Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
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: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 50
Found at i:1423483 original size:18 final size:19
Alignment explanation
Indices: 1423460--1423506 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
1423450 GCGATTCTCT
1423460 CGTTGCGATAGTCA-TTCG
1 CGTTGCGATAGTCATTTCG
1423478 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
1423498 CGTTGCGAT
1 CGTTGCGAT
1423507 TTTAAGTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 14 0.52
20 13 0.48
ACGTcount: A:0.15, C:0.21, G:0.28, T:0.36
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:1423516 original size:20 final size:20
Alignment explanation
Indices: 1423460--1423516 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
1423450 GCGATTCTCT
*
1423460 CGTTGCGATAGTCA--TTCG
1 CGTTGCGATAGTAAGTTTCG
* *
1423478 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
**
1423498 CGTTGCGATTTTAAGTTTC
1 CGTTGCGATAGTAAGTTTC
1423517 AGATTCTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 14 0.42
20 19 0.58
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.40
Consensus pattern (20 bp):
CGTTGCGATAGTAAGTTTCG
Found at i:1425451 original size:14 final size:14
Alignment explanation
Indices: 1425419--1425452 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1425409 GATTGTTTAA
1425419 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
* *
1425433 ATGATTTGTAAATG
1 TTGATTTGTAAAAG
1425447 TTGATT
1 TTGATT
1425453 GTTTAATTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:1425599 original size:14 final size:14
Alignment explanation
Indices: 1425580--1425633 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
1425570 GGAAATGACT
1425580 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
1425594 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
1425613 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
1425627 ATCGCAA
1 ATCGCAA
1425634 TGCGAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:1425648 original size:34 final size:33
Alignment explanation
Indices: 1425560--1425655 Score: 147
Period size: 33 Copynumber: 2.8 Consensus size: 33
1425550 AAAACAGACT
* **
1425560 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1425594 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1425627 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
1425656 CGAAACTAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 32 0.55
34 26 0.45
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:1425651 original size:20 final size:19
Alignment explanation
Indices: 1425593--1425660 Score: 74
Period size: 20 Copynumber: 3.8 Consensus size: 19
1425583 GCAACGAGAG
1425593 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1425612 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1425626 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
1425646 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
1425661 CTAAATTGCG
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 2 0.05
17 2 0.05
19 12 0.30
20 13 0.32
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1425727 original size:20 final size:20
Alignment explanation
Indices: 1425702--1425790 Score: 144
Period size: 20 Copynumber: 4.5 Consensus size: 20
1425692 GCGATTCTCT
1425702 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
1425722 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
1425742 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
1425762 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
1425782 CGTTGCGAT
1 CGTTGCGAT
1425791 TTCCGCGTTA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 62 0.97
21 2 0.03
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:1428072 original size:24 final size:24
Alignment explanation
Indices: 1428033--1428086 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
1428023 CTGAAAAATC
1428033 ATCAAAATCCGAGTA-TGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1428056 ATCAAAAGTCCGGGTATTGACCAGG
1 ATCAAAA-TCCGAGTATTGACCAAG
1428081 ATCAAA
1 ATCAAA
1428087 TTCGAATACG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 7 0.26
24 7 0.26
25 13 0.48
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1428911 original size:20 final size:20
Alignment explanation
Indices: 1428886--1428932 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1428876 AAATTCAGTA
1428886 TTGCGATAGTCAGAATCT-CG
1 TTGCGATAGTCAG-ATCTGCG
*
1428906 TTGCGATAGTCAGATTTGCG
1 TTGCGATAGTCAGATCTGCG
1428926 TTGCGAT
1 TTGCGAT
1428933 TTACATATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCAGATCTGCG
Found at i:1428949 original size:20 final size:20
Alignment explanation
Indices: 1428926--1429091 Score: 269
Period size: 20 Copynumber: 8.3 Consensus size: 20
1428916 CAGATTTGCG
*
1428926 TTGCGATTTACATATTCGCA
1 TTGCGATTTACGTATTCGCA
*
1428946 TTGCGATTTACATATTCGCA
1 TTGCGATTTACGTATTCGCA
*
1428966 TTGCGATTTACGTATTCGCT
1 TTGCGATTTACGTATTCGCA
1428986 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
* *
1429006 TTGCAATTTACGTATTTGCA
1 TTGCGATTTACGTATTCGCA
* *
1429026 TTGCGATTTACATATTCGCT
1 TTGCGATTTACGTATTCGCA
1429046 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
1429066 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
1429086 TTGCGA
1 TTGCGA
1429092 ATTAGGAAAA
Statistics
Matches: 135, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 135 1.00
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:1428971 original size:60 final size:58
Alignment explanation
Indices: 1428906--1429091 Score: 246
Period size: 60 Copynumber: 3.1 Consensus size: 58
1428896 CAGAATCTCG
* * * *
1428906 TTGCGATAGTCAGATTTGCGTTGCGATTTACATATTCGCATTGCGATTTACATATTCGCA
1 TTGCGAT--TCAGATTCGCTTTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCA
* * *
1428966 TTGCGATTTACGTATTCGCTTTGCGATTTACGTATTCGCATTGCAATTTACGTATTTGCA
1 TTGCGATTCA-G-ATTCGCTTTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCA
*
1429026 TTGCGATTTACATATTCGCTTTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGA-TT-CAGATTCGCTTTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCA
1429086 TTGCGA
1 TTGCGA
1429092 ATTAGGAAAA
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
58 2 0.02
59 1 0.01
60 105 0.95
61 2 0.02
62 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (58 bp):
TTGCGATTCAGATTCGCTTTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCA
Found at i:1429112 original size:21 final size:21
Alignment explanation
Indices: 1429088--1429133 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1429078 TATTCGCATT
1429088 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
1429109 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
1429130 GCGA
1 GCGA
1429134 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:1436835 original size:24 final size:25
Alignment explanation
Indices: 1436803--1436867 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 25
1436793 TACCCGTGTA
*
1436803 ATGGA-AAGAGGGGAGAAGTA-TTTC
1 ATGGAGAAGAGGGGA-AAATATTTTC
* *
1436827 AT-GAGAAGATGAGAAAATATTTTC
1 ATGGAGAAGAGGGGAAAATATTTTC
1436851 ATGGAGAAGAGAGGGAA
1 ATGGAGAAGAG-GGGAA
1436868 GAGAATAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
23 6 0.19
24 15 0.47
25 7 0.22
26 4 0.12
ACGTcount: A:0.43, C:0.03, G:0.34, T:0.20
Consensus pattern (25 bp):
ATGGAGAAGAGGGGAAAATATTTTC
Found at i:1438394 original size:19 final size:19
Alignment explanation
Indices: 1438372--1438428 Score: 87
Period size: 19 Copynumber: 3.0 Consensus size: 19
1438362 TTTGACCGGT
*
1438372 TTTGACCGGTCTGAACCGA
1 TTTGATCGGTCTGAACCGA
*
1438391 TTTGATCGGTCTGAACCGG
1 TTTGATCGGTCTGAACCGA
*
1438410 TTTGATCGGTCTGACCCGA
1 TTTGATCGGTCTGAACCGA
1438429 CCCGACTGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.30
Consensus pattern (19 bp):
TTTGATCGGTCTGAACCGA
Found at i:1447886 original size:60 final size:60
Alignment explanation
Indices: 1447750--1447886 Score: 170
Period size: 60 Copynumber: 2.3 Consensus size: 60
1447740 ATAGTCCGAT
* *
1447750 GACCATTTTGTAACTTTTAATTGTCAGAGGACTCAACAAAACAACACCCTATAATCGAAG
1 GACCATTTTGTAACTTTCAATAGTCAGAGGACTCAACAAAACAACACCCTATAATCGAAG
* * * * **
1447810 AACTATTTTGTAACTTTCAATAGTCATG-GGACTCAACAAAACAATACCCTATAGTCGGGG
1 GACCATTTTGTAACTTTCAATAGTCA-GAGGACTCAACAAAACAACACCCTATAATCGAAG
1447870 GACCATTTGTGT-ACTTT
1 GACCATTT-TGTAACTTT
1447887 ACCCAAAAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
60 61 0.94
61 4 0.06
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.30
Consensus pattern (60 bp):
GACCATTTTGTAACTTTCAATAGTCAGAGGACTCAACAAAACAACACCCTATAATCGAAG
Found at i:1462786 original size:16 final size:16
Alignment explanation
Indices: 1462765--1462806 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
1462755 ATATTCAAAA
*
1462765 AAAAATATTAAATATT
1 AAAAATAATAAATATT
1462781 AAAAATAATAAATATT
1 AAAAATAATAAATATT
1462797 AAAAATAATA
1 AAAAATAATA
1462807 TACACATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAAATAATAAATATT
Found at i:1462797 original size:23 final size:21
Alignment explanation
Indices: 1462743--1462799 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
1462733 TTATAAATAT
* *
1462743 AAAATTATTCAAATATTCAAAA
1 AAAAATATT-AAATATTAAAAA
1462765 AAAAATATTAAATATTAAAAA
1 AAAAATATTAAATATTAAAAA
1462786 TAATAAATATTAAA
1 -AA-AAATATTAAA
1462800 AATAATATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 11 0.35
22 10 0.32
23 10 0.32
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAATATTAAATATTAAAAA
Found at i:1462817 original size:18 final size:16
Alignment explanation
Indices: 1462765--1462818 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
1462755 ATATTCAAAA
* *
1462765 AAAAATATTAAATATT
1 AAAAATAATAAACATT
*
1462781 AAAAATAATAAATATT
1 AAAAATAATAAACATT
1462797 AAAAATAATATACACATT
1 AAAAATAATA-A-ACATT
1462815 AAAA
1 AAAA
1462819 TACTAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 25 0.74
17 1 0.03
18 8 0.24
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAATAATAAACATT
Found at i:1463408 original size:19 final size:17
Alignment explanation
Indices: 1463384--1463426 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
1463374 ATAGTTGTAG
1463384 TAATTTTAATATGTATATT
1 TAATTTTAATA-GTA-ATT
**
1463403 TAATTTTTTTAGTAATT
1 TAATTTTAATAGTAATT
1463420 TAATTTT
1 TAATTTT
1463427 TATTTTTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 10 0.45
18 3 0.14
19 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (17 bp):
TAATTTTAATAGTAATT
Found at i:1463425 original size:22 final size:23
Alignment explanation
Indices: 1463397--1463455 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 23
1463387 TTTTAATATG
1463397 TATATTTAATTTTTTTAGTAATT
1 TATATTTAATTTTTTTAGTAATT
*
1463420 TA-ATTT--TTATTTTTAGTATTT
1 TATATTTAATT-TTTTTAGTAATT
1463441 TATATTTAATTTTTT
1 TATATTTAATTTTTT
1463456 AAATATTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
20 2 0.06
21 13 0.42
22 8 0.26
23 6 0.19
24 2 0.06
