACA
1 CACA
22482219 CGTGATCGAA
Statistics
Matches: 55, Mismatches: 1, Indels: 24
0.69 0.01 0.30
Matches are distributed among these distances:
10 2 0.04
11 2 0.04
12 21 0.38
13 7 0.13
14 21 0.38
16 2 0.04
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (13 bp):
CACATAGTACCTA
Found at i:22482347 original size:101 final size:102
Alignment explanation
Indices: 22482135--22482358 Score: 238
Period size: 101 Copynumber: 2.2 Consensus size: 102
22482125 AATGATACGG
* **
22482135 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACATAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACAAATACGACCATCACTATCCGATACACATAGTAGC
* **
22482200 CTACACATAGTACTACACACGTGATCGAAGCTATCTG
66 CTACACATAGTACTACACACGTGATCCAAGCTATCAC
* * ** * *
22482237 GTACGCATAGTAGCCTGCACATAGTACTACAAATACGACCTATCA-T-TTTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTGCACATAGTACTACAAATACGACC-ATCACTATCCGATACACATAGTAG
* * * *
22482300 CCTGCATATAGTACTACACACGTGA-CCATGACTTTCAC
65 CCTACACATAGTACTACACACGTGATCCAAG-CTATCAC
* * *
22482338 TTTCACATAGTGGCCTACACA
1 GTTCACATAGTAGCCTGCACA
22482359 CAATCCATGC
Statistics
Matches: 99, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
100 3 0.03
101 56 0.57
102 36 0.36
103 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTACAAATACGACCATCACTATCCGATACACATAGTAGC
CTACACATAGTACTACACACGTGATCCAAGCTATCAC
Found at i:22494643 original size:24 final size:24
Alignment explanation
Indices: 22494616--22494674 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
22494606 CCTATTTATG
*
22494616 TAAGGGTTTGCATACTAGATCACA
1 TAAGGGTTTGCATACTAAATCACA
*
22494640 TAAGGGTTCGCATACTAAATCACA
1 TAAGGGTTTGCATACTAAATCACA
*
22494664 TAAGGTTTTGC
1 TAAGGGTTTGC
22494675 TTGAAGGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (24 bp):
TAAGGGTTTGCATACTAAATCACA
Found at i:22494684 original size:130 final size:129
Alignment explanation
Indices: 22494490--22494753 Score: 350
Period size: 130 Copynumber: 2.0 Consensus size: 129
22494480 GCACATACAA
** *
22494490 GGTTCGCATAATAGATCACATAAGGCTTCGTGTACTAAATTACATAAGGTTTTACATGAAGGTTC
1 GGTTCGCATAATAGATCACATAAGGCTTCGCATACTAAATCACATAAGGTTTTACATGAAGGTTC
* ** *
22494555 -TCATATCGGCTACAGTTCGTCTATCAATTTATAACAGAGTTAGTATGTATACCTATTTATGTAA
66 GT-ATATCAGCTACAGTTCACCTATCAATTTAT-ACAGAGTTAGTATGTATACATATTTATGTAA
22494619 G
129 G
* * * * *
22494620 GGTTTGCATACTAGATCACATAAGGGTTCGCATACTAAATCACATAAGGTTTTGCTTGAAGGTTC
1 GGTTCGCATAATAGATCACATAAGGCTTCGCATACTAAATCACATAAGGTTTTACATGAAGGTTC
* * * * *
22494685 GTATATCAGCTACAGTTTACCTATCAATTTATACAGATTTTGTGTGTATACATGTTTATGTAAG
66 GTATATCAGCTACAGTTCACCTATCAATTTATACAGAGTTAGTATGTATACATATTTATGTAAG
22494749 GGTTC
1 GGTTC
22494754 TAATGAAATT
Statistics
Matches: 115, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
129 31 0.27
130 83 0.72
131 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (129 bp):
GGTTCGCATAATAGATCACATAAGGCTTCGCATACTAAATCACATAAGGTTTTACATGAAGGTTC
GTATATCAGCTACAGTTCACCTATCAATTTATACAGAGTTAGTATGTATACATATTTATGTAAG
Found at i:22497410 original size:17 final size:17
Alignment explanation
Indices: 22497385--22497434 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
22497375 TTTCGAATGC
*
22497385 CTCTGTTTCTTTCTTTT
1 CTCTTTTTCTTTCTTTT
22497402 CTCTTTTTCTTT-TGTTT
1 CTCTTTTTCTTTCT-TTT
* *
22497419 -TGTTTTTATTTCTTTT
1 CTCTTTTTCTTTCTTTT
22497435 TATTATTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (17 bp):
CTCTTTTTCTTTCTTTT
Found at i:22501909 original size:24 final size:24
Alignment explanation
Indices: 22501882--22501932 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
22501872 CAACATGATA
*
22501882 GTTTGCATACTAATTCACATGAGG
1 GTTTGCATACTAAATCACATGAGG
* *
22501906 GTTTGCATATTAAATCATATGAGG
1 GTTTGCATACTAAATCACATGAGG
22501930 GTT
1 GTT
22501933 CGCACAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (24 bp):
GTTTGCATACTAAATCACATGAGG
Found at i:22501991 original size:23 final size:24
Alignment explanation
Indices: 22501961--22502010 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
22501951 GGATCGCATG
*
22501961 ATAGTTCACCTA-GGGTTCACTTA
1 ATAGTTCACCTAGGGGTTCACATA
*
22501984 ATAGTTCACTTAGGGGTTCACATA
1 ATAGTTCACCTAGGGGTTCACATA
22502008 ATA
1 ATA
22502011 AATCCATAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (24 bp):
ATAGTTCACCTAGGGGTTCACATA
Found at i:22502036 original size:16 final size:16
Alignment explanation
Indices: 22502015--22502078 Score: 74
Period size: 16 Copynumber: 4.0 Consensus size: 16
22502005 ATAATAAATC
* * *
22502015 CATAAGTGTTTGCATT
1 CATAAGGGTTCGCATA
22502031 CATAAGGGTTCGCATA
1 CATAAGGGTTCGCATA
* * *
22502047 CATAATGGTTCTCATG
1 CATAAGGGTTCGCATA
22502063 CATAAGGGTTCGCATA
1 CATAAGGGTTCGCATA
22502079 ACTTATTACC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (16 bp):
CATAAGGGTTCGCATA
Found at i:22504244 original size:45 final size:45
Alignment explanation
Indices: 22504192--22504285 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
22504182 AAAATCCATT
22504192 TCCCAAAAACCCTGAAAACCTTTTATTTTCTCCCAAAATTTTTAC
1 TCCCAAAAACCCTGAAAACCTTTTATTTTCTCCCAAAATTTTTAC
22504237 TCCCAAAAACCCTGAAAACCTTTTATTTTCTCCCAAAATTTTTAC
1 TCCCAAAAACCCTGAAAACCTTTTATTTTCTCCCAAAATTTTTAC
22504282 TCCC
1 TCCC
22504286 TCTCACTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.32, C:0.31, G:0.02, T:0.35
Consensus pattern (45 bp):
TCCCAAAAACCCTGAAAACCTTTTATTTTCTCCCAAAATTTTTAC
Found at i:22505220 original size:20 final size:20
Alignment explanation
Indices: 22505187--22505239 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
22505177 CAGACATAAA
* *
22505187 TTAAAAAGTTTAAAAAAATT
1 TTAAAAAATATAAAAAAATT
* **
22505207 TTAAAATATATAAATTAATT
1 TTAAAAAATATAAAAAAATT
22505227 TTAAAAAATATAA
1 TTAAAAAATATAA
22505240 TTTTGGGGGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TTAAAAAATATAAAAAAATT
Found at i:22506238 original size:31 final size:29
Alignment explanation
Indices: 22506162--22506243 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 29
22506152 AAAATAAGAT
* * *
22506162 AAAATCAAAATTTCTTATATAAAATTATAC
1 AAAATAAAAATTT-ATATATAAAATTACAC
22506192 AAAATAAAAATTTATATATAAAATTACAC
1 AAAATAAAAATTTATATATAAAATTACAC
* *
22506221 ATTAAATTATAATTTATATATAA
1 A--AAATAAAAATTTATATATAA
22506244 TTTTGAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 15 0.33
30 12 0.27
31 18 0.40
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAATAAAAATTTATATATAAAATTACAC
Found at i:22508505 original size:18 final size:18
Alignment explanation
Indices: 22508482--22508524 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
22508472 TGCCAGGTGG
* *
22508482 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
22508500 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
22508518 GTTTCCT
1 GTATCCT
22508525 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:22508997 original size:49 final size:49
Alignment explanation
Indices: 22508943--22509112 Score: 304
Period size: 49 Copynumber: 3.5 Consensus size: 49
22508933 ATTTATATTA
22508943 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
22508992 ATGTAATAAAATACAAAATATTTTATTTTAAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
22509041 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
22509090 ATTTAATAAAATACAAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
22509113 AATATTCTTA
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 115 1.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
Found at i:22511406 original size:14 final size:14
Alignment explanation
Indices: 22511387--22511415 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22511377 TCAACATTAT
22511387 GCATGTGGGCTGGA
1 GCATGTGGGCTGGA
22511401 GCATGTGGGCTGGA
1 GCATGTGGGCTGGA
22511415 G
1 G
22511416 GTGAGTATAC
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:0.14, C:0.14, G:0.52, T:0.21
Consensus pattern (14 bp):
GCATGTGGGCTGGA
Found at i:22512533 original size:125 final size:125
Alignment explanation
Indices: 22512311--22512722 Score: 623
Period size: 125 Copynumber: 3.3 Consensus size: 125
22512301 CCCAAACATG
* * * * *
22512311 CTACTGTAGCAAAAACACGTCCACGTGGGAGCGATTTTA-ATATTTCTTCTCATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGA-AATTCTTCTAATAAAGCATCCTG
* * ** *
22512375 CTTAAAGCATTTTACACACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
65 CTTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
22512436 CTACTGTAGCAAAAGCGCGTCTA-GATGAGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACG-TGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTG
* *
