Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 239 of 240
Found at i:72553804 original size:60 final size:59
Alignment explanation
Indices: 72553676--72553804 Score: 186
Period size: 60 Copynumber: 2.2 Consensus size: 59
72553666 TCACTAATAC
*
72553676 TCACCCAACTATTAATAAATTTATTTTTGGTCACTCAACTATGAAAAGTTACAAAATGG
1 TCACCCAACTATTAATAAATTTATTTTTGGTCACTCAACTATGAAAAATTACAAAATGG
* * * * * *
72553735 TCTCTCAACTATTAGTAAGTTTATTTTTTGGTCACTTAACTATGAAAAATTATAAAATGG
1 TCACCCAACTATTAATAAATTTA-TTTTTGGTCACTCAACTATGAAAAATTACAAAATGG
72553795 TCACCCAACT
1 TCACCCAACT
72553805 TCTTATTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 19 0.32
60 41 0.68
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (59 bp):
TCACCCAACTATTAATAAATTTATTTTTGGTCACTCAACTATGAAAAATTACAAAATGG
Found at i:72555289 original size:8 final size:8
Alignment explanation
Indices: 72555276--72555301 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
72555266 TGGCCCAATG
72555276 AACATTAA
1 AACATTAA
72555284 AACATTAA
1 AACATTAA
72555292 AACATTAA
1 AACATTAA
72555300 AA
1 AA
72555302 GATAAGCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (8 bp):
AACATTAA
Found at i:72565361 original size:21 final size:21
Alignment explanation
Indices: 72565335--72565375 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
72565325 AGACGAGCAA
* *
72565335 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
72565356 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
72565376 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:72569634 original size:23 final size:23
Alignment explanation
Indices: 72569591--72569634 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
72569581 AAAGTTTAAC
* * *
72569591 TTTTTTTTTACATATATTTTTGA
1 TTTTTTTTTAAAAATAATTTTGA
72569614 TTTTTTTTTAAAAATAATTTT
1 TTTTTTTTTAAAAATAATTTT
72569635 TTAAAAAGTA
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:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTTTTTTTAAAAATAATTTTGA
Found at i:72569665 original size:19 final size:19
Alignment explanation
Indices: 72569643--72569729 Score: 67
Period size: 20 Copynumber: 4.6 Consensus size: 19
72569633 TTTTAAAAAG
72569643 TATAAATTTTTAGAATTTT
1 TATAAATTTTTAGAATTTT
72569662 TATAAATATTTT-GAA-TTT
1 TATAAAT-TTTTAGAATTTT
* **
72569680 TAAAAATTATTTTCAATTTT
1 TATAAATT-TTTAGAATTTT
*
72569700 TGA-AAATTATTTTGAATTTT
1 T-ATAAATT-TTTAGAATTTT
72569720 T-T-AATTTTTA
1 TATAAATTTTTA
72569730 TTAAAGAAGA
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
17 4 0.07
18 16 0.28
19 12 0.21
20 25 0.43
21 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (19 bp):
TATAAATTTTTAGAATTTT
Found at i:72569705 original size:20 final size:19
Alignment explanation
Indices: 72569646--72569720 Score: 91
Period size: 19 Copynumber: 3.9 Consensus size: 19
72569636 TAAAAAGTAT
*
72569646 AAATT-TTTAGAATTTTTA
1 AAATTATTTTGAATTTTTA
*
72569664 TAAA-TATTTTGAATTTTAA
1 -AAATTATTTTGAATTTTTA
*
72569683 AAATTATTTTCAATTTTTGA
1 AAATTATTTTGAATTTTT-A
72569703 AAATTATTTTGAATTTTT
1 AAATTATTTTGAATTTTT
72569721 TAATTTTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
18 4 0.08
19 26 0.54
20 18 0.38
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.56
Consensus pattern (19 bp):
AAATTATTTTGAATTTTTA
Found at i:72573221 original size:18 final size:18
Alignment explanation
Indices: 72573198--72573232 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
72573188 AAATTTTGCA
72573198 AAAATTATAAGAATTTTG
1 AAAATTATAAGAATTTTG
*
72573216 AAAATTATAATAATTTT
1 AAAATTATAAGAATTTT
72573233 ACCATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (18 bp):
AAAATTATAAGAATTTTG
Found at i:72575204 original size:14 final size:14
Alignment explanation
Indices: 72575185--72575212 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
72575175 GAAAAGTTTA
72575185 GTTTAAGATTTAAG
1 GTTTAAGATTTAAG
72575199 GTTTAAGATTTAAG
1 GTTTAAGATTTAAG
72575213 AAGTTAGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (14 bp):
GTTTAAGATTTAAG
Found at i:72575558 original size:95 final size:94
Alignment explanation
Indices: 72575450--72575644 Score: 304
Period size: 95 Copynumber: 2.1 Consensus size: 94
72575440 GTTCTGAAAA
72575450 ATCAAG-TTAAAAAAAACTAAATTAGAGATTTAGATCATGAAATTAAACTTAGTAAATAAATTCC
1 ATCAAGTTTAAAAAAAACTAAATTAGAGATTTAGATCATGAAATTAAACTTAGTAAATAAATT-C
* *
72575514 TAAT-AGTTTAGGTACCTCTGATAGCTGTGG
65 TAATGA-TTTACGTACCTCTGATAGCTGTCG
* *
72575544 ATCAAGTTTTAAAAAAATTAAATTAGAGATTTAGATCATGAAATTAAACTTAGTAAATAAATTCT
1 ATCAAGTTTAAAAAAAACTAAATTAGAGATTTAGATCATGAAATTAAACTTAGTAAATAAATTCT
* *
72575609 AATGATTTACGTACCTCTGATCGTTGTCG
66 AATGATTTACGTACCTCTGATAGCTGTCG
72575638 ATCAAGT
1 ATCAAGT
72575645 CGCCGCTCCG
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
94 38 0.41
95 55 0.59
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.34
Consensus pattern (94 bp):
ATCAAGTTTAAAAAAAACTAAATTAGAGATTTAGATCATGAAATTAAACTTAGTAAATAAATTCT
AATGATTTACGTACCTCTGATAGCTGTCG
Found at i:72587241 original size:188 final size:188
Alignment explanation
Indices: 72586918--72587297 Score: 629
Period size: 188 Copynumber: 2.0 Consensus size: 188
72586908 TCGGGATGCA
* * *
72586918 AACTTGCAGCCATAAGATTCCATTTTGAAGAGAGGATACAGGAAAGATAATAATACGATAAATTA
1 AACTTGCAGCCATAAGATTCCATTTTGAAGAGAGGATACAGGAAACAGAATAATACAATAAATTA
*
72586983 GATTGCAAATAGAGGCGGGACTAGAAACATAAAAAAGTAAGGGTAAATTCAATTAATGTCACTTA
66 GATTGCAAATAGAGGCGGGACTAGAAACATAAAAAAGTAAGGGTAAATTCAATTAATGTCACTCA
* * *
72587048 ACTATTAATAAATTTAATTTTGGTCATATAACTACGAAAAATTACAAAATAATCACCT
131 ACTATTAATAAATTTAATTTTGGTCACATAACTACAAAAAATTACAAAATAATCACCC
*
72587106 AACTTGCAGCCATAAGATTCCATTTTGAAGAGAGGATACCGGAAACAGAATAATACAATAAATTA
1 AACTTGCAGCCATAAGATTCCATTTTGAAGAGAGGATACAGGAAACAGAATAATACAATAAATTA
*
72587171 GATTGCAAATTGAGGCGGGACTAGAAACA-AAAAACAGTAAGGGTAAATT-ACATTAATGTCACT
66 GATTGCAAATAGAGGCGGGACTAGAAACATAAAAA-AGTAAGGGTAAATTCA-ATTAATGTCACT
* *
72587234 CAACTATTAATAAATTTAATTTTGGTCACATAACTATAAAAAATTAGAAAATAATCACCC
129 CAACTATTAATAAATTTAATTTTGGTCACATAACTACAAAAAATTACAAAATAATCACCC
72587294 AACT
1 AACT
72587298 ATTTAAATTT
Statistics
Matches: 179, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
187 6 0.03
188 173 0.97
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.26
Consensus pattern (188 bp):
AACTTGCAGCCATAAGATTCCATTTTGAAGAGAGGATACAGGAAACAGAATAATACAATAAATTA
GATTGCAAATAGAGGCGGGACTAGAAACATAAAAAAGTAAGGGTAAATTCAATTAATGTCACTCA
ACTATTAATAAATTTAATTTTGGTCACATAACTACAAAAAATTACAAAATAATCACCC
Found at i:72588927 original size:72 final size:72
Alignment explanation
Indices: 72588850--72588994 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
72588840 AGATGACTAA
72588850 AAAAAATTTATCAACAATTGAGTGACTACTAATAAAATTTACCCTTTTAATAACGATACCGGACC
1 AAAAAATTTATCAACAATTGAGTGACTACTAATAAAATTTACCCTTTTAATAACGATACCGGACC
72588915 TAATAAT
66 TAATAAT
72588922 AAAAAATTTATCAACAATTGAGTGACTACTAATAAAATTTACCCTTTTAATAACGATACCGGACC
1 AAAAAATTTATCAACAATTGAGTGACTACTAATAAAATTTACCCTTTTAATAACGATACCGGACC
72588987 TAATAAT
66 TAATAAT
72588994 A
1 A
72588995 CAATAAAAAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.30
Consensus pattern (72 bp):
AAAAAATTTATCAACAATTGAGTGACTACTAATAAAATTTACCCTTTTAATAACGATACCGGACC
TAATAAT
Found at i:72590646 original size:19 final size:19
Alignment explanation
Indices: 72590624--72590661 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
72590614 CAAATGATTT
72590624 AAAATTTATAAAA-TTAAAA
1 AAAATTTA-AAAATTTAAAA
72590643 AAAATTTAAAAATTTAAAA
1 AAAATTTAAAAATTTAAAA
72590662 TATATATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATTTAAAAATTTAAAA
Found at i:72592098 original size:17 final size:17
Alignment explanation
Indices: 72592062--72592103 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
72592052 TTAATGTCTC
72592062 ATATCATTCTTGAACTTA
1 ATATCATTCTTG-ACTTA
72592080 ATATCATATCTTG-CTTA
1 ATATCAT-TCTTGACTTA
72592097 ATA-CATT
1 ATATCATT
72592104 GCATTATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 3 0.13
17 7 0.30
18 7 0.30
19 5 0.22
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (17 bp):
ATATCATTCTTGACTTA
Found at i:72594403 original size:25 final size:25
Alignment explanation
Indices: 72594372--72594428 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
72594362 CCACAAAGTG
72594372 AAAATTTTTAGCTTTTGATTTTTGA
1 AAAATTTTTAGCTTTTGATTTTTGA
72594397 AAAATTTTTAGCTTTTGATTTTTGA
1 AAAATTTTTAGCTTTTGATTTTTGA
*
72594422 CAAATTT
1 AAAATTT
72594429 CTTTTAAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (25 bp):
AAAATTTTTAGCTTTTGATTTTTGA
Found at i:72598626 original size:17 final size:17
Alignment explanation
Indices: 72598586--72598632 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
72598576 CAATAAATGA
72598586 TTTAAAATTTATAAAAT
1 TTTAAAATTTATAAAAT
** *
72598603 TAAAAAATTTCTAAAAT
1 TTTAAAATTTATAAAAT
*
72598620 TTTAAAATATATA
1 TTTAAAATTTATA
72598633 TTGAAAAAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTAAAATTTATAAAAT
Found at i:72598847 original size:35 final size:35
Alignment explanation
Indices: 72598801--72598871 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
72598791 AAGGCCGTGG
72598801 TCAAATTTAGCTTAAAAATAGAATGAGGTTCAAAT
1 TCAAATTTAGCTTAAAAATAGAATGAGGTTCAAAT
72598836 TCAAATTTAGCTTAAAAATAGAATGAGGTTCAAAT
1 TCAAATTTAGCTTAAAAATAGAATGAGGTTCAAAT
72598871 T
1 T
72598872 GATAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.32
Consensus pattern (35 bp):
TCAAATTTAGCTTAAAAATAGAATGAGGTTCAAAT
Found at i:72607878 original size:26 final size:25
Alignment explanation
Indices: 72607841--72607899 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
72607831 ATATTTTTGG
72607841 TATAGTTT-GAAATTTAGTCTTATTTT
1 TATA-TTTAGAAATTTAGT-TTATTTT
72607867 TATATTTAGAAATTTAGTTTATTTT
1 TATATTTAGAAATTTAGTTTATTTT
72607892 T-T-TTTAGA
