Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015129.1 Kokia drynarioides strain JFW-HI SEQ_130173, 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: 947447
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 1279 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:484587 original size:21 final size:21
Alignment explanation
Indices: 484563--484604 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
484553 AAAAGAGTGC
484563 AAGAGAGAAGAAA-AAGAAAGT
1 AAGAGAGAA-AAAGAAGAAAGT
**
484584 AAGATTGAAAAAGAAGAAAGT
1 AAGAGAGAAAAAGAAGAAAGT
484605 GATCAAGCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.64, C:0.00, G:0.26, T:0.10
Consensus pattern (21 bp):
AAGAGAGAAAAAGAAGAAAGT
Found at i:485915 original size:17 final size:17
Alignment explanation
Indices: 485895--485927 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
485885 TTTAAGGACT
485895 TTTTAATTTTA-TTTAAG
1 TTTT-ATTTTAGTTTAAG
485912 TTTTATTTTAGTTTAA
1 TTTTATTTTAGTTTAA
485928 TAAGTGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTATTTTAGTTTAAG
Found at i:489379 original size:32 final size:33
Alignment explanation
Indices: 489337--489400 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
489327 TGATATGAAA
*
489337 AAATGAAGAAA-AAGTG-AAGGAAGTTGAAAAAC
1 AAATGAAGAAATAA-TGCAAGGAAGTGGAAAAAC
*
489369 AAATGGAGAAATAATGCAAGGAAGTGGAAAAA
1 AAATGAAGAAATAATGCAAGGAAGTGGAAAAA
489401 AGGGAGAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.58, C:0.03, G:0.27, T:0.12
Consensus pattern (33 bp):
AAATGAAGAAATAATGCAAGGAAGTGGAAAAAC
Found at i:489991 original size:19 final size:18
Alignment explanation
Indices: 489945--489991 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
489935 TTTACATGAA
*
489945 AATAT-TGATAAATAAAG
1 AATATATGAAAAATAAAG
*
489962 TATATAGTGAAAAATACAAG
1 AATATA-TGAAAAATA-AAG
489982 AATATATGAA
1 AATATATGAA
489992 CTTTGTAGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 4 0.17
19 12 0.50
20 8 0.33
ACGTcount: A:0.57, C:0.02, G:0.13, T:0.28
Consensus pattern (18 bp):
AATATATGAAAAATAAAG
Found at i:491717 original size:170 final size:170
Alignment explanation
Indices: 491435--491774 Score: 680
Period size: 170 Copynumber: 2.0 Consensus size: 170
491425 TAGCCATCTG
491435 CCGTCCATGTGCTGACATTTTCAGCTGATTATTTTGACCACTTCAAACTTGCAAAACAGCCCTTA
1 CCGTCCATGTGCTGACATTTTCAGCTGATTATTTTGACCACTTCAAACTTGCAAAACAGCCCTTA
491500 AAGTTTCCCAAAATACCATTCCAACCCCTCCACTTTTCATGGTTTTATATTCTCACCACTAGCTC
66 AAGTTTCCCAAAATACCATTCCAACCCCTCCACTTTTCATGGTTTTATATTCTCACCACTAGCTC
491565 ATTTTAAGCAAACTTGTTCAAAGTTGCTTATGCATGGCCA
131 ATTTTAAGCAAACTTGTTCAAAGTTGCTTATGCATGGCCA
491605 CCGTCCATGTGCTGACATTTTCAGCTGATTATTTTGACCACTTCAAACTTGCAAAACAGCCCTTA
1 CCGTCCATGTGCTGACATTTTCAGCTGATTATTTTGACCACTTCAAACTTGCAAAACAGCCCTTA
491670 AAGTTTCCCAAAATACCATTCCAACCCCTCCACTTTTCATGGTTTTATATTCTCACCACTAGCTC
66 AAGTTTCCCAAAATACCATTCCAACCCCTCCACTTTTCATGGTTTTATATTCTCACCACTAGCTC
491735 ATTTTAAGCAAACTTGTTCAAAGTTGCTTATGCATGGCCA
131 ATTTTAAGCAAACTTGTTCAAAGTTGCTTATGCATGGCCA
491775 GCCACCCATT
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
170 170 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.34
Consensus pattern (170 bp):
CCGTCCATGTGCTGACATTTTCAGCTGATTATTTTGACCACTTCAAACTTGCAAAACAGCCCTTA
AAGTTTCCCAAAATACCATTCCAACCCCTCCACTTTTCATGGTTTTATATTCTCACCACTAGCTC
ATTTTAAGCAAACTTGTTCAAAGTTGCTTATGCATGGCCA
Found at i:492152 original size:12 final size:12
Alignment explanation
Indices: 492135--492163 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