22512500 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAAGAC
65 CTTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
*
22512561 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCATGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGC
22512626 TTGAAGCG-TTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
22512685 CTACTGTACCAAAAGCGCGTCCACGTAGGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
22512723 CTTAATAAAT
Statistics
Matches: 262, Mismatches: 22, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
124 86 0.33
125 174 0.66
126 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:22516646 original size:31 final size:32
Alignment explanation
Indices: 22516611--22516682 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
22516601 TTTGGGTTAG
22516611 GACTAAAATT-TCATAATTCAAAAAGTA-AAGA
1 GACTAAAATTGTC-TAATTCAAAAAGTATAAGA
*
22516642 GACTAAAATTGTCTAATTCGAAAAGTATAAGA
1 GACTAAAATTGTCTAATTCAAAAAGTATAAGA
*
22516674 -ACCAAAATT
1 GACTAAAATT
22516683 AACGGTCGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 31 0.84
32 6 0.16
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (32 bp):
GACTAAAATTGTCTAATTCAAAAAGTATAAGA
Found at i:22519909 original size:35 final size:34
Alignment explanation
Indices: 22519861--22519928 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 34
22519851 CTACTGGCTT
* *
22519861 TATAGGGCGACACCATGACAATGGTCTATCGACTC
1 TATAGAGCAACACCATGACAATGGT-TATCGACTC
* **
22519896 TATAGAGCAACACCGTGATGATGGTTATCGACT
1 TATAGAGCAACACCATGACAATGGTTATCGACT
22519929 GGTCCTTCAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 8 0.29
35 20 0.71
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (34 bp):
TATAGAGCAACACCATGACAATGGTTATCGACTC
Found at i:22521087 original size:66 final size:66
Alignment explanation
Indices: 22520981--22521114 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 66
22520971 CATCATTCAC
22520981 CAGTACACAAACATGCCATTTTAGTGTCCTAAAATCAACCAACCAATGTGCCATTCATAGAAACC
1 CAGTACACAAACATGCCATTTTAGTGTCCTAAAATCAACCAACCAATGTGCCATTCATAGAAACC
22521046 A
66 A
*
22521047 CAGTACAGAAACATGCCATTTTAGTGTCCTAAAATCAACCAACCAATGTGCCATTCATAGAAACC
1 CAGTACACAAACATGCCATTTTAGTGTCCTAAAATCAACCAACCAATGTGCCATTCATAGAAACC
22521112 A
66 A
22521113 CA
1 CA
22521115 ATTATATCAA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (66 bp):
CAGTACACAAACATGCCATTTTAGTGTCCTAAAATCAACCAACCAATGTGCCATTCATAGAAACC
A
Found at i:22521661 original size:29 final size:29
Alignment explanation
Indices: 22521619--22521677 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
22521609 AAAATACAAG
22521619 TAGAAATTTATTTACATATTGAAACACTA
1 TAGAAATTTATTTACATATTGAAACACTA
22521648 TAGAAATTTATTTACATATTGAAACACTA
1 TAGAAATTTATTTACATATTGAAACACTA
22521677 T
1 T
22521678 GAACTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (29 bp):
TAGAAATTTATTTACATATTGAAACACTA
Found at i:22528497 original size:30 final size:30
Alignment explanation
Indices: 22528438--22528497 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
22528428 AGAAAGGGTG
* *
22528438 CAATGGAAGATAGAAGCCAACCTCTAAACA
1 CAATGGAAGATAGAAGCCAACCGCCAAACA
22528468 CAATGGAAGATAGAAGCCAACCGCCAAACA
1 CAATGGAAGATAGAAGCCAACCGCCAAACA
22528498 ACATTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.47, C:0.25, G:0.18, T:0.10
Consensus pattern (30 bp):
CAATGGAAGATAGAAGCCAACCGCCAAACA
Found at i:22530936 original size:28 final size:28
Alignment explanation
Indices: 22530896--22530952 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
22530886 TACTTCTGTT
22530896 TAGTGACTGAGCTCTCCCCAATTATGTA
1 TAGTGACTGAGCTCTCCCCAATTATGTA
22530924 TAGTGACTGAGCTCTCCCCAATTATGTA
1 TAGTGACTGAGCTCTCCCCAATTATGTA
22530952 T
1 T
22530953 CACTACAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (28 bp):
TAGTGACTGAGCTCTCCCCAATTATGTA
Found at i:22533994 original size:23 final size:23
Alignment explanation
Indices: 22533968--22534029 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
22533958 TACACCGAAA
* *
22533968 TGTCATTAACACTTGCACCGTAG
1 TGTCATTATCACTTGCACCATAG
* *
22533991 TGTCGTTTTCACTTGCACCATAG
1 TGTCATTATCACTTGCACCATAG
* *
22534014 TGCCACTATCACTTGC
1 TGTCATTATCACTTGC
22534030 GCACATAGAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (23 bp):
TGTCATTATCACTTGCACCATAG
Found at i:22550157 original size:43 final size:43
Alignment explanation
Indices: 22550096--22550189 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
22550086 ATTCAACAAT
*
22550096 CGCTTTTCCAAAAAACGCCGCTAAAGACCAAGACCTTTAGCAG
1 CGCTTTTCCAAAAAACGCCGCAAAAGACCAAGACCTTTAGCAG
* * *
22550139 CGCTTTTCCAAAAAACGCCGCAAAATACCGAGACCTTTAGCGG
1 CGCTTTTCCAAAAAACGCCGCAAAAGACCAAGACCTTTAGCAG
*
22550182 CACTTTTC
1 CGCTTTTC
22550190 TCGCAAACAC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (43 bp):
CGCTTTTCCAAAAAACGCCGCAAAAGACCAAGACCTTTAGCAG
Found at i:22550403 original size:18 final size:18
Alignment explanation
Indices: 22550380--22550439 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
22550370 ATAAAACAAG
22550380 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
22550398 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
22550415 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
22550433 TTACATT
1 TTACATT
22550440 AGAATACATA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:22554992 original size:40 final size:39
Alignment explanation
Indices: 22554939--22555038 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 39
22554929 TTTGCGTAGT
*
22554939 GTTTT-AAAAAGCGCCGCTAATG-CTTGATCTAT-ATCGGC
1 GTTTTCAAAAAGCGCCGCTAATGTC-TCATCTATAAT-GGC
*
22554977 GTTTTCCAAAAAGCGCTGCTAATGTCTCATCTATAATGGC
1 GTTTT-CAAAAAGCGCCGCTAATGTCTCATCTATAATGGC
* *
22555017 GTTTTTATAAAAGTGCCGCTAA
1 GTTTTCA-AAAAGCGCCGCTAA
22555039 GGCCATCAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
38 5 0.10
39 1 0.02
40 43 0.83
41 3 0.06
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (39 bp):
GTTTTCAAAAAGCGCCGCTAATGTCTCATCTATAATGGC
Found at i:22555130 original size:40 final size:39
Alignment explanation
Indices: 22555073--22555234 Score: 173
Period size: 40 Copynumber: 4.1 Consensus size: 39
22555063 TTGCGGCATA
* * * *
22555073 TTTCAAAAAGCGTCGCTAATGCTCGACCTATAGTGGCGCT
1 TTTCAAAAAGCGCCGCTAATGCTAGATCTATAGCGGCG-T
* * *
22555113 TTCCAAAAAACGCCGCTAATGCTAGTTCTATAGCGGCGTT
1 TTTCAAAAAGCGCCGCTAATGCTAGATCTATAGCGGCG-T
* *
22555153 TTTTAAAAAGCGCCGCTAATGCTTGATCTATAGCGGCGT
1 TTTCAAAAAGCGCCGCTAATGCTAGATCTATAGCGGCGT
* * *
22555192 TTTTAAAGAAGCGCCGCTAATG-TGATATCTATAGTGGCGT
1 TTTCAAA-AAGCGCCGCTAATGCT-AGATCTATAGCGGCGT
22555232 TTT
1 TTT
22555235 TTATCCAAAC
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 9 0.09
40 95 0.91
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (39 bp):
TTTCAAAAAGCGCCGCTAATGCTAGATCTATAGCGGCGT
Found at i:22555207 original size:80 final size:80
Alignment explanation
Indices: 22555077--22555237 Score: 202
Period size: 80 Copynumber: 2.0 Consensus size: 80
22555067 GGCATATTTC
* *
22555077 AAAAAGCGTCGCTAATGCTCGACCTATAGTGGCGCTTTCCAAAAAACGCCGCTAATGCT-AGT-T
1 AAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGCTTTCCAAAAAACGCCGCTAATG-TGA-TAT
22555140 CTATAGCGGCGTTTTTT
64 CTATAGCGGCGTTTTTT
* * ** *
22555157 AAAAAGCGCCGCTAATGCTTGATCTATAGCGGCG-TTTTTAAAGAAGCGCCGCTAATGTGATATC
1 AAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGCTTTCCAAA-AAACGCCGCTAATGTGATATC
*
22555221 TATAGTGGCGTTTTTT
65 TATAGCGGCGTTTTTT
22555237 A
1 A
22555238 TCCAAACGTC
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
79 8 0.11
80 62 0.89
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (80 bp):
AAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGCTTTCCAAAAAACGCCGCTAATGTGATATCT
ATAGCGGCGTTTTTT
Found at i:22555586 original size:41 final size:41
Alignment explanation
Indices: 22555512--22555603 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 41
22555502 ACCAGCTCTT
*
22555512 AGCCTGCTAGACTTATAGTCCGAAATATATCACCGGCATTA
1 AGCCTGCTAGACGTATAGTCCGAAATATATCACCGGCATTA
* * *
22555553 AGCCTGCTAGACGTA-AGGTCTGAATTATTTCACCGGCATTA
1 AGCCTGCTAGACGTATA-GTCCGAAATATATCACCGGCATTA
22555594 AGCCTGCTAG
1 AGCCTGCTAG
22555604 GCACATAGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 1 0.02
41 45 0.98
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACGTATAGTCCGAAATATATCACCGGCATTA
Found at i:22556239 original size:21 final size:21
Alignment explanation
Indices: 22556213--22556254 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
22556203 TCATAAAATC
22556213 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