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (23 bp):
TATATTTAATTTTTTTAGTAATT
Found at i:1463456 original size:22 final size:22
Alignment explanation
Indices: 1463397--1463456 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
1463387 TTTTAATATG
1463397 TATATTTAATTTTTTTAGTAATT
1 TATATTTAA-TTTTTTAGTAATT
* *
1463420 TA-ATTT-TTATTTTTAGTATTT
1 TATATTTAAT-TTTTTAGTAATT
1463441 TATATTTAATTTTTTA
1 TATATTTAATTTTTTA
1463457 AATATTTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 1 0.03
21 13 0.42
22 14 0.45
23 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (22 bp):
TATATTTAATTTTTTAGTAATT
Found at i:1463477 original size:16 final size:15
Alignment explanation
Indices: 1463397--1463483 Score: 56
Period size: 14 Copynumber: 5.7 Consensus size: 15
1463387 TTTTAATATG
**
1463397 TATATTTAATTTTTT
1 TATATTTAATAATTT
1463412 TAGTAATTTAAT--TTT
1 TA-T-ATTTAATAATTT
* *
1463427 TATTTTTAGT-ATTT
1 TATATTTAATAATTT
*
1463441 TATATTTAAT-TTTT
1 TATATTTAATAATTT
1463455 TAAATATTTGAATAATTT
1 T--ATATTT-AATAATTT
1463473 TATATTTAATA
1 TATATTTAATA
1463484 TTTAAAATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
13 5 0.08
14 16 0.27
15 11 0.19
16 13 0.22
17 10 0.17
18 4 0.07
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TATATTTAATAATTT
Found at i:1466769 original size:2 final size:2
Alignment explanation
Indices: 1466762--1466802 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1466752 ATGTTCTATG
1466762 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1466803 GGTGATCACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1469324 original size:156 final size:157
Alignment explanation
Indices: 1469013--1469329 Score: 564
Period size: 156 Copynumber: 2.0 Consensus size: 157
1469003 TAGGATTACC
*
1469013 GTTACATATAGGCAAGAACAAAACGTGAAATATTGGTTATTTATGGGATAGAGTAATGACAAGAG
1 GTTACATATAGGCAAGAACAAAACGCGAAATATTGGTTATTTATGGGATAGAGTAATGACAAGAG
*
1469078 TAACCGGATGGACAAATAGACTATTATCCTATGGAGAAATGGAGGTATTTTGAAATCAGTAGCTC
66 TAACCGAATGGACAAATAGACTATTATCCTATGGAGAAATGGAGGTATTTTGAAATCAGTAGCTC
1469143 AAGCCTTACCTCAATAAGCCATGTCTT
131 AAGCCTTACCTCAATAAGCCATGTCTT
*
1469170 GTTACATATAGGCAAGAACAAAACGCGAAATTTTGGTTATTTATGGGATAGAGTAATGACAAGAG
1 GTTACATATAGGCAAGAACAAAACGCGAAATATTGGTTATTTATGGGATAGAGTAATGACAAGAG
* * *
1469235 TAACCGAATGGA-AAATAGACTATTATCCTATGGTGAAATTGAGGTATTTTGAAATTAGTAGCTC
66 TAACCGAATGGACAAATAGACTATTATCCTATGGAGAAATGGAGGTATTTTGAAATCAGTAGCTC
*
1469299 AAGCCTTACCTCAATAAGCCGTGTCTT
131 AAGCCTTACCTCAATAAGCCATGTCTT
1469326 GTTA
1 GTTA
1469330 TCTACTCCTA
Statistics
Matches: 153, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
156 79 0.52
157 74 0.48
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (157 bp):
GTTACATATAGGCAAGAACAAAACGCGAAATATTGGTTATTTATGGGATAGAGTAATGACAAGAG
TAACCGAATGGACAAATAGACTATTATCCTATGGAGAAATGGAGGTATTTTGAAATCAGTAGCTC
AAGCCTTACCTCAATAAGCCATGTCTT
Found at i:1471787 original size:5 final size:5
Alignment explanation
Indices: 1471777--1471801 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1471767 CCATATAATT
1471777 CATAA CATAA CATAA CATAA CATAA
1 CATAA CATAA CATAA CATAA CATAA
1471802 GGGAGTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
CATAA
Found at i:1476033 original size:17 final size:16
Alignment explanation
Indices: 1476010--1476054 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
1476000 ATGTTTTTTT
1476010 CTCTTTTTTTTCCGAA
1 CTCTTTTTTTTCCGAA
1476026 CATCTTTTTTTT-CGAA
1 C-TCTTTTTTTTCCGAA
1476042 CTGCTTTTTTTTC
1 CT-CTTTTTTTTC
1476055 TATACAGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.04
16 15 0.58
17 10 0.38
ACGTcount: A:0.11, C:0.22, G:0.07, T:0.60
Consensus pattern (16 bp):
CTCTTTTTTTTCCGAA
Found at i:1478906 original size:6 final size:6
Alignment explanation
Indices: 1478895--1478963 Score: 131
Period size: 6 Copynumber: 11.7 Consensus size: 6
1478885 ATGCTCAATC
1478895 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1478943 AAAATA AAAAT- AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAA
1478964 ATGTAACGGA
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.08
6 57 0.92
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:1481910 original size:17 final size:16
Alignment explanation
Indices: 1481879--1481912 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1481869 CACGTGAGGA
1481879 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
1481895 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
1481912 T
1 T
1481913 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:1492095 original size:17 final size:16
Alignment explanation
Indices: 1492064--1492097 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1492054 CACGTGAGGA
1492064 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
1492080 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
1492097 T
1 T
1492098 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:1497164 original size:26 final size:26
Alignment explanation
Indices: 1497130--1497179 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
1497120 AGAAGGCGCA
*
1497130 TTGAGTAGACCTTCTAGAAACTGCCG
1 TTGACTAGACCTTCTAGAAACTGCCG
1497156 TTGACTAGACCTTCTAGAAACTGC
1 TTGACTAGACCTTCTAGAAACTGC
1497180 TACGTCAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (26 bp):
TTGACTAGACCTTCTAGAAACTGCCG
Found at i:1510234 original size:47 final size:47
Alignment explanation
Indices: 1510181--1510308 Score: 139
Period size: 47 Copynumber: 2.7 Consensus size: 47
1510171 ATTCGACTCA
* *
1510181 GTCATAATAATCTGCTCCACTCCTCCTTAACAAAGAATGTTGGCTTG
1 GTCATAATAATCTGCTCCACTCCTCCATAACAAAGAATGTTGGATTG
* * * * *
1510228 GTCATAATAATCTGCTCAATTCTTCCATAGCAAAGTATGTTGGATTG
1 GTCATAATAATCTGCTCCACTCCTCCATAACAAAGAATGTTGGATTG
* * * * * *
1510275 ATCATAATAATGTACTTCACTCCTCTATAGCAAA
1 GTCATAATAATCTGCTCCACTCCTCCATAACAAA
1510309 TCATGTTAGG
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (47 bp):
GTCATAATAATCTGCTCCACTCCTCCATAACAAAGAATGTTGGATTG
Found at i:1520536 original size:23 final size:23
Alignment explanation
Indices: 1520501--1520560 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
1520491 AGTGTGTTAG
1520501 TTGCCAAACATTAACCGGACATGA
1 TTGCC-AACATTAACCGGACATGA
1520525 TTGCCAACATTAACCGGACATGA
1 TTGCCAACATTAACCGGACATGA
1520548 TTGCCAACATTAA
1 TTGCCAACATTAA
1520561 ACAAATATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 31 0.86
24 5 0.14
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (23 bp):
TTGCCAACATTAACCGGACATGA
Found at i:1520652 original size:23 final size:23
Alignment explanation
Indices: 1520602--1520664 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
1520592 GTTTGCAAAA
* *
1520602 GTTAAACGAATATGTTGACAAGC
1 GTTAAACGAATGTGTTTACAAGC
* *
1520625 ATTAAACGAATGTGTTTACAAGT
1 GTTAAACGAATGTGTTTACAAGC
* *
1520648 GTTAAATGAACGTGTTT
1 GTTAAACGAATGTGTTT
1520665 GCGAATGCTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.33
Consensus pattern (23 bp):
GTTAAACGAATGTGTTTACAAGC
Found at i:1522558 original size:2 final size:2
Alignment explanation
Indices: 1522551--1522586 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1522541 TGAGTATGAT
1522551 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1522587 ACTTAAAGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1524496 original size:32 final size:32
Alignment explanation
Indices: 1524455--1524559 Score: 140
Period size: 32 Copynumber: 3.3 Consensus size: 32
1524445 AAAGCTCATG
* *
1524455 TGCATTATCTGAATGCAACACCAACTCTGCTA
1 TGCATTATCTGAATGCAATACTAACTCTGCTA
*
1524487 TGCATTATCTGAATGCAATACTAACTATGCTA
1 TGCATTATCTGAATGCAATACTAACTCTGCTA
* * *
1524519 TACATTACCTGAATGCAATACTGACTCTGCTA
1 TGCATTATCTGAATGCAATACTAACTCTGCTA
*
1524551 -GCACTATCT
1 TGCATTATCT
1524560 AGATGAAAGA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 6 0.10
32 57 0.90
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (32 bp):
TGCATTATCTGAATGCAATACTAACTCTGCTA
Found at i:1531073 original size:21 final size:21
Alignment explanation
Indices: 1531049--1531098 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
1531039 TAGTATTGAC
1531049 ACTACTGTTCACGGTATCAAT
1 ACTACTGTTCACGGTATCAAT
*
1531070 ACTACTGTTCATGGTATCAAT
1 ACTACTGTTCACGGTATCAAT
*
1531091 ATTACTGT
1 ACTACTGT
1531099 AGTAGTATCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (21 bp):
ACTACTGTTCACGGTATCAAT
Found at i:1531175 original size:21 final size:21
Alignment explanation
Indices: 1531151--1531190 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1531141 TCGGTACTGT
*
1531151 TCATGGTATCGATACTACTAG
1 TCATGGTATCAATACTACTAG
1531172 TCATGGTATCAATACTACT
1 TCATGGTATCAATACTACT
1531191 GTTCACATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (21 bp):
TCATGGTATCAATACTACTAG
Found at i:1531215 original size:20 final size:20
Alignment explanation
Indices: 1531199--1531252 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
1531189 CTGTTCACAT
1531199 AGTATCAGTACTATTCATAC
1 AGTATCAGTACTATTCATAC
*
1531219 AGTATCAATACTATTCATAC
1 AGTATCAGTACTATTCATAC
1531239 AGTAT-AGTACTATT
1 AGTATCAGTACTATT
1531253 AAAAAACAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 8 0.25
20 24 0.75
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (20 bp):
AGTATCAGTACTATTCATAC
Found at i:1531544 original size:23 final size:23
Alignment explanation
Indices: 1531516--1531559 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1531506 AAAAGCCTTG
*
1531516 TTTACCAAAACCATAAAACTCCA
1 TTTACCAAAACCAAAAAACTCCA
*
1531539 TTTACCATAACCAAAAAACTC
1 TTTACCAAAACCAAAAAACTC
1531560 TGTTTCTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.23
Consensus pattern (23 bp):
TTTACCAAAACCAAAAAACTCCA
Found at i:1536730 original size:24 final size:22
Alignment explanation
Indices: 1536691--1536739 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
1536681 AAAAACCTCG
1536691 TTTACCAGAATCGAAAAACTCTA
1 TTTACCAGAATCG-AAAACTCTA
* *
1536714 TTTACCAGAACTGGAAAACTTTA
1 TTTACCAGAA-TCGAAAACTCTA
1536737 TTT
1 TTT
1536740 CTACACATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (22 bp):
TTTACCAGAATCGAAAACTCTA
Found at i:1536739 original size:23 final size:23
Alignment explanation
Indices: 1536674--1536723 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1536664 AAATAATTTA
* *
1536674 AGAATAGAAAAAC-CTCGTTTACC
1 AGAATCGAAAAACTCT-ATTTACC
1536697 AGAATCGAAAAACTCTATTTACC
1 AGAATCGAAAAACTCTATTTACC
1536720 AGAA
1 AGAA
1536724 CTGGAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.46, C:0.20, G:0.12, T:0.22
Consensus pattern (23 bp):
AGAATCGAAAAACTCTATTTACC
Found at i:1544461 original size:18 final size:18
Alignment explanation
Indices: 1544433--1544468 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
1544423 GCAAGCACTC
1544433 AAAAGAAGAAAACAAAAAG
1 AAAAGAAGAAAA-AAAAAG
1544452 AAAA-AAGAAAAAAAAAG
1 AAAAGAAGAAAAAAAAAG
1544469 CAAGAAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (18 bp):
AAAAGAAGAAAAAAAAAG
Found at i:1558554 original size:6 final size:6
Alignment explanation