492125 TTGTTTGTTA
492135 TATTATGAATGC
1 TATTATGAATGC
492147 TATTATGAATGC
1 TATTATGAATGC
492159 TATTA
1 TATTA
492164 ATTCTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (12 bp):
TATTATGAATGC
Found at i:493725 original size:17 final size:17
Alignment explanation
Indices: 493700--493733 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
493690 TAAAAATGTG
493700 TTTAATTATAA-AAAAT
1 TTTAATTATAAGAAAAT
493716 TTTAAGTTATAAGAAAAT
1 TTTAA-TTATAAGAAAAT
493734 AAATTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
TTTAATTATAAGAAAAT
Found at i:493759 original size:18 final size:20
Alignment explanation
Indices: 493736--493772 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
493726 AAGAAAATAA
493736 ATTTTATA-T-ATTTATTAT
1 ATTTTATATTCATTTATTAT
493754 ATTTTATATTCATTTATTA
1 ATTTTATATTCATTTATTA
493773 ATTAATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 1 0.06
20 8 0.47
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTTATATTCATTTATTAT
Found at i:493837 original size:24 final size:24
Alignment explanation
Indices: 493792--493838 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
493782 TAAACTCAAT
* **
493792 TTTTCTGAAAAATTAAACTAAAAG
1 TTTTATGAAAAACAAAACTAAAAG
*
493816 TTTTATGAAAAACAAAATTAAAA
1 TTTTATGAAAAACAAAACTAAAA
493839 TAAAGGACTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (24 bp):
TTTTATGAAAAACAAAACTAAAAG
Found at i:494583 original size:15 final size:16
Alignment explanation
Indices: 494563--494595 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
494553 ATTAACTAAT
494563 TAATTATTTTTA-AAA
1 TAATTATTTTTACAAA
494578 TAATTATTTTTACAAA
1 TAATTATTTTTACAAA
494594 TA
1 TA
494596 TTCAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTATTTTTACAAA
Found at i:495530 original size:1 final size:1
Alignment explanation
Indices: 495526--495555 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
495516 NNNNNNNNNN
495526 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
495556 ATGTTTGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:502635 original size:23 final size:23
Alignment explanation
Indices: 502603--502660 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
502593 TCGTCCATCC
502603 TTGCTGACTGGACCTTCTAGAAG
1 TTGCTGACTGGACCTTCTAGAAG
*
502626 TTGCTAACTGGACCTTCTAGAAG
1 TTGCTGACTGGACCTTCTAGAAG
*
502649 CTGCTGACTGGA
1 TTGCTGACTGGA
502661 TGCCACGTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (23 bp):
TTGCTGACTGGACCTTCTAGAAG
Found at i:504790 original size:8 final size:8
Alignment explanation
Indices: 504774--504812 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
504764 TAACATAAAG
504774 CTCTGTTT
1 CTCTGTTT
*
504782 CTCTTTTT
1 CTCTGTTT
504790 CTCTGTTT
1 CTCTGTTT
*
504798 CTTTGTTT
1 CTCTGTTT
504806 CTCTGTT
1 CTCTGTT
504813 CACTGATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.00, C:0.23, G:0.10, T:0.67
Consensus pattern (8 bp):
CTCTGTTT
Found at i:508270 original size:14 final size:14
Alignment explanation
Indices: 508253--508280 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
508243 ATAAAATTTA
508253 ACATATAGATTATG
1 ACATATAGATTATG
508267 ACATATAGATTATG
1 ACATATAGATTATG
508281 TTTGAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
ACATATAGATTATG
Found at i:508590 original size:56 final size:57
Alignment explanation
Indices: 508458--508609 Score: 191
Period size: 56 Copynumber: 2.6 Consensus size: 57
508448 TATTATGATA
* * **
508458 TTTATT-AATTCATATTTTAATAATAATTATATTAAGAATGTTTTTAAAATATATACTAT