22556234 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
22556255 TATATATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (21 bp):
AAATTCAGCTTATAGAACATA
Found at i:22563229 original size:41 final size:41
Alignment explanation
Indices: 22563155--22563246 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 41
22563145 ACCAGCTCTT
*
22563155 AGCCTGCTGGACCTAAAGTCCGAAATATATCACCGGCATTA
1 AGCCTGCTAGACCTAAAGTCCGAAATATATCACCGGCATTA
* * * * *
22563196 AGCCTGCTAGACGTAAGGTCTGAATTATTTCACCGGCATTA
1 AGCCTGCTAGACCTAAAGTCCGAAATATATCACCGGCATTA
*
22563237 AGCCTACTAG
1 AGCCTGCTAG
22563247 GCACATAGCC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (41 bp):
AGCCTGCTAGACCTAAAGTCCGAAATATATCACCGGCATTA
Found at i:22563882 original size:21 final size:21
Alignment explanation
Indices: 22563856--22563897 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
22563846 TCATAAAATC
22563856 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
22563877 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
22563898 TATATATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (21 bp):
AAATTCAGCTTATAGAACATA
Found at i:22572441 original size:22 final size:22
Alignment explanation
Indices: 22572416--22572458 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22572406 TAATAAAAAG
22572416 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
22572438 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
22572459 CACTCCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:22575041 original size:200 final size:200
Alignment explanation
Indices: 22574698--22575102 Score: 810
Period size: 200 Copynumber: 2.0 Consensus size: 200
22574688 GCAGCCAAAA
22574698 ATTTTAAGTGGCAGAATGGAGGAGATAGGCTTAAAATGAGGAAAGTGCTACAAAAATATAGATTG
1 ATTTTAAGTGGCAGAATGGAGGAGATAGGCTTAAAATGAGGAAAGTGCTACAAAAATATAGATTG
22574763 AGGCGTTTGAAATTTTAAAACCTTACTAGGCATCCGATTGATTAAATATGTGGCAGTTAATAAGG
66 AGGCGTTTGAAATTTTAAAACCTTACTAGGCATCCGATTGATTAAATATGTGGCAGTTAATAAGG
22574828 CTTCCCCCCACAAATATTTAGGAACATTAGTGGTAAATAGAAGAGAACGAGTAACTTCAAGAAGG
131 CTTCCCCCCACAAATATTTAGGAACATTAGTGGTAAATAGAAGAGAACGAGTAACTTCAAGAAGG
22574893 TGCCT
196 TGCCT
22574898 ATTTTAAGTGGCAGAATGGAGGAGATAGGCTTAAAATGAGGAAAGTGCTACAAAAATATAGATTG
1 ATTTTAAGTGGCAGAATGGAGGAGATAGGCTTAAAATGAGGAAAGTGCTACAAAAATATAGATTG
22574963 AGGCGTTTGAAATTTTAAAACCTTACTAGGCATCCGATTGATTAAATATGTGGCAGTTAATAAGG
66 AGGCGTTTGAAATTTTAAAACCTTACTAGGCATCCGATTGATTAAATATGTGGCAGTTAATAAGG
22575028 CTTCCCCCCACAAATATTTAGGAACATTAGTGGTAAATAGAAGAGAACGAGTAACTTCAAGAAGG
131 CTTCCCCCCACAAATATTTAGGAACATTAGTGGTAAATAGAAGAGAACGAGTAACTTCAAGAAGG
22575093 TGCCT
196 TGCCT
22575098 ATTTT
1 ATTTT
22575103 TTCTTTCGGC
Statistics
Matches: 205, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 205 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (200 bp):
ATTTTAAGTGGCAGAATGGAGGAGATAGGCTTAAAATGAGGAAAGTGCTACAAAAATATAGATTG
AGGCGTTTGAAATTTTAAAACCTTACTAGGCATCCGATTGATTAAATATGTGGCAGTTAATAAGG
CTTCCCCCCACAAATATTTAGGAACATTAGTGGTAAATAGAAGAGAACGAGTAACTTCAAGAAGG
TGCCT
Found at i:22576361 original size:22 final size:22
Alignment explanation
Indices: 22576336--22576378 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22576326 TAATAAAAAG
22576336 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
22576358 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
22576379 CACCAAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:22578176 original size:32 final size:32
Alignment explanation
Indices: 22578135--22578198 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
22578125 AGCTTGTGGA
*
22578135 ATGCTGATGATTGGGCCACAAGGGGTGGTTTG
1 ATGCCGATGATTGGGCCACAAGGGGTGGTTTG
22578167 ATGCCGATGATTGGGCCACAAGGGGTGGTTTG
1 ATGCCGATGATTGGGCCACAAGGGGTGGTTTG
22578199 GTTAAGACCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.19, C:0.14, G:0.41, T:0.27
Consensus pattern (32 bp):
ATGCCGATGATTGGGCCACAAGGGGTGGTTTG
Found at i:22580807 original size:35 final size:35
Alignment explanation
Indices: 22580768--22580840 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
22580758 AAATCATGTA
*
22580768 GAATCTTCTTGTTTTTATTCGAATGCTCAGACACT
1 GAATCATCTTGTTTTTATTCGAATGCTCAGACACT
* *
22580803 GAATCATCTTGTTTTTGTTCGGATGCTCAGACACT
1 GAATCATCTTGTTTTTATTCGAATGCTCAGACACT
22580838 GAA
1 GAA
22580841 GTAGCTCGTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (35 bp):
GAATCATCTTGTTTTTATTCGAATGCTCAGACACT
Found at i:22588224 original size:26 final size:26
Alignment explanation
Indices: 22588195--22588255 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
22588185 ACGAATTTTC
**
22588195 TCAAAATTTTATTAGGGGTAAAATCG
1 TCAAAATTTTACCAGGGGTAAAATCG
* **
22588221 TCAAAAATTTACCAGGGGTAAAATTT
1 TCAAAATTTTACCAGGGGTAAAATCG
22588247 TCAAAATTT
1 TCAAAATTT
22588256 AACTGGGATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACCAGGGGTAAAATCG
Found at i:22588995 original size:13 final size:13
Alignment explanation
Indices: 22588977--22589001 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22588967 TAAGATGAAA
22588977 TTGCTTGTGTTTG
1 TTGCTTGTGTTTG
22588990 TTGCTTGTGTTT
1 TTGCTTGTGTTT
22589002 TAGATCCTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.28, T:0.64
Consensus pattern (13 bp):
TTGCTTGTGTTTG
Found at i:22590596 original size:25 final size:27
Alignment explanation
Indices: 22590536--22590596 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
22590526 CCAGGTAAGG
*
22590536 CTTCTTCTCCTTCATCCGTTCTTCATTC
1 CTTC-TCTTCTTCATCCGTTCTTCATTC
*
22590564 CTT-T-TTCTTCTTCCGTTCTTCA-T-
1 CTTCTCTTCTTCATCCGTTCTTCATTC
22590587 CTTCTCTTCT
1 CTTCTCTTCT
22590597 CAGCATATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 3 0.10
24 2 0.07
25 20 0.69
26 1 0.03
28 3 0.10
ACGTcount: A:0.05, C:0.36, G:0.03, T:0.56
Consensus pattern (27 bp):
CTTCTCTTCTTCATCCGTTCTTCATTC
Found at i:22590770 original size:15 final size:12
Alignment explanation
Indices: 22590735--22590766 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22590725 CGTTCTCACT
*
22590735 AAAATTGGTAAA
1 AAAATCGGTAAA
22590747 AAAATCGGTAAA
1 AAAATCGGTAAA
22590759 AAAATCGG
1 AAAATCGG
22590767 CGGTTCCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (12 bp):
AAAATCGGTAAA
Found at i:22591112 original size:12 final size:13
Alignment explanation
Indices: 22591089--22591114 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22591079 TCAATGAACC
22591089 CTTAATTTTTTTG
1 CTTAATTTTTTTG
22591102 CTTAATTTTTTTG
1 CTTAATTTTTTTG
22591115 GTACTCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
CTTAATTTTTTTG
Found at i:22594526 original size:21 final size:21
Alignment explanation
Indices: 22594500--22594550 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
22594490 CGCTGTTTCT
*
22594500 AATCTCACCGCTACAATATCC
1 AATCTCACCGCTACAATAACC
* *
22594521 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
22594542 AATCTCACC
1 AATCTCACC
22594551 ACCACCGCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.37, G:0.06, T:0.24
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:22597380 original size:18 final size:17
Alignment explanation
Indices: 22597347--22597385 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
22597337 TTGTATAAAT
22597347 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
22597365 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
22597382 TGTG
1 TGTG
22597386 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:22597480 original size:75 final size:75
Alignment explanation
Indices: 22597390--22597537 Score: 296
Period size: 75 Copynumber: 2.0 Consensus size: 75
22597380 AATGTGGAAG
22597390 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
22597455 GGTTGAACAT
66 GGTTGAACAT
22597465 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
22597530 GGTTGAAC
66 GGTTGAAC
22597538 TTAGGAATAG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (75 bp):
GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
GGTTGAACAT
Found at i:22597713 original size:23 final size:23
Alignment explanation
Indices: 22597686--22597761 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
22597676 AGTGTTATTG
22597686 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
22597709 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
22597732 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
22597755 ATCAGTG
1 ATCAGTG
22597762 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:22599672 original size:22 final size:22
Alignment explanation
Indices: 22599644--22599688 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22599634 AATTTACGAA