Indices: 1558543--1558568 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1558533 TAAAATATAG
1558543 TAATTA TAATTA TAATTA TAATTA TA
1 TAATTA TAATTA TAATTA TAATTA TA
1558569 GAAAATCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATTA
Found at i:1568917 original size:54 final size:54
Alignment explanation
Indices: 1568851--1569241 Score: 443
Period size: 54 Copynumber: 7.4 Consensus size: 54
1568841 TTCTTTGAGG
* * *
1568851 TGCACACGTAGTGCCAATACGGTCGTTCATAAACATATTATAAATTCCGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGT
* ** * *
1568905 TGTACACTTAGTGCTAATACGGTCGTTCATAAACATATCATGAATT---T-CGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGT
* * * *
1568955 TGCACACTTAGTGCTGATACGATCATTCATAAACATATTATGAATTCTGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGT
* *
1569009 TGCACACTTAGTACCGATACAGTCGTTCATAAACATATTATGAATT-CGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGT
* * * *
1569062 TGCACACTTATTGCCGATATGGT-GTTTATAAACATATTATGAATTCCATGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGT
* * * * ** * * *
1569115 TTCACACATAGTTCTGATACAATCGTTCATAACCATATTATGATTTTCGTGGGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGT
* * * ** *
1569169 TTCACATTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTTTGTGTGT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGT
1569223 TGCACACTTAGTGCCGATA
1 TGCACACTTAGTGCCGATA
1569242 GTACACATGG
Statistics
Matches: 280, Mismatches: 51, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
50 43 0.15
51 1 0.00
52 21 0.08
53 47 0.17
54 168 0.60
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (54 bp):
TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGT
Found at i:1569034 original size:104 final size:104
Alignment explanation
Indices: 1568851--1569241 Score: 433
Period size: 104 Copynumber: 3.7 Consensus size: 104
1568841 TTCTTTGAGG
* * * *
1568851 TGCACACGTAGTGCCAATACGGTCGTTCATAAACATATTATAAATTCCGTGGGTTGTACACTTAG
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGCACACTTAG
** * *
1568916 TGCTAATACGGTCGTTCATAAACATATCATGAATTTCGT
66 TGCCGATACAGTCGTTCATAAACATATTATGAATTTCGT
* * * *
1568955 TGCACACTTAGTGCTGATACGATCATTCATAAACATATTATGAATTCTGTGGGTTGCACACTTAG
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGCACACTTAG
* *
1569020 TACCGATACAGTCGTTCATAAACATATTATGAATTCGTGGGT
66 TGCCGATACAGTCGTTCATAAACATATTATGAATT--T-CGT
* * * * * *
1569062 TGCACACTTATTGCCGATATGGT-GTTTATAAACATATTATGAATTCCATGGGTTTCACACATAG
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGCACACTTAG
* * * * *
1569126 TTCTGATACAATCGTTCATAACCATATTATGATTTTCGTGGGT
66 TGCCGATACAGTCGTTCATAAACATATTATGAATTTC----GT
* * * ** *
1569169 TTCACATTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTTTGTGTGTTGCACACTTAG
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGCACACTTAG
1569234 TGCCGATA
66 TGCCGATA
1569242 GTACACATGG
Statistics
Matches: 235, Mismatches: 44, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
104 88 0.37
106 66 0.28
107 41 0.17
108 40 0.17
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (104 bp):
TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTGCACACTTAG
TGCCGATACAGTCGTTCATAAACATATTATGAATTTCGT
Found at i:1569196 original size:160 final size:157
Alignment explanation
Indices: 1568851--1569241 Score: 471
Period size: 160 Copynumber: 2.5 Consensus size: 157
1568841 TTCTTTGAGG
* * * * *
1568851 TGCACACGTAGTGCCAATACGGTCGTTCATAAACATATTATAAATTCCGTGGGTTGTACACTTAG
1 TGCACACTTAGTACCGATACGGTCGTTCATAAACATATTATGAATT-CGTGGGTTGCACACTTAG
** * *
1568916 TGCTAATACGGTCGTTCATAAACATATCATGAATTTCGTTGCACACTTAGTGCTGATACGATCAT
65 TGCCGATACGGTCGTTCATAAACATATCATGAATTTCGTTGCACACATAGTGCTGATACAATCAT
1568981 TCATAAACATATTATGAATTCTGTGGGT
130 TCATAAACATATTATGAATTCTGTGGGT
* *
1569009 TGCACACTTAGTACCGATACAGTCGTTCATAAACATATTATGAATTCGTGGGTTGCACACTTATT
1 TGCACACTTAGTACCGATACGGTCGTTCATAAACATATTATGAATTCGTGGGTTGCACACTTAGT
* * * * * *
1569074 GCCGATATGGT-GTTTATAAACATATTATGAATTCCATGGGTTTCACACATAGTTCTGATACAAT
66 GCCGATACGGTCGTTCATAAACATATCATGAATT---T-CGTTGCACACATAGTGCTGATACAAT
* * *
1569138 CGTTCATAACCATATTATG-ATTTTCGTGGGT
127 CATTCATAAACATATTATGAATTCT-GTGGGT
* * ** * *
1569169 TTCACATTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTTTGTGTGTTGCACACTTAG
1 TGCACACTTAGTACCGATACGGTCGTTCATAAACATATTATGAA-TTCGTGGGTTGCACACTTAG
1569234 TGCCGATA
65 TGCCGATA
1569242 GTACACATGG
Statistics
Matches: 199, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
156 20 0.10
157 25 0.13
158 41 0.21
159 5 0.03
160 83 0.42
161 25 0.13
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (157 bp):
TGCACACTTAGTACCGATACGGTCGTTCATAAACATATTATGAATTCGTGGGTTGCACACTTAGT
GCCGATACGGTCGTTCATAAACATATCATGAATTTCGTTGCACACATAGTGCTGATACAATCATT
CATAAACATATTATGAATTCTGTGGGT
Found at i:1571911 original size:15 final size:15
Alignment explanation
Indices: 1571879--1571933 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
1571869 CTATTTTTAT
* * *
1571879 AGTACCGATGCTGCG
1 AGTACCAATACTGTG
1571894 AGTACCAATACTGTG
1 AGTACCAATACTGTG
* *
1571909 AGTATCAATATTGTG
1 AGTACCAATACTGTG
1571924 AGTA-CAATAC
1 AGTACCAATAC
1571934 AAATACTCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
14 5 0.15
15 29 0.85
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (15 bp):
AGTACCAATACTGTG
Found at i:1583642 original size:15 final size:16
Alignment explanation
Indices: 1583616--1583645 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1583606 CTGATACCTG
1583616 TACTTAGGAGAATCAA
1 TACTTAGGAGAATCAA
1583632 TACTT-GGAGAATCA
1 TACTTAGGAGAATCA
1583646 CAATCAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (16 bp):
TACTTAGGAGAATCAA
Found at i:1592871 original size:13 final size:13
Alignment explanation
Indices: 1592809--1592886 Score: 61
Period size: 13 Copynumber: 5.9 Consensus size: 13
1592799 ATGAGTTCTA
1592809 AAATATGAAAGT-
1 AAATATGAAAGTG
* *
1592821 ACATATTATGAAAATA
1 A-A-A-TATGAAAGTG
*
1592837 AAATATAAAAGTG
1 AAATATGAAAGTG
1592850 -AATATGAAAGTG
1 AAATATGAAAGTG
* *
1592862 AAAGATGAAAATG
1 AAATATGAAAGTG
*
1592875 ATATATGAAAGT
1 AAATATGAAAGT
1592887 TTTGTGTTGC
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
12 12 0.24
13 27 0.53
14 2 0.04
15 9 0.18
16 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.17, T:0.26
Consensus pattern (13 bp):
AAATATGAAAGTG
Found at i:1593385 original size:21 final size:21
Alignment explanation
Indices: 1593355--1593394 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1593345 TTTTGTATTT
**
1593355 TAGATAAAAATTATATTTTGA
1 TAGATAAAAAAAATATTTTGA
*
1593376 TAGATTAAAAAAATATTTT
1 TAGATAAAAAAAATATTTT
1593395 AAATTAGAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (21 bp):
TAGATAAAAAAAATATTTTGA
Found at i:1599146 original size:39 final size:40
Alignment explanation
Indices: 1599091--1599171 Score: 121
Period size: 39 Copynumber: 2.0 Consensus size: 40
1599081 TGCAGGTTTA
*
1599091 TAATACACTTCGGTGTATAT-GTGGGCA-CGACCGTATGTG
1 TAATACACTTCAGTGTATATGGTGGG-ATCGACCGTATGTG
*
1599130 TAATACACTTCAGTGTATATGGTGGGATCGACCTTATGTG
1 TAATACACTTCAGTGTATATGGTGGGATCGACCGTATGTG
1599170 TA
1 TA
1599172 GCACTACGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 20 0.53
40 18 0.47
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (40 bp):
TAATACACTTCAGTGTATATGGTGGGATCGACCGTATGTG
Found at i:1599361 original size:45 final size:45
Alignment explanation
Indices: 1599275--1599533 Score: 412
Period size: 45 Copynumber: 5.8 Consensus size: 45
1599265 GTAAGCATGC
* * *
1599275 AAATAAGCTTACAAGGTTATGGAAT-AATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
*
1599319 AAATAAGCTTACGAGCGTATGGGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
* *
1599364 AAATAAGCTTACAATCTTATGGGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
1599409 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
* *
1599454 AAATAAGCTTATGAGCTTATGGGATAAATGGTAATTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
* * *
1599499 AAATAAGATTACGAGCTTATAGGATAAATGATAAG
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1599534 AAATTTTATA
Statistics
Matches: 198, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
44 21 0.11
45 177 0.89
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
Found at i:1602367 original size:6 final size:5
Alignment explanation
Indices: 1602331--1602435 Score: 69
Period size: 5 Copynumber: 20.4 Consensus size: 5
1602321 AATATATTAT
1602331 AAGAA AA-AA AAGAA ACAGAA AA-AA GAAGAA AACGAA AAG-A AAGAA
1 AAGAA AAGAA AAGAA A-AGAA AAGAA -AAGAA AA-GAA AAGAA AAGAA
* *
1602376 GA-AA AAGAA GAA-AA AA-AA ACAGAAA AAGAA GAAGAA AAAAA ACAGAAA
1 AAGAA AAGAA -AAGAA AAGAA A-AG-AA AAGAA -AAGAA AAGAA A-AG-AA
1602424 AAGAA AAGAA AA
1 AAGAA AAGAA AA
1602436 AAAGAGAGAG
Statistics
Matches: 82, Mismatches: 4, Indels: 28
0.72 0.04 0.25
Matches are distributed among these distances:
4 18 0.22
5 34 0.41
6 24 0.29
7 6 0.07
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:1602371 original size:21 final size:21
Alignment explanation
Indices: 1602331--1602437 Score: 107
Period size: 22 Copynumber: 5.1 Consensus size: 21
1602321 AATATATTAT
*
1602331 AAGAAAAAAAAGAAACAGAAAA
1 AAGAAGAAAAAGAAA-AGAAAA
*
1602353 AAGAAGAAAACGAAAAG---A
1 AAGAAGAAAAAGAAAAGAAAA
1602371 AAGAAGAAAAAGAAGAA-AAAA
1 AAGAAGAAAAAGAA-AAGAAAA
1602392 AA-ACAGAAAAAGAAGAAGAAAA
1 AAGA-AGAAAAAGAA-AAGAAAA
*
1602414 AAAACAGAAAAAGAAAAGAAAA
1 AAGA-AGAAAAAGAAAAGAAAA
1602436 AA
1 AA
1602438 AGAGAGAGAG
Statistics
Matches: 75, Mismatches: 3, Indels: 14
0.82 0.03 0.15
Matches are distributed among these distances:
18 14 0.19
19 2 0.03
20 1 0.01
21 18 0.24
22 28 0.37
23 12 0.16
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (21 bp):
AAGAAGAAAAAGAAAAGAAAA
Found at i:1602378 original size:34 final size:32
Alignment explanation
Indices: 1602340--1602434 Score: 92
Period size: 33 Copynumber: 3.0 Consensus size: 32
1602330 TAAGAAAAAA
1602340 AAGAAACAGAAAAAAGAAGAAAACGAAAAGAAAG
1 AAGAAA-AGAAAAAAGAA-AAAACGAAAAGAAAG
*
1602374 AAGAAAAAGAAGAAA-AAAAAACAGAAAA-AGAAG
1 AAG-AAAAGAAAAAAGAAAAAAC-GAAAAGA-AAG
*
1602407 AAGAAAA-AAAACAG-AAAAA-GAAAAGAAA
1 AAGAAAAGAAAAAAGAAAAAACGAAAAGAAA
1602435 AAAAGAGAGA
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
29 7 0.13
30 1 0.02
31 9 0.17
32 10 0.19
33 13 0.25
34 10 0.19
35 3 0.06
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (32 bp):
AAGAAAAGAAAAAAGAAAAAACGAAAAGAAAG
Found at i:1602431 original size:49 final size:49
Alignment explanation
Indices: 1602331--1602438 Score: 143
Period size: 49 Copynumber: 2.2 Consensus size: 49
1602321 AATATATTAT
*
1602331 AAGAAAAAAAAGAAACAGAAAAAAGAAGAAAACGAAAAGAAAGAAGAAA
1 AAGAAAAAAAAGAAACAGAAAAAAGAAGAAAACAAAAAGAAAGAAGAAA
1602380 AAGAAGAAAAAA-AAACAGAAAAAGAAGAAGAAAA-AAAACAGAAA-AAG-AA
1 AAGAA-AAAAAAGAAACAG-AAAA-AAGAAGAAAACAAAA-AGAAAGAAGAAA
1602429 AAGAAAAAAA
1 AAGAAAAAAA
1602439 GAGAGAGAGA
Statistics
Matches: 54, Mismatches: 1, Indels: 9
0.84 0.02 0.14
Matches are distributed among these distances:
48 5 0.09
49 18 0.33