1 TATATTTAGA
72607900 TTTTAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 6 0.19
24 1 0.03
25 11 0.34
26 14 0.44
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (25 bp):
TATATTTAGAAATTTAGTTTATTTT
Found at i:72611304 original size:29 final size:25
Alignment explanation
Indices: 72611271--72611336 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 25
72611261 TACAAAGAAA
72611271 TATTTATATAATATAATATTTATATTAT
1 TATTTATATAATATAAT-TTT-T-TTAT
72611299 TAATTTATATAATATAATTTTTTTAT
1 T-ATTTATATAATATAATTTTTTTAT
72611325 TATTTATATAAT
1 TATTTATATAAT
72611337 TTTGTAATCG
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
25 11 0.30
26 5 0.14
27 1 0.03
28 4 0.11
29 16 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TATTTATATAATATAATTTTTTTAT
Found at i:72612353 original size:12 final size:11
Alignment explanation
Indices: 72612318--72612378 Score: 52
Period size: 12 Copynumber: 5.4 Consensus size: 11
72612308 CTCCCTCGAC
72612318 AAAAATAATTA
1 AAAAATAATTA
* *
72612329 TAATATAACTTA
1 AAAAATAA-TTA
72612341 AAAAATAAGTTA
1 AAAAATAA-TTA
*
72612353 AAAAAT-ATAA
1 AAAAATAATTA
*
72612363 AAAAATTAAATA
1 AAAAA-TAATTA
72612375 AAAA
1 AAAA
72612379 TTAAATACCA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
10 7 0.18
11 8 0.21
12 24 0.62
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (11 bp):
AAAAATAATTA
Found at i:72615570 original size:29 final size:29
Alignment explanation
Indices: 72615511--72615571 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
72615501 TTTTGTTTAG
* *
72615511 TTTGATTTTTCTTTTTTTTTGAATTATAT
1 TTTGATTTTTCTTTATTTTTCAATTATAT
72615540 TTTGA-TTTTCTTTGATTTTTCATATTA-AT
1 TTTGATTTTTCTTT-ATTTTTCA-ATTATAT
72615569 TTT
1 TTT
72615572 TATTATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 8 0.29
29 16 0.57
30 4 0.14
ACGTcount: A:0.18, C:0.05, G:0.07, T:0.70
Consensus pattern (29 bp):
TTTGATTTTTCTTTATTTTTCAATTATAT
Found at i:72616412 original size:21 final size:22
Alignment explanation
Indices: 72616388--72616428 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
72616378 TTTAACACAA
*
72616388 AATTTT-TTAGCTTTATCTCTC
1 AATTTTATAAGCTTTATCTCTC
*
72616409 AATTTTATAATCTTTATCTC
1 AATTTTATAAGCTTTATCTC
72616429 GTTTCTCTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.24, C:0.17, G:0.02, T:0.56
Consensus pattern (22 bp):
AATTTTATAAGCTTTATCTCTC
Found at i:72618278 original size:16 final size:16
Alignment explanation
Indices: 72618259--72618289 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
72618249 CCATCTCAAT
72618259 TTAATTAATTTATATA
1 TTAATTAATTTATATA
72618275 TTAATTAATTTATAT
1 TTAATTAATTTATAT
72618290 GAAATGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAATTAATTTATATA
Found at i:72622407 original size:104 final size:102
Alignment explanation
Indices: 72622215--72622430 Score: 292
Period size: 104 Copynumber: 2.1 Consensus size: 102
72622205 AAAACAAATT
* *
72622215 AAAA-AAAAATGGAATCGATGAGCAAAAAGCGATCAATGGACCTTAGAGCAGCGACAAAGGCATC
1 AAAATAAAAATGGAATCGATGAGCAAAAAGCAATCAAGGGACCTTAGAGCAGCGACAAAGGCATC
72622279 GATAAACAACGTAAACTCAAAAACAAATACAAGAAAA
66 GATAAACAACGTAAACTCAAAAACAAATACAAGAAAA
* * * * * *
72622316 AAAATTAAAAATGGAATTGATTAGCGAAAAAGTAATCGAGGGAGCTTAGATCAGCGACAAAGGCA
1 AAAA-TAAAAATGGAATCGATGAGC-AAAAAGCAATCAAGGGACCTTAGAGCAGCGACAAAGGCA
* *
72622381 TCGATAAACAACGTAAAACTC-GAAACAAATTCAAGAAAA
64 TCGATAAACAACGT-AAACTCAAAAACAAATACAAGAAAA
*
72622420 ATAATAAAAAT
1 AAAATAAAAAT
72622431 TTGGAAGCGA
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
101 4 0.04
103 24 0.24
104 66 0.66
105 6 0.06
ACGTcount: A:0.53, C:0.14, G:0.18, T:0.15
Consensus pattern (102 bp):
AAAATAAAAATGGAATCGATGAGCAAAAAGCAATCAAGGGACCTTAGAGCAGCGACAAAGGCATC
GATAAACAACGTAAACTCAAAAACAAATACAAGAAAA
Found at i:72622849 original size:15 final size:15
Alignment explanation
Indices: 72622812--72622850 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
72622802 AAAATAGGAT
72622812 GATGGAAAATTGAAG
1 GATGGAAAATTGAAG
*
72622827 GGTGGAAAACTTGAAG
1 GATGGAAAA-TTGAAG
72622843 GAT-GAAAA
1 GATGGAAAA
72622851 ACAGAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.46, C:0.03, G:0.33, T:0.18
Consensus pattern (15 bp):
GATGGAAAATTGAAG
Found at i:72622851 original size:16 final size:16
Alignment explanation
Indices: 72622812--72622852 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
72622802 AAAATAGGAT
72622812 GATGGAAAA-TTGAAG
1 GATGGAAAACTTGAAG
*
72622827 GGTGGAAAACTTGAAG
1 GATGGAAAACTTGAAG
*
72622843 GATGAAAAAC
1 GATGGAAAAC
72622853 AGAAATTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.46, C:0.05, G:0.32, T:0.17
Consensus pattern (16 bp):
GATGGAAAACTTGAAG
Found at i:72624463 original size:26 final size:28
Alignment explanation
Indices: 72624419--72624477 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
72624409 TAGATATTAG
*
72624419 ATTAAACATTAAATTTGTTAAATTAA-AT
1 ATTAAACATTAAATCTGTTAAA-TAATAT
72624447 ATTAAA-ATTAAA-CTGTTAAATAATAT
1 ATTAAACATTAAATCTGTTAAATAATAT
72624473 ATTAA
1 ATTAA
72624478 TACTTAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 3 0.10
26 14 0.48
27 6 0.21
28 6 0.21
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (28 bp):
ATTAAACATTAAATCTGTTAAATAATAT
Found at i:72626772 original size:10 final size:10
Alignment explanation
Indices: 72626743--72626772 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
72626733 AAGTAAGTTA
*
72626743 TATATATATG
1 TATATATATT
72626753 TATATATATT
1 TATATATATT
72626763 TATATATATT
1 TATATATATT
72626773 AGAATTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (10 bp):
TATATATATT
Found at i:72630089 original size:19 final size:18
Alignment explanation
Indices: 72630057--72630104 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
72630047 ATATTTAACC
72630057 TAAAAAATGTTAAA-AATAT
1 TAAAAAAT-TTAAAGAA-AT
72630076 TAAAAAATTATAAAGAAAT
1 TAAAAAATT-TAAAGAAAT
*
72630095 TATAAAATTT
1 TAAAAAATTT
72630105 TTTAGATCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 2 0.08
19 22 0.85
20 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
TAAAAAATTTAAAGAAAT
Found at i:72630135 original size:16 final size:16
Alignment explanation
Indices: 72630116--72630147 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
72630106 TTAGATCATG
72630116 AATTTTATAGTGCCAT
1 AATTTTATAGTGCCAT
72630132 AATTTTATAGTGCCAT
1 AATTTTATAGTGCCAT
72630148 GTCATCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
AATTTTATAGTGCCAT
Found at i:72634844 original size:16 final size:16
Alignment explanation
Indices: 72634823--72634862 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
72634813 TTTTGACGCA
72634823 TAAGAGTTATTTGTAT
1 TAAGAGTTATTTGTAT
72634839 TAAGAGTTATTTGTAT
1 TAAGAGTTATTTGTAT
72634855 TAAGAGTT
1 TAAGAGTT
72634863 GGATTGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (16 bp):
TAAGAGTTATTTGTAT
Found at i:72636158 original size:174 final size:173
Alignment explanation
Indices: 72635836--72636214 Score: 523
Period size: 174 Copynumber: 2.2 Consensus size: 173
72635826 AGGTTTTTTT
* *
72635836 ATTTTAGAAATAAATTTTAATTATTAAGCTAATGCTAATTAGTATAATTCTTGATTAATCCTCTG
1 ATTTTAGAAAGAAATTTTAATTATTAAGCT-ATGCTAATTAGTATAAATCTTGATTAATCCTCTG
* *
72635901 AAATGTAATTTGCGGAAGTATTGTTTAGCTGTAAAAAGTTTTTGATCGGGTAATGGAAGTAATGC
65 AAATGTAATTTGCGGAAGTATTATTTAGCTGTAAAAAGTTTTTGATCGAGTAATGGAAGTAATGC
* * * * *
72635966 TTAATGAGCTTGTTATGAATTTG-GATTTGTTCACAAAACGGTGAATAG
130 TTAATGACCTTATTATGAATTTGAG-TTAGTTCAC--AA--GTGAACAA
* * *
72636014 ATTTTAGAAAGAAAGTTTAATT-TTAAGCTAT-TTGATTAGTATAAATCTTGATTAATCCTCTGA
1 ATTTTAGAAAGAAATTTTAATTATTAAGCTATGCTAATTAGTATAAATCTTGATTAATCCTCTGA
* * * * *
72636077 AATTTAATTTGC-GATGTATTATTTAGCTGTAAAAAGTTTTTGATTGAGTGATGGAATTAATGCT
66 AATGTAATTTGCGGAAGTATTATTTAGCTGTAAAAAGTTTTTGATCGAGTAATGGAAGTAATGCT
72636141 TAATGACCTTATTATGAATTTGAGTTAGTTCACAAGTGAACAA
131 TAATGACCTTATTATGAATTTGAGTTAGTTCACAAGTGAACAA
72636184 ATTTTAGAAAGAAATTTTAATTATTAAGCTA
1 ATTTTAGAAAGAAATTTTAATTATTAAGCTA
72636215 GTAATGATTA
Statistics
Matches: 181, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
170 27 0.15
171 8 0.04
172 2 0.01
174 74 0.41
175 41 0.23
176 2 0.01
177 7 0.04
178 20 0.11
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.40
Consensus pattern (173 bp):
ATTTTAGAAAGAAATTTTAATTATTAAGCTATGCTAATTAGTATAAATCTTGATTAATCCTCTGA
AATGTAATTTGCGGAAGTATTATTTAGCTGTAAAAAGTTTTTGATCGAGTAATGGAAGTAATGCT
TAATGACCTTATTATGAATTTGAGTTAGTTCACAAGTGAACAA
Found at i:72636237 original size:52 final size:52
Alignment explanation
Indices: 72636181--72636283 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
72636171 CACAAGTGAA
*
72636181 CAAATTTTAGAAAGAAATTTTAATTATTAAGCTAGTAATGATTAATATAATC
1 CAAATTTTAGAAAGAAATTTCAATTATTAAGCTAGTAATGATTAATATAATC
*
72636233 CAAATTTTGGAAAGAAATTTCAATTATTAAGCTAGTAATGATTAATATAAT
1 CAAATTTTAGAAAGAAATTTCAATTATTAAGCTAGTAATGATTAATATAAT
72636284 TTTTGATTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.38
Consensus pattern (52 bp):
CAAATTTTAGAAAGAAATTTCAATTATTAAGCTAGTAATGATTAATATAATC
Found at i:72636854 original size:24 final size:25
Alignment explanation
Indices: 72636813--72636861 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
72636803 AAAGTTAACA
*
72636813 AAAAATTTAAATACAATAAATTTAT
1 AAAAATTTAAATACAATAAAATTAT
72636838 AAAAATATTAAA-A-AATAAAATTAT
1 AAAAAT-TTAAATACAATAAAATTAT
72636862 CATGGAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 7 0.32
26 5 0.23
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
AAAAATTTAAATACAATAAAATTAT
Found at i:72643650 original size:8 final size:8
Alignment explanation
Indices: 72643616--72643657 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
72643606 TACGGGTCAG
72643616 TTTTGTCC
1 TTTTGTCC
*
72643624 -TTTCT-C
1 TTTTGTCC
72643630 TTTTGTCCC
1 TTTTGT-CC