22599644 TATGTAATTCACTAACACATTC
1 TATGTAATTCACTAACACATTC
22599666 TATGTAATTCACTAACACATTC
1 TATGTAATTCACTAACACATTC
22599688 T
1 T
22599689 GGTATACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (22 bp):
TATGTAATTCACTAACACATTC
Found at i:22602268 original size:51 final size:51
Alignment explanation
Indices: 22602210--22602400 Score: 210
Period size: 51 Copynumber: 3.8 Consensus size: 51
22602200 GATACGGGTT
* * *
22602210 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTA
* *
22602261 CACATAGTAGCCTACACATAGTACTACACACGTGATCGA--AGCTATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCTGGTA
* * *** *
22602312 CGCATAGTAGCCTGCACATAGTACTACAAATACGACCTATCA-T-TTTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGGTA
* *
22602362 CACGTAGTAGCCTGCATATAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
22602401 GACTTTCACT
Statistics
Matches: 115, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
49 2 0.02
50 38 0.33
51 72 0.63
52 2 0.02
53 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTA
Found at i:22602289 original size:12 final size:13
Alignment explanation
Indices: 22602210--22602290 Score: 50
Period size: 12 Copynumber: 6.3 Consensus size: 13
22602200 GATACGGGTT
*
22602210 CACATAGTAGCCTG
1 CACATAGTA-CCTA
22602224 CACATAGTA-CTA
1 CACATAGTACCTA
22602236 CACAT-GTGACC-A
1 CACATAGT-ACCTA
22602248 TCAC-TA-T-CCGATA
1 -CACATAGTACC--TA
22602261 CACATAGTAGCCTA
1 CACATAGTA-CCTA
22602275 CACATAGTA-CTA
1 CACATAGTACCTA
22602287 CACA
1 CACA
22602291 CGTGATCGAA
Statistics
Matches: 55, Mismatches: 1, Indels: 24
0.69 0.01 0.30
Matches are distributed among these distances:
10 2 0.04
11 2 0.04
12 21 0.38
13 7 0.13
14 21 0.38
16 2 0.04
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (13 bp):
CACATAGTACCTA
Found at i:22602419 original size:101 final size:102
Alignment explanation
Indices: 22602207--22602430 Score: 238
Period size: 101 Copynumber: 2.2 Consensus size: 102
22602197 AATGATACGG
* **
22602207 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACATAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACAAATACGACCATCACTATCCGATACACATAGTAGC
* **
22602272 CTACACATAGTACTACACACGTGATCGAAGCTATCTG
66 CTACACATAGTACTACACACGTGATCCAAGCTATCAC
* * ** * *
22602309 GTACGCATAGTAGCCTGCACATAGTACTACAAATACGACCTATCA-T-TTTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTGCACATAGTACTACAAATACGACC-ATCACTATCCGATACACATAGTAG
* * * *
22602372 CCTGCATATAGTACTACACACGTGA-CCATGACTTTCAC
65 CCTACACATAGTACTACACACGTGATCCAAG-CTATCAC
* * *
22602410 TTTCACATAGTGGCCTACACA
1 GTTCACATAGTAGCCTGCACA
22602431 CAATCCATGC
Statistics
Matches: 99, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
100 3 0.03
101 56 0.57
102 36 0.36
103 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTACAAATACGACCATCACTATCCGATACACATAGTAGC
CTACACATAGTACTACACACGTGATCCAAGCTATCAC
Found at i:22614778 original size:24 final size:24
Alignment explanation
Indices: 22614751--22614809 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
22614741 CCTATTTATG
*
22614751 TAAGGGTTTGCATACTAGATCACA
1 TAAGGGTTTGCATACTAAATCACA
*
22614775 TAAGGGTTCGCATACTAAATCACA
1 TAAGGGTTTGCATACTAAATCACA
*
22614799 TAAGGTTTTGC
1 TAAGGGTTTGC
22614810 TTGAAGGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (24 bp):
TAAGGGTTTGCATACTAAATCACA
Found at i:22614826 original size:130 final size:129
Alignment explanation
Indices: 22614625--22614888 Score: 359
Period size: 130 Copynumber: 2.0 Consensus size: 129
22614615 GCACATACAA
** *
22614625 GGTTCGCATAATAGATCACATAAGGCTTCGTGTACTAAATTACATAAGGTTTTACATGAAGGTTC
1 GGTTCGCATAATAGATCACATAAGGCTTCGCATACTAAATCACATAAGGTTTTACATGAAGGTTC
* * *
22614690 TCATATCGGCTACAGTTCATCTATCAATTTATAACAGAGTTAGTATGTATACCTATTTATGTAAG
66 TCATATCAGCTACAGTTCACCTATCAATTTAT-ACAGAGTTAGTATGTATACATATTTATGTAAG
* * * * *
22614755 GGTTTGCATACTAGATCACATAAGGGTTCGCATACTAAATCACATAAGGTTTTGCTTGAAGGTTC
1 GGTTCGCATAATAGATCACATAAGGCTTCGCATACTAAATCACATAAGGTTTTACATGAAGGTTC
* * * * *
22614820 GT-ATATCAGCTACAGTTTACCTATCAATTTATACAGATTTTGTGTGTATACATGTTTATGTAAG
66 -TCATATCAGCTACAGTTCACCTATCAATTTATACAGAGTTAGTATGTATACATATTTATGTAAG
22614884 GGTTC
1 GGTTC
22614889 TAATGAAATT
Statistics
Matches: 116, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
129 31 0.27
130 84 0.72
131 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (129 bp):
GGTTCGCATAATAGATCACATAAGGCTTCGCATACTAAATCACATAAGGTTTTACATGAAGGTTC
TCATATCAGCTACAGTTCACCTATCAATTTATACAGAGTTAGTATGTATACATATTTATGTAAG
Found at i:22617545 original size:17 final size:18
Alignment explanation
Indices: 22617520--22617554 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22617510 TTTCGAATGC
22617520 CTCTGTTTC-TTTCTTTT
1 CTCTGTTTCTTTTCTTTT
*
22617537 CTCTTTTTCTTTTCTTTT
1 CTCTGTTTCTTTTCTTTT
22617555 GTTTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.74
Consensus pattern (18 bp):
CTCTGTTTCTTTTCTTTT
Found at i:22622042 original size:24 final size:24
Alignment explanation
Indices: 22622015--22622065 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
22622005 CAACATGATA
*
22622015 GTTTGCATACTAATTCACATGAGG
1 GTTTGCATACTAAATCACATGAGG
* *
22622039 GTTTGCATATTAAATCATATGAGG
1 GTTTGCATACTAAATCACATGAGG
22622063 GTT
1 GTT
22622066 CGCACAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (24 bp):
GTTTGCATACTAAATCACATGAGG
Found at i:22622169 original size:16 final size:16
Alignment explanation
Indices: 22622148--22622211 Score: 74
Period size: 16 Copynumber: 4.0 Consensus size: 16
22622138 ATAATAAATC
* * *
22622148 CATAAGTGTTTGCATT
1 CATAAGGGTTCGCATA
22622164 CATAAGGGTTCGCATA
1 CATAAGGGTTCGCATA
* * *
22622180 CATAATGGTTCTCATG
1 CATAAGGGTTCGCATA
22622196 CATAAGGGTTCGCATA
1 CATAAGGGTTCGCATA
22622212 ACTTATTACC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (16 bp):
CATAAGGGTTCGCATA
Found at i:22622392 original size:13 final size:14
Alignment explanation
Indices: 22622368--22622398 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
22622358 TTTGAGAGTT
22622368 TTCTTGAAAAAAAA
1 TTCTTGAAAAAAAA
22622382 TTCTT-AAAAAAAA
1 TTCTTGAAAAAAAA
22622395 TTCT
1 TTCT
22622399 AAGTTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (14 bp):
TTCTTGAAAAAAAA
Found at i:22624378 original size:45 final size:45
Alignment explanation
Indices: 22624326--22624419 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
22624316 AAAATCCATT
22624326 TCCCAAAAACCCTGAAAACCTTTTATTTTCTCCCAAAATTTTTAC
1 TCCCAAAAACCCTGAAAACCTTTTATTTTCTCCCAAAATTTTTAC
22624371 TCCCAAAAACCCTGAAAACCTTTTATTTTCTCCCAAAATTTTTAC
1 TCCCAAAAACCCTGAAAACCTTTTATTTTCTCCCAAAATTTTTAC
22624416 TCCC
1 TCCC
22624420 TCTCACTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.32, C:0.31, G:0.02, T:0.35
Consensus pattern (45 bp):
TCCCAAAAACCCTGAAAACCTTTTATTTTCTCCCAAAATTTTTAC
Found at i:22625354 original size:20 final size:20
Alignment explanation
Indices: 22625321--22625373 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
22625311 CAGACATAAA
* *
22625321 TTAAAAAGTTTAAAAAAATT
1 TTAAAAAATATAAAAAAATT
* **
22625341 TTAAAATATATAAATTAATT
1 TTAAAAAATATAAAAAAATT
22625361 TTAAAAAATATAA
1 TTAAAAAATATAA
22625374 TTTTGGGGGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TTAAAAAATATAAAAAAATT
Found at i:22626371 original size:31 final size:29
Alignment explanation
Indices: 22626295--22626376 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 29
22626285 AAAATAAGAT
* * *
22626295 AAAATCAAAATTTCTTATATAAAATTATAC
1 AAAATAAAAATTT-ATATATAAAATTACAC
22626325 AAAATAAAAATTTATATATAAAATTACAC
1 AAAATAAAAATTTATATATAAAATTACAC
* *
22626354 ATTAAATTATAATTTATATATAA
1 A--AAATAAAAATTTATATATAA
22626377 TTTTGAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 15 0.33
30 12 0.27
31 18 0.40
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAATAAAAATTTATATATAAAATTACAC
Found at i:22628638 original size:18 final size:18
Alignment explanation
Indices: 22628615--22628657 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
22628605 TGCCAGGTGG
* *
22628615 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
22628633 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
22628651 GTTTCCT
1 GTATCCT
22628658 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:22629130 original size:49 final size:49
Alignment explanation
Indices: 22629076--22629245 Score: 304
Period size: 49 Copynumber: 3.5 Consensus size: 49
22629066 ATTTATATTA
22629076 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
22629125 ATGTAATAAAATACAAAATATTTTATTTTAAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