50 16 0.30
51 15 0.28
ACGTcount: A:0.80, C:0.04, G:0.17, T:0.00
Consensus pattern (49 bp):
AAGAAAAAAAAGAAACAGAAAAAAGAAGAAAACAAAAAGAAAGAAGAAA
Found at i:1602451 original size:21 final size:21
Alignment explanation
Indices: 1602337--1602438 Score: 106
Period size: 21 Copynumber: 4.9 Consensus size: 21
1602327 TTATAAGAAA
1602337 AAAAAGAAACAGAAAAAAGA-AG
1 AAAAAGAAA-AGAAAAAA-ACAG
* *
1602359 AAAACGAAAAG--AAAGA-AG
1 AAAAAGAAAAGAAAAAAACAG
1602377 AAAAAGAAGAA-AAAAAAACAG
1 AAAAAGAA-AAGAAAAAAACAG
1602398 AAAAAGAAGAAGAAAAAAAACAG
1 AAAAAGAA-AAG-AAAAAAACAG
1602421 AAAAAGAAAAGAAAAAAA
1 AAAAAGAAAAGAAAAAAA
1602439 GAGAGAGAGA
Statistics
Matches: 70, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
18 10 0.14
19 5 0.07
20 4 0.06
21 22 0.31
22 11 0.16
23 18 0.26
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAGAAAAAAACAG
Found at i:1605494 original size:14 final size:14
Alignment explanation
Indices: 1605468--1605503 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1605458 AATCGGACAG
*
1605468 CAGATTCTGCAAAA
1 CAGATTCTACAAAA
*
1605482 CATATTCTACAAAA
1 CAGATTCTACAAAA
1605496 CAGATTCT
1 CAGATTCT
1605504 GTTGGTCAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (14 bp):
CAGATTCTACAAAA
Found at i:1606446 original size:40 final size:40
Alignment explanation
Indices: 1606391--1606509 Score: 175
Period size: 40 Copynumber: 3.0 Consensus size: 40
1606381 AGGATTATAG
*
1606391 TACACTTCGGTGTATATGGTGGGCACGACCTTATTTGTAA
1 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
1606431 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
1 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
* * * * * *
1606471 TAAACTACAGCGTATATGGTGGGAACGACATTATGTGTA
1 TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTA
1606510 GCACTACGGT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (40 bp):
TACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAA
Found at i:1606742 original size:91 final size:89
Alignment explanation
Indices: 1606611--1606824 Score: 317
Period size: 91 Copynumber: 2.4 Consensus size: 89
1606601 GTAAGTATGG
* * * *
1606611 AAATAGGCTTACGAGGTTATG-GA-ATAATGGTAAGTATATTGGTAAATTAAGCTTACGAGCTTA
1 AAATAAGCTTACAAGCTTATGAGATA-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTA
1606674 TGGGATAAAATGGTAAGTATATTGGTA
65 TGGGAT-AAATGGTAAGTATATT-GTA
1606701 AAATAAGCTTACAAGCTTATGAGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACAAGCTTATGAGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
1606766 GGGATAAATGGTAAGTATATTGTA
66 GGGATAAATGGTAAGTATATTGTA
* *
1606790 AAATAAGCTTACAAGCGTAT-AGGATAAATGATAAG
1 AAATAAGCTTACAAGCTTATGA-GATAAATGGTAAG
1606825 AAATTTTATA
Statistics
Matches: 115, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
88 1 0.01
89 34 0.30
90 34 0.30
91 45 0.39
92 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (89 bp):
AAATAAGCTTACAAGCTTATGAGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
GGGATAAATGGTAAGTATATTGTA
Found at i:1606745 original size:45 final size:45
Alignment explanation
Indices: 1606611--1606824 Score: 292
Period size: 45 Copynumber: 4.8 Consensus size: 45
1606601 GTAAGTATGG
* *
1606611 AAATAGGCTTACGAGGTTATG-GA-ATAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGAGATA-AATGGTAAGTATATTGGTA
* *
1606655 AATTAAGCTTACGAGCTTATGGGATAAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGAGAT-AAATGGTAAGTATATTGGTA
*
1606701 AAATAAGCTTACAAGCTTATGAGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGAGATAAATGGTAAGTATATTGGTA
*
1606746 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATT-GTA
1 AAATAAGCTTACGAGCTTATGAGATAAATGGTAAGTATATTGGTA
* * *
1606790 AAATAAGCTTACAAGCGTAT-AGGATAAATGATAAG
1 AAATAAGCTTACGAGCTTATGA-GATAAATGGTAAG
1606825 AAATTTTATA
Statistics
Matches: 154, Mismatches: 12, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
44 51 0.33
45 61 0.40
46 41 0.27
47 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGAGATAAATGGTAAGTATATTGGTA
Found at i:1613449 original size:39 final size:39
Alignment explanation
Indices: 1613405--1613498 Score: 170
Period size: 39 Copynumber: 2.4 Consensus size: 39
1613395 ATGAAAATGA
*
1613405 TATCATGATTTTGATATGACTATTATGTATGATATTGTT
1 TATCATGATTTTGATATGACTATTATGTATCATATTGTT
1613444 TATCATGATTTTGATATGACTATTATGTATCATATTGTT
1 TATCATGATTTTGATATGACTATTATGTATCATATTGTT
*
1613483 TATCATGGTTTTGATA
1 TATCATGATTTTGATA
1613499 AAATCATGAG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.51
Consensus pattern (39 bp):
TATCATGATTTTGATATGACTATTATGTATCATATTGTT
Found at i:1618223 original size:19 final size:20
Alignment explanation
Indices: 1618182--1618232 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
1618172 GAAACCCATT
*
1618182 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
1618202 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
1618221 TGAAGATACATG
1 TGAAAATACATG
1618233 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:1619179 original size:30 final size:31
Alignment explanation
Indices: 1619140--1619199 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
1619130 ACATGATGCC
**
1619140 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
*
1619171 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATGCAAACATAATA
1619200 TAAAGCTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:1621611 original size:5 final size:5
Alignment explanation
Indices: 1621601--1621670 Score: 51
Period size: 5 Copynumber: 14.0 Consensus size: 5
1621591 CTTTTTTGAA
*
1621601 CTTTT CTTTT CTTTT CTTCTT -TTCTT CTTTT CTGATTT -TTTT CTCTT
1 CTTTT CTTTT CTTTT CTT-TT CTT-TT CTTTT CT--TTT CTTTT CTTTT
1621648 C-TTT -TTTT CTTTT -TCTTT CTTTT
1 CTTTT CTTTT CTTTT CT-TTT CTTTT
1621671 TGCACTTCAA
Statistics
Matches: 54, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
4 9 0.17
5 36 0.67
6 6 0.11
7 3 0.06
ACGTcount: A:0.01, C:0.20, G:0.01, T:0.77
Consensus pattern (5 bp):
CTTTT
Found at i:1621620 original size:8 final size:8
Alignment explanation
Indices: 1621609--1621670 Score: 56
Period size: 8 Copynumber: 7.9 Consensus size: 8
1621599 AACTTTTCTT
1621609 TTCTTTTC
1 TTCTTTTC
1621617 TTCTTTTC
1 TTCTTTTC
1621625 TTCTTTTC
1 TTCTTTTC
** *
1621633 TGATTTTT
1 TTCTTTTC
*
1621641 TTCTCTTC
1 TTCTTTTC
*
1621649 TTTTTTTC
1 TTCTTTTC
1621657 -T-TTTTC
1 TTCTTTTC
1621663 TTTCTTTT
1 -TTCTTTT
1621671 TGCACTTCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
6 5 0.12
7 1 0.02
8 32 0.76
9 4 0.10
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (8 bp):
TTCTTTTC
Found at i:1621620 original size:13 final size:13
Alignment explanation
Indices: 1621601--1621670 Score: 56
Period size: 13 Copynumber: 5.4 Consensus size: 13
1621591 CTTTTTTGAA
1621601 CTTTTCTTTTCTT
1 CTTTTCTTTTCTT
1621614 -TTCTTCTTTTCTT
1 CTT-TTCTTTTCTT
**
1621627 CTTTTCTGAT-TT
1 CTTTTCTTTTCTT
*
1621639 -TTTTCTCTTCTT
1 CTTTTCTTTTCTT
*
1621651 TTTTTCTTTTTCTTT
1 CTTTTC-TTTTC-TT
1621666 CTTTT
1 CTTTT
1621671 TGCACTTCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
11 7 0.16
12 6 0.13
13 20 0.44
14 6 0.13
15 6 0.13
ACGTcount: A:0.01, C:0.20, G:0.01, T:0.77
Consensus pattern (13 bp):
CTTTTCTTTTCTT
Found at i:1621628 original size:21 final size:22
Alignment explanation
Indices: 1621604--1621670 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 22
1621594 TTTTGAACTT
1621604 TTCTTTTC-TTTTCTTCTTTTC
1 TTCTTTTCTTTTTCTTCTTTTC
* *
1621625 TTCTTTTCTGATTTTTTTCTCTTC
1 TTCTTTTCT--TTTTCTTCTTTTC
*
1621649 TTTTTTTCTTTTTCTTTCTTTT
1 TTCTTTTCTTTTTC-TTCTTTT
1621671 TGCACTTCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
21 8 0.22
22 4 0.11
23 6 0.16
24 19 0.51
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.78
Consensus pattern (22 bp):
TTCTTTTCTTTTTCTTCTTTTC
Found at i:1621721 original size:10 final size:11
Alignment explanation
Indices: 1621697--1621721 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1621687 TGTAGGAGTA
1621697 TTTTCTTCTGT
1 TTTTCTTCTGT
1621708 TTTTCTTCTGT
1 TTTTCTTCTGT
1621719 TTT
1 TTT
1621722 GCACGCCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTCTTCTGT
Found at i:1622403 original size:19 final size:20
Alignment explanation
Indices: 1622362--1622412 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
1622352 GAAACCCCTT
*
1622362 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
1622382 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
1622401 TGAAGATACATG
1 TGAAAATACATG
1622413 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:1623350 original size:30 final size:31
Alignment explanation
Indices: 1623311--1623370 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
1623301 ACATGCTGCC
**
1623311 ATGATATCTAAATGATATACAAACATAATAA
1 ATGATATCTAAAACATATACAAACATAATAA
**
1623342 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATACAAACATAATA
1623371 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATACAAACATAATAA
Found at i:1627126 original size:138 final size:137
Alignment explanation
Indices: 1626854--1627123 Score: 382
Period size: 138 Copynumber: 2.0 Consensus size: 137
1626844 TTTCTTTAGA
* * * *
1626854 TTAATTTCATTTTAGTCCCTTAATTTAGGGAATATTCGATTGGCTCCCTCCTTAATGTCAGAGGG
1 TTAATTTCACTTTAGTCCCTTAATTTAGGGAATATTCGATTGGCTCCCGCCTTAATGCCAGAGAG
* *
1626919 TCCATTTCGATTATTTGATTCAATAATTGGTTAAAATCAATTAGGATTAATATTAGAGCCTCCAT
66 TCCATTTCGATTATTCGATTCAATAATTGGTCAAAATCAATTAGGATTAATATTAGAGCCTCCAT
1626984 TTTAGGC
131 TTTAGGC
* * * *
1626991 TTAATTTCACTTTA-TCACCTTAATTTAGGGAATATTTGATTTGGTTCTCGCCTTAATGCCCGAG
1 TTAATTTCACTTTAGTC-CCTTAATTTAGGGAATATTCGA-TTGGCTCCCGCCTTAATGCCAGAG
* ** *
1627055 AGTCTATTTCGATTATTCGATTCAATAATTGGTCAAAATTGATTAGGATTAATATTAGAG-CTTC
64 AGTCCATTTCGATTATTCGATTCAATAATTGGTCAAAATCAATTAGGATTAATATTAGAGCCTCC
1627119 ATTTT
129 ATTTT
1627124 TAGATTTAGT
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
136 2 0.02
137 42 0.36
138 73 0.62
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (137 bp):
TTAATTTCACTTTAGTCCCTTAATTTAGGGAATATTCGATTGGCTCCCGCCTTAATGCCAGAGAG
TCCATTTCGATTATTCGATTCAATAATTGGTCAAAATCAATTAGGATTAATATTAGAGCCTCCAT
TTTAGGC
Found at i:1628208 original size:28 final size:28
Alignment explanation
Indices: 1628176--1628241 Score: 132
Period size: 28 Copynumber: 2.4 Consensus size: 28
1628166 ATCTTTTCTT
1628176 ATTTAGGTGCTTAATTTTCTTCCGTTCA
1 ATTTAGGTGCTTAATTTTCTTCCGTTCA
1628204 ATTTAGGTGCTTAATTTTCTTCCGTTCA
1 ATTTAGGTGCTTAATTTTCTTCCGTTCA
1628232 ATTTAGGTGC
1 ATTTAGGTGC
1628242 CTAGTATTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.48
Consensus pattern (28 bp):
ATTTAGGTGCTTAATTTTCTTCCGTTCA
Found at i:1635147 original size:13 final size:13
Alignment explanation
Indices: 1635129--1635154 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1635119 TAAAATAATG
1635129 ACAAAATTTAAAA
1 ACAAAATTTAAAA
1635142 ACAAAATTTAAAA
1 ACAAAATTTAAAA
1635155 TATTGAAATA
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:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
ACAAAATTTAAAA
Found at i:1639897 original size:97 final size:98