72643639 TTTTGTCC
1 TTTTGTCC
72643647 TTTTGTCC
1 TTTTGTCC
72643655 TTT
1 TTT
72643658 CTCTCTTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 1 0.03
7 8 0.28
8 13 0.45
9 7 0.24
ACGTcount: A:0.00, C:0.26, G:0.10, T:0.64
Consensus pattern (8 bp):
TTTTGTCC
Found at i:72646698 original size:153 final size:151
Alignment explanation
Indices: 72646297--72646915 Score: 844
Period size: 153 Copynumber: 4.1 Consensus size: 151
72646287 ATTTTAGTCA
* * * *
72646297 TTTGTTCGTATTTTTTTCCGGAATTTATTACTTTTAAAAAACATACTATTTTTTAATTTT-TTAT
1 TTTGTTCGTATTTTTTTCCAGATTTTATTACTTTAAAAAAATATACTATTTTTTAATTTTATTAT
*
72646361 TTTACATTATTTTAGTAGATTATGTTTGAAATATATTAATTTACTGTGTTTTTTAAATAAATT--
66 TTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTTACTGTGTTTTTTAAATAAATTAA
72646424 AAAAAA-CCATTATTTCGGCCC
131 AAAAAATCC-TTATTTCGGCCC
* * * *
72646445 TTTATTCGTATTTTTTT--AGGATTTTTTTACTTTTAAAAAATATACTATTTTTT-ATTTTTTTA
1 TTTGTTCGTATTTTTTTCCA-GATTTTATTACTTTAAAAAAATATACTATTTTTTAATTTTATTA
* * * * * *
72646507 TTTTACATTATTTCAGTACGTTATATTTGAAATGTATTAATTTAGTGTGTTTTTTAACTAAATTA
65 TTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTTACTGTGTTTTTTAAATAAATTA
72646572 AAAAAAATCCTTATTTCGGCCC
130 AAAAAAATCCTTATTTCGGCCC
*
72646594 TTTGTTCGTATTTTTTTCCAGATTTTATTACTTTCAATAAAAATATATTATTTTTTAATTTTATT
1 TTTGTTCGTATTTTTTTCCAGATTTTATTACTTT-AA-AAAAATATACTATTTTTTAATTTTATT
* *
72646659 AGTTTACATTATTTTAGTACATCATGTTTGAAATATATTAATTTACTGTGTTTTTTTAAATAAAT
64 ATTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTTACTGTG-TTTTTTAAATAAAT
* *
72646724 TTAAAAAAATCTTTATTTCGGCCC
128 TAAAAAAAATCCTTATTTCGGCCC
* * * *
72646748 TTTGTTCTTATTTTTTCCCCCAGAGTTTATTACTTT-AAAAAATATATTATTTTTTAATTTTATT
1 TTTGTTCGTATTTTTT--TCCAGATTTTATTACTTTAAAAAAATATACTATTTTTTAATTTTATT
* * *
72646812 ATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAAT-AATT
64 ATTTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTTACTGTGTTTTTTAAATAAATT
* *
72646876 AAAAAAACT-CTTATTTCGGCCT
129 AAAAAAAATCCTTATTTCGGCCC
72646898 TTTGTTCGTATTTTTTTC
1 TTTGTTCGTATTTTTTTC
72646916 TGAATTTTAT
Statistics
Matches: 417, Mismatches: 41, Indels: 26
0.86 0.08 0.05
Matches are distributed among these distances:
146 5 0.01
147 91 0.22
148 17 0.04
149 34 0.08
150 41 0.10
151 13 0.03
152 27 0.06
153 122 0.29
154 51 0.12
156 16 0.04
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.53
Consensus pattern (151 bp):
TTTGTTCGTATTTTTTTCCAGATTTTATTACTTTAAAAAAATATACTATTTTTTAATTTTATTAT
TTTACATTATTTTAGTACATTATGTTTGAAATATATTAATTTACTGTGTTTTTTAAATAAATTAA
AAAAAATCCTTATTTCGGCCC
Found at i:72647178 original size:18 final size:18
Alignment explanation
Indices: 72647155--72647198 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
72647145 AAAAAAATCA
72647155 AAAAATAATATATTTTTT
1 AAAAATAATATATTTTTT
72647173 AAAAATAATATATTTTTT
1 AAAAATAATATATTTTTT
72647191 AAAAATAA
1 AAAAATAA
72647199 AAAAATTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAAATAATATATTTTTT
Found at i:72650649 original size:12 final size:12
Alignment explanation
Indices: 72650634--72650671 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
72650624 GCCCGAGCAG
*
72650634 GAGCCTCAGCCA
1 GAGCCACAGCCA
72650646 GAGCCACAGCCA
1 GAGCCACAGCCA
*
72650658 GAGCCCCAGCCA
1 GAGCCACAGCCA
72650670 GA
1 GA
72650672 TTCGGAGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.29, C:0.42, G:0.26, T:0.03
Consensus pattern (12 bp):
GAGCCACAGCCA
Found at i:72654776 original size:12 final size:12
Alignment explanation
Indices: 72654746--72654798 Score: 72
Period size: 12 Copynumber: 4.4 Consensus size: 12
72654736 TGATCCAAAA
*
72654746 CCAGAGCCCGAG
1 CCAGAGCCCCAG
72654758 -CAGGAGCCCCAG
1 CCA-GAGCCCCAG
72654770 CCAGAGCCCCAG
1 CCAGAGCCCCAG
*
72654782 CCAGAGTCCCAG
1 CCAGAGCCCCAG
72654794 CCAGA
1 CCAGA
72654799 TCCAGAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
11 2 0.05
12 33 0.89
13 2 0.05
ACGTcount: A:0.26, C:0.43, G:0.28, T:0.02
Consensus pattern (12 bp):
CCAGAGCCCCAG
Found at i:72662459 original size:11 final size:11
Alignment explanation
Indices: 72662443--72662477 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
72662433 CCCTTTCCCC
72662443 CTCCCTTCTCT
1 CTCCCTTCTCT
72662454 CTCCCTTCTCT
1 CTCCCTTCTCT
72662465 CTTCCC-TCTCT
1 C-TCCCTTCTCT
72662476 CT
1 CT
72662478 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:72662968 original size:3 final size:3
Alignment explanation
Indices: 72662944--72663014 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
72662934 AATATCCTTG
* * * *
72662944 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
72662991 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
72663015 GTACGTGTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:72663011 original size:23 final size:22
Alignment explanation
Indices: 72662956--72663017 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
72662946 ATTTTTATAT
*
72662956 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
72662977 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
72662999 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
72663018 CGTGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:72663024 original size:23 final size:23
Alignment explanation
Indices: 72662951--72663025 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
72662941 TTGTTATTTT
* *
72662951 TATATTATTAGTATTAT-TAGTAT
1 TATA-TATTATTATTATGTAGTAG
*
72662974 TACTATTATTATTATTATGTATTAG
1 TA-TA-TATTATTATTATGTAGTAG
*
72662999 TATATATTTTTATTATGTACGT-G
1 TATATATTATTATTATGTA-GTAG
72663022 TATA
1 TATA
72663026 CATATATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 21 0.48
24 17 0.39
25 6 0.14
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (23 bp):
TATATATTATTATTATGTAGTAG
Found at i:72665103 original size:4 final size:4
Alignment explanation
Indices: 72665089--72665195 Score: 101
Period size: 4 Copynumber: 24.8 Consensus size: 4
72665079 TCTTATTCTC
*
72665089 CTTT TTTT CTTT CTTCT ACTTT CATTTT CTTT CTTCT CATTT CATTTT CTTT
1 CTTT CTTT CTTT CTT-T -CTTT C--TTT CTTT CTT-T C-TTT C--TTT CTTT
72665141 CTTT CTTCT CCTTT C-TT -TTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT CTT-T -CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
72665189 CTTT CTT
1 CTTT CTT
72665196 CTCCTTTCCT
Statistics
Matches: 89, Mismatches: 3, Indels: 22
0.78 0.03 0.19
Matches are distributed among these distances:
3 4 0.04
4 61 0.69
5 8 0.09
6 16 0.18
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:72665104 original size:24 final size:24
Alignment explanation
Indices: 72665076--72665197 Score: 64
Period size: 24 Copynumber: 5.2 Consensus size: 24
72665066 CTTCATTCCC
72665076 TCTTCTTATTCTCCTTTTTTTCTT
1 TCTTCTTATTCTCCTTTTTTTCTT
*
72665100 TCTTC-TA--CT--TTCATTTTCTT
1 TCTTCTTATTCTCCTT-TTTTTCTT
* *
72665120 TCTTCTCATT-TCATTTTCTTTCTT
1 TCTTCTTATTCTCCTTTT-TTTCTT
** *
72665144 TCTTCTCCTT-TCTTTTTCTTTCTT
1 TCTTCTTATTCTCCTTTT-TTTCTT
* *
72665168 TCTT-TCT-TTCTTTCTTTCTTTCTT
1 TCTTCT-TATTC-TCCTTTTTTTCTT
72665192 TCTTCT
1 TCTTCT
72665198 CCTTTCCTTC
Statistics
Matches: 78, Mismatches: 9, Indels: 21
0.72 0.08 0.19
Matches are distributed among these distances:
19 2 0.03
20 12 0.15
21 3 0.04
22 1 0.01
23 6 0.08
24 49 0.63
25 5 0.06
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (24 bp):
TCTTCTTATTCTCCTTTTTTTCTT
Found at i:72665116 original size:20 final size:18
Alignment explanation
Indices: 72665084--72665203 Score: 108
Period size: 20 Copynumber: 6.5 Consensus size: 18
72665074 CCTCTTCTTA
72665084 TTCTCCTTT-TTTTCTTTC
1 TTCT-CTTTCTTTTCTTTC
72665102 TTCTACTTTCATTTTCTTTC
1 TTCT-CTTTC-TTTTCTTTC
72665122 TTCTCATTTCATTTTCTTTC
1 TTCTC-TTTC-TTTTCTTTC
*
72665142 TT-TCTTCTCCTTTCTTT-
1 TTCTCTT-TCTTTTCTTTC
72665159 TTCTTTCTTTC-TTTCTTTC
1 TTC--TCTTTCTTTTCTTTC
72665178 TT-TCTTTC-TTTCTTTC
1 TTCTCTTTCTTTTCTTTC
72665194 TTCTCCTTTC
1 TTCT-CTTTC
72665204 CTTCTCCTTT
Statistics
Matches: 90, Mismatches: 2, Indels: 20
0.80 0.02 0.18
Matches are distributed among these distances:
16 16 0.18
17 3 0.03
18 29 0.32
19 9 0.10
20 33 0.37
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (18 bp):
TTCTCTTTCTTTTCTTTC
Found at i:72665143 original size:44 final size:43
Alignment explanation
Indices: 72665089--72665187 Score: 143
Period size: 44 Copynumber: 2.4 Consensus size: 43
72665079 TCTTATTCTC
72665089 CTTTT-TTTCTTTCTTCTACTTTCATTTTCTTTCTTCTCATTT
1 CTTTTCTTTCTTTCTTCTACTTTCATTTTCTTTCTTCTCATTT
* *
72665131 CATTTTCTTTCTTTCTTCTCCTTTCTTTTTCTTTCTT-TC-TTT
1 C-TTTTCTTTCTTTCTTCTACTTTCATTTTCTTTCTTCTCATTT
72665173 C-TTTCTTTCTTTCTT
1 CTTTTCTTTCTTTCTT
72665188 TCTTTCTTCT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
40 14 0.26
42 5 0.09
43 6 0.11
44 28 0.53
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (43 bp):
CTTTTCTTTCTTTCTTCTACTTTCATTTTCTTTCTTCTCATTT
Found at i:72665207 original size:11 final size:10
Alignment explanation
Indices: 72665084--72665213 Score: 67
Period size: 10 Copynumber: 12.9 Consensus size: 10
72665074 CCTCTTCTTA
72665084 TTCTCCTTT-
1 TTCTCCTTTC
*
72665093 TT-TTCTTTC
1 TTCTCCTTTC
*
72665102 TTCTACTTTC
1 TTCTCCTTTC
*
72665112 ATT-TTCTTTC
1 -TTCTCCTTTC
*
72665122 TTCTCATTTC
1 TTCTCCTTTC
*
72665132 ATTTTCTTTCTTTC
1 ---TTC-TCCTTTC
72665146 TTCTCCTTTC
1 TTCTCCTTTC
* *
72665156 TTTTTCTTTC
1 TTCTCCTTTC
72665166 TT-T-CTTTC
1 TTCTCCTTTC
72665174 TT-T-CTTTC
1 TTCTCCTTTC
*
72665182 TTTCTTTCTTTC
1 -TTC-TCCTTTC
72665194 TTCTCCTTTCC
1 TTCTCCTTT-C
72665205 TTCTCCTTT
1 TTCTCCTTT
72665214 TCATCTCCAC
Statistics
Matches: 97, Mismatches: 11, Indels: 24
0.73 0.08 0.18
Matches are distributed among these distances:
8 18 0.19
9 9 0.09
10 38 0.39
11 19 0.20
12 5 0.05
13 3 0.03
14 5 0.05
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.68
Consensus pattern (10 bp):