1 TTTATTAAATT-ATA-TTTAATAATAATCATATTAA-AATATGATTAAAATATATACTAT
* * *
508517 TTTATTAAATTATATTTAATAATAATCATATTAAAATATGATTAAATTATTTA-TTT
1 TTTATTAAATTATATTTAATAATAATCATATTAAAATATGATTAAAATATATACTAT
*
508573 TTTATTAAATTATATTTAATAATAATCTTATTAAAAT
1 TTTATTAAATTATATTTAATAATAATCATATTAAAAT
508610 TTAATAACAA
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
56 38 0.45
57 14 0.17
58 19 0.23
59 9 0.11
60 4 0.05
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (57 bp):
TTTATTAAATTATATTTAATAATAATCATATTAAAATATGATTAAAATATATACTAT
Found at i:508745 original size:39 final size:40
Alignment explanation
Indices: 508689--508799 Score: 111
Period size: 44 Copynumber: 2.6 Consensus size: 40
508679 TTTCCTTATG
*
508689 CTATTACAGCATC-ATTCCATTCAACCAAAC-A-TAAGAGTA
1 CTATTACAGC-TCTATTCCATTCAACCAAACAACTAA-AATA
508728 CTATTACAGCTCTATTCCATTCCATTCAACCAAACAACTAAAATA
1 CTATTACAGCTC---T--ATTCCATTCAACCAAACAACTAAAATA
508773 CTGATTACAGCTCTATTCCATTACAAC
1 CT-ATTACAGCTCTATTCCATT-CAAC
508800 GAACCAAACG
Statistics
Matches: 61, Mismatches: 1, Indels: 17
0.77 0.01 0.22
Matches are distributed among these distances:
38 2 0.03
39 10 0.16
41 8 0.13
42 4 0.07
43 1 0.02
44 17 0.28
45 6 0.10
46 13 0.21
ACGTcount: A:0.38, C:0.28, G:0.05, T:0.29
Consensus pattern (40 bp):
CTATTACAGCTCTATTCCATTCAACCAAACAACTAAAATA
Found at i:508794 original size:46 final size:44
Alignment explanation
Indices: 508701--508794 Score: 145
Period size: 46 Copynumber: 2.1 Consensus size: 44
508691 ATTACAGCAT
*
508701 CATTCCATTCAACCAAACATAAGAGTACTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACATAAGAATACTATTACAGCTCTATTC
508745 CATTCCATTCAACCAAACAACTAA-AATACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAAC-A-TAAGAATACT-ATTACAGCTCTATTC
508791 CATT
1 CATT
508795 ACAACGAACC
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
44 18 0.39
45 6 0.13
46 22 0.48
ACGTcount: A:0.37, C:0.28, G:0.05, T:0.30
Consensus pattern (44 bp):
CATTCCATTCAACCAAACATAAGAATACTATTACAGCTCTATTC
Found at i:510298 original size:18 final size:20
Alignment explanation
Indices: 510258--510298 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
510248 TAACCCAGAT
510258 CCTTTTTATTAAACCCAATAA
1 CCTTTTTA-TAAACCCAATAA
510279 CCTTTTTA-AAACCCAA-AA
1 CCTTTTTATAAACCCAATAA
510297 CC
1 CC
510299 AAACGATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 8 0.40
21 8 0.40
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (20 bp):
CCTTTTTATAAACCCAATAA
Found at i:510317 original size:27 final size:27
Alignment explanation
Indices: 510286--510347 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
510276 TAACCTTTTT
* *
510286 AAAACCCAAAACCAAACGATTTAGCCC
1 AAAACCCAAAACCAAACCATTTAACCC
510313 AAAACCCAAAACCAAACCATTTAACCC
1 AAAACCCAAAACCAAACCATTTAACCC
*
510340 AAACCCCA
1 AAAACCCA
510348 TTGAACCAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.50, C:0.37, G:0.03, T:0.10
Consensus pattern (27 bp):
AAAACCCAAAACCAAACCATTTAACCC
Found at i:510427 original size:13 final size:14
Alignment explanation
Indices: 510409--510437 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
510399 CAGTTGATCG
510409 TTGATCGTTGA-TT
1 TTGATCGTTGACTT
510422 TTGATCGTTGACTT
1 TTGATCGTTGACTT
510436 TT
1 TT
510438 TCGAAAAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.14, C:0.10, G:0.21, T:0.55
Consensus pattern (14 bp):
TTGATCGTTGACTT
Found at i:510432 original size:7 final size:7
Alignment explanation
Indices: 510381--510432 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