Alignment explanation
Indices: 1639734--1639921 Score: 261
Period size: 97 Copynumber: 1.9 Consensus size: 98
1639724 TTTAATGACT
* * * **
1639734 TTTATATCTTGATCTTGTTTACTCGCTGCTTGAGTATCTTCAATGATACCAAACAGGGGTTGAGA
1 TTTATATCTTGATCTTGTTTACTCGCTGCTCGAATATCTTAAATGATACCAAACAGGGGTCAAGA
* * *
1639799 C-AGTCGTTAGACTCGCATTAGTTTTAATGTTG
66 CAAGCCATTAGACTCACATTAGTTTTAATGTTG
* * *
1639831 TTTATCTCTTGATCTTTTTTAGTCGCTGCTCGAATATCTTAAATGATACCAAACAGGGGTCAAGA
1 TTTATATCTTGATCTTGTTTACTCGCTGCTCGAATATCTTAAATGATACCAAACAGGGGTCAAGA
1639896 CAAAGCCATTAGACTCACATTAGTTT
66 C-AAGCCATTAGACTCACATTAGTTT
1639922 CCCTTGACAG
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
97 58 0.74
99 20 0.26
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (98 bp):
TTTATATCTTGATCTTGTTTACTCGCTGCTCGAATATCTTAAATGATACCAAACAGGGGTCAAGA
CAAGCCATTAGACTCACATTAGTTTTAATGTTG
Found at i:1640231 original size:31 final size:31
Alignment explanation
Indices: 1640193--1640254 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
1640183 TATTCTCCTG
*
1640193 TGAAATGGAGCTCGATTCGACTCGAAAACTC
1 TGAAATGGAGCTCGACTCGACTCGAAAACTC
1640224 TGAAATGGAGCTCGACTCGACTCGAAAACTC
1 TGAAATGGAGCTCGACTCGACTCGAAAACTC
1640255 GCGAGCTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (31 bp):
TGAAATGGAGCTCGACTCGACTCGAAAACTC
Found at i:1642867 original size:13 final size:13
Alignment explanation
Indices: 1642849--1642873 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1642839 CAAGGATTGG
1642849 GATAATCTTCTAA
1 GATAATCTTCTAA
1642862 GATAATCTTCTA
1 GATAATCTTCTA
1642874 TTAGGTAAAT
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:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
GATAATCTTCTAA
Found at i:1642997 original size:30 final size:30
Alignment explanation
Indices: 1642961--1643017 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
1642951 AGTAAATAGG
1642961 ATGAAGAAACCCTAATTAAAATATATATAT
1 ATGAAGAAACCCTAATTAAAATATATATAT
*
1642991 ATGAAGAAACCCTAATTAATATATATA
1 ATGAAGAAACCCTAATTAAAATATATA
1643018 GTGGTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.30
Consensus pattern (30 bp):
ATGAAGAAACCCTAATTAAAATATATATAT
Found at i:1643691 original size:21 final size:21
Alignment explanation
Indices: 1643667--1643707 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1643657 ATAATTTTCA
**
1643667 TAAACTATTTTTTAAAAAATG
1 TAAACTATTTTACAAAAAATG
1643688 TAAACTATTTTACAAAAAAT
1 TAAACTATTTTACAAAAAAT
1643708 ATTTTTTAAA
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:0.51, C:0.07, G:0.02, T:0.39
Consensus pattern (21 bp):
TAAACTATTTTACAAAAAATG
Found at i:1644865 original size:30 final size:30
Alignment explanation
Indices: 1644821--1644881 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 30
1644811 TAATTCGGTG
1644821 ATTCAAATGTCCTTCTCACTAGGAACTCCC
1 ATTCAAATGTCCTTCTCACTAGGAACTCCC
1644851 ATTCAATATG-CCTTCTCACTAGGAACTCCC
1 ATTCAA-ATGTCCTTCTCACTAGGAACTCCC
1644881 A
1 A
1644882 AACTCTTGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.28, C:0.33, G:0.10, T:0.30
Consensus pattern (30 bp):
ATTCAAATGTCCTTCTCACTAGGAACTCCC
Found at i:1651679 original size:99 final size:98
Alignment explanation
Indices: 1651508--1651701 Score: 334
Period size: 99 Copynumber: 2.0 Consensus size: 98
1651498 TGTAGTATGT
* * *
1651508 CTTTATCAGGTTAGCTGAATCTTATTCATAAAGCCGGGACGTTTAACCAATTGCTCTAGTGGGAC
1 CTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGACGTTTAACCAATTGCTCTAGAGGGAC
*
1651573 AACTCAAGCTTTATTGTATATATATTATAATCAC
66 AACTCAAGCTTTATTGTATACATA-TATAATCAC
1651607 CTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGACGTTTAACCAATTGCTCTAGAGGGAC
1 CTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGACGTTTAACCAATTGCTCTAGAGGGAC
*
1651672 AGCTCAAGCTTTATTGTATACATATATAAT
66 AACTCAAGCTTTATTGTATACATATATAAT
1651702 TACATTATGG
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
98 6 0.07
99 84 0.93
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (98 bp):
CTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGACGTTTAACCAATTGCTCTAGAGGGAC
AACTCAAGCTTTATTGTATACATATATAATCAC
Found at i:1653199 original size:15 final size:15
Alignment explanation
Indices: 1653179--1653209 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1653169 CAGATTATCA
1653179 TTATTTAAGTACCCT
1 TTATTTAAGTACCCT
1653194 TTATTTAAGTACCCT
1 TTATTTAAGTACCCT
1653209 T
1 T
1653210 CCATCTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (15 bp):
TTATTTAAGTACCCT
Found at i:1657429 original size:18 final size:18
Alignment explanation
Indices: 1657380--1657421 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
1657370 TCGGTACCTA
1657380 GGGTATGAATACCCATAG
1 GGGTATGAATACCCATAG
1657398 GGGTATGAATACCCATAG
1 GGGTATGAATACCCATAG
1657416 GGGTAT
1 GGGTAT
1657422 CAAAACCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (18 bp):
GGGTATGAATACCCATAG
Found at i:1660586 original size:20 final size:20
Alignment explanation
Indices: 1660561--1660598 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1660551 TTGGAGCCAG
1660561 GGGGTAT-GGATACCCAGGCA
1 GGGGTATCGG-TACCCAGGCA
1660581 GGGGTATCGGTACCCAGG
1 GGGGTATCGGTACCCAGG
1660599 GTGTGGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.21, C:0.21, G:0.42, T:0.16
Consensus pattern (20 bp):
GGGGTATCGGTACCCAGGCA
Found at i:1661854 original size:131 final size:131
Alignment explanation
Indices: 1661608--1661956 Score: 382
Period size: 131 Copynumber: 2.7 Consensus size: 131
1661598 ATATTTAATT
* * * *
1661608 ATTTCCTATCGAGAAGAAATGACCTTTTGTGCATTAAAACAATCATTTATTACTCCAATTGAAAT
1 ATTTCCAATCGAGAATAAATGACCTTTTGTGCATTTAAACAGTCATTTATTACTCCAATTGAAAT
* * ** * * * * **
1661673 TAAGAGATATTACTATTTCATCTTCAAATTCAATATCGATTCAAGTGAAAATAATAACATCTTAT
66 AAAGAGATATTAATATTTCATCTAAAAATTCAATATCAATTCAAGAGAAAACAACAACATCAAAT
1661738 G
131 G
*
1661739 ATTTCCAATTGAGAATAAATGACCTTTTGTGCATTTAAACAGTCATTTATTAC-CCAAATTGAAA
1 ATTTCCAATCGAGAATAAATGACCTTTTGTGCATTTAAACAGTCATTTATTACTCC-AATTGAAA
* * * * *
1661803 TAAAGAGATATTAATATTTCATCTAAAAAATT-GATATTAATTCGAGAGAAAACGACAATATCAA
65 TAAAGAGATATTAATATTTCATCT-AAAAATTCAATATCAATTCAAGAGAAAACAACAACATCAA
*
1661867 ATT
129 ATG
* * * **
1661870 ATTTCCAATCGAGAATAAATGACCTCTTATGC-TTTAAAGCAGTCATTTATTACTCCGACCGAAA
1 ATTTCCAATCGAGAATAAATGACCTTTTGTGCATTTAAA-CAGTCATTTATTACTCCAATTGAAA
*
1661934 TGAAAG-GATATTACTATTCTCAT
65 T-AAAGAGATATTAATATT-TCAT
1661957 TATCGATTCG
Statistics
Matches: 184, Mismatches: 28, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
130 8 0.04
131 161 0.88
132 15 0.08
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (131 bp):
ATTTCCAATCGAGAATAAATGACCTTTTGTGCATTTAAACAGTCATTTATTACTCCAATTGAAAT
AAAGAGATATTAATATTTCATCTAAAAATTCAATATCAATTCAAGAGAAAACAACAACATCAAAT
G
Found at i:1672492 original size:20 final size:20
Alignment explanation
Indices: 1672467--1672520 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1672457 TTACCTTCAC
1672467 ATTTCAAATTCATAACTCAT
1 ATTTCAAATTCATAACTCAT
* *
1672487 ATTTCATATTCATATCTCAT
1 ATTTCAAATTCATAACTCAT
*
1672507 ATTTCAGATTCATA
1 ATTTCAAATTCATA
1672521 GTCCAATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (20 bp):
ATTTCAAATTCATAACTCAT
Found at i:1681805 original size:32 final size:31
Alignment explanation
Indices: 1681751--1682094 Score: 148
Period size: 32 Copynumber: 10.4 Consensus size: 31
1681741 TCGAAAATTT
* *
1681751 ATATATTATATAGGTTTTGAAAATATTTGTAAA
1 ATATAATATATA-GTTTTGAAAACATTT-TAAA
1681784 ATATAATATATAGTTTTGAAAACA-TTT---
1 ATATAATATATAGTTTTGAAAACATTTTAAA
* * *
1681811 ATATATTGTATAGTTTTTAAAACATTTTGAAA
1 ATATAATATATAGTTTTGAAAACATTTT-AAA
*
1681843 ACTTATATAGTATATAGTTTTTAAAACATTTTTAAA
1 A--TATA-A-TATATAGTTTTGAAAACA-TTTTAAA
* *
1681879 ATATAATATATAGTCTTAAAAACATTTTTAAAAAA
1 ATATAATATATAGTTTTGAAAACA-TTTT---AAA
** *
1681914 TTATATAATATATAGTTTAAAAAAATATTTTTTGAAAAA
1 --ATATAATATATAGTTT-TGAAAACA--TTTT---AAA
*
1681953 TTATATAATATATAG-TTTAAAAACATTTTTTTAAA
1 --ATATAATATATAGTTTTGAAAACA---TTTTAAA
* *
1681988 ACT-T-ATATAATA-TTTTTAAAGCATTTTGAAAA
1 A-TATAATAT-ATAGTTTTGAAAACATTTT--AAA
* *
1682020 CTATATAACATATAGTTTTGAAAACTTTTTAAA
1 --ATATAATATATAGTTTTGAAAACATTTTAAA
* ** * *
1682053 ATAAAATATATAGTTTAAAAAAATATTTTGAA
1 ATATAATATATAGTTT-TGAAAACATTTTAAA
1682085 ATAT-ATATAT
1 ATATAATATAT
1682095 TATATAAATT
Statistics
Matches: 253, Mismatches: 29, Indels: 60
0.74 0.08 0.18
Matches are distributed among these distances:
27 21 0.08
28 3 0.01
30 5 0.02
31 22 0.09
32 53 0.21
33 29 0.11
34 14 0.06
35 21 0.08
36 21 0.08
37 25 0.10
38 14 0.06
39 25 0.10
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (31 bp):
ATATAATATATAGTTTTGAAAACATTTTAAA
Found at i:1681813 original size:60 final size:62
Alignment explanation
Indices: 1681747--1681873 Score: 163
Period size: 63 Copynumber: 2.1 Consensus size: 62
1681737 ATTGTCGAAA
*
1681747 ATTTATATATTATATAGGTTTTGAAAATA-TTTGTAAAA-TATA-A-TATATAGTTTTGAAAAC
1 ATTTATATATTATATA-GTTTTGAAAACATTTTG-AAAACTATATAGTATATAGTTTTGAAAAC
* * *
1681807 ATTTATATATTGTATAGTTTTTAAAACATTTTGAAAACTTATATAGTATATAGTTTTTAAAAC
1 ATTTATATATTATATAGTTTTGAAAACATTTTGAAAAC-TATATAGTATATAGTTTTGAAAAC
1681870 ATTT
1 ATTT
1681874 TTAAAATATA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
59 14 0.24
60 19 0.33
61 4 0.07
62 1 0.02
63 20 0.34
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (62 bp):
ATTTATATATTATATAGTTTTGAAAACATTTTGAAAACTATATAGTATATAGTTTTGAAAAC
Found at i:1681814 original size:27 final size:27
Alignment explanation
Indices: 1681784--1681837 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
1681774 TATTTGTAAA
*
1681784 ATATAATATATAGTTTTGAAAACATTT
1 ATATATTATATAGTTTTGAAAACATTT
* *
1681811 ATATATTGTATAGTTTTTAAAACATTT
1 ATATATTATATAGTTTTGAAAACATTT
1681838 TGAAAACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (27 bp):
ATATATTATATAGTTTTGAAAACATTT
Found at i:1681920 original size:37 final size:36
Alignment explanation
Indices: 1681797--1682100 Score: 223
Period size: 37 Copynumber: 8.7 Consensus size: 36
1681787 TAATATATAG
* * *
1681797 TTTTGAAAACATTTATATATTGTATAGTTTTTAAAACA-
1 TTTTGAAAA-A-TTATATAATATATAG-TTTAAAAACAT
* * *
1681835 TTTTGAAAACTTATATAGTATATAGTTTTTAAAACAT
1 TTTTGAAAAATTATATAATATATAG-TTTAAAAACAT
1681872 TTTT---AAA--ATATAATATATAGTCTTAAAAACAT
1 TTTTGAAAAATTATATAATATATAGT-TTAAAAACAT
* *
1681904 TTTTAAAAAATTATATAATATATAGTTTAAAAAAATATT
1 TTTTGAAAAATTATATAATATATAGTTT--AAAAACA-T
1681943 TTTTGAAAAATTATATAATATATAGTTTAAAAACATT
1 TTTTGAAAAATTATATAATATATAGTTTAAAAACA-T
* * *
1681980 TTTTTAAAACTTATATAATAT-T--TTT-AAAGCA-
1 TTTTGAAAAATTATATAATATATAGTTTAAAAACAT
* * *
1682011 TTTTG-AAAACTATATAACATATAGTTTTGAAAAC-T
1 TTTTGAAAAATTATATAATATATAG-TTTAAAAACAT
*
1682046 TTTT--AAAA-TA-A-AATATATAGTTTAAAAAAAT
1 TTTTGAAAAATTATATAATATATAGTTTAAAAACAT
* *
1682077 ATTTTGAAATA-TATATATTATATA
1 -TTTTGAAAAATTATATAATATATA
1682101 AATTATATTT
Statistics
Matches: 222, Mismatches: 22, Indels: 46
0.77 0.08 0.16
Matches are distributed among these distances:
30 19 0.09
31 15 0.07
32 30 0.14
33 7 0.03
34 17 0.08
35 12 0.05