TTCTCCTTTC
Found at i:72666517 original size:69 final size:69
Alignment explanation
Indices: 72666441--72666620 Score: 209
Period size: 69 Copynumber: 2.6 Consensus size: 69
72666431 GCAACCTTAG
* * * * *
72666441 AAATAGTTGGCGCGAGCTCAAGCTCCCAGCTGTCATTTTAAGCTTGCAGGTTCAACACCACATCC
1 AAATAGTTAGCGCGAGCTCAAGCTCCTAGCTGTAATCTTAAGCTTGCAGGTTCAACACCACAACC
*
72666506 TCTA
66 TCCA
* * * * * *
72666510 AAATAGTTAGTGCGAGCTTAAGCTCCTAACTGTAATCTTAGGCTTGTAGGTTCAACACCGCAACC
1 AAATAGTTAGCGCGAGCTCAAGCTCCTAGCTGTAATCTTAAGCTTGCAGGTTCAACACCACAACC
72666575 TCCA
66 TCCA
* * *
72666579 ACACT-GTTAGCGCGAACTCAAGCTCCTAGCTGCAATCTTAAG
1 A-AATAGTTAGCGCGAGCTCAAGCTCCTAGCTGTAATCTTAAG
72666621 GCTCGTTATT
Statistics
Matches: 91, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
69 89 0.98
70 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (69 bp):
AAATAGTTAGCGCGAGCTCAAGCTCCTAGCTGTAATCTTAAGCTTGCAGGTTCAACACCACAACC
TCCA
Found at i:72666675 original size:31 final size:32
Alignment explanation
Indices: 72666640--72666715 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
72666630 TTGAGTTAGT
* * * *
72666640 TGATTTAAGATCACAGCTTC-ACATAGCTCGC
1 TGATTTAAGATCACAACCTCTAAACAGCTCGC
*
72666671 TGATTTAAGATCGCAACCTCTAAACAGCTCGC
1 TGATTTAAGATCACAACCTCTAAACAGCTCGC
72666703 TGATTTAAGATCA
1 TGATTTAAGATCA
72666716 AAACTGATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
31 17 0.45
32 21 0.55
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (32 bp):
TGATTTAAGATCACAACCTCTAAACAGCTCGC
Found at i:72667658 original size:15 final size:15
Alignment explanation
Indices: 72667638--72667670 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
72667628 AAAATAGACT
72667638 TAAGTTAGTCATTTA
1 TAAGTTAGTCATTTA
72667653 TAAGTTAGTCATTTA
1 TAAGTTAGTCATTTA
72667668 TAA
1 TAA
72667671 CTATGAGCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (15 bp):
TAAGTTAGTCATTTA
Found at i:72672997 original size:21 final size:21
Alignment explanation
Indices: 72672973--72673019 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
72672963 TTTGTTTTAA
72672973 CTTTTTTTTTTCAACTCATTT
1 CTTTTTTTTTTCAACTCATTT
72672994 CTTTTTTTTTTCAACTCATTT
1 CTTTTTTTTTTCAACTCATTT
72673015 -TTTTT
1 CTTTTT
72673020 GTCAAGCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (21 bp):
CTTTTTTTTTTCAACTCATTT
Found at i:72678551 original size:23 final size:25
Alignment explanation
Indices: 72678502--72678573 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
72678492 ATACACGCAT
72678502 TGTTTTTATATAATATATATATGCA
1 TGTTTTTATATAATATATATATGCA
* * *
72678527 TGTTTTTATATAGTATA-CTCT-CA
1 TGTTTTTATATAATATATATATGCA
*
72678550 TGGTTTTTTTTATAATATATATAT
1 T-G-TTTTTATATAATATATATAT
72678574 ATGTATCTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 3 0.08
24 3 0.08
25 29 0.78
26 2 0.05
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.56
Consensus pattern (25 bp):
TGTTTTTATATAATATATATATGCA
Found at i:72678584 original size:25 final size:24
Alignment explanation
Indices: 72678504--72678596 Score: 71
Period size: 25 Copynumber: 3.6 Consensus size: 24
72678494 ACACGCATTG
* *
72678504 TTTTTATATAATATATATATGCATG
1 TTTTTATAT-ATATATATATGTATC
* *
72678529 TTTTTATATAGTATACTCTCATGGT-TT
1 TTTTTATATA-TATA-TAT-AT-GTATC
72678556 TTTTTATAATATATATATATGTATC
1 TTTTTAT-ATATATATATATGTATC
*
72678581 TTTTTATGTAGTATAT
1 TTTTTATATA-TATAT
72678597 GTATACCTGT
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
24 5 0.09
25 28 0.51
26 4 0.07
27 14 0.25
28 4 0.07
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (24 bp):
TTTTTATATATATATATATGTATC
Found at i:72682117 original size:15 final size:16
Alignment explanation
Indices: 72682097--72682127 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
72682087 AAGAAGATTA
72682097 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
72682112 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
72682128 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:72682161 original size:26 final size:28
Alignment explanation
Indices: 72682132--72682188 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
72682122 ATTATTAAAA
*
72682132 TAAAAT-TAAAATAT-TTAGCAATTTAT
1 TAAAATATAAAATATATTAACAATTTAT
*
72682158 TAAAATAATAAACTATATTAACAATTTAT
1 TAAAAT-ATAAAATATATTAACAATTTAT
72682187 TA
1 TA
72682189 TATTTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.23
28 7 0.27
29 13 0.50
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (28 bp):
TAAAATATAAAATATATTAACAATTTAT
Found at i:72682252 original size:148 final size:148
Alignment explanation
Indices: 72682072--72682341 Score: 459
Period size: 148 Copynumber: 1.8 Consensus size: 148
72682062 AAATTTTTTA
*
72682072 TTTTAATAATGTGTAAAGAAGATTATTTAAAATTATTATTTTTAAAATTTATTATTAAAATAAAA
1 TTTTAATAATATGTAAAGAAGATTATTTAAAATTATTATTTTTAAAATTTATTATTAAAATAAAA
*
72682137 TTAAAATATTTAGCAATTTATTAAAATAATAAACTATATTAACAATTTATTATATTTATTATTAA
66 TTAAAATATTAAGCAATTTATTAAAATAATAAACTATATTAACAATTTATTATATTTATTATTAA
72682202 AATATTATTATTGAATAT
131 AATATTATTATTGAATAT
* *
72682220 TTTTAATAATATGTGAAGAAGATTATTTAAAATTATTTTTTTTAAAATTTATTATTAAAATAAAA
1 TTTTAATAATATGTAAAGAAGATTATTTAAAATTATTATTTTTAAAATTTATTATTAAAATAAAA
* * ** *
72682285 TTGAAATATTAAGTAATTTATTAAAATAATAATTTATATTAATAATTTATTATATTT
66 TTAAAATATTAAGCAATTTATTAAAATAATAAACTATATTAACAATTTATTATATTT
72682342 GGTAAGTCTT
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
148 113 1.00
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (148 bp):
TTTTAATAATATGTAAAGAAGATTATTTAAAATTATTATTTTTAAAATTTATTATTAAAATAAAA
TTAAAATATTAAGCAATTTATTAAAATAATAAACTATATTAACAATTTATTATATTTATTATTAA
AATATTATTATTGAATAT
Found at i:72682337 original size:16 final size:16
Alignment explanation
Indices: 72682290--72682340 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 16
72682280 TAAAATTGAA
72682290 ATATTAAGTAATTTATT
1 ATATTAA-TAATTTATT
* *
72682307 AAAATAATAA--T-TT
1 ATATTAATAATTTATT
72682320 ATATTAATAATTTATT
1 ATATTAATAATTTATT
72682336 ATATT
1 ATATT
72682341 TGGTAAGTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
13 10 0.37
14 1 0.04
15 1 0.04
16 10 0.37
17 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:72683574 original size:11 final size:11
Alignment explanation
Indices: 72683559--72683607 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
72683549 GTTTTCTCCA
72683559 TATTTTACTAT
1 TATTTTACTAT
* *
72683570 CATTTCACTAT
1 TATTTTACTAT
*
72683581 TATATTACTAT
1 TATTTTACTAT
72683592 TATTTTA-TCAT
1 TATTTTACT-AT
72683603 TATTT
1 TATTT
72683608 GAATATTGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
10 1 0.03
11 30 0.97
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTTTACTAT
Found at i:72688923 original size:31 final size:32
Alignment explanation
Indices: 72688878--72688945 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 32
72688868 TCATTTAATA
*
72688878 TTAAAGTTTGATTTT-GATGTTCGATTTGGTAC
1 TTAAAGTTTAATTTTAG-TGTTCGATTTGGTAC
72688910 TTAAA-TTTAATTTTAGTGTTCGATTTGGTAC
1 TTAAAGTTTAATTTTAGTGTTCGATTTGGTAC
72688941 TTAAA
1 TTAAA
72688946 CGAAAAGTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 28 0.82
32 6 0.18
ACGTcount: A:0.26, C:0.06, G:0.18, T:0.50
Consensus pattern (32 bp):
TTAAAGTTTAATTTTAGTGTTCGATTTGGTAC
Found at i:72694342 original size:31 final size:29
Alignment explanation
Indices: 72694304--72694378 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
72694294 AACGGCTCAA
* *
72694304 TGACTAAAATGTTACAACATGATAACATAAG
1 TGACTAAAATGTAAC-ACATCA-AACATAAG
* **
72694335 TGACTAAAACGTAACATTTCAAACATAAG
1 TGACTAAAATGTAACACATCAAACATAAG
72694364 TGACTAAAATGTAAC
1 TGACTAAAATGTAAC
72694379 CTAAGCCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 22 0.58
30 3 0.08
31 13 0.34
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.25
Consensus pattern (29 bp):
TGACTAAAATGTAACACATCAAACATAAG
Found at i:72699385 original size:292 final size:293
Alignment explanation
Indices: 72698854--72699404 Score: 851
Period size: 292 Copynumber: 1.9 Consensus size: 293
72698844 CCAAACCTCT
*
72698854 TAACAAGAACAAAGGCTCCATCAATGGTTCTGAGTTTTGAAACCATCCTATCAATACATAAGAAC
1 TAACAAGAACAAAGGCTCCAGCAATGGTTCTGAGTTTTGAAACCATCCTATCAATACATAAGAAC
*
72698919 CAATATAAATGAGGATCCAATGAGCTTTTATTAGATTTGTCATGCACACACTTCATACTAAATAG
66 CAATACAAATGAGGATCCAATGAGCTTTTATTAGATTTGTCATGCACACACTTCATACTAAATAG
* * ** * *
72698984 AAATGGAAGTATTGGAACAAATGTTTTCATGGCATCGGTTTAGAGTTCTCACCTATGTTGCTCTG
131 AAATGGAAGCACTGGAACAAATGTTTTCATACCATCGGGTCAGAGTTCTCACCTATGTTGCTCTG
* * *
72699049 AGTCTTGATTTTTCTTCAACTATCCATGTTTGACATATATCTGAACAAAAATACAAGGATATGAA
196 AGTCTTCATTTTTCTTCAACTATCCATGTCTGACATACATCTGAACAAAAATACAAGGATATGAA
72699114 AGCATACTCATATATACTAACACTCGAACTTCC
261 AGCATACTCATATATACTAACACTCGAACTTCC
72699147 TAACAAGAACACAA-GCTCCAGCAATGGTT-TGAGTTCTTGAAACCATCCTATCAATACATAAGA
1 TAACAAGAACA-AAGGCTCCAGCAATGGTTCTGAGTT-TTGAAACCATCCTATCAATACATAAGA
*
72699210 ACCAA-AGCAAATGAGGATCCAATGAGCTTTTATTTGATTTGTCATGCA-ACACTTCATACTAAA
64 ACCAATA-CAAATGAGGATCCAATGAGCTTTTATTAGATTTGTCATGCACACACTTCATACTAAA
* * * *
72699273 TAGAAATGTAAGCACTGTAAGAGATGTTTTCATACCATCGGGTCAGAGTTCTCACCTATGTTGCT
128 TAGAAATGGAAGCACTGGAACAAATGTTTTCATACCATCGGGTCAGAGTTCTCACCTATGTTGCT
* * * *
72699338 -TCGAGTCTTCATTTTTCTTTAACTATCCATGTCTGACATACATCTGAACACAAATACGATGATA
193 CT-GAGTCTTCATTTTTCTTCAACTATCCATGTCTGACATACATCTGAACAAAAATACAAGGATA
72699402 TGA
257 TGA
72699405 GTCTCTAAAT
Statistics
Matches: 234, Mismatches: 20, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
291 1 0.00
292 135 0.58
293 96 0.41
294 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (293 bp):
TAACAAGAACAAAGGCTCCAGCAATGGTTCTGAGTTTTGAAACCATCCTATCAATACATAAGAAC
CAATACAAATGAGGATCCAATGAGCTTTTATTAGATTTGTCATGCACACACTTCATACTAAATAG
AAATGGAAGCACTGGAACAAATGTTTTCATACCATCGGGTCAGAGTTCTCACCTATGTTGCTCTG