22629174 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
22629223 ATTTAATAAAATACAAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
22629246 AATATTCTTA
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 115 1.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
Found at i:22630777 original size:14 final size:14
Alignment explanation
Indices: 22630758--22630786 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22630748 TCAACATTAT
22630758 GCATGTGGGCTGGA
1 GCATGTGGGCTGGA
22630772 GCATGTGGGCTGGA
1 GCATGTGGGCTGGA
22630786 G
1 G
22630787 GTGAGTATAC
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:0.14, C:0.14, G:0.52, T:0.21
Consensus pattern (14 bp):
GCATGTGGGCTGGA
Found at i:22631904 original size:125 final size:125
Alignment explanation
Indices: 22631682--22632093 Score: 632
Period size: 125 Copynumber: 3.3 Consensus size: 125
22631672 CCCAAACATG
* * * * *
22631682 CTACTGTAGCAAAAACACGTCCACGTGGGAGCGATTTTA-ATATTTCTTCTCATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGA-AATTCTTCTAATAAAGCATCCTG
* * ** *
22631746 CTTAAAGCATTTTACACACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
65 CTTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
22631807 CTACTGTAGCAAAAGCGCGTCTA-GATGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACG-TGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTG
* *
22631871 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAAGAC
65 CTTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
*
22631932 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCATGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGC
22631997 TTGAAGCG-TTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
22632056 CTACTGTACCAAAAGCGCGTCCACGTAGGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
22632094 CTTAATAAAT
Statistics
Matches: 264, Mismatches: 20, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
124 86 0.33
125 176 0.67
126 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:22636059 original size:31 final size:32
Alignment explanation
Indices: 22636024--22636104 Score: 96
Period size: 31 Copynumber: 2.6 Consensus size: 32
22636014 TTTGGGTTAG
22636024 GACTAAAATT-TCAAAATTCAAAAAGGA-AAGA
1 GACTAAAATTGTC-AAATTCAAAAAGGATAAGA
* * *
22636055 GACTAAAATTGTCCAATTCGAAAAGTATAAGA
1 GACTAAAATTGTCAAATTCAAAAAGGATAAGA
22636087 -ACTAAAATTGATCAAATT
1 GACTAAAATTG-TCAAATT
22636105 AAAGTATAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
31 31 0.72
32 12 0.28
ACGTcount: A:0.52, C:0.11, G:0.12, T:0.25
Consensus pattern (32 bp):
GACTAAAATTGTCAAATTCAAAAAGGATAAGA
Found at i:22643094 original size:28 final size:29
Alignment explanation
Indices: 22643063--22643127 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
22643053 TAAGTGATTT
* * *
22643063 TTGATAAAAATGTCAATT-AGGGATTAAA
1 TTGAGAAAAAGGTAAATTGAGGGATTAAA
*
22643091 TTGAGAAAAAGGTAAATTGAGGGGTTAAA
1 TTGAGAAAAAGGTAAATTGAGGGATTAAA
*
22643120 TTGTGAAA
1 TTGAGAAA
22643128 TAAATGAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.45, C:0.02, G:0.25, T:0.29
Consensus pattern (29 bp):
TTGAGAAAAAGGTAAATTGAGGGATTAAA
Found at i:22643767 original size:43 final size:42
Alignment explanation
Indices: 22643609--22643775 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 42
22643599 GGTTACCGAG
*
22643609 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
* *
22643651 ATTGAGATTACATGTAAGACCATGTCTGAGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* * * * * *
22643695 AAT-CGATTTCCTATAAGACCCTG-CTTGGGACAGTGGCATCGAT
1 -ATGTGATTACATGTAAGACCATGTC-TGGGACATTGGCATCG-T
* *
22643738 ATGTGA-TAGCATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTA-CATGTAAGACCATGTCTGGGACATTGGCAT
22643776 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
42 11 0.11
43 85 0.85
44 3 0.03
45 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:22644633 original size:12 final size:12
Alignment explanation
Indices: 22644616--22644646 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22644606 TGTTTAAGTT
22644616 CATGAATTAGGG
1 CATGAATTAGGG
22644628 CATGAATTAGGG
1 CATGAATTAGGG
22644640 CAT-AATT
1 CATGAATT
22644647 TCTTTCGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (12 bp):
CATGAATTAGGG
Found at i:22647211 original size:47 final size:47
Alignment explanation
Indices: 22646494--22647207 Score: 1293
Period size: 47 Copynumber: 15.2 Consensus size: 47
22646484 ACAAGATATG
*
22646494 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
22646541 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
22646588 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
22646635 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
22646682 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
22646729 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
22646776 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
22646823 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
22646870 TATATGTGACAAGGCCGAATGGCCATTGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
22646917 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
22646964 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
22647011 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
22647058 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * * * *
22647105 TATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* ** * *
22647152 TATATGTGATAAGGCTAAATGGCCAATGTGATGGATGTGAAAGTATA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
22647199 TAAATGTGA
1 TATATGTGA
22647208 TAAGTCCCGA
Statistics
Matches: 649, Mismatches: 18, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 649 1.00
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (47 bp):
TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:22651144 original size:31 final size:31
Alignment explanation
Indices: 22651106--22651177 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
22651096 TTCAAAATTA
* * *
22651106 TGGGCCCACATACCCGTGTGGCTTGCCTGTG
1 TGGGCCCACACACCCGTGTGGATTGCCCGTG
*
22651137 TGGGCCCACACGCCCGTGTGGATTGCCCGTG
1 TGGGCCCACACACCCGTGTGGATTGCCCGTG
22651168 T-GGCCCACAC
1 TGGGCCCACAC
22651178 CCCCAACTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 9 0.24
31 28 0.76
ACGTcount: A:0.11, C:0.36, G:0.32, T:0.21
Consensus pattern (31 bp):
TGGGCCCACACACCCGTGTGGATTGCCCGTG
Found at i:22654938 original size:21 final size:21
Alignment explanation
Indices: 22654910--22654967 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
22654900 CTAGACACAG
22654910 GGGC-ACACGCCCGTGTAGGA
1 GGGCAACACGCCCGTGTAGGA
22654930 GGGCAACACGCCCGTGTAGGA
1 GGGCAACACGCCCGTGTAGGA
*
22654951 GGACAACACGCCCGTGT
1 GGGCAACACGCCCGTGT
22654968 GGAATTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 4 0.11
21 32 0.89
ACGTcount: A:0.22, C:0.31, G:0.36, T:0.10
Consensus pattern (21 bp):
GGGCAACACGCCCGTGTAGGA
Found at i:22656133 original size:50 final size:49
Alignment explanation
Indices: 22656010--22656136 Score: 134
Period size: 47 Copynumber: 2.6 Consensus size: 49
22656000 TAGGGTATAA
* **
22656010 TGCCTATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACGTTAAG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACACTGAATCTCACGTTAAG
* * * * **
22656059 T--CGATGCAATGTCCCAGACATGGTCTTACACTGAATC-CTATGTATTCG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACACTGAATCTC-ACGT-TAAG
22656107 TGCCAATGCCATGTCCCAAACATGGTCTTA
1 TGCCAATGCCATGTCCCAAACATGGTCTTA
22656137 TATTGACACA
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
46 1 0.02
47 34 0.54
48 3 0.05
49 1 0.02
50 24 0.38
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACACTGAATCTCACGTTAAG
Found at i:22656194 original size:46 final size:47
Alignment explanation
Indices: 22656019--22656324 Score: 195
Period size: 46 Copynumber: 6.5 Consensus size: 47
22656009 ATGCCTATGC
* * * *
22656019 CATGTCCCAAACATGGTCTTACACTGGCTCTCA-CGT-TAAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCATGTAGGCCGATG
** *
22656065 CAATGTCCCAGACATGGTCTTACACTGAATC-C-T-ATGTATTCGTGCCAATG
1 C-ATGTCCCAGACAT-GTCTTACACTGGCTCTCATCATGTA---G-GCCGATG
* * * * * *
22656115 CCATGTCCCAAACATGGTCTTATA-TTG-ACACATCATGTA-GCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCATGTAGGCCGATG
* *
22656161 CATGTCTCAGACATGTCTTACACTGGCT-TACATCAAG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATCATGTAGGCCGATG
* * * * ** *
22656207 CATGTCCCAAACATTTCTTACACTAGCTCTCGTC-TCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCATGTAGGCCGATG
* * *