36 34 0.15
37 45 0.20
38 15 0.07
39 28 0.13
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (36 bp):
TTTTGAAAAATTATATAATATATAGTTTAAAAACAT
Found at i:1681958 original size:69 final size:67
Alignment explanation
Indices: 1681784--1682094 Score: 177
Period size: 76 Copynumber: 4.6 Consensus size: 67
1681774 TATTTGTAAA
** * * * * * *
1681784 ATATAATATATAGTTTTGAAAACA--TTT-ATATAT-TGTATAGTTTTTAAAACATTTTGAAAAC
1 ATATAATATATAGTTTAAAAAACATTTTTAAAATATATATATAGTCTTAAAAACATTTTAAAAAA
1681845 TT
66 TT
* **
1681847 ATATAGTATATAGTTTTTAAAACATTTTTAAAATATAATATATAGTCTTAAAAACATTTTTAAAA
1 ATATAATATATAGTTTAAAAAACATTTTTAAAATAT-ATATATAGTCTTAAAAACA-TTTTAAAA
1681912 AATT
64 AATT
*
1681916 ATATAATATATAGTTTAAAAAAATATTTTTTGAAAAATTATATAATATATAGT-TTAAAAACATT
1 ATATAATATATAGTTT-AAAAAACA-TTTTT---AAA--ATAT-ATATATAGTCTTAAAAACA--
* *
1681980 TTTTTAAAACTT
56 TTTTAAAAAATT
* * * * *
1681992 ATATAATAT-T--TTT--AAAGCATTTTGAAAACTATATAACATATAGTTTTGAAAAC-TTTT-T
1 ATATAATATATAGTTTAAAAAACATTTTTAAAA-TATAT---ATATAGTCTTAAAAACATTTTAA
1682050 AAAA-T
62 AAAATT
*
1682055 A-A-AATATATAGTTTAAAAAA-ATATTTTGAAATATATATAT
1 ATATAATATATAGTTTAAAAAACAT-TTTTAAAATATATATAT
1682095 TATATAAATT
Statistics
Matches: 200, Mismatches: 23, Indels: 51
0.73 0.08 0.19
Matches are distributed among these distances:
61 5 0.03
62 6 0.03
63 24 0.12
64 9 0.05
65 17 0.09
66 17 0.09
67 7 0.04
68 22 0.11
69 29 0.14
70 9 0.05
71 5 0.03
73 3 0.01
74 3 0.01
75 10 0.05
76 34 0.17
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (67 bp):
ATATAATATATAGTTTAAAAAACATTTTTAAAATATATATATAGTCTTAAAAACATTTTAAAAAA
TT
Found at i:1682013 original size:108 final size:106
Alignment explanation
Indices: 1681835--1682037 Score: 243
Period size: 108 Copynumber: 1.9 Consensus size: 106
1681825 TTTTAAAACA
* * *
1681835 TTTTGAAAACTTATATAGTATATAGTTTTTAAAACATTTTTAAAATATAATATATAGTCTTAAAA
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACATTTTTAAAATATAATATATAGTCTTAAAA
* *
1681900 ACATTTTTAAAAAATTATATAATATATAGTTTAAAAAAATATT
66 ACA-TTTT-AAAAACTATATAACATATAGTTTAAAAAAATATT
*
1681943 TTTTGAAAAATTATATAATATATAG-TTTAAAAACATTTTTTTAAAACT-T-ATATAATA-TTTT
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACA--TTTTTAAAA-TATAATAT-ATAGTCTT
* * *
1682004 TAAAGCATTTTGAAAACTATATAACATATAGTTT
62 AAAAACATTTTAAAAACTATATAACATATAGTTT
1682038 TGAAAACTTT
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
106 20 0.24
107 13 0.16
108 35 0.43
109 13 0.16
110 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.44
Consensus pattern (106 bp):
TTTTGAAAAATTATATAATATATAGTTTTAAAAACATTTTTAAAATATAATATATAGTCTTAAAA
ACATTTTAAAAACTATATAACATATAGTTTAAAAAAATATT
Found at i:1682100 original size:67 final size:71
Alignment explanation
Indices: 1681810--1682100 Score: 229
Period size: 68 Copynumber: 4.2 Consensus size: 71
1681800 TGAAAACATT
* * * * * * *
1681810 TATATATTGTATAGTTTTTAAAACATTTTGAAAACTTATATAGTATATAGTTTTTAAAACAT-TT
1 TATATAATATATAGTTTTAAAAACATTTTTAAAAC-TATATAATATATAG-TTTAAAAAAATATT
1681874 TT--AAA-
64 TTGAAAAC
* *
1681879 -ATATAATATATAGTCTTAAAAACATTTTTAAAAAATTATATAATATATAGTTTAAAAAAATATT
1 TATATAATATATAGTTTTAAAAACATTTTT--AAAACTATATAATATATAGTTTAAAAAAATA--
*
1681943 TTTTGAAAAAT
62 TTTTG-AAAAC
**
1681954 TATATAATATATAG-TTTAAAAACATTTTTTTAAAACTTATATAATAT-T--TTT---AAAGCAT
1 TATATAATATATAGTTTTAAAAACA--TTTTTAAAAC-TATATAATATATAGTTTAAAAAAATAT
1682012 TTTGAAAAC
63 TTTGAAAAC
* *
1682021 TATATAACATATAGTTTTGAAAAC-TTTTTAAAA-TA-A-AATATATAGTTTAAAAAAATATTTT
1 TATATAATATATAGTTTTAAAAACATTTTTAAAACTATATAATATATAGTTTAAAAAAATATTTT
1682082 GAAATA-
66 GAAA-AC
*
1682088 TATATATTATATA
1 TATATAATATATA
1682101 AATTATATTT
Statistics
Matches: 181, Mismatches: 20, Indels: 44
0.74 0.08 0.18
Matches are distributed among these distances:
61 5 0.03
62 2 0.01
63 2 0.01
64 3 0.02
65 9 0.05
67 40 0.22
68 47 0.26
69 13 0.07
70 8 0.04
71 4 0.02
73 3 0.02
74 3 0.02
75 14 0.08
76 23 0.13
77 5 0.03
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (71 bp):
TATATAATATATAGTTTTAAAAACATTTTTAAAACTATATAATATATAGTTTAAAAAAATATTTT
GAAAAC
Found at i:1682144 original size:9 final size:9
Alignment explanation
Indices: 1682120--1682170 Score: 61
Period size: 9 Copynumber: 5.8 Consensus size: 9
1682110 TAGTATATTA
1682120 TTATTTT-T
1 TTATTTTAT
1682128 TTATTTTAT
1 TTATTTTAT
*
1682137 TCATTTTAT
1 TTATTTTAT
1682146 TTATTTTAAT
1 TTATTTT-AT
*
1682156 TTATTTCAT
1 TTATTTTAT
1682165 TT-TTTT
1 TTATTTT
1682171 CCAGGTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
8 10 0.27
9 19 0.51
10 8 0.22
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (9 bp):
TTATTTTAT
Found at i:1683472 original size:6 final size:6
Alignment explanation
Indices: 1683452--1683516 Score: 58
Period size: 6 Copynumber: 10.5 Consensus size: 6
1683442 ATTTTTTCCT
* * * *
1683452 TTTTTA TTTCATTA TTTTTA TTTTTA TTTTTC TTATTA TTATTA TTATTA
1 TTTTTA TTT--TTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
1683502 TTATTA TATTTA TTT
1 TTTTTA TTTTTA TTT
1683517 CACTAACCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
6 45 0.88
8 6 0.12
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:1683492 original size:3 final size:3
Alignment explanation
Indices: 1683462--1683508 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
1683452 TTTTTATTTC
* * * *
1683462 ATT ATT TTT ATT TTT ATT TTT CTT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1683509 ATTTATTTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (3 bp):
ATT
Found at i:1690345 original size:73 final size:73
Alignment explanation
Indices: 1690187--1690875 Score: 1110
Period size: 73 Copynumber: 9.4 Consensus size: 73
1690177 GAGGTCTTAT
* *
1690187 CATCTTGCACTGTAGGTCTTACAGATGACCCTAAGGCTTTAAAAACTTCAAAAAGCTCCCGAAGG
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTT-AAAA--TCAAAAAGCTCCCGAAGG
1690252 CTTTTTGAAAA
63 CTTTTTGAAAA
* * *
1690263 CATCCTGCACTGCAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCTGAAGGCTT
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTT
1690328 TTTGAAAA
66 TTTGAAAA
*
1690336 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTT
1690401 TTTGAAAA
66 TTTGAAAA
* * *
1690409 CATCATGCACTGTAGGTCTTACAGATGACCCTGGGGATTTAAAAACTTCAAAAAGCTCCTGAAGG
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTT-AAAA--TCAAAAAGCTCCCGAAGG
1690474 CTTTTTGAAAA
63 CTTTTTGAAAA
* * * *
1690485 CATCCTGCACTGCAGGTCTTACAGATGACTCTGAGGCTTTAAAATCAATAAGCT-CCGAAGGCTT
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTT
1690549 TTTGAAAA
66 TTTGAAAA
1690557 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTT
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTT
1690622 TTTGAAAA
66 TTTGAAAA
* *
1690630 CATCATGCACTGTAGGTCTTATAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTT
*
1690695 TTTAAAAA
66 TTTGAAAA
* *
1690703 CATCATGCACTGTAGGTCTTACAGATGAACCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTT
1690768 TTTGAAAA
66 TTTGAAAA
* * *
1690776 CATCATGCGCTGTAGATCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTT
1690841 TTTGAAAA
66 TTTGAAAA
* *
1690849 CATCATGCACTATAGGGCTTACAGATG
1 CATCATGCACTGTAGGTCTTACAGATG
1690876 TTGGAAATAG
Statistics
Matches: 573, Mismatches: 36, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
72 67 0.12
73 395 0.69
74 3 0.01
75 8 0.01
76 100 0.17
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (73 bp):
CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTT
TTTGAAAA
Found at i:1692038 original size:52 final size:53
Alignment explanation
Indices: 1691953--1692072 Score: 161
Period size: 52 Copynumber: 2.3 Consensus size: 53
1691943 CTTAAAAAAC
* * * *
1691953 TTGACAACACATTCATCATTTCTTGTGGGTTCTGCTCATATGCTCATAAAACTT
1 TTGACAACACATTCA-CATCTCATGTGGGTTCTGCCCAGATGCTCATAAAACTT
* *
1692007 TTGACAACACATTCA-ATCTCATGTGGTTTCTGCCCAGATGTTCATAAAACTT
1 TTGACAACACATTCACATCTCATGTGGGTTCTGCCCAGATGCTCATAAAACTT
*
1692059 TTAACAACACATTC
1 TTGACAACACATTC
1692073 CTCTTTTCCT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 44 0.75
54 15 0.25
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (53 bp):
TTGACAACACATTCACATCTCATGTGGGTTCTGCCCAGATGCTCATAAAACTT
Found at i:1700626 original size:5 final size:5
Alignment explanation
Indices: 1700616--1700640 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1700606 ATTATAAAGC
1700616 TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG
1700641 AATTTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TTATG
Found at i:1704658 original size:164 final size:163
Alignment explanation
Indices: 1703746--1704925 Score: 1208
Period size: 164 Copynumber: 7.1 Consensus size: 163
1703736 TTAAGACAGA
* *
1703746 CTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
1 CTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* * * *
1703811 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAAAGACCCTCGAGTTCGATTTCACTCAAC
66 TTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCAAC
* *
1703876 TTCGAGGGCACATCATTTACAGCGTAACTCAAAG-
131 -TCGAAGGCACATCATTTACAGCATAACTC-AAGT
* *
1703910 CTAGAAGGGTTATCTGTCACTAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCA
1 CTAGAAGGGTTATCTGTCAC-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
* * * *
1703975 TTTGCAGCATAACTTAGGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
65 TTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCTCGAGTTCGACTACAC
* * * * * *
1704040 TTAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGT
126 TCAACTCGAAGGCACATCATTTACAGCATAACTCAAGT
* * * * * * *
1704078 CAAGAAGGGTTATCTG---CC-AAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAACA
1 CTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCA
* * * * * * * *
1704139 TTTACAGCATAACTCAAGGCTAGAAGGGTTATTTGTCACCAAAGACCTTCGAGTTCGACTACGCT
65 TTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGACTACACT
* * * * * *
1704204 CAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGT
127 CAACTCGAAGGCACATCATTTACAGCATAACTCAAGT
* *
1704241 CGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
1 CTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
* * * *** * * **
1704306 TTTGCAACATAGCTCAAGGAAAGAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGT
65 TTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCTCGAGTTCGACTACAC
* * * *
1704371 TCAACTCCAAGGCATATCATTTGCAGCATAACTTAAGT
126 TCAACTCGAAGGCACATCATTTACAGCATAACTCAAGT
* * * * *
1704409 CGAGAAGGGTTATCT-TCCAACCAAAGAACTTCGAGATCGACTACGCTCATCTCCAAGGCGCATC
1 CTAGAAGGGTTATCTGT-C-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
1704473 ATTTGTAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAATACCCTCAAGTTCGATTACACTCA
64 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCA
* * *
1704538 GCTTCGAGGGCACATCATTTACACCATAACTCAA-T
129 AC-TCGAAGGCACATCATTTACAGCATAACTCAAGT
*
1704573 GCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTT-GACTACACTCAGCTCCAAGGCACATC
1 -CTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
1704637 ATTTGCAGCATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTCGAGTTTGATTACACTCA
64 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCA
* * *
1704702 ACTTCGAGGGCACATCATTTATAGCATAACTCAAGG
129 AC-TCGAAGGCACATCATTTACAGCATAACTCAAGT
* *
1704738 CTAGAAGGGTTATCTGTCACCAAAGAACTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
1 CTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* * * * *
1704803 TTGCAGTATAACTTAAGTTGAGAAGGGCTATCTGCCAACCAAAGACCATCGAGTTCGATTACATT
66 TTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCTCGAGTTCGACTACACT
* * * * * *
1704868 CAGCTC-AGAGGCAAACCAAATTTATAGCATAGCTCAAGG
127 CAACTCGA-AGGCACATC--ATTTACAGCATAACTCAAGT
* *
1704907 CAAGAAGGGCTATCTGTCA
1 CTAGAAGGGTTATCTGTCA
1704926 ATAAATTTGT
Statistics
Matches: 869, Mismatches: 118, Indels: 53
0.84 0.11 0.05
Matches are distributed among these distances:
163 115 0.13
164 274 0.32
165 129 0.15
166 2 0.00
167 55 0.06
168 233 0.27
169 61 0.07
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (163 bp):
CTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
TTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCAAC
TCGAAGGCACATCATTTACAGCATAACTCAAGT
Found at i:1704880 original size:84 final size:83
Alignment explanation
Indices: 1703748--1704860 Score: 1178
Period size: 84 Copynumber: 13.4 Consensus size: 83
1703738 AAGACAGACT
*
1703748 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
1 AGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
*
1703813 GCAGCATAGCTTAAGTCG
66 GCAGCATAACTTAAGTCG
* * * * * * * * *
1703831 AGAAGGGCTATCT---TCCAAAGACCCTCGAGTTCGATTTCACTCAACTTCGAGGGCACATCATT
1 AGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
* * * *
1703893 TACAGCGTAACTCAAAG-CT
65 TGCAGCATAACT-TAAGTCG
* * *
1703912 AGAAGGGTTATCTGTCACTAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCAC-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
1703977 TGCAGCATAACTTAGGTCG
65 TGCAGCATAACTTAAGTCG
* *
1703996 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCTAAGGCACATCATT
1 AGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* *
1704061 TGCAGCATAGCTTAAGTCA
65 TGCAGCATAACTTAAGTCG
* * * * * *
1704080 AGAAGGGTTATCTG---CC-AAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAACATT
1 AGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
* * * *
1704141 TACAGCATAACTCAAGGCT
65 TGCAGCATAACTTAAGTCG
* *
1704160 AGAAGGGTTATTTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
1 AGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* *
1704225 GCAGTATAGCTTAAGTCG
66 GCAGCATAACTTAAGTCG
1704243 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * ***
1704308 TGCAACATAGCTCAAGGAA
65 TGCAGCATAACTTAAGTCG
* * * * * *
1704327 AGAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGTTCAACTCCAAGGCATATCATT
1 AGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1704392 TGCAGCATAACTTAAGTCG
65 TGCAGCATAACTTAAGTCG
* * * * *
1704411 AGAAGGGTTATCTTCCAACCAAAGAACTTCGAGATCGACTACGCTCATCTCCAAGGCGCATCATT
1 AGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
1704476 TGTAGCATAACTTAAGTCG
65 TGCAGCATAACTTAAGTCG
* * * * * * * *
1704495 AGAAGGGCTATCTG---CCAAATACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
1 AGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
* * * *
1704557 TACACCATAACTCAA-TGCT
65 TGCAGCATAACTTAAGT-CG
* *
1704576 AGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTT-GACTACACTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
1704640 TGCAGCATAGCTTAAGTCG
65 TGCAGCATAACTTAAGTCG
* * * * * * * * *
1704659 AGAAGAGCTATCTG---CCAAAGACCCTCGAGTTTGATTACACTCAACTTCGAGGGCACATCATT
1 AGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
** * * *
1704721 TATAGCATAACTCAAGGCT
65 TGCAGCATAACTTAAGTCG
* * *
1704740 AGAAGGGTTATCTGTCACCAAAGAACTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTT
1 AGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* *
1704805 GCAGTATAACTTAAGTTG
66 GCAGCATAACTTAAGTCG
* *
1704823 AGAAGGGCTATCTGCCAACCAAAGACCATCGAGTTCGA
1 AGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGA
1704861 TTACATTCAG
Statistics
Matches: 845, Mismatches: 158, Indels: 53
0.80 0.15 0.05
Matches are distributed among these distances:
79 38 0.04
80 104 0.12
81 113 0.13
82 3 0.00
83 133 0.16
84 415 0.49
85 39 0.05
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (83 bp):
AGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
GCAGCATAACTTAAGTCG
Found at i:1704946 original size:580 final size:579
Alignment explanation
Indices: 1703748--1704922 Score: 1596
Period size: 580 Copynumber: 2.0 Consensus size: 579
1703738 AAGACAGACT
* *
1703748 AGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATT
* * * * *
1703812 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAAAGACCCTCGAGTTCGATTTCACTCAACT
66 TGCAGCATAACTTAAGTCGAGAAGGGCTATCTTCCAAAGAACCTCGAGATCGACTACACTCAACT
* * * * * *
1703877 TCGAGGGCACATCATTTACAGCGTAACTCAAAGCTAGAAGGGTTATCTGTCACTAAAAGACCTTC
131 TCCAAGGCACATCATTTACAGCATAACTCAAAGCGAGAAGGGCTATCTGTCAC-AAAAGACCCTC
* * * * *
1703942 GAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAGCATAACTTAGGTCGAGAAGGGTTAT
195 AAGTTCGACTACACTCAACTCCAAGGCACATCATTTACACCATAACTAAGGTCGAGAAGGGTTAT
* * *
1704007 CTGCCAACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCTAAGGCACATCATTTGCAGCATAGC
260 CTGCCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGC
* * *
1704072 TTAAGTCAAGAAGGGTTATCTGCCAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAA
325 TTAAGTCAAGAAGAGCTATCTGCCAAGACCCTCGAGTTCGATTACACTCAACTTCGAGGGCACAA
* *
1704137 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATTTGTCACCAAAGACCTTCGAGTTCGACTACG
390 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGAACTTCGAGTTCGACTACG
* *
1704202 CTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
455 CTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAG
* * * * *
1704267 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGAA
520 ACCATCGAGTTCGACTACACTCAGCTCCAAGGCAAACCATTTACAACATAGCTCAAGGAA
* * *
1704327 AGAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGTTCAACTCCAAGGCATATCATT
1 AGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATT
* * *
1704392 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGAACTTCGAGATCGACTACGCTC
66 TGCAGCATAACTTAAGTCGAGAAGGGCTATCTT----CCAAAGAACCTCGAGATCGACTACACTC
* * ** * *
1704457 ATC-TCCAAGGCGCATCATTTGTAGCATAACT-TAAGTCGAGAAGGGCTATCTG-C-C-AAATAC
127 AACTTCCAAGGCACATCATTTACAGCATAACTCAAAG-CGAGAAGGGCTATCTGTCACAAAAGAC
* * * * * *
1704517 CCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACACCATAACTCAATG-CTAGAAG
191 CCTCAAGTTCGACTACACTCAAC-TCCAAGGCACATCATTTACACCATAACT-AAGGTCGAGAAG
*
1704581 GGTTATCTGTC-ACCAAAAGACCTTCGAGTT-GACTACACTCAGCTCCAAGGCACATCATTTGCA
254 GGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCA
* *
1704644 GCATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTCGAGTTTGATTACACTCAACTTCGA
318 GCATAGCTTAAGTCAAGAAGAGCTATCTGCC-AAGACCCTCGAGTTCGATTACACTCAACTTCGA
* *
1704709 GGGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGAACTTCGAGTT
382 GGGCACAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGAACTTCGAGTT
* *
1704774 CGACTACGCTCAGCTCCAAGGCATATCATTTGCAGTATAACTTAAGTTGAGAAGGGCTATCTGCC
447 CGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGCTATCTGCC
* * * *
1704839 AACCAAAGACCATCGAGTTCGATTACATTCAGCT-CAGAGGCAAACCAAATTTATAGCATAGCTC
512 AACCAAAGACCATCGAGTTCGACTACACTCAGCTCCA-AGGCAAACC--ATTTACAACATAGCTC
*
1704903 AAGGCA
574 AAGGAA
1704909 AGAAGGGCTATCTG
1 AGAAGGGCTATCTG
1704923 TCAATAAATT
Statistics
Matches: 519, Mismatches: 64, Indels: 23
0.86 0.11 0.04
Matches are distributed among these distances:
579 103 0.20
580 318 0.61
581 3 0.01
582 35 0.07
583 36 0.07
584 24 0.05
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (579 bp):
AGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATT
TGCAGCATAACTTAAGTCGAGAAGGGCTATCTTCCAAAGAACCTCGAGATCGACTACACTCAACT
TCCAAGGCACATCATTTACAGCATAACTCAAAGCGAGAAGGGCTATCTGTCACAAAAGACCCTCA
AGTTCGACTACACTCAACTCCAAGGCACATCATTTACACCATAACTAAGGTCGAGAAGGGTTATC
TGCCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCT
TAAGTCAAGAAGAGCTATCTGCCAAGACCCTCGAGTTCGATTACACTCAACTTCGAGGGCACAAC
ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGAACTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGA
CCATCGAGTTCGACTACACTCAGCTCCAAGGCAAACCATTTACAACATAGCTCAAGGAA
Found at i:1705657 original size:11 final size:11
Alignment explanation
Indices: 1705641--1705665 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1705631 TAATATATAG
1705641 TTTTGAAAACA
1 TTTTGAAAACA
1705652 TTTTGAAAACA
1 TTTTGAAAACA
1705663 TTT
1 TTT
1705666 ATATATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:1705666 original size:71 final size:69
Alignment explanation
Indices: 1705552--1705944 Score: 240
Period size: 73 Copynumber: 5.5 Consensus size: 69
1705542 TGTTTTTGAC
* * *
1705552 AAAATATAATATATAATTTTCAGAAAACGGTTGTCG-AAAATTTATATATTATATAGTTTTTGAA
1 AAAATATAATATATAGTTTT--GAAAAC-ATT-TTGAAAAATTTATATATTATATAGTTTTT-AA
* *
1705616 AATATTTTT
61 AACATTTTG
*
1705625 AAAATATAATATATAGTTTTGAAAACATTTTGAAAACATTTATATATTTTATAGTTTTTAAAACA
1 AAAATATAATATATAGTTTTGAAAACATTTTGAAAA-ATTTATATATTATATAGTTTTTAAAACA
1705690 TTTTG
65 TTTTG
* * * *
1705695 AAAACTTATATAGTATATAGTTTTTAAAACATTTT-TAAAA--TATA-A-TATACAGTTTTAAAA
1 AAAA--TATA-A-TATATAGTTTTGAAAACATTTTGAAAAATTTATATATTATATAGTTTTTAAA
*
1705755 ACATTTTTAAAA
62 ACA-TTTT---G
** * * * *
1705767 AAATATATAATATATAGTTTAAAAAAATATTTTTTGAAAAA-TTATAGAATATATAGTTTTAAAA
1 AAA-ATATAATATATAGTTT-TGAAAACA--TTTTGAAAAATTTATATATTATATAGTTTTTAAA
1705831 ACATTTTTG
62 ACA-TTTTG
* *
1705840 AAAATTATATAATATATAG-TTTAAAAACATTTTTTG-AAAA-CT-TAT-TTA-ATA-TTTTTAA
1 -AAA--ATATAATATATAGTTTTGAAAACA--TTTTGAAAAATTTATATATTATATAGTTTTTAA
*
1705898 AGCATTTTG
61 AACATTTTG
* *
1705907 AAAACTATATAACATATAGTTTTGAAAAC-TTTTTAAAA
1 -AAA--ATATAATATATAGTTTTGAAAACATTTTGAAAA
1705945 TAAAATATAT
Statistics
Matches: 269, Mismatches: 29, Indels: 51
0.77 0.08 0.15
Matches are distributed among these distances:
65 4 0.01
66 3 0.01
67 22 0.08
68 32 0.12
69 20 0.07
70 30 0.11
71 33 0.12
72 17 0.06
73 41 0.15
74 30 0.11
75 15 0.06
76 22 0.08
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (69 bp):
AAAATATAATATATAGTTTTGAAAACATTTTGAAAAATTTATATATTATATAGTTTTTAAAACAT
TTTG
Found at i:1705671 original size:106 final size:104
Alignment explanation
Indices: 1705585--1705976 Score: 316
Period size: 106 Copynumber: 3.7 Consensus size: 104
1705575 AAAACGGTTG
* * * * *
1705585 TCGAAAATTTATATATTATATAGTTTTTGAAAATATTTTTAAAATATAATATATAGTTTTGAAAA
1 TCGAAAACTTATATAGTATATAGTTTTT-AAAACATTTTTAAAATATAATATACAGTTTTAAAAA
*
1705650 CATTTTGAAAACATTTATATATTTTATAGTTTTTAAAACATT
65 CATTTTGAAAACATTTATATA--TTATAGTTTTGAAAACATT
*
1705692 TTGAAAACTTATATAGTATATAGTTTTTAAAACATTTTTAAAATATAATATACAGTTTTAAAAAC
1 TCGAAAACTTATATAGTATATAGTTTTTAAAACATTTTTAAAATATAATATACAGTTTTAAAAAC
* ** ** *
1705757 ATTTTTAAAA-AAATATATAATATATAGTTTAAAAAAATATTTT
66 ATTTTGAAAACATTTATAT-AT-TATAGTTT-TGAAAACA--TT
* * * * * *