AGTCTTCATTTTTCTTCAACTATCCATGTCTGACATACATCTGAACAAAAATACAAGGATATGAA
AGCATACTCATATATACTAACACTCGAACTTCC
Found at i:72700661 original size:3 final size:3
Alignment explanation
Indices: 72700653--72700699 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
72700643 CTGAAGAGAA
72700653 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AG
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AG
72700700 ACATGTCAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (3 bp):
AGT
Found at i:72704699 original size:17 final size:16
Alignment explanation
Indices: 72704672--72704709 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
72704662 GTTAATGAAT
72704672 AAAAA-ACAAACAAAC
1 AAAAATACAAACAAAC
72704687 AATAAATACAAACAAAC
1 AA-AAATACAAACAAAC
72704704 AAAAAT
1 AAAAAT
72704710 TTTGTTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.10
16 7 0.33
17 12 0.57
ACGTcount: A:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (16 bp):
AAAAATACAAACAAAC
Found at i:72718428 original size:12 final size:12
Alignment explanation
Indices: 72718411--72718437 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
72718401 TATTAAGTAT
72718411 ATAATTTTTTAA
1 ATAATTTTTTAA
72718423 ATAATTTTTTAA
1 ATAATTTTTTAA
72718435 ATA
1 ATA
72718438 TATAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATAATTTTTTAA
Found at i:72718546 original size:6 final size:7
Alignment explanation
Indices: 72718528--72718552 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
72718518 ATGAATTTAT
72718528 TAAAAAA
1 TAAAAAA
72718535 TAAAAAA
1 TAAAAAA
72718542 TAAAAAA
1 TAAAAAA
72718549 TAAA
1 TAAA
72718553 TTTCTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:72726682 original size:20 final size:21
Alignment explanation
Indices: 72726631--72726684 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
72726621 AATATTATTT
* *
72726631 AAAATTATAATTAAATTATTAA
1 AAAATTAT-ATTAAAATATAAA
*
72726653 ATAATT-TATTAAAATA-AAA
1 AAAATTATATTAAAATATAAA
72726672 AAAATTATATTAA
1 AAAATTATATTAA
72726685 TAATTTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 7 0.26
20 14 0.52
21 1 0.04
22 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAATTATATTAAAATATAAA
Found at i:72727977 original size:18 final size:19
Alignment explanation
Indices: 72727945--72727985 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
72727935 AAATGTCTAA
72727945 AATAATAACAAAGTTA-AT
1 AATAATAACAAAGTTATAT
72727963 AATAA-AACAAGAGTTATAT
1 AATAATAACAA-AGTTATAT
72727982 AATA
1 AATA
72727986 TCAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 10 0.48
19 6 0.29
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (19 bp):
AATAATAACAAAGTTATAT
Found at i:72731407 original size:18 final size:18
Alignment explanation
Indices: 72731384--72731418 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
72731374 CATTGTTGGG
*
72731384 TTATTCTATTCAGTCATA
1 TTATTCTATTCACTCATA
72731402 TTATTCTATTCACTCAT
1 TTATTCTATTCACTCAT
72731419 CAGTTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.20, G:0.03, T:0.51
Consensus pattern (18 bp):
TTATTCTATTCACTCATA
Found at i:72737564 original size:200 final size:199
Alignment explanation
Indices: 72737216--72737742 Score: 725
Period size: 200 Copynumber: 2.6 Consensus size: 199
72737206 GAGTCTTCAT
* * * * *
72737216 TTTTAATGAAATACATTTGT-CTGAAACATATTTGAACACGGGTATCTAACGCTTAGACCCAAGT
1 TTTTCATGAAATACATTTGTCCT-ATACATATTCGAACAC-GGTATCTAACACTTAGACCCAAAT
* * * *
72737280 CTGAGCAACATAGATATCAAGCACTAGATTCATAGCAACTAGGCAAAGCAATCAACCTAGAAGGG
64 CCGAGCAATATAGATATCAAGCACTAGATTCATAGCAACTAGGCCAAGCAATCAACCTAGAAAGG
* * * **
72737345 ATTTCACTCCTTTTCCTTAGTAATCACTACTCAACCTATTGTTAATATCAAAGATTGCTAAGACT
129 ATTTCACTCCTTTTCCTTAGTAATCACAACTCAACCTATAGTTAACATCAAAGATAACTAAGACT
72737410 CTTTGA
194 CTTTGA
* * *
72737416 TTTTCATGAAATACATTTGTCCTATACAAATTCAAACACAGGTATCTAAAACTTAGACCCAAATC
1 TTTTCATGAAATACATTTGTCCTATACATATTCGAACAC-GGTATCTAACACTTAGACCCAAATC
* * * *
72737481 CGAGCAATACAGATATCAAGCACAAGATTCATGGCAACTAGGCCAAGCAATCCACCTAGAAAGGA
65 CGAGCAATATAGATATCAAGCACTAGATTCATAGCAACTAGGCCAAGCAATCAACCTAGAAAGGA
* * **
72737546 TTTCACTCCTTTTCCTTAGTAATCACAACTCACCCTATAGTTAACATCATAGATAACTCTGACTC
130 TTTCACTCCTTTTCCTTAGTAATCACAACTCAACCTATAGTTAACATCAAAGATAACTAAGACTC
*
72737611 TTTGG
195 TTTGA
*
72737616 TTTTCATGAAATACATTTGTCCTATACATATTCGAACACGAGTATCTAACACTTAGACCCAAATA
1 TTTTCATGAAATACATTTGTCCTATACATATTCGAACACG-GTATCTAACACTTAGACCCAAATC
* * *
72737681 CAAGCAATATAGATATCAAACACTAGATTCGA-AACAACTAGGCCAAGCAATCAACCTAGAAA
65 CGAGCAATATAGATATCAAGCACTAGATTC-ATAGCAACTAGGCCAAGCAATCAACCTAGAAA
72737743 TCCTATAATT
Statistics
Matches: 286, Mismatches: 38, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
199 1 0.00
200 282 0.99
201 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (199 bp):
TTTTCATGAAATACATTTGTCCTATACATATTCGAACACGGTATCTAACACTTAGACCCAAATCC
GAGCAATATAGATATCAAGCACTAGATTCATAGCAACTAGGCCAAGCAATCAACCTAGAAAGGAT
TTCACTCCTTTTCCTTAGTAATCACAACTCAACCTATAGTTAACATCAAAGATAACTAAGACTCT
TTGA
Found at i:72739768 original size:26 final size:26
Alignment explanation
Indices: 72739715--72739768 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
72739705 TCATAATAGT
*
72739715 TTATAAATTATTTTAATATTATTTTA
1 TTATAAATTATTTTAATATTATTATA
72739741 TTATAAGA-TATTTTAATATT-TTAATA
1 TTATAA-ATTATTTTAATATTATT-ATA
72739767 TT
1 TT
72739769 TTAATTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 2 0.08
26 22 0.88
27 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (26 bp):
TTATAAATTATTTTAATATTATTATA
Found at i:72746236 original size:23 final size:22
Alignment explanation
Indices: 72746176--72746236 Score: 52
Period size: 23 Copynumber: 2.7 Consensus size: 22
72746166 GCCAAATTAG
*
72746176 AATAAAGTTAATATTTGCTTTT
1 AATAAAGTTAATATTTACTTTT
* ** *
72746198 AAAAAAAAT-ATCATTTATTGTTT
1 AATAAAGTTAAT-ATTTACT-TTT
72746221 AATAAAGTTAATATTT
1 AATAAAGTTAATATTT
72746237 TTAAAGTTTT
Statistics
Matches: 28, Mismatches: 8, Indels: 5
0.68 0.20 0.12
Matches are distributed among these distances:
21 2 0.07
22 11 0.39
23 13 0.46
24 2 0.07
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (22 bp):
AATAAAGTTAATATTTACTTTT
Found at i:72746914 original size:7 final size:7
Alignment explanation
Indices: 72746902--72746927 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
72746892 TGGTAAGGAC
72746902 TAAAATT
1 TAAAATT
72746909 TAAAATT
1 TAAAATT
72746916 TAAAATT
1 TAAAATT
72746923 TAAAA
1 TAAAA
72746928 AAACAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
TAAAATT
Found at i:72752832 original size:13 final size:13
Alignment explanation
Indices: 72752814--72752841 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
72752804 TGGGGCTACT
72752814 CATTGTGATGCTA
1 CATTGTGATGCTA
72752827 CATTGTGATGCTA
1 CATTGTGATGCTA
72752840 CA
1 CA
72752842 ATCTATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (13 bp):
CATTGTGATGCTA
Found at i:72771902 original size:67 final size:67
Alignment explanation
Indices: 72771794--72771931 Score: 276
Period size: 67 Copynumber: 2.1 Consensus size: 67
72771784 AAGGTTGCCT
72771794 TATTTCACTCTATTTATAACACATGAAAGTATGATTTTCCATGTATATTGCAGATACCATCTGCT
1 TATTTCACTCTATTTATAACACATGAAAGTATGATTTTCCATGTATATTGCAGATACCATCTGCT
72771859 CA
66 CA
72771861 TATTTCACTCTATTTATAACACATGAAAGTATGATTTTCCATGTATATTGCAGATACCATCTGCT
1 TATTTCACTCTATTTATAACACATGAAAGTATGATTTTCCATGTATATTGCAGATACCATCTGCT
72771926 CA
66 CA
72771928 TATT
1 TATT
72771932 GACCAGTATA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 71 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (67 bp):
TATTTCACTCTATTTATAACACATGAAAGTATGATTTTCCATGTATATTGCAGATACCATCTGCT
CA
Found at i:72773869 original size:48 final size:48
Alignment explanation
Indices: 72773813--72773910 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
72773803 TTAGTAGTAG
72773813 AAGTTGATGAATTTTTTAATAAGAATGACTAATTTACTCTTTTAATCT
1 AAGTTGATGAATTTTTTAATAAGAATGACTAATTTACTCTTTTAATCT
72773861 AAGTTGATGAATTTTTTAATAAGAATGACTAATTTACTCTTTTAATCT
1 AAGTTGATGAATTTTTTAATAAGAATGACTAATTTACTCTTTTAATCT
72773909 AA
1 AA
72773911 TATACAAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (48 bp):
AAGTTGATGAATTTTTTAATAAGAATGACTAATTTACTCTTTTAATCT
Found at i:72773894 original size:21 final size:21
Alignment explanation
Indices: 72773822--72773895 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
72773812 GAAGTTGATG
72773822 AATTTTTTAATAAGAATGACT
1 AATTTTTTAATAAGAATGACT
*
72773843 AATTTACTCTTTTAATCTAAG-TTGA-T
1 AA--T--T-TTTTAA--TAAGAATGACT
72773869 GAATTTTTTAATAAGAATGACT
1 -AATTTTTTAATAAGAATGACT
72773891 AATTT
1 AATTT
72773896 ACTCTTTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 20
0.65 0.03 0.32
Matches are distributed among these distances:
20 4 0.10
21 10 0.24
22 7 0.17
23 2 0.05
25 2 0.05
26 7 0.17
27 5 0.12
28 4 0.10
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (21 bp):
AATTTTTTAATAAGAATGACT
Found at i:72774035 original size:14 final size:14
Alignment explanation
Indices: 72774016--72774043 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
72774006 ATCATTAGTT
72774016 TTACTAAGTGGTAC
1 TTACTAAGTGGTAC
72774030 TTACTAAGTGGTAC
1 TTACTAAGTGGTAC
72774044 ATTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (14 bp):
TTACTAAGTGGTAC
Found at i:72778279 original size:92 final size:93
Alignment explanation
Indices: 72778163--72778357 Score: 365
Period size: 92 Copynumber: 2.1 Consensus size: 93
72778153 AAATTTTTAT
72778163 AATATTACTCGTATTTAAGTGTGAGTATTTGATATAGATATATATTTCAACACGAGTATATTCAA
1 AATATT-CTCGTATTTAAGTGTGAGTATTTGATATAGATATATATTTCAACACGAGTATATTCAA
72778228 TCTCTTGATAAG-TTTTTTTACGTATTTG
65 TCTCTTGATAAGTTTTTTTTACGTATTTG
72778256 AATATTCTCGTATTTAAGTGTGAGTATTTGATATAGATATATATTTCAACACGAGTATATTCAAT