510371 CGACCGTTGA
*
510381 TTGATCA
1 TTGATCG
*
510388 TTGACCG
1 TTGATCG
510395 TTGA-CAG
1 TTGATC-G
510402 TTGATCG
1 TTGATCG
510409 TTGATCG
1 TTGATCG
*
510416 TTGAT-T
1 TTGATCG
510422 TTGATCG
1 TTGATCG
510429 TTGA
1 TTGA
510433 CTTTTTCGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
6 6 0.16
7 31 0.82
8 1 0.03
ACGTcount: A:0.19, C:0.13, G:0.25, T:0.42
Consensus pattern (7 bp):
TTGATCG
Found at i:519012 original size:158 final size:158
Alignment explanation
Indices: 518724--519027 Score: 421
Period size: 158 Copynumber: 1.9 Consensus size: 158
518714 TTACAGATCC
* ** * * *
518724 GGGTGCTGGTCTTAGGTGTCCTGTCGATGGCTAAGGTCCTACATTGGTTGCGGATTCTCCACAGC
1 GGGTGCTGGTCTTAGATGTCCTACCGATGGCTAAGGTCCGACATTGATTGCGGATTCTCCACAAC
* * *
518789 TCGTGTGAGCAGCATCGCGTAGCCTAACATCTCAACCCATAGCTCATGTGAGCAGACCCATTTCA
66 TCGTGTGAGCAGCATCGCGTAACCCAACATCTCAACCCACAGCTCATGTGAGCAGACCCATTTCA
518854 CAGCTTGTGTGAGCATTACAGGTTATAT
131 CAGCTTGTGTGAGCATTACAGGTTATAT
* * * * *
518882 GGGTGTTGGTCTTAGATGTCTTACCGATGGCTGAGGTCCGACATTTATTGTGGATTCTCCACAAC
1 GGGTGCTGGTCTTAGATGTCCTACCGATGGCTAAGGTCCGACATTGATTGCGGATTCTCCACAAC
* * * * *
518947 TCGTGTGAGCAGCATTGTGTAACCCCACATCTCGACCCACAGCTCATGTGAGCA-AGCCTATTTC
66 TCGTGTGAGCAGCATCGCGTAACCCAACATCTCAACCCACAGCTCATGTGAGCAGA-CCCATTTC
519011 ACAGCTTGTGTGAGCAT
130 ACAGCTTGTGTGAGCAT
519028 ATATGATTAC
Statistics
Matches: 126, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
157 1 0.01
158 125 0.99
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (158 bp):
GGGTGCTGGTCTTAGATGTCCTACCGATGGCTAAGGTCCGACATTGATTGCGGATTCTCCACAAC
TCGTGTGAGCAGCATCGCGTAACCCAACATCTCAACCCACAGCTCATGTGAGCAGACCCATTTCA
CAGCTTGTGTGAGCATTACAGGTTATAT
Found at i:520288 original size:3 final size:3
Alignment explanation
Indices: 520280--520307 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
520270 AACATTTTGC
520280 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
520308 GGGGATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:521380 original size:14 final size:15
Alignment explanation
Indices: 521361--521393 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
521351 TAAACATAAG
521361 AATG-ACAAATCTAA
1 AATGAACAAATCTAA
521375 AATGACACAAATCTAA
1 AATGA-ACAAATCTAA
521391 AAT
1 AAT
521394 TTAAAATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
16 13 0.76
ACGTcount: A:0.58, C:0.15, G:0.06, T:0.21
Consensus pattern (15 bp):
AATGAACAAATCTAA
Found at i:522720 original size:60 final size:60
Alignment explanation
Indices: 522627--522747 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
522617 TTTATTTGAT
522627 TAACTAGTTTTATTGGAAGTGACAACAATTACAAGCCTAAAAGGAAAAGCCTACCTCAGC
1 TAACTAGTTTTATTGGAAGTGACAACAATTACAAGCCTAAAAGGAAAAGCCTACCTCAGC
*
522687 TAACTTGTTTTATTGGAAGTGACAACAATTACAAGCCTAAAAGGAAAAGCCTACCTCAGC
1 TAACTAGTTTTATTGGAAGTGACAACAATTACAAGCCTAAAAGGAAAAGCCTACCTCAGC
522747 T
1 T
522748 CGCACCGATG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.25
Consensus pattern (60 bp):
TAACTAGTTTTATTGGAAGTGACAACAATTACAAGCCTAAAAGGAAAAGCCTACCTCAGC
Found at i:522915 original size:21 final size:21
Alignment explanation
Indices: 522889--522931 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
522879 TCTGTCGTGA
522889 TTTTTAGTTTTAATT-TTAAAT
1 TTTTTA-TTTTAATTATTAAAT
*
522910 TTTTTATTTTATTTATTAAAT
1 TTTTTATTTTAATTATTAAAT
522931 T
1 T
522932 ATTGGTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTTATTTTAATTATTAAAT
Found at i:524212 original size:40 final size:40
Alignment explanation