22656253 CCATGTCCCAGAAATGGTCTTACACTGGCTCTCATAATGT-GGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCATGTAGGCCGATG
22656301 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
22656325 AGCACACAAA
Statistics
Matches: 201, Mismatches: 39, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
44 7 0.03
45 16 0.08
46 68 0.34
47 52 0.26
48 23 0.11
49 3 0.01
50 26 0.13
51 6 0.03
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCATGTAGGCCGATG
Found at i:22658868 original size:47 final size:46
Alignment explanation
Indices: 22658807--22658930 Score: 171
Period size: 47 Copynumber: 2.7 Consensus size: 46
22658797 TGCGAGGCTG
*
22658807 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT-TTCA-ATGCCA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAT-ATA-GCCA
* *
22658853 ATGCCATGTCCCAGACATGGTCTTACAATGGCTCTCATAATATAGCCA
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATATAGCCA
22658901 ATGCATGTCCCAGACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
22658931 GCACAAATGA
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
46 14 0.20
47 28 0.41
48 25 0.36
49 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.28
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATATAGCCA
Found at i:22676531 original size:24 final size:24
Alignment explanation
Indices: 22676499--22676547 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
22676489 CTCTCTCTCG
22676499 TTTAGAAACCAGTAGAATTGTTAT
1 TTTAGAAACCAGTAGAATTGTTAT
*
22676523 TTTAGAAACTAGTAGAATTGTTAT
1 TTTAGAAACCAGTAGAATTGTTAT
22676547 T
1 T
22676548 CTCAGAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (24 bp):
TTTAGAAACCAGTAGAATTGTTAT
Found at i:22680265 original size:58 final size:57
Alignment explanation
Indices: 22680196--22680339 Score: 157
Period size: 57 Copynumber: 2.5 Consensus size: 57
22680186 CTCGTTCTGG
* * *
22680196 AAAGGATTTAGCCTAGACGGGTAATCCTGATGTAATCCCTCT-CGAGTATATGTTACA-
1 AAAGGATTTAGCCTAGACTGGTAATCCTGAT-TAAGCCCT-TACGAGCATATGTTACAT
* * * * * * *
22680253 ATTAGGATTTAGCATGGACTGGTAATCCTAATTGAGCTCTTATGAGCATATGTTACAT
1 A-AAGGATTTAGCCTAGACTGGTAATCCTGATTAAGCCCTTACGAGCATATGTTACAT
22680311 AAAGGATTTAGCCTAGACTGGTAATCCTG
1 AAAGGATTTAGCCTAGACTGGTAATCCTG
22680340 TAGTACGAAA
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
56 1 0.01
57 43 0.61
58 26 0.37
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (57 bp):
AAAGGATTTAGCCTAGACTGGTAATCCTGATTAAGCCCTTACGAGCATATGTTACAT
Found at i:22689932 original size:42 final size:42
Alignment explanation
Indices: 22689813--22689935 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 42
22689803 TACCATACCA
* * ** * *
22689813 ATGCCATATCCTAGATATAGTCTTACATGTAATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACATAGTCTCATATCG
* * * *
22689855 ATGCCAATAGCTCAGCTATGGTCTTATACGA-AGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACAC-ATAGTCTCATATCG
22689898 ATGCCATATCCCAGATATGGTCTTACACATAGTCTCAT
1 ATGCCATATCCCAGATATGGTCTTACACATAGTCTCAT
22689936 TAACCCTAAT
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
41 1 0.02
42 32 0.50
43 31 0.48
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACATAGTCTCATATCG
Found at i:22695590 original size:55 final size:55
Alignment explanation
Indices: 22695501--22695613 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 55
22695491 CATGTGCGAC
* * * * *
22695501 ACTGACTTTAGGGCACGGCTATGACACACGCCCGTGTGGCCTACCCGTGGGCAAT
1 ACTGACTTTAGGACACGGATATGACACACACCCGTGTGGCCTAACCGTGGACAAT
* *
22695556 ACTGACTTATA-GACACGGATATGGCACACACCCGTGTGGCCTAATCGTGGACAAT
1 ACTGACTT-TAGGACACGGATATGACACACACCCGTGTGGCCTAACCGTGGACAAT
22695611 ACT
1 ACT
22695614 AATTTAAAAG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 48 0.96
56 2 0.04
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.21
Consensus pattern (55 bp):
ACTGACTTTAGGACACGGATATGACACACACCCGTGTGGCCTAACCGTGGACAAT
Found at i:22696475 original size:49 final size:49
Alignment explanation
Indices: 22696370--22696497 Score: 136
Period size: 49 Copynumber: 2.6 Consensus size: 49
22696360 AAGTTGCTGC
* * *
22696370 TGCCATGTCCCAGACATGGTCTTACTCTGGCTATCTCCATCAAGGCTGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTATCTCCATCAAGGCTAA
* ** *
22696419 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTAT-ACGTGCTAA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTATC-TCCATCAAG-GCTAA
* *
22696469 TG-CATGTCCTAGACAT-GACTTACACTAGC
1 TGCCATGTCCCAGACATGGTCTTACACTAGC
22696498 ACAAAACTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
48 12 0.18
49 47 0.69
50 9 0.13
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (49 bp):
TGCCATGTCCCAGACATGGTCTTACACTAGCTATCTCCATCAAGGCTAA
Found at i:22696613 original size:47 final size:47
Alignment explanation
Indices: 22696373--22696723 Score: 166
Period size: 47 Copynumber: 7.4 Consensus size: 47
22696363 TTGCTGCTGC
* * * *
22696373 CATGTCCCAGACATGGTCTTACTCTGGCTATCTC-CATCAAGGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGGC-A-CTCACCTCTACGCTGATG
* * ** * *
22696421 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTATACGTGCTAATG
1 -CATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTAC--GCTGATG
* * * ** * *
22696471 CATGTCCTAGACAT-GACTTACACTAGCACAAAACT-TA-GCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTACGCTGATG
* * * * * *
22696515 CATGTCCCAAACA-CGACTTACACTGGCTAACATCA--TCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGC--AC-TCACCTCTACGCTGATG
*
22696562 CATGTCCCAGACAT-GTCTTACACTGGCACTCACCTCTACACTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTACGCTGATG
* * ** * *
22696608 CCATGTCCCAGACGTGGTCTTACACGGGCTA-TCATGATGT-GGCTGATG
1 -CATGTCCCAGACATGGTCTTACACTGGC-ACTCA-CCTCTACGCTGATG
** * * ** * * *
22696656 CATGTCCCAGACA-CATCTTACACTAGCCCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTACGCTGATG
22696702 CCATGTCCCAGACATGGTCTTA
1 -CATGTCCCAGACATGGTCTTA
22696724 TACTCGCTCT
Statistics
Matches: 230, Mismatches: 52, Indels: 41
0.71 0.16 0.13
Matches are distributed among these distances:
44 31 0.13
45 4 0.02
46 29 0.13
47 75 0.33
48 43 0.19
49 42 0.18
50 6 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTACGCTGATG
Found at i:22696659 original size:94 final size:95
Alignment explanation
Indices: 22696373--22696723 Score: 311
Period size: 94 Copynumber: 3.7 Consensus size: 95
22696363 TTGCTGCTGC
* * * *
22696373 CATGTCCCAGACATGGTCTTACTCTGGCTATCTC-CATCAAGGCTGATGCCATGTCCCAGACATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-A-CTCACCTCAACGCTGATGCCATGTCCCAGACATG
* * *
22696437 GTCTTACACTAGCTCTCATGTATACGT-GCTAATG
63 GTCTTACACTGGCTATCATG-AT-CGTGGCTGATG
* * ** * * * * * *
22696471 CATGTCCTAGACATGACTTACACTAGCACAAAACT-TA-GCCGATG-CATGTCCCAAACA-CGAC
1 CATGTCCCAGACATGTCTTACACTAGCACTCACCTCAACGCTGATGCCATGTCCCAGACATGGTC
* * * *
22696532 TTACACTGGCTAACATCATCGAGGCCGATG
66 TTACACTGGCTATCATGATCGTGGCTGATG
* * * *
22696562 CATGTCCCAGACATGTCTTACACTGGCACTCACCTCTACACTGATGCCATGTCCCAGACGTGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCACCTCAACGCTGATGCCATGTCCCAGACATGGTC
*
22696627 TTACACGGGCTATCATGAT-GTGGCTGATG
66 TTACACTGGCTATCATGATCGTGGCTGATG
** * ** * *
22696656 CATGTCCCAGACACATCTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCACCTCAACGCTGATGCCATGTCCCAGACATGGTC
22696721 TTA
66 TTA
22696724 TACTCGCTCT
Statistics
Matches: 199, Mismatches: 48, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
90 2 0.01
91 36 0.18
92 17 0.09
93 17 0.09
94 82 0.41
95 20 0.10
96 2 0.01
97 10 0.05
98 13 0.07
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (95 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCACCTCAACGCTGATGCCATGTCCCAGACATGGTC
TTACACTGGCTATCATGATCGTGGCTGATG
Found at i:22697895 original size:44 final size:44
Alignment explanation
Indices: 22697845--22697932 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
22697835 TCATGCACTA
22697845 ATATAATCATATTATAACCTCAAAAAAATAATAAAAATAATTTT
1 ATATAATCATATTATAACCTCAAAAAAATAATAAAAATAATTTT
22697889 ATATAATCATATTATAACCTCAAAAAAATAATAAAAATAATTTT
1 ATATAATCATATTATAACCTCAAAAAAATAATAAAAATAATTTT
22697933 TCTATCTTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (44 bp):
ATATAATCATATTATAACCTCAAAAAAATAATAAAAATAATTTT
Found at i:22701131 original size:27 final size:27
Alignment explanation
Indices: 22701093--22701147 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
22701083 TAGATCATTA
22701093 AAATGATTAAATTTGTGAATTTTTATC
1 AAATGATTAAATTTGTGAATTTTTATC
22701120 AAATGATTAAATTTGTGAATTTTTATC
1 AAATGATTAAATTTGTGAATTTTTATC
22701147 A
1 A
22701148 TTATAGATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (27 bp):
AAATGATTAAATTTGTGAATTTTTATC