1 AATATTCTCGTATTTAAGTGTGAGTATTTGATATAGATATATATTTCAACACGAGTATATTCAAT
*
72778321 CTCTTGGTAAGTTTTTTTTACGTATTTG
66 CTCTTGATAAGTTTTTTTTACGTATTTG
72778349 AATATTCTC
1 AATATTCTC
72778358 ATATCCATGT
Statistics
Matches: 100, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
92 69 0.69
93 31 0.31
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (93 bp):
AATATTCTCGTATTTAAGTGTGAGTATTTGATATAGATATATATTTCAACACGAGTATATTCAAT
CTCTTGATAAGTTTTTTTTACGTATTTG
Found at i:72788085 original size:32 final size:32
Alignment explanation
Indices: 72788049--72788113 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
72788039 TTTAATAGAG
72788049 ATAATATATATTTGATAAGATAGAGATAATAT
1 ATAATATATATTTGATAAGATAGAGATAATAT
72788081 ATAATATATATTTGATAAGATAGAGATAATAT
1 ATAATATATATTTGATAAGATAGAGATAATAT
72788113 A
1 A
72788114 CTTTAAGACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (32 bp):
ATAATATATATTTGATAAGATAGAGATAATAT
Found at i:72789342 original size:23 final size:21
Alignment explanation
Indices: 72789316--72789379 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
72789306 CTTAAATGTT
72789316 AATGGTCAAATTTGACTCAAATA
1 AATGGTCAAATTTGACT-AAA-A
*
72789339 AAT-GTCAAATTTAACTAAAA
1 AATGGTCAAATTTGACTAAAA
* *
72789359 AATAGGGCAAAATTGAC-AAAA
1 AAT-GGTCAAATTTGACTAAAA
72789380 TTTTTTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 4 0.11
21 7 0.20
22 21 0.60
23 3 0.09
ACGTcount: A:0.52, C:0.11, G:0.12, T:0.25
Consensus pattern (21 bp):
AATGGTCAAATTTGACTAAAA
Found at i:72790598 original size:18 final size:19
Alignment explanation
Indices: 72790575--72790610 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
72790565 TTATAATTTT
72790575 TTTAATAAATTT-ATTTCC
1 TTTAATAAATTTAATTTCC
*
72790593 TTTAATAATTTTAATTTC
1 TTTAATAAATTTAATTTC
72790611 AATTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTAATAAATTTAATTTCC
Found at i:72791394 original size:15 final size:16
Alignment explanation
Indices: 72791369--72791398 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
72791359 TTTTAAACCC
72791369 AAAATATAAAAAAAAT
1 AAAATATAAAAAAAAT
72791385 AAAA-ATAAAAAAAA
1 AAAATATAAAAAAAA
72791399 ACCTCAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAATATAAAAAAAAT
Found at i:72792807 original size:167 final size:167
Alignment explanation
Indices: 72792531--72792940 Score: 633
Period size: 167 Copynumber: 2.4 Consensus size: 167
72792521 AATGGACCAA
* *
72792531 AGTTAATTAGAACGAGGAATAAAACCATGAAACAAAGCAAACACAATATACAAACATGACACAAG
1 AGTTAATTAGAACGAGGAATAAGACCATGAAACAAAGCAAACACAACATACAAACATGACACAAG
* * * *
72792596 TTTATTTTGCTAAAATAAAATGCAACAGCCAATGTTTTCGAGATGTCTTCGATGGTTCTAACAGC
66 TTTGTTTTGCTAAAACAAAATGCAACAGCCAATGTTTTCGAGATGTCTTCAAGGGTTCTAACAGC
72792661 AGCTATTGTGAACTTACAAAATTTCTCCATAAACACT
131 AGCTATTGTGAACTTACAAAATTTCTCCATAAACACT
* * *
72792698 AGTTAATTAGAACAAGGAATAAGACCATGAAACAAAGCAAACACAACATGCAAACATGATACAAG
1 AGTTAATTAGAACGAGGAATAAGACCATGAAACAAAGCAAACACAACATACAAACATGACACAAG
** * *
72792763 TTTGTTTTGCTAAAACCGAGTGCAACAGCCAATGTTTTCGAGATGTCTTCAAGGGTTTTAACAGC
66 TTTGTTTTGCTAAAACAAAATGCAACAGCCAATGTTTTCGAGATGTCTTCAAGGGTTCTAACAGC
72792828 AGCTATTGTGAACTTACAAAATTTCTCCATAAACACT
131 AGCTATTGTGAACTTACAAAATTTCTCCATAAACACT
* *
72792865 AGATAATTAGAATGAGGAA-AAGGACCATGAAACAAAGGTTGCAAACACAACATACAAACATGAC
1 AGTTAATTAGAACGAGGAATAA-GACCATGAAACAAA----GCAAACACAACATACAAACATGAC
72792929 ACAAGTTTGTTT
61 ACAAGTTTGTTT
72792941 CACTAAAATC
Statistics
Matches: 220, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
166 2 0.01
167 184 0.84
171 34 0.15
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.25
Consensus pattern (167 bp):
AGTTAATTAGAACGAGGAATAAGACCATGAAACAAAGCAAACACAACATACAAACATGACACAAG
TTTGTTTTGCTAAAACAAAATGCAACAGCCAATGTTTTCGAGATGTCTTCAAGGGTTCTAACAGC
AGCTATTGTGAACTTACAAAATTTCTCCATAAACACT
Found at i:72799608 original size:13 final size:12
Alignment explanation
Indices: 72799590--72799630 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
72799580 TCTAATCTCC
*
72799590 TTTTTATCTTTT
1 TTTTTATATTTT
72799602 ATTTTTATATTTT
1 -TTTTTATATTTT
72799615 TTTTCTATATTTT
1 TTTT-TATATTTT
72799628 TTT
1 TTT
72799631 CCCACAAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 4 0.15
13 22 0.85
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTATATTTT
Found at i:72806063 original size:22 final size:22
Alignment explanation
Indices: 72806037--72806081 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
72806027 TAGTGGCGAG
** *
72806037 ATATAATAAGTAATAAATAAAT
1 ATATAATAAACAATAAAAAAAT
*
72806059 ATATATTAAACAATAAAAAAAT
1 ATATAATAAACAATAAAAAAAT
72806081 A
1 A
72806082 GAAAAATTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
ATATAATAAACAATAAAAAAAT
Found at i:72815243 original size:191 final size:191
Alignment explanation
Indices: 72814861--72815568 Score: 851
Period size: 191 Copynumber: 3.7 Consensus size: 191
72814851 CAAATGAGCA
* * * *
72814861 AAGCACATTGCTATACCGACATAACA-CTCTCTAGAAAAGAATGTTTAGAACCTAGAAACCGATG
1 AAGCACGTTG-TATACCGACGTAACACCT-TCTAGAAAAGAATGTTTAGAACC-GGAAACCAATG
* *** * *
72814925 TCTTTACGAGTAGCAG-TGTGAATTCATGAC-TTGTATGCTTTTATAATGACATGTTTTTGATGT
63 TCTTTACGAGTAG-AGATGTGAATTCGTGACGACATATGCTTTTATAATGAAATGTTTTCGATGT
* * * **
72814988 CTAGAGCATCCTTTTGATCGAAACCATATTCATGTTCAACTGCATATTATGAACTTGAATGAATG
127 CTAGAGCACCCTTTTGATTGAAGCCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATG
* * *
72815053 AAGCATGTTGCTATACAGACGTAACACCTTCTAGAAAAGAATGTTTAGAACCGAGAAATCAATGT
1 AAGCACGTTG-TATACCGACGTAACACCTTCTAGAAAAGAATGTTTAGAACCG-GAAACCAATGT
* * *
72815118 CTTTATGAGCAGAGATGTGAA-TC-TG-CGACATATGCATTTATAATGAAATGTTTTCGATGTCT
64 CTTTACGAGTAGAGATGTGAATTCGTGACGACATATGCTTTTATAATGAAATGTTTTCGATGTCT
*
72815180 AGAGCACCCCTTTTGATTGAAGCCATATTCATGTTCTGCTGCATATTATGAATTTGAATGAATG
129 AGAGCA-CCCTTTTGATTGAAGCCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATG
* * * * * * ** * *
72815244 AAACACATTGTATACTGGCGTAACACCCTATATTAAAGAATGTTTAGAACCCGGAAAACGATGTC
1 AAGCACGTTGTATACCGACGTAACACCTTCTAGAAAAGAATGTTTAGAA-CCGGAAACCAATGTC
*
72815309 TTTACGAATAG-GTATGTGAATTCGTGACG-CATATGCTTTTATAATGAAATGTTTTC-AGTGTC
65 TTTACGAGTAGAG-ATGTGAATTCGTGACGACATATGCTTTTATAATGAAATGTTTTCGA-TGTC
* *
72815371 TAGAGCACCCTTTTGATTGCAGTCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATG
128 TAGAGCACCCTTTTGATTGAAGCCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATG
* * * *
72815435 AAGAACGTTGTATGCCGACGTAACACCGTCTAGAAAAGAATGTTTAGAACCTGGAACCCAATGTC
1 AAGCACGTTGTATACCGACGTAACACCTTCTAGAAAAGAATGTTTAGAACC-GGAAACCAATGTC
* * * *
72815500 TTTATGAGTAGCGATGTGAATTCGTGAC-TCATATGCTTTTATACTGAAATGTTTTCGATGTCTA
65 TTTACGAGTAGAGATGTGAATTCGTGACGACATATGCTTTTATAATGAAATGTTTTCGATGTCTA
*
72815564 AAGCA
130 GAGCA
72815569 ATTATGAACT
Statistics
Matches: 445, Mismatches: 56, Indels: 31
0.84 0.11 0.06
Matches are distributed among these distances:
189 2 0.00
190 97 0.22
191 231 0.52
192 111 0.25
193 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (191 bp):
AAGCACGTTGTATACCGACGTAACACCTTCTAGAAAAGAATGTTTAGAACCGGAAACCAATGTCT
TTACGAGTAGAGATGTGAATTCGTGACGACATATGCTTTTATAATGAAATGTTTTCGATGTCTAG
AGCACCCTTTTGATTGAAGCCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATG
Found at i:72815633 original size:155 final size:154
Alignment explanation
Indices: 72815415--72815718 Score: 407
Period size: 155 Copynumber: 2.0 Consensus size: 154
72815405 TCTGCTGCAT
* *
72815415 ATTATGAACTTGAATGAATGAAGAACGTTGTATGCCGACGTAACACCGTCTAGAAAAGAATGTTT
1 ATTATGAACTTGAATGAATGAAGAACGTTGTATACCGACGTAACACCCTCTAGAAAAGAATGTTT
* * ** * *
72815480 AGAAC-CTGGAACCCAATGTCTTTATGAGTAGCGATGTGAATTCGTGACTCATATGCTTTTATAC
66 AGAACTC-GGAAACCAATATCTTTACAAGTAGCGATGTGAATTCGTGACTCATATGCATTTATAA
72815544 TGAAATGTTTTCGATGTCTAAAGCA
130 TGAAATGTTTTCGATGTCTAAAGCA
* *
72815569 ATTATGAACTTGAATGAATGAAGCACATCGTT-TA-ACCGATGTAACACCCTCTAGAAAGGAATG
1 ATTATGAACTTGAATGAATGAAG-A-A-CGTTGTATACCGACGTAACACCCTCTAGAAAAGAATG
* * **
72815632 TTTAGAATTCGGAAACCAATATCTTTACAAGTAGCGGTGTGAATTCGTGACTTTTATGCATTTAT
63 TTTAGAACTCGGAAACCAATATCTTTACAAGTAGCGATGTGAATTCGTGACTCATATGCATTTAT
**
72815697 AATGAAATGTTTTTTATGTCTA
128 AATGAAATGTTTTCGATGTCTA
72815719 GTGCACCCCT
Statistics
Matches: 130, Mismatches: 16, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
154 23 0.18
155 99 0.76
156 4 0.03
157 4 0.03
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (154 bp):
ATTATGAACTTGAATGAATGAAGAACGTTGTATACCGACGTAACACCCTCTAGAAAAGAATGTTT
AGAACTCGGAAACCAATATCTTTACAAGTAGCGATGTGAATTCGTGACTCATATGCATTTATAAT
GAAATGTTTTCGATGTCTAAAGCA
Found at i:72816015 original size:194 final size:192
Alignment explanation
Indices: 72815571--72816095 Score: 793
Period size: 194 Copynumber: 2.7 Consensus size: 192
72815561 CTAAAGCAAT
* * * *
72815571 TATGAACTTGAATGAATGAAGCACATCG-TTTAACCGATGTAACACCCTCTAGAAAGGAATGTTT
1 TATGAACTTGAATGAATGAAGCACATTGCTAT-ACCGACGTAACACCCTCTAGAAAAGAATGTTT
*
72815635 AGAATTCGGAAACCAATATCTTTACAAGTAGCGGTGTGAATTCGTGACTTTTATGCATTTATAAT
65 AGAATTCGGAAACCAATATCTTTACAAGTAGCGGTGTGAATTCGTGAC-TTTATGCTTTTATAAT
*
72815700 GAAATGTTTTTTATGTCTAGTGCACCCCTTTTGATTGAAGCCATATTCATGTTCTGCTGCATAC
129 GAAATGTTTTTTATGTATAGTGCACCCCTTTTGATTGAAGCCATATTCATGTTCTGCTGCATAC
*
72815764 TATGAACTTGAATGAATGAAGCACATTGCTGTACCGACGTAACACCCTCTAGAAAAGAATGTTTA
1 TATGAACTTGAATGAATGAAGCACATTGCTATACCGACGTAACACCCTCTAGAAAAGAATGTTTA
*
72815829 GAATTCGGAAACCAATATCTTTACAAGTAGCGGTGTGAATTCGTAACTATTATGCTTTTATAATG
66 GAATTCGGAAACCAATATCTTTACAAGTAGCGGTGTGAATTCGTGACT-TTATGCTTTTATAATG
72815894 AAATGTTTTTTATGTATAGTGCAACCCCTTTTGATTGAAGCCATATTCATGTTCTGCTGCATAC
130 AAATGTTTTTTATGTATAGTGC-ACCCCTTTTGATTGAAGCCATATTCATGTTCTGCTGCATAC
* * **
72815958 TGTGAACTTGAATGAATGAAGCACGTTGCTATACCG-CAGTAACACCCTCTAGAAAAGAGGGTTT
1 TATGAACTTGAATGAATGAAGCACATTGCTATACCGAC-GTAACACCCTCTAGAAAAGAATGTTT
* ** * * * * * *