Indices: 524157--524236 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
524147 CATAAGAAGG
524157 GGGAAAAAGCATTCTGGTTAATCGCTTACAAGAGTAAAGC
1 GGGAAAAAGCATTCTGGTTAATCGCTTACAAGAGTAAAGC
524197 GGGAAAAAGCATTCTGGTTAATCGCTTACAAGAGTAAAGC
1 GGGAAAAAGCATTCTGGTTAATCGCTTACAAGAGTAAAGC
524237 TTGTTACAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (40 bp):
GGGAAAAAGCATTCTGGTTAATCGCTTACAAGAGTAAAGC
Found at i:528097 original size:15 final size:16
Alignment explanation
Indices: 528077--528114 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
528067 AGTCAATAAA
*
528077 TATTTTTATTTTTA-T
1 TATTTTTATTTTGATT
*
528092 TATTTTGATTTTGATT
1 TATTTTTATTTTGATT
528108 TATTTTT
1 TATTTTT
528115 TTATAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (16 bp):
TATTTTTATTTTGATT
Found at i:528567 original size:26 final size:27
Alignment explanation
Indices: 528538--528609 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 27
528528 AATATTTATA
528538 TTATATTATTTTAATATTTAATAAT-T
1 TTATATTATTTTAATATTTAATAATCT
* * *
528564 TTATA-TATTTT-TTATATAATCATCT
1 TTATATTATTTTAATATTTAATAATCT
*
528589 TAATATTATTTTTAATATTTA
1 TTATATTA-TTTTAATATTTA
528610 TATTAAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
24 9 0.25
25 11 0.31
26 7 0.19
27 4 0.11
28 5 0.14
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (27 bp):
TTATATTATTTTAATATTTAATAATCT
Found at i:528615 original size:24 final size:23
Alignment explanation
Indices: 528528--528614 Score: 77
Period size: 24 Copynumber: 3.6 Consensus size: 23
528518 TCTTTTTAAA
528528 AATATTTATATTATATTA-TTTT
1 AATATTTATATTATATTATTTTT
*
528550 AATATTTAATAATTTTATATATTTTTT
1 AATATTT-AT-ATTATAT-TA-TTTTT
* * *
528577 ATATAATCATCTTAATATTATTTTT
1 A-ATATTTATATT-ATATTATTTTT
528602 AATATTTATATTA
1 AATATTTATATTA
528615 AAATAATATT
Statistics
Matches: 50, Mismatches: 8, Indels: 13
0.70 0.11 0.18
Matches are distributed among these distances:
22 7 0.14
23 3 0.06
24 14 0.28
25 8 0.16
26 4 0.08
27 10 0.20
28 4 0.08
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
AATATTTATATTATATTATTTTT
Found at i:538301 original size:25 final size:25
Alignment explanation
Indices: 538273--538330 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
538263 AAATTTAATT
538273 TAATATTTTAAAAATTATAAAAATA
1 TAATATTTTAAAAATTATAAAAATA
* * *
538298 TAATCTATTAAAAATTATAAAATTA
1 TAATATTTTAAAAATTATAAAAATA
538323 T-ATATTTT
1 TAATATTTT
538331 TTATTATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TAATATTTTAAAAATTATAAAAATA
Found at i:544756 original size:32 final size:33
Alignment explanation
Indices: 544673--544754 Score: 146
Period size: 33 Copynumber: 2.5 Consensus size: 33
544663 TTAAAGTTAA
*
544673 AAAAGTTTTGATTTTTTTAAACTATTTTGAAAT
1 AAAAGTTTTGATTTTTTAAAACTATTTTGAAAT
*
544706 AAAAGTTTTGATTTTTTAAAATTATTTTGAAAT
1 AAAAGTTTTGATTTTTTAAAACTATTTTGAAAT
544739 AAAAGTTTTGATTTTT
1 AAAAGTTTTGATTTTT
544755 AAGAAAATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.37, C:0.01, G:0.10, T:0.52
Consensus pattern (33 bp):
AAAAGTTTTGATTTTTTAAAACTATTTTGAAAT
Found at i:544775 original size:33 final size:31
Alignment explanation
Indices: 544669--544769 Score: 96
Period size: 33 Copynumber: 3.1 Consensus size: 31
544659 TCTTTTAAAG
** *
544669 TTAA-AAAAGTTTTGATTTTTTTAAACTATT
1 TTAATAAAAGTTTTGATTTTTGAAAATTATT
*
544699 TTGAAATAAAAGTTTTGATTTTTTAAAATTATT
1 TT--AATAAAAGTTTTGATTTTTGAAAATTATT
544732 TTGAAATAAAAGTTTTGATTTTTAAGAAAATTAGTT
1 TT--AATAAAAGTTTTGATTTTT--GAAAATTA-TT
544768 TT
1 TT