1705800 TTGAAAAATTATAGAATATATAGTTTTAAAAACATTTTTGAAAATTATATAATATATAG-TTTAA
1 TCGAAAACTTATATAGTATATAGTTTTTAAAACATTTTT--AAA--ATATAATATACAGTTTTAA
* * *
1705864 AAACATTTTTTGAAAAC--TTAT-T-TAATA-TTTTTAAAGCATT
62 AAACA--TTTTGAAAACATTTATATATTATAGTTTTGAAAACATT
* ** * * * *
1705904 TTGAAAAC-TATATAACATATAGTTTTGAAAAC-TTTTTAAAATAAAATATATAGTTTAAAAAAA
1 TCGAAAACTTATATAGTATATAGTTTTTAAAACATTTTTAAAATATAATATACAGTTT-TAAAAA
*
1705967 TATTTTGAAA
65 CATTTTGAAA
1705977 TATATATATT
Statistics
Matches: 240, Mismatches: 31, Indels: 37
0.78 0.10 0.12
Matches are distributed among these distances:
98 20 0.08
99 2 0.01
100 9 0.04
102 5 0.02
103 21 0.09
104 10 0.04
105 14 0.06
106 53 0.22
107 28 0.12
108 40 0.17
109 1 0.00
110 3 0.01
111 11 0.05
112 15 0.06
113 8 0.03
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (104 bp):
TCGAAAACTTATATAGTATATAGTTTTTAAAACATTTTTAAAATATAATATACAGTTTTAAAAAC
ATTTTGAAAACATTTATATATTATAGTTTTGAAAACATT
Found at i:1705972 original size:67 final size:71
Alignment explanation
Indices: 1705628--1705991 Score: 249
Period size: 67 Copynumber: 5.2 Consensus size: 71
1705618 TATTTTTAAA
* * * * *
1705628 ATATAATATATAGTTTTGAAAACA-TTTTGAAAACATTTATATATTTTATAGTTTT--TAAAACA
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAAC---TA-A-AATATATAGTTTTAAAAAAATA
1705690 TTTTGAAAACTT
61 TTTTGAAAAC-T
* * * * *
1705702 ATATAGTATATAGTTTTTAAAACATTTTT-AAAA-TATAATATACAGTTTTAAAAACAT-TTTTA
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAACTAAAATATATAGTTTTAAAAAAATATTTT-
* *
1705764 AAAAAAT
65 GAAAACT
* * * *
1705771 ATATAATATATAGTTTAAAAAAATATTTTTTGAAAAATTATAGAATATATAGTTTTAAAAACAT-
1 ATATAATATATAGTTT-TAAAAACA-TTTTTG-AAAACTA-A-AATATATAGTTTTAAAAAAATA
*
1705835 TTTTGAAAATT
61 TTTTGAAAACT
* ** * **
1705846 ATATAATATATAG-TTTAAAAACATTTTTTGAAAACTTATTTA-ATA-TTTT--TAAAGCATTTT
1 ATATAATATATAGTTTTAAAAACA-TTTTTGAAAACTAAAATATATAGTTTTAAAAAAATATTTT
1705906 GAAAACT
65 GAAAACT
* *
1705913 ATATAACATATAGTTTTGAAAAC-TTTTT-AAAA-TAAAATATATAG-TTTAAAAAAATATTTTG
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAACTAAAATATATAGTTTTAAAAAAATATTTTG
1705974 AAATA-T
66 AAA-ACT
*
1705980 ATATATTATATA
1 ATATAATATATA
1705992 AATTATATTT
Statistics
Matches: 232, Mismatches: 40, Indels: 43
0.74 0.13 0.14
Matches are distributed among these distances:
64 4 0.02
65 10 0.04
66 7 0.03
67 45 0.19
68 23 0.10
69 23 0.10
70 16 0.07
71 6 0.03
72 5 0.02
73 17 0.07
74 30 0.13
75 22 0.09
76 24 0.10
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (71 bp):
ATATAATATATAGTTTTAAAAACATTTTTGAAAACTAAAATATATAGTTTTAAAAAAATATTTTG
AAAACT
Found at i:1705991 original size:36 final size:35
Alignment explanation
Indices: 1705594--1705991 Score: 197
Period size: 36 Copynumber: 11.4 Consensus size: 35
1705584 GTCGAAAATT
* *** *
1705594 TATATATTATATAGTTTTTGAAAATATTTT-TAAA
1 TATATAATATATAGTTTAAAAAAATATTTTGAAAA
** *
1705628 -ATATAATATATAGTTT-TGAAAACATTTTGAAAACA
1 TATATAATATATAGTTTAAAAAAATATTTTG-AAA-A
* * ** *
1705663 TTTATATATTTTATAGTTT-TTAAAACATTTTGAAAA
1 --TATATAATATATAGTTTAAAAAAATATTTTGAAAA
* * *
1705699 CTTATATAGTATATAGTTTTTAAAACAT-TTTT--AAA
1 --TATATAATATATAG-TTTAAAAAAATATTTTGAAAA
* * *
1705734 -ATATAATATACAGTTTTAAAAACAT-TTTTAAAAAAA
1 TATATAATATATAG-TTTAAAAAAATATTTT--GAAAA
1705770 TATATAATATATAGTTTAAAAAAATATTTTTTGAAAAA
1 TATATAATATATAGTTTAAAAAAATA--TTTTG-AAAA
* *
1705808 TTATAGAATATATAGTTTTAAAAACAT-TTTTGAAAA
1 -TATATAATATATAG-TTTAAAAAAATATTTTGAAAA
* *
1705844 TTATATAATATATAGTTTAAAAACATTTTTTGAAAA
1 -TATATAATATATAGTTTAAAAAAATATTTTGAAAA
* **
1705880 CTTATTTAATAT-T--TTT---AAAGCATTTTGAAAA
1 --TATATAATATATAGTTTAAAAAAATATTTTGAAAA
* ** *
1705911 CTATATAACATATAGTTTTGAAAACT-TTTT-AAAA
1 -TATATAATATATAGTTTAAAAAAATATTTTGAAAA
1705945 TA-A-AATATATAGTTTAAAAAAATATTTTGAAATA
1 TATATAATATATAGTTTAAAAAAATATTTTGAAA-A
*
1705979 TATATATTATATA
1 TATATAATATATA
1705992 AATTATATTT
Statistics
Matches: 295, Mismatches: 37, Indels: 62
0.75 0.09 0.16
Matches are distributed among these distances:
30 8 0.03
31 28 0.09
32 42 0.14
33 23 0.08
34 12 0.04
35 20 0.07
36 65 0.22
37 37 0.13
38 33 0.11
39 17 0.06
40 10 0.03
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (35 bp):
TATATAATATATAGTTTAAAAAAATATTTTGAAAA
Found at i:1707373 original size:6 final size:6
Alignment explanation
Indices: 1707353--1707418 Score: 60
Period size: 6 Copynumber: 10.5 Consensus size: 6
1707343 TTTTTTCCTT
* * * *
1707353 TTTTTA TTTCATTA TTTTTA TTTTTA TTTTTC TTATTA TTATTA TTATTA
1 TTTTTA TTT--TTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
1707403 TTATTA TTATTTA TTT
1 TTTTTA TT-TTTA TTT
1707419 CACTAACCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
6 42 0.79
7 5 0.09
8 6 0.11
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:1707393 original size:3 final size:3
Alignment explanation
Indices: 1707363--1707413 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
1707353 TTTTTATTTC
* * * *
1707363 ATT ATT TTT ATT TTT ATT TTT CTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1707411 ATT
1 ATT
1707414 TATTTCACTA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (3 bp):
ATT
Found at i:1707528 original size:24 final size:26
Alignment explanation
Indices: 1707487--1707566 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 26
1707477 TTCCATTTAA
*
1707487 TATTTTTTTC-CT-TCATATTTTTTT
1 TATTTTTTTCACTATTATATTTTTTT
*
1707511 TATTTTTTT-A-TATTATA-TTTATT
1 TATTTTTTTCACTATTATATTTTTTT
*
1707534 TATTTATTTTCACTATTACT-TTTTTAT
1 TATTT-TTTTCACTATTA-TATTTTTTT
1707561 TATTTT
1 TATTTT
1707567 CATGCATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
23 11 0.24
24 17 0.38
25 1 0.02
26 6 0.13
27 10 0.22
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (26 bp):
TATTTTTTTCACTATTATATTTTTTT
Found at i:1707567 original size:23 final size:23
Alignment explanation
Indices: 1707506--1707569 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
1707496 CCTTCATATT
*
1707506 TTTTTTATT-TTTTTATATTATA
1 TTTTTTATTATTTTCATATTATA
*
1707528 TTTATTTATTTATTTTCACTATTA-C
1 TTT-TTTA-TTATTTTCA-TATTATA
1707553 TTTTTTATTATTTTCAT
1 TTTTTTATTATTTTCAT
1707570 GCATTTTCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 4 0.11
23 13 0.36
24 6 0.17
25 8 0.22
26 5 0.14
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTTATTATTTTCATATTATA
Found at i:1711892 original size:32 final size:31
Alignment explanation
Indices: 1711851--1711921 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 31
1711841 AAAAAATGAC
1711851 TTTATATTCTTTTTATATTGAA-TTTTATTCACT
1 TTTA-ATTCTTTTTATATTGAATTTTTA-T-ACT
* *
1711884 TTTAATTCTTTTTTTATTGCATTTTTATACT
1 TTTAATTCTTTTTATATTGAATTTTTATACT
1711915 TTTAATT
1 TTTAATT
1711922 ACAATTGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 10 0.29
32 16 0.46
33 9 0.26
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.66
Consensus pattern (31 bp):
TTTAATTCTTTTTATATTGAATTTTTATACT
Found at i:1711916 original size:22 final size:22
Alignment explanation
Indices: 1711873--1711917 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1711863 TTATATTGAA
*
1711873 TTTTATTCACTTTTAATTCTTT
1 TTTTATTCACTTTTAATACTTT
*
1711895 TTTTATTGCA-TTTTTATACTTT
1 TTTTATT-CACTTTTAATACTTT
1711917 T
1 T
1711918 AATTACAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.18, C:0.11, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTATTCACTTTTAATACTTT
Found at i:1711974 original size:10 final size:10
Alignment explanation
Indices: 1711959--1712012 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
1711949 TTCACTTTTT
1711959 TAAAAATCAA
1 TAAAAATCAA
1711969 TAAAAATGCAA
1 TAAAAAT-CAA
1711980 T-AAAA--AA
1 TAAAAATCAA
*
1711987 TAAAAATGAA
1 TAAAAATCAA
*
1711997 TAAAATTCAA
1 TAAAAATCAA
1712007 TAAAAA
1 TAAAAA
1712013 AGAATATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
7 3 0.08
8 4 0.11
10 26 0.70
11 4 0.11
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (10 bp):
TAAAAATCAA
Found at i:1711991 original size:28 final size:27
Alignment explanation
Indices: 1711959--1712013 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
1711949 TTCACTTTTT
1711959 TAAAAATCAATAAAAATGCAATAAAAAA
1 TAAAAATCAAT-AAAATGCAATAAAAAA
* *
1711987 TAAAAATGAATAAAATTCAATAAAAAA
1 TAAAAATCAATAAAATGCAATAAAAAA
1712014 GAATATAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.20
Consensus pattern (27 bp):
TAAAAATCAATAAAATGCAATAAAAAA
Found at i:1711998 original size:17 final size:18
Alignment explanation
Indices: 1711967--1712001 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1711957 TTTAAAAATC
1711967 AATAAAAATGCAATAAAA
1 AATAAAAATGCAATAAAA
1711985 AATAAAAATG-AATAAAA
1 AATAAAAATGCAATAAAA
1712002 TTCAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (18 bp):
AATAAAAATGCAATAAAA
Found at i:1718952 original size:16 final size:15
Alignment explanation
Indices: 1718933--1718993 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 15
1718923 GAATAAATGA
1718933 AAAAAAAATAAAGAAT
1 AAAAAAAATAAA-AAT
*
1718949 AAAAATAAGTAAAAAT
1 AAAAA-AAATAAAAAT
**
1718965 AAATAAAAATAAAAGG
1 AAA-AAAAATAAAAAT
1718981 AAAAATAAATAAA
1 AAAAA-AAATAAA
1718994 TAAATAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
15 2 0.05
16 28 0.74
17 8 0.21
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.15
Consensus pattern (15 bp):
AAAAAAAATAAAAAT
Found at i:1718963 original size:10 final size:10
Alignment explanation
Indices: 1718946--1719002 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
1718936 AAAAATAAAG
1718946 AATAAAAATA
1 AATAAAAATA
*
1718956 AGTAAAAATA
1 AATAAAAATA
1718966 AATAAAAATAA
1 AATAAAAAT-A
*
1718977 AAGGAAAAATA
1 AA-TAAAAATA
1718988 AAT--AAATA
1 AATAAAAATA
1718996 AATAAAA
1 AATAAAA
1719003 TATTAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 8 0.21
10 19 0.49
11 6 0.15
12 6 0.15
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (10 bp):
AATAAAAATA
Found at i:1719010 original size:26 final size:25
Alignment explanation
Indices: 1718932--1719010 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 25
1718922 TGAATAAATG
* *
1718932 AAAAAAAAATAAAGAATAAAAATAAGT
1 AAAAATAAATAAAAAAT-AAAAT-AGT
*
1718959 AAAAATAAAT-AAAAAT-AAA-AGG
1 AAAAATAAATAAAAAATAAAATAGT
*
1718981 AAAAATAAATAAATAAATAAAATATT
1 AAAAATAAATAAA-AAATAAAATAGT
1719007 AAAA
1 AAAA
1719011 TATATATATA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
22 12 0.28
23 2 0.05
24 7 0.16
25 3 0.07
26 10 0.23
27 9 0.21
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (25 bp):
AAAAATAAATAAAAAATAAAATAGT
Found at i:1719312 original size:2 final size:2
Alignment explanation
Indices: 1719307--1719374 Score: 86
Period size: 2 Copynumber: 35.0 Consensus size: 2
1719297 TTTAAAAAAG
* *
1719307 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TC TA -A AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
1719347 AA TA TA TG TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1719375 GTGTAAAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
1 2 0.03
2 57 0.97
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (2 bp):
TA
Done.