72816022 AGAACTCAAAAACCAATGTCTTTACGAGTGGCGATATGAATCCGTGACTTATATGCTTTTATAAT
65 AGAATTCGGAAACCAATATCTTTACAAGTAGCGGTGTGAATTCGTGACTT-TATGCTTTTATAAT
72816087 GAAATGTTT
129 GAAATGTTT
72816096 CTGATGGCTA
Statistics
Matches: 305, Mismatches: 22, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
192 1 0.00
193 142 0.47
194 162 0.53
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (192 bp):
TATGAACTTGAATGAATGAAGCACATTGCTATACCGACGTAACACCCTCTAGAAAAGAATGTTTA
GAATTCGGAAACCAATATCTTTACAAGTAGCGGTGTGAATTCGTGACTTTATGCTTTTATAATGA
AATGTTTTTTATGTATAGTGCACCCCTTTTGATTGAAGCCATATTCATGTTCTGCTGCATAC
Found at i:72817418 original size:20 final size:19
Alignment explanation
Indices: 72817377--72817412 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
72817367 CTTTTTTAAT
*
72817377 TTTTATATATTTTAAATAC
1 TTTTATATATTTTAAAAAC
72817396 TTTTA-ATATTTTAAAAA
1 TTTTATATATTTTAAAAA
72817413 AACTTTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTATATATTTTAAAAAC
Found at i:72824218 original size:30 final size:31
Alignment explanation
Indices: 72824184--72824241 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
72824174 GAGCTCAATG
*
72824184 ACTTAAAT-AAAACTTTCGAATAGTTCAACA
1 ACTTAAATGAAAACTTTCAAATAGTTCAACA
* *
72824214 ACTTAGATGAAAACTTTTAAATAGTTCA
1 ACTTAAATGAAAACTTTCAAATAGTTCA
72824242 GCGATCATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.33
Consensus pattern (31 bp):
ACTTAAATGAAAACTTTCAAATAGTTCAACA
Found at i:72829729 original size:18 final size:19
Alignment explanation
Indices: 72829698--72829735 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
72829688 TCACTCTCTC
*
72829698 TATTTTTCAGTTTTT-CTT
1 TATTTTTCACTTTTTACTT
*
72829716 TATTTTTTACTTTTTACTT
1 TATTTTTCACTTTTTACTT
72829735 T
1 T
72829736 TAAAATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.13, C:0.11, G:0.03, T:0.74
Consensus pattern (19 bp):
TATTTTTCACTTTTTACTT
Found at i:72842822 original size:31 final size:30
Alignment explanation
Indices: 72842751--72842823 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
72842741 AAAAATTTTC
*
72842751 AAAA-TTTTGAAACTTTTGAAGACTCAAGT
1 AAAATTTTTAAAACTTTTGAAGACTCAAGT
* * * *
72842780 AAAATTCTTAAAACTTTTGAGAGGCTTAATT
1 AAAATTTTTAAAACTTTTGA-AGACTCAAGT
*
72842811 GAAATTTTTAAAA
1 AAAATTTTTAAAA
72842824 ATTTCAAAGG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
29 4 0.11
30 13 0.37
31 18 0.51
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.37
Consensus pattern (30 bp):
AAAATTTTTAAAACTTTTGAAGACTCAAGT
Found at i:72844106 original size:5 final size:5
Alignment explanation
Indices: 72844096--72844133 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
72844086 AACGAAAAAC
72844096 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAA
72844134 AATTCCAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AAATT
Found at i:72863150 original size:29 final size:29
Alignment explanation
Indices: 72863118--72863183 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
72863108 TTTTTAAAAA
*
72863118 AATTAAA-CCTCCAAAATTTT-AGATATTTT
1 AATTAAACCCT-CAAAATTTTGA-AAATTTT
72863147 AATTAAACCCTCAAAATTTTGAAAATTTT
1 AATTAAACCCTCAAAATTTTGAAAATTTT
72863176 AATTAAAC
1 AATTAAAC
72863184 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
29 30 0.88
30 4 0.12
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (29 bp):
AATTAAACCCTCAAAATTTTGAAAATTTT
Found at i:72863713 original size:4 final size:4
Alignment explanation
Indices: 72863704--72863738 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
72863694 TTATCATCAA
72863704 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
72863739 CATGCAACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:72867073 original size:30 final size:29
Alignment explanation
Indices: 72867037--72867106 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 29
72867027 TGAGAAATTC
*
72867037 TTTTTAAAAAATTG-AGTGGTCTAATTAAAA
1 TTTTTAAAAAATTGAAG-GCT-TAATTAAAA
*
72867067 TTTTTAAAAACTTGAAGGCTTAATTAAAA
1 TTTTTAAAAAATTGAAGGCTTAATTAAAA
72867096 TTTTCTAAAAA
1 TTTT-TAAAAA
72867107 CTTCAAGGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 13 0.36
30 21 0.58
31 2 0.06
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (29 bp):
TTTTTAAAAAATTGAAGGCTTAATTAAAA
Found at i:72867107 original size:30 final size:29
Alignment explanation
Indices: 72867058--72867114 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
72867048 TTGAGTGGTC
*
72867058 TAATTAAAATTTTTAAAAACTTGAAGGCT
1 TAATTAAAATTTTTAAAAACTTCAAGGCT
72867087 TAATTAAAATTTTCTAAAAACTTCAAGG
1 TAATTAAAATTTT-TAAAAACTTCAAGG
72867115 GAGAAATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (29 bp):
TAATTAAAATTTTTAAAAACTTCAAGGCT
Found at i:72870777 original size:221 final size:221
Alignment explanation
Indices: 72870388--72871011 Score: 891
Period size: 221 Copynumber: 2.8 Consensus size: 221
72870378 ATATATCGTA
* * *
72870388 TATGGTACTTTCGTTTCTCTAGCTCGTGTGAAAGAAAAGACTTGTTTAGTCCTTAGAATCAATTT
1 TATGGTACTTTCGTTTCTCTAGCTCGTGTGAAAGCAAAGACTCGTTTAGTCCTTAGAATCGATTT
* * *
72870453 CATGCATCGAGGTTCTGAGAGTCAAATGCTGCTTCCATCCGCTGTCGATATGCCAGTTATTTTTG
66 TATGCATCGAGGTTCTGAGAGTCAAATGCTGCTTCCATCCGTTGTCGATATGCCTGTTATTTTTG
*
72870518 TGTGAATCTTGTTGTGCCTGATATTAGTTCTTAACAAGATGTCGTGTTTGCTCCCTCATCGTTAA
131 TGTGAATCTTGTTGTGTCTGATATTAGTTCTTAACAAGATGTCGTGTTTGCTCCCTCATCGTTAA
*
72870583 ACCGAACCTCCATCGTACTTATTGTG
196 ACCGAACCTCCATCATACTTATTGTG
*
72870609 TATGGGACTTTCGTTTCTCTAGCGTCGTGTGAAAGCAAA-ACTCGTTTAGTCCTTAGAATCGATT
1 TATGGTACTTTCGTTTCTCTAGC-TCGTGTGAAAGCAAAGACTCGTTTAGTCCTTAGAATCGATT
* * *
72870673 TTATGCATTGAGGTTCTGAGAGTCAAATGCTGCTTCCATCCGTTGTCCACATGCCTGTTATTTTT
65 TTATGCATCGAGGTTCTGAGAGTCAAATGCTGCTTCCATCCGTTGTCGATATGCCTGTTATTTTT
*
72870738 GTGTGAATCTTGGTGTGTCTGATATTAGTTCTTAACAAGATGTCGTGTTTGCTCCCTCATCGTTA
130 GTGTGAATCTTGTTGTGTCTGATATTAGTTCTTAACAAGATGTCGTGTTTGCTCCCTCATCGTTA
*
72870803 AACCGAACCTTCATCATACTTATTGTG
195 AACCGAACCTCCATCATACTTATTGTG
* * * *
72870830 TATGGTACTTTCGTTTCTCTAGCATCATGTGAAAGCAAAGAATCGTTTAGTCC---G-TTCGGTT
1 TATGGTACTTTCGTTTCTCTAGC-TCGTGTGAAAGCAAAGACTCGTTTAGTCCTTAGAATCGATT
* * * * * *
72870891 TTATGCATCAAGGTTCTGAGGGTCAAATGTTGC-TCCTATCCGTTGTTGATATTCCGGTGTTTTT
65 TTATGCATCGAGGTTCTGAGAGTCAAATGCTGCTTCC-ATCCGTTGTCGATATGCC--TGTTATT
* * * * *
72870955 TTGTGTGTGAATATTATTATGTCCGATATTAGTTCTTAACAAGATATCGTGTTTGCT
127 TT-TGTGTGAATCTTGTTGTGTCTGATATTAGTTCTTAACAAGATGTCGTGTTTGCT
72871012 GTTCTGGAAA
Statistics
Matches: 362, Mismatches: 35, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
217 3 0.01
218 48 0.13
219 1 0.00
220 8 0.02
221 276 0.76
222 26 0.07
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.39
Consensus pattern (221 bp):
TATGGTACTTTCGTTTCTCTAGCTCGTGTGAAAGCAAAGACTCGTTTAGTCCTTAGAATCGATTT
TATGCATCGAGGTTCTGAGAGTCAAATGCTGCTTCCATCCGTTGTCGATATGCCTGTTATTTTTG
TGTGAATCTTGTTGTGTCTGATATTAGTTCTTAACAAGATGTCGTGTTTGCTCCCTCATCGTTAA
ACCGAACCTCCATCATACTTATTGTG
Found at i:72871906 original size:22 final size:22
Alignment explanation
Indices: 72871881--72871927 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
72871871 CTCATATGTA
72871881 TATATATACATACATATACATG
1 TATATATACATACATATACATG
* *
72871903 TATATATACATATATATGCATG
1 TATATATACATACATATACATG
72871925 TAT
1 TAT
72871928 GTTTCTCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (22 bp):
TATATATACATACATATACATG
Found at i:72871907 original size:10 final size:10
Alignment explanation
Indices: 72871880--72871919 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
72871870 CCTCATATGT
72871880 ATATATATAC
1 ATATATATAC
*
72871890 ATACATATAC
1 ATATATATAC
72871900 ATGTATATATAC
1 A--TATATATAC
72871912 ATATATAT
1 ATATATAT
72871920 GCATGTATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 17 0.65
12 9 0.35
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (10 bp):
ATATATATAC
Found at i:72872557 original size:38 final size:40
Alignment explanation
Indices: 72872495--72872571 Score: 122
Period size: 38 Copynumber: 2.0 Consensus size: 40
72872485 TTAAAAATGC
72872495 ATAAAATTTTAAAAAAAATCTAAAAAAAGAAAATATATAT
1 ATAAAATTTTAAAAAAAATCTAAAAAAAGAAAATATATAT
* *
72872535 ATAAAA-TTT-AAAAAAATCTAAAAAAGGAATATATATA
1 ATAAAATTTTAAAAAAAATCTAAAAAAAGAAAATATATA
72872572 AAAAACTGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 26 0.74
39 3 0.09
40 6 0.17
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (40 bp):
ATAAAATTTTAAAAAAAATCTAAAAAAAGAAAATATATAT
Found at i:72873076 original size:31 final size:31
Alignment explanation
Indices: 72873029--72873087 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
72873019 AAATTTTAAT
72873029 AAAAAATTAAAATTAAATT-TT-AAAATCTA
1 AAAAAATTAAAATTAAATTCTTGAAAATCTA
72873058 AAAAAATTGATAAATTAAATTCTTGAAAAT
1 AAAAAATT-A-AAATTAAATTCTTGAAAAT
72873088 AAAATTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 8 0.31
30 1 0.04
31 10 0.38
32 2 0.08
33 5 0.19
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (31 bp):
AAAAAATTAAAATTAAATTCTTGAAAATCTA
Found at i:72874247 original size:15 final size:15
Alignment explanation
Indices: 72874213--72874255 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
72874203 ATTTAGGCCT
72874213 TAAATATTAAAATTTAAA
1 TAAAT-TTAAAA--TAAA
*
72874231 TATATTTAAAATAAA
1 TAAATTTAAAATAAA
72874246 TAAATTTAAA
1 TAAATTTAAA
72874256 TTTTAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATTTAAAATAAA
Found at i:72874269 original size:15 final size:16
Alignment explanation
Indices: 72874216--72874267 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
72874206 TAGGCCTTAA
*
72874216 ATATTAAAATTTAAAT
1 ATATTTAAATTTAAAT
*
72874232 ATATTTAAA-ATAAAT
1 ATATTTAAATTTAAAT
* *
72874247 AAATTTAAATTTTAAT
1 ATATTTAAATTTAAAT
72874263 ATATT
1 ATATT
72874268 AATCTATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 13 0.45