544770 TTAAAAAAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
30 2 0.03
32 2 0.03
33 47 0.76
35 7 0.11
36 4 0.06
ACGTcount: A:0.39, C:0.01, G:0.10, T:0.50
Consensus pattern (31 bp):
TTAATAAAAGTTTTGATTTTTGAAAATTATT
Found at i:545072 original size:126 final size:126
Alignment explanation
Indices: 544843--545098 Score: 350
Period size: 126 Copynumber: 2.0 Consensus size: 126
544833 TAAAAAAAGG
* * * * *
544843 GTTGGGATATACATGCCTAAGGTAACGCTTAAATAAGAGTTGGCTTTGTCCAACACTAAGCCGTC
1 GTTGGAATATACATGCCTAAGGCAACACTTAAATAAAAGTTGGCTTTGTCCAACACTAAGCCGAC
* * *
544908 ACTTTCCCAAGTGTTGGGATAGACTTGCCGACATACGCTTTGGCAAACTCTTTGTATAAGA
66 ACTTTCACAAGTGTTGGGATAGACTTGCCGACAAACGCTTTAGCAAACTCTTTGTATAAGA
* * * * * *
544969 GTTGGAATATGCATGCCTAAGGCAACACTTAAATAAAAGTTGGCTTTTTCTAACATTATGTCGAC
1 GTTGGAATATACATGCCTAAGGCAACACTTAAATAAAAGTTGGCTTTGTCCAACACTAAGCCGAC
* ** *
545034 ACTTTCATAAGTGTTGGGATAGACTTGTTGACAAACGCTTTAGCCAACTCTTTGTATAAGA
66 ACTTTCACAAGTGTTGGGATAGACTTGCCGACAAACGCTTTAGCAAACTCTTTGTATAAGA
545095 GTTG
1 GTTG
545099 ACAAATTAAT
Statistics
Matches: 112, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
126 112 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (126 bp):
GTTGGAATATACATGCCTAAGGCAACACTTAAATAAAAGTTGGCTTTGTCCAACACTAAGCCGAC
ACTTTCACAAGTGTTGGGATAGACTTGCCGACAAACGCTTTAGCAAACTCTTTGTATAAGA
Found at i:545326 original size:14 final size:14
Alignment explanation
Indices: 545309--545338 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
545299 CCCGAACATT
545309 AAACCCAAAACCTA
1 AAACCCAAAACCTA
545323 AAACCCAAAACCTA
1 AAACCCAAAACCTA
545337 AA
1 AA
545339 CATAAACCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.33, G:0.00, T:0.07
Consensus pattern (14 bp):
AAACCCAAAACCTA
Found at i:548606 original size:52 final size:53
Alignment explanation
Indices: 548542--548643 Score: 152
Period size: 52 Copynumber: 1.9 Consensus size: 53
548532 GACTCTTTCT
*
548542 AGCCAAGAACAGAGTTTAGCTTATACGAGCCCAAATAGAGTTTAGCTCATACG
1 AGCCAAGAACAGAGTTTAGCTCATACGAGCCCAAATAGAGTTTAGCTCATACG
* * * *
548595 AGCCAA-AACAGAGTTTTGCTCATTCGAGCCTAGATAGAGTTTAGCTCAT
1 AGCCAAGAACAGAGTTTAGCTCATACGAGCCCAAATAGAGTTTAGCTCAT
548644 TGGTAGCATT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 38 0.86
53 6 0.14
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (53 bp):
AGCCAAGAACAGAGTTTAGCTCATACGAGCCCAAATAGAGTTTAGCTCATACG
Found at i:548644 original size:26 final size:26
Alignment explanation
Indices: 548542--548643 Score: 123
Period size: 26 Copynumber: 3.9 Consensus size: 26
548532 GACTCTTTCT
* *
548542 AGCCAAGAACAGAGTTTAGCTTATACG
1 AGCCAA-AATAGAGTTTAGCTCATACG
*
548569 AGCCCAAATAGAGTTTAGCTCATACG
1 AGCCAAAATAGAGTTTAGCTCATACG
* * *
548595 AGCCAAAACAGAGTTTTGCTCATTCG
1 AGCCAAAATAGAGTTTAGCTCATACG
* *
548621 AGCCTAGATAGAGTTTAGCTCAT
1 AGCCAAAATAGAGTTTAGCTCAT
548644 TGGTAGCATT
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
26 59 0.92
27 5 0.08
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (26 bp):
AGCCAAAATAGAGTTTAGCTCATACG
Found at i:551478 original size:52 final size:52
Alignment explanation
Indices: 551391--551681 Score: 343
Period size: 52 Copynumber: 5.6 Consensus size: 52
551381 TAAATGAAAA
* * *
551391 AGGTTCGATGACTATGTGTCATTGTGAGTATATGAATCTTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * * * *
551443 ATGACCGATGATTATGTGTCATCATGAGTAAATGAATCCTTTATGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
551495 AGGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCATTTACGAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * * *
551547 AGGTCCGATGGCTATATGTCATCGTGAGTATATGAATCCTGTACAGATTAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
551599 AGGTCCTATGACTATGTGTCATCGTGAGCATAT-AGATCATTTTACGGATT-TA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGA-ATC-CTTTACGGATTATG
* *
551651 AGGTCCGATGACTTTGTGTCATCATGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
551682 TAAATGGGAA
Statistics
Matches: 200, Mismatches: 37, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
51 1 0.00
52 191 0.95
53 8 0.04
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:554337 original size:13 final size:13
Alignment explanation
Indices: 554319--554351 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
554309 TTTATTCATT
554319 TAATTAATTTAAA-
1 TAATTAA-TTAAAC
554332 TAATTAATTAAAC
1 TAATTAATTAAAC
554345 TAATTAA
1 TAATTAA
554352 ATTATTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (13 bp):
TAATTAATTAAAC
Found at i:563069 original size:62 final size:59
Alignment explanation
Indices: 562967--563080 Score: 156
Period size: 62 Copynumber: 1.9 Consensus size: 59
562957 ACTTTAATAT
* * * *
562967 TTAAATTAATATATTATTTATCAAGATAAATATTAGATTAAATTTAAAATTATATCTTA
1 TTAAATTAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAAAATTATATCTTA
*
563026 TTAAATTAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTA
1 TTAAATTAATAGAATATTTA--T-CAAGATAAACATTAAATTAAATTTAAAATTA
563081 AGATAATCAC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
59 18 0.38
61 1 0.02
62 28 0.60
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (59 bp):
TTAAATTAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAAAATTATATCTTA
Found at i:563120 original size:25 final size:27
Alignment explanation
Indices: 563065--563120 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 27
563055 TAAACATTAA
* * *
563065 ATTAAATTTAATATTAAGATAATCACT
1 ATTAAAATTAATATTAACAAAATCACT
563092 -TTAAAATTAA-ATTAACAAAAT-ACT
1 ATTAAAATTAATATTAACAAAATCACT
563116 ATTAA
1 ATTAA
563121 GATAAGTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 3 0.12
25 13 0.52
26 9 0.36
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.38
Consensus pattern (27 bp):
ATTAAAATTAATATTAACAAAATCACT
Found at i:563550 original size:19 final size:19
Alignment explanation
Indices: 563509--563551 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
563499 AAAATATCAT
*
563509 ATTAATTTTAATTAATTTT
1 ATTAATTTTAATTAATTTG
*
563528 ATTAA-TTTAATTTTATTTG
1 ATTAATTTTAA-TTAATTTG
563547 ATTAA
1 ATTAA
563552 AATTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTAATTTG
Found at i:567859 original size:18 final size:18
Alignment explanation
Indices: 567820--567859 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
567810 CAGATGCAGT
* *
567820 CACATGCTCATATGTAAT
1 CACATGCTCATATATAAC
*
567838 CACATGCTCATATATAGC
1 CACATGCTCATATATAAC
567856 CACA
1 CACA
567860 GTAGTTTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.28, G:0.10, T:0.28
Consensus pattern (18 bp):
CACATGCTCATATATAAC
Found at i:581212 original size:13 final size:13
Alignment explanation
Indices: 581191--581221 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
581181 ACAATATACT
581191 AATAATAATCCTA
1 AATAATAATCCTA
*
581204 AATATTAATCCTA
1 AATAATAATCCTA
581217 AATAA
1 AATAA
581222 AATAGAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:581778 original size:9 final size:9
Alignment explanation
Indices: 581766--581792 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
581756 ATTTTGTCGA
581766 TTTTCTTTT