Found at i:22701571 original size:46 final size:44
Alignment explanation
Indices: 22701517--22701631 Score: 151
Period size: 46 Copynumber: 2.5 Consensus size: 44
22701507 AACGAGAGCT
* *
22701517 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CTACAAGATGT--GCC
* *
22701563 AGTGTAAGACATGTCTAGGACATGCATCAGCTACAAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGATGTGCC
22701607 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
22701632 GCATTGGCAT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
44 11 0.18
45 16 0.26
46 35 0.56
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGATGTGCC
Found at i:22704716 original size:42 final size:43
Alignment explanation
Indices: 22704606--22704732 Score: 157
Period size: 42 Copynumber: 3.0 Consensus size: 43
22704596 CATTGATCTG
* * * *
22704606 AGATATTGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTTC
1 AGATTTTGTGTAAGACCATGTCTGGGACACAGGCATCGATATC
*
22704649 AGATTTATGTGTAAGACCATGTCTGGGACATAGGCATCG-TATC
1 AGATTT-TGTGTAAGACCATGTCTGGGACACAGGCATCGATATC
* * * *
22704692 TGATTTTGTGTAAGACCCTATCTGGGACAGAGGCATCGATA
1 AGATTTTGTGTAAGACCATGTCTGGGACACAGGCATCGATA
22704733 ATGAATTACA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 29 0.40
43 15 0.21
44 29 0.40
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
AGATTTTGTGTAAGACCATGTCTGGGACACAGGCATCGATATC
Found at i:22710718 original size:21 final size:21
Alignment explanation
Indices: 22710679--22710723 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
22710669 GTACTTTTTA
*
22710679 TTTAATTTTCCTTTATTATTAT
1 TTTAATTTTACTTTATTA-TAT
*
22710701 TTTAATTTTAGTTT-TTATAT
1 TTTAATTTTACTTTATTATAT
22710721 TTT
1 TTT
22710724 TATTGAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 3 0.14
22 12 0.57
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTAATTTTACTTTATTATAT
Found at i:22712861 original size:55 final size:55
Alignment explanation
Indices: 22712772--22712878 Score: 187
Period size: 55 Copynumber: 1.9 Consensus size: 55
22712762 AAAAAGGCCA
*
22712772 ATTTTGAGGGCTCTTAGGCATCCTAAAGCTTATTTAAACACCTGAGGAGGCAGTT
1 ATTTTGAGGGCTCTTAGGCATCCTAAAGCCTATTTAAACACCTGAGGAGGCAGTT
* *
22712827 ATTTTGAGGGCTCTTAGGCATTCTAATGCCTATTTAAACACCTGAGGAGGCA
1 ATTTTGAGGGCTCTTAGGCATCCTAAAGCCTATTTAAACACCTGAGGAGGCA
22712879 CTTAGGAAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (55 bp):
ATTTTGAGGGCTCTTAGGCATCCTAAAGCCTATTTAAACACCTGAGGAGGCAGTT
Found at i:22720289 original size:45 final size:44
Alignment explanation
Indices: 22720083--22720290 Score: 165
Period size: 45 Copynumber: 4.5 Consensus size: 44
22720073 ATTGTGTGCT
*
22720083 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACA--A-GATGAGCC
* *
22720129 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGA-AATGA-GAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--T-ACAA-GATGAGCC
* * * *
22720177 AGTGTAAGACATGTCAGGGACATGCATCAGCCT-CGAGATATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCTAC-A-AGATGAGCC
* * * *
22720223 AGTG-AAGACATCTCTGTGACATGCATCGGCTACAAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGCC
22720266 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
22720291 GAATCAGAAT
Statistics
Matches: 130, Mismatches: 19, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
43 9 0.07
44 8 0.06
45 37 0.28
46 22 0.17
47 29 0.22
48 23 0.18
50 1 0.01
51 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGCC
Found at i:22729239 original size:45 final size:45
Alignment explanation
Indices: 22729190--22729312 Score: 185
Period size: 45 Copynumber: 2.7 Consensus size: 45
22729180 ATTTCATCGA
*
22729190 CATTATAGCCTGATAGGCTCGAAA-GCCCGAATAGTATCTCACCGG
1 CATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCACCGG
* * *
22729235 CATTATAGCCTGCTAGGCCCAAAGGCCCGAATAGTGTCTCACTGG
1 CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGG
*
22729280 CATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 CATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
22729313 TAATACCAGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
44 3 0.04
45 68 0.96
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (45 bp):
CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGG
Found at i:22729353 original size:38 final size:38
Alignment explanation
Indices: 22729305--22729540 Score: 294
Period size: 38 Copynumber: 6.2 Consensus size: 38
22729295 GGCTCAAAGG
* * * *
22729305 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
22729343 CTCGGATATAATACTAGCACGAAGCCTGCGGGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
22729381 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
22729419 CCCGGATATAATACCAGCACGAAGCCTGCGAGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
22729457 ACCGGATATATTACCAGCATGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * **
22729495 CCCGGATATAATTCCAGCA-TATAGCCTGCGGTCTTTAA
1 CCCGGATATAATACCAGCACGA-AGCCTGCGGGATTTAA
*
22729533 GCCGGATA
1 CCCGGATA
22729541 CAAATATCAT
Statistics
Matches: 171, Mismatches: 26, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
37 1 0.01
38 170 0.99
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:22729919 original size:43 final size:44
Alignment explanation
Indices: 22729810--22729943 Score: 166
Period size: 43 Copynumber: 3.1 Consensus size: 44
22729800 ACATAATATT
* *
22729810 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAA
1 TCATTTCACCGGCATTATAGCCTGCTAAGCTCAAA-GCCCGAAT-A
* *
22729856 T-ATTT-ACCGGCATCATAGCCTACTAAGCTCAAAGCCCG-ATA
1 TCATTTCACCGGCATTATAGCCTGCTAAGCTCAAAGCCCGAATA
* * *
22729897 TCATTTCACCGGCATTATAGCCTGCTATGCCCGAAGCCCGAATA
1 TCATTTCACCGGCATTATAGCCTGCTAAGCTCAAAGCCCGAATA
22729941 TCA
1 TCA
22729944 CATTTCGATA
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
41 2 0.03
42 6 0.08
43 32 0.42
44 31 0.41
45 4 0.05
46 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (44 bp):
TCATTTCACCGGCATTATAGCCTGCTAAGCTCAAAGCCCGAATA
Found at i:22743044 original size:31 final size:30
Alignment explanation
Indices: 22743000--22743058 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 30
22742990 CCACAAGGGA
22743000 AAAGGGTGGTTTTCACTCTACTAAAACGGG
1 AAAGGGTGGTTTTCACTCTACTAAAACGGG
*
22743030 AAAGAGGTGTTTTTCACTCTACTAAAACG
1 AAAG-GGTGGTTTTCACTCTACTAAAACG
22743059 TATAACCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (30 bp):
AAAGGGTGGTTTTCACTCTACTAAAACGGG
Found at i:22745320 original size:3 final size:3
Alignment explanation
Indices: 22745312--22745355 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
22745302 AAATATACAC
* * *
22745312 TAA TAA TAA TAA TAA TGA TAA TAG TAA TAA TAT TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22745356 AAATGTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22747050 original size:86 final size:88
Alignment explanation
Indices: 22746823--22747066 Score: 341
Period size: 89 Copynumber: 2.8 Consensus size: 88
22746813 TCCTTTTACC
* ** * * *
22746823 CTACTGCTTAGGGGGTTAAGATCTATAAATTCAACCTGTTACCCTACTACTTAGGGGTTTAAGGC
1 CTACTGCTTAGGGAGACAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
*
22746888 CCATTGCCTTCGATCTATTTCCA
66 CCATTGCCTTCGATCTATCTCCA
* * *
22746911 CTACTGCTTAGGGAGACAGGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
1 CTACTGCTTAGGGAGACAAGATCTGTAA-ATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG
* *
22746976 CCCTTTGTCTTCGAT-T-TGCTCCA
65 CCCATTGCCTTCGATCTAT-CTCCA
22746999 CTACTGC-TAGGGAGACAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
1 CTACTGCTTAGGGAGACAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
22747063 CCAT
66 CCAT
22747067 CACCTTCAAT
Statistics
Matches: 138, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
86 38 0.28
87 20 0.14
88 35 0.25
89 45 0.33
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (88 bp):
CTACTGCTTAGGGAGACAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
CCATTGCCTTCGATCTATCTCCA
Found at i:22747450 original size:79 final size:78
Alignment explanation
Indices: 22747354--22747592 Score: 304
Period size: 79 Copynumber: 3.1 Consensus size: 78
22747344 TAAAAAATTG
* * * *
22747354 AAAATACCTCAGTGTGTGACTTGAGGATCAACTCACCTCTCGTAATATTAATTGATTTTTTTTTG
1 AAAATACCTCAGTGTGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTG
22747419 AAAAATAGAAACTA
66 AAAAATAGAAA-TA
* **
22747433 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTG
1 AAAATACCTCAGTGTGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTG
** * *
22747496 AAACGTA-AATTG
66 AAAAATAGAAATA
* * *
22747508 AAAATACCTCAGTGCGTGATTTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTTA
1 AAAATACCTCAGTGTGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT-
*
22747573 AAAAAATAGAAATA
65 GAAAAATAGAAATA
22747587 AAAATA
1 AAAATA
22747593 TCAGAATACC
Statistics
Matches: 134, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
75 50 0.37
76 2 0.01
77 20 0.15
78 5 0.04
79 57 0.43
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (78 bp):
AAAATACCTCAGTGTGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTG
AAAAATAGAAATA
Found at i:22747538 original size:75 final size:76
Alignment explanation
Indices: 22747303--22747569 Score: 288
Period size: 75 Copynumber: 3.5 Consensus size: 76
22747293 AAACTGACGT
* * * *
22747303 TCAACTCATCTCTCGGATTATGAGTT-A-ATTTTTGAAAAAAGTAAAAAATTGAAAATACCTCAG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAAA-T--AAAATTGAAAATACCTCAG
*
22747366 TGTGTGACTTGAGGA
62 TGTGTGACTTGAGGC
* * * * * *
22747381 TCAACTCACCTCTCGTAATATTAATTGATTTTTTTTTGAAAAATAGAAACTAAAAATACCTCAGC
1 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAAATA-AAATTGAAAATACCTCAGT
**
22747446 GTGTGACCCGAGGC
63 GTGTGACTTGAGGC
** *
22747460 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACGT-AAATTGAAAATACCTCAGTGCG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAAAATTGAAAATACCTCAGTGTG
*
22747524 TGATTTGAGGC
66 TGACTTGAGGC
*
22747535 TCAACTCACCTTTCGCAATATGAGTTGATTTTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
22747570 TTAAAAAAAT
Statistics
Matches: 159, Mismatches: 25, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
75 60 0.38
77 12 0.08
78 22 0.14
79 53 0.33
80 1 0.01
81 5 0.03
82 6 0.04
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (76 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAAAATTGAAAATACCTCAGTGTG
TGACTTGAGGC
Found at i:22748551 original size:37 final size:37
Alignment explanation
Indices: 22748510--22748581 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
22748500 CGGTAACTCC
* *
22748510 TTCCCATCCATCTCGGTGAGAATCAAAGCTCCACCCT
1 TTCCCATCCATCTCAGTGAGAATCAAAGCCCCACCCT
22748547 TTCCCATCCATCTCAGTGAGAATCAAAGCCCCACC
1 TTCCCATCCATCTCAGTGAGAATCAAAGCCCCACC
22748582 TGAGAAAGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.26, C:0.39, G:0.12, T:0.22
Consensus pattern (37 bp):
TTCCCATCCATCTCAGTGAGAATCAAAGCCCCACCCT
Found at i:22760867 original size:27 final size:27
Alignment explanation
Indices: 22760819--22760899 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
22760809 AGCATGGCTG
* * *
22760819 CCAGAA-CTGATATTGTGACAGAGTCA
1 CCAGAATCAGATATTGTGGCAGAGCCA
22760845 CCA-AATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATATTGTGGCAGAGCCA
* *
22760872 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAATCAGATATTGTGGCAGAGCCA
22760899 C
1 C
22760900 TTAACAGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.04
26 3 0.06
27 39 0.83
28 3 0.06
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGAATCAGATATTGTGGCAGAGCCA
Found at i:22761083 original size:98 final size:98
Alignment explanation
Indices: 22760921--22761159 Score: 379
Period size: 98 Copynumber: 2.4 Consensus size: 98
22760911 CGTGGCACAA
* * *
22760921 AGCCATCGATAACGGGTCTATAATCGGCACGAAGCCCATAATATCGATACGAAGCCCACAATAAC
1 AGCCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAAC
*
22760986 GGCACCCAGCCTTCAGTAACATGATCGGCACTC
66 GGCACACAGCCTTCAGTAACATGATCGGCACTC
* * * * *
22761019 ATCCATTGATAATGGGTTTATAATTGGCACGAAGCCTACAATATCGATACGAAGCCTACAATAAC
1 AGCCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAAC
**
22761084 GGCACACAGCCTTTGGTAACATGATCGGCACTC
66 GGCACACAGCCTTCAGTAACATGATCGGCACTC
22761117 AGCCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATA
1 AGCCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATA
22761160 ATGGCACACA
Statistics
Matches: 126, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
98 126 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (98 bp):
AGCCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAAC
GGCACACAGCCTTCAGTAACATGATCGGCACTC
Found at i:22761260 original size:27 final size:28
Alignment explanation
Indices: 22761209--22761291 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 28
22761199 ATCGATCGGT
* * *
22761209 AAACAGATA-TTGTGACAAAGTCACCAG
1 AAACAGATATTTGTGGCAGAGCCACCAG
*
22761236 ATAA-AGATA-TTGTGGTAGAGCCACCA-
1 A-AACAGATATTTGTGGCAGAGCCACCAG
*
22761262 AAACAGATATTTGTGGCATAGCCACCAG
1 AAACAGATATTTGTGGCAGAGCCACCAG
22761290 AA
1 AA
22761292 CGCTACCTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
25 2 0.04
26 6 0.13
27 34 0.74
28 4 0.09
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.20
Consensus pattern (28 bp):
AAACAGATATTTGTGGCAGAGCCACCAG
Found at i:22761573 original size:27 final size:27
Alignment explanation
Indices: 22761517--22761980 Score: 617
Period size: 27 Copynumber: 17.2 Consensus size: 27
22761507 GGGTAAAATG
* * * *
22761517 GTAATTTTACCC-ACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
22761543 GTAATTCTATCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
22761570 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
22761597 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
22761624 GTAATTCTACCTTGTAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
22761651 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
22761678 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
22761705 GTAATTCTACCTTGTAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
22761732 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
22761759 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
22761786 GTAATTCTACCTTGTAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
22761813 GTAATTCTACCCTACAGGGGTATTT-T
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
22761839 GATATTTCTACCCTACAAGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * * * * *
22761867 GTATTTCTACCCTATAAGGATATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCA
22761894 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
22761921 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
22761948 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
22761975 ATAATT
1 GTAATT
22761981 TTGTAAATCG
Statistics
Matches: 390, Mismatches: 45, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
26 11 0.03
27 378 0.97
28 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:22761995 original size:27 final size:27
Alignment explanation
Indices: 22761965--22762176 Score: 140
Period size: 27 Copynumber: 7.9 Consensus size: 27
22761955 TACCCTATAG
**
22761965 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAATAATTTTACAAATCGA
*** ** **
22761992 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTATTTCAATAATTTTACAAATCGA
* ** *
22762019 GGTTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCAATAATTTTACAAATCGA
22762046 GGGTATTTCAATAATTTTACAAATCGA
1 GGGTATTTCAATAATTTTACAAATCGA
* * * *
22762073 GGGTATTTTAGTAGTTTTTCAAA-CTGA
1 GGGTATTTCAATAATTTTACAAATC-GA
* * *
22762100 GGGTATTTCGATAATTTCACAAATCAA
1 GGGTATTTCAATAATTTTACAAATCGA
*** * *
22762127 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTCAATAATTTTACAAATCGA
***
22762154 GGGTATTTTGGTAATTTTACAAA
1 GGGTATTTCAATAATTTTACAAA
22762177 CCAGGGGTAT
Statistics
Matches: 150, Mismatches: 31, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
26 4 0.03
27 145 0.97
28 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAATAATTTTACAAATCGA
Found at i:22762177 original size:27 final size:27
Alignment explanation
Indices: 22762025--22762251 Score: 238
Period size: 27 Copynumber: 8.4 Consensus size: 27
22762015 TCGAGGTTAC
** *
22762025 TTTGGTAATTTTACAAGTCGAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
*** * *
22762052 TTCAATAATTTTACAAATCGAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* * * **
22762079 TTTAGTAGTTTTTCAAACTGAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* * * *
22762106 TTCGATAATTTCACAAATCAAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
22762133 TTTGGTAATTTTACAAACCAAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
*
22762160 TTTGGTAATTTTACAAACCAGGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
**
22762187 TTTGGTAATTTTGTAAACCAAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* *
22762214 TTTGGTAATTTTACAAACTAGGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* *
22762241 TGTGGTGATTT
1 TTTGGTAATTT
22762252 GGTAAACTAA
Statistics
Matches: 167, Mismatches: 33, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 167 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
TTTGGTAATTTTACAAACCAAGGGTAT
Done.