16 16 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATTTAAATTTAAAT
Found at i:72875883 original size:31 final size:31
Alignment explanation
Indices: 72875848--72875907 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
72875838 TAACAGTTCA
*
72875848 ACTTTTTTTAAAAGGTTAAAACTCAAATTCG
1 ACTTTATTTAAAAGGTTAAAACTCAAATTCG
* **
72875879 ACTTTATTTAGAAGGTTAAAGGTCAAATT
1 ACTTTATTTAAAAGGTTAAAACTCAAATT
72875908 TAGCTTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (31 bp):
ACTTTATTTAAAAGGTTAAAACTCAAATTCG
Found at i:72885717 original size:34 final size:35
Alignment explanation
Indices: 72885651--72885722 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
72885641 ATAATTTTAG
* * * *
72885651 AAATGAATAATACGAATTTATCACAATTTATATTA
1 AAATGAATAATACAAATTTATCAAAATATATATGA
72885686 AAATGAATAATA-AAATTTAT-ATAAATATATATGA
1 AAATGAATAATACAAATTTATCA-AAATATATATGA
72885720 AAA
1 AAA
72885723 CAGAATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 1 0.03
34 19 0.59
35 12 0.38
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (35 bp):
AAATGAATAATACAAATTTATCAAAATATATATGA
Found at i:72889316 original size:4 final size:4
Alignment explanation
Indices: 72889301--72889362 Score: 52
Period size: 4 Copynumber: 15.5 Consensus size: 4
72889291 TCAATTACTT
* * * * * * *
72889301 TACA TGCA TACA TACA TACA TACA CACA TGCA TGCA TGCA TGCA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
72889349 TGCA TACA TACA TA
1 TACA TACA TACA TA
72889363 TATTTCTTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (4 bp):
TACA
Found at i:72889322 original size:12 final size:12
Alignment explanation
Indices: 72889301--72889362 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
72889291 TCAATTACTT
72889301 TACATGCATACA
1 TACATGCATACA
*
72889313 TACATACATACA
1 TACATGCATACA
* *
72889325 CACATGCATGCA
1 TACATGCATACA
* *
72889337 TGCATGCATGCA
1 TACATGCATACA
* *
72889349 TGCATACATACA
1 TACATGCATACA
72889361 TA
1 TA
72889363 TATTTCTTAG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (12 bp):
TACATGCATACA
Found at i:72891556 original size:209 final size:210
Alignment explanation
Indices: 72891176--72891594 Score: 743
Period size: 209 Copynumber: 2.0 Consensus size: 210
72891166 TATATTATGC
* * *
72891176 CAGTTTTTATTTTCGGGTTTCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCGGGTATT
1 CAGTGTTTATTTTCGGGTTCCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTATT
* *
72891241 GTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCTGTCCGATTTTAGGCATAATGGGGTAAGAATC
66 GTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAATAGGGTAAGAATC
*
72891306 CATACTCCGAGTTCGAGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGA
131 CATACTCCGAGTTCGAGTGTGTCCAGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGA
72891371 TGTATACCACTACTT
196 TGTATACCACTACTT
72891386 CAGTGTTTATTTT-GGGTTCCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTATC
1 CAGTGTTTATTTTCGGGTTCCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTAT-
72891450 T-TGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAATAGGGTAAGAAT
65 TGTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAATAGGGTAAGAAT
*
72891514 CCATACTCTGAGTTCGAGTGTGTCCAGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAG
130 CCATACTCCGAGTTCGAGTGTGTCCAGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAG
*
72891579 ATGTATACTACTACTT
195 ATGTATACCACTACTT
72891595 GTATGAGATG
Statistics
Matches: 200, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
209 187 0.94
210 13 0.06
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (210 bp):
CAGTGTTTATTTTCGGGTTCCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTATT
GTGTTCGAGTAAGCGCTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAATAGGGTAAGAATC
CATACTCCGAGTTCGAGTGTGTCCAGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGA
TGTATACCACTACTT
Found at i:72892460 original size:14 final size:15
Alignment explanation
Indices: 72892441--72892471 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
72892431 TTAACACTAA
72892441 TAAATTTATTTT-GT
1 TAAATTTATTTTAGT
72892455 TAAATTTATTTTAGT
1 TAAATTTATTTTAGT
72892470 TA
1 TA
72892472 CATTATTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
TAAATTTATTTTAGT
Found at i:72897614 original size:48 final size:48
Alignment explanation
Indices: 72897560--72897658 Score: 171
Period size: 48 Copynumber: 2.1 Consensus size: 48
72897550 GAGGTACCAT
* * *
72897560 TAAAATTTGAGTTAACCATGGTGATATTTCTAATTCGATTAGTTCAAC
1 TAAAATTTGAGTTAACCATGGTGACATTTCTAATCCAATTAGTTCAAC
72897608 TAAAATTTGAGTTAACCATGGTGACATTTCTAATCCAATTAGTTCAAC
1 TAAAATTTGAGTTAACCATGGTGACATTTCTAATCCAATTAGTTCAAC
72897656 TAA
1 TAA
72897659 TCTTGCCGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.37
Consensus pattern (48 bp):
TAAAATTTGAGTTAACCATGGTGACATTTCTAATCCAATTAGTTCAAC
Found at i:72898725 original size:31 final size:31
Alignment explanation
Indices: 72898690--72898769 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
72898680 AATAACTAAG
72898690 TACTAATTTGGACCAAAAAGCCAAATTCAGC
1 TACTAATTTGGACCAAAAAGCCAAATTCAGC
* * * * *
72898721 TACTAATTTGAACCAAGAAGCCAAGTTTAGG
1 TACTAATTTGGACCAAAAAGCCAAATTCAGC
72898752 TATCTAA-TTGGACCAAAA
1 TA-CTAATTTGGACCAAAA
72898770 TAAACATTAG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 37 0.90
32 4 0.10
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (31 bp):
TACTAATTTGGACCAAAAAGCCAAATTCAGC
Found at i:72898867 original size:59 final size:60
Alignment explanation
Indices: 72898725--72898874 Score: 151
Period size: 59 Copynumber: 2.5 Consensus size: 60
72898715 TTCAGCTACT
* * * * * * *
72898725 AATTTGAACCAAGAAGCCAAGTTTAGGTATCTAATTGGACCAAAATAAACATTAGGTAAC
1 AATTTGAACCAAGAAACCAAGTTCAAGTACCTAATTGGACAAAAAAAAACATTAGATAAC
* * * * *
72898785 AAATTGAACCTTA-AAATCAAGTTCAAGTACCTAATTGGA-AAAAAAAAACCTTAGATATC
1 AATTTGAACC-AAGAAACCAAGTTCAAGTACCTAATTGGACAAAAAAAAACATTAGATAAC
**
72898844 AATTTGAACCCCGAAACCAAGTTCAAGTACC
1 AATTTGAACCAAGAAACCAAGTTCAAGTACC
72898875 AAAATGTATA
Statistics
Matches: 72, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
59 41 0.57
60 30 0.42
61 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (60 bp):
AATTTGAACCAAGAAACCAAGTTCAAGTACCTAATTGGACAAAAAAAAACATTAGATAAC
Found at i:72903434 original size:7 final size:7
Alignment explanation
Indices: 72903397--72903427 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
72903387 AATAAATATA
72903397 TTTATTT
1 TTTATTT
*
72903404 TTTATCT
1 TTTATTT
72903411 TTTATTT
1 TTTATTT
72903418 TTTATTT
1 TTTATTT
72903425 TTT
1 TTT
72903428 TAGTTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:72903482 original size:26 final size:26
Alignment explanation
Indices: 72903438--72903501 Score: 96
Period size: 27 Copynumber: 2.5 Consensus size: 26
72903428 TAGTTTTAAA
72903438 ATATTTTTAAAATACTTTTTTATTTTT
1 ATATTTTTAAAATACTTTTTTA-TTTT
*
72903465 TTATTTTTAAAATA-TTTTTTATTTT
1 ATATTTTTAAAATACTTTTTTATTTT
72903490 AT-TTTTTAAAAT
1 ATATTTTTAAAAT
72903502 TTGGTGTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
24 10 0.29
25 5 0.14
26 7 0.20
27 13 0.37
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (26 bp):
ATATTTTTAAAATACTTTTTTATTTT
Found at i:72903495 original size:38 final size:38
Alignment explanation
Indices: 72903399--72903497 Score: 128
Period size: 38 Copynumber: 2.6 Consensus size: 38
72903389 TAAATATATT
72903399 TATTTTTTATCTTTTATTTTTTATTTTTTTAGTTTTAAAA
1 TATTTTTTA--TTTTATTTTTTATTTTTTTAGTTTTAAAA
*** *
72903439 TA-TTTTTAAAATACTTTTTTATTTTTTTATTTTTAAAA
1 TATTTTTTATTTTA-TTTTTTATTTTTTTAGTTTTAAAA
72903477 TATTTTTTATTTTATTTTTTA
1 TATTTTTTATTTTATTTTTTA
72903498 AAATTTGGTG
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
37 2 0.04
38 32 0.64
39 14 0.28
40 2 0.04
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.72
Consensus pattern (38 bp):
TATTTTTTATTTTATTTTTTATTTTTTTAGTTTTAAAA
Found at i:72904900 original size:27 final size:26
Alignment explanation
Indices: 72904868--72904927 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
72904858 ATAAATATTT
*
72904868 ATTTTTTTATTTTTTATTTTTAAAATA
1 ATTTTTTTAATTTTTA-TTTTAAAATA
*
72904895 CTTTTTTTAATTTTTATTTTAAAATA
1 ATTTTTTTAATTTTTATTTTAAAATA
72904921 ATTTTTT
1 ATTTTTT
72904928 GGTGTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 16 0.53
27 14 0.47
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (26 bp):
ATTTTTTTAATTTTTATTTTAAAATA
Found at i:72904935 original size:25 final size:26
Alignment explanation
Indices: 72904870--72904937 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
72904860 AAATATTTAT
* * *
72904870 TTTTTTATTTTTTATTTTTAAAATACT
1 TTTTTTAATGTTTA-TTTTAAAATACA
*
72904897 TTTTTTAATTTTTATTTTAAAATA-A
1 TTTTTTAATGTTTATTTTAAAATACA
**
72904922 TTTTTTGGTGTTTATT
1 TTTTTTAATGTTTATT
72904938 AAAAAAATGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
25 13 0.36
26 10 0.28
27 13 0.36
ACGTcount: A:0.25, C:0.01, G:0.04, T:0.69
Consensus pattern (26 bp):
TTTTTTAATGTTTATTTTAAAATACA
Found at i:72910650 original size:16 final size:17
Alignment explanation
Indices: 72910620--72910655 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
72910610 TAATTTTTAT
*
72910620 AATTAAAAACTAATAAA
1 AATTAAAAACAAATAAA
72910637 AATT-AAAACAAATAAA
1 AATTAAAAACAAATAAA
72910653 AAT
1 AAT
72910656 AGAGTAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (17 bp):
AATTAAAAACAAATAAA
Found at i:72915747 original size:20 final size:20
Alignment explanation
Indices: 72915722--72915771 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
72915712 TGGCTTAAAA
72915722 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
72915742 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
72915759 GTGGTAGTGGATT
1 TTGGTAGTGGATT
72915772 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Done.