1 TTTTCTTTT
581775 TTTTCTTTT
1 TTTTCTTTT
581784 TTTTCTTTT
1 TTTTCTTTT
581793 GCTTAAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:593773 original size:8 final size:7
Alignment explanation
Indices: 593760--593812 Score: 52
Period size: 8 Copynumber: 6.9 Consensus size: 7
593750 AAAGTGCTAG
593760 AAATAAA
1 AAATAAA
593767 TAAATAAACA
1 -AAAT-AA-A
593777 AAATAAA
1 AAATAAA
*
593784 TAAGTAAA
1 -AAATAAA
593792 AAATAAA
1 AAATAAA
593799 ATAATAAA
1 A-AATAAA
593807 AAATAA
1 AAATAA
593813 TTAAGGAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
7 13 0.33
8 19 0.49
9 6 0.15
10 1 0.03
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (7 bp):
AAATAAA
Found at i:593802 original size:16 final size:15
Alignment explanation
Indices: 593764--593812 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
593754 TGCTAGAAAT
*
593764 AAAT-AAATAA-ACA
1 AAATAAAATAATAAA
593777 AAAT-AAATAAGTAAA
1 AAATAAAATAA-TAAA
593792 AAATAAAATAATAAA
1 AAATAAAATAATAAA
593807 AAATAA
1 AAATAA
593813 TTAAGGAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 10 0.31
15 16 0.50
16 6 0.19
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (15 bp):
AAATAAAATAATAAA
Found at i:593809 original size:17 final size:16
Alignment explanation
Indices: 593760--593809 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
593750 AAAGTGCTAG
*
593760 AAATAAATAAATAAACA
1 AAATAAAT-AATAAAAA
593777 AAATAAATAAGTAAAAA
1 AAATAAATAA-TAAAAA
*
593794 ATA-AAATAATAAAAA
1 AAATAAATAATAAAAA
593809 A
1 A
593810 TAATTAAGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 7 0.23
16 8 0.27
17 15 0.50
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (16 bp):
AAATAAATAATAAAAA
Found at i:595087 original size:15 final size:15
Alignment explanation
Indices: 595067--595095 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
595057 TTATTTGTAA
595067 TATGGACTTTTATTG
1 TATGGACTTTTATTG
595082 TATGGACTTTTATT
1 TATGGACTTTTATT
595096 TTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (15 bp):
TATGGACTTTTATTG
Found at i:595628 original size:100 final size:101
Alignment explanation
Indices: 595524--595975 Score: 404
Period size: 100 Copynumber: 4.5 Consensus size: 101
595514 CTGCTAATGC
* * *
595524 AGCTTTAATCCGATCCACTGCAACTTCAGGGATATAAGATTTGATGTCGTAACTTCATCTTGCTC
1 AGCTTTAATCCGATCCACTACAACTTCAGGGATATAAGATTTGATGTTGTAGCTTCATCTTGCTC
* ** *
595589 CACTGTATGTTCAAGGAGAT-AAGATTTGT-T-TCTAT
66 CACTGCAACTTCAAGGAGATAAAAATTT-TCTAT-TAT
* * * * * *
595624 AGCTTCAATCCGACCCACTGCAACTTCAAGGG-TATAGGATTTGATATGGTAGCTTCATCTTGCT
1 AGCTTTAATCCGATCCACTACAACTTC-AGGGATATAAGATTTGATGTTGTAGCTTCATCTTGCT
* * * *
595688 CTATTGCAACTT-TAGAGAGATAAAAATTTTCTATTGT
65 CCACTGCAACTTCAAG-GAGATAAAAATTTTCTATTAT
* * * * *
595725 AG-TGTTAATCCGATTC-CTACAACTTTAAGGATATAGGATTTGATTTTGTAGCTTCATCTTGCT
1 AGCT-TTAATCCGATCCACTACAACTTCAGGGATATAAGATTTGATGTTGTAGCTTCATCTTGCT
* * **
595788 CCACTACAACTTCAGGGAGATAAAAATTTGGT-TCTAT
65 CCACTGCAACTTCAAGGAGATAAAAATTTTCTAT-TAT
* * * * * *
595825 AG-TTTAATTCTGACCCACTACAACTTCAAGGTTATAAGATTTGGTTTTGTAGCTTCATCTTGCT
1 AGCTTTAA-TCCGATCCACTACAACTTCAGGGATATAAGATTTGATGTTGTAGCTTCATCTTGCT
* * *
595889 CTACTGCAATTTCAAAGAGATAAAAATTTTCTATTAT
65 CCACTGCAACTTCAAGGAGATAAAAATTTTCTATTAT
** * *
595926 AGCTTTAATTTGATCC-CT-CTAACTTCAGGGATATATGATTTGGTGTTGTA
1 AGCTTTAATCCGATCCACTAC-AACTTCAGGGATATAAGATTTGATGTTGTA
595976 ACTTTACTCC
Statistics
Matches: 288, Mismatches: 50, Indels: 28
0.79 0.14 0.08
Matches are distributed among these distances:
99 11 0.04
100 166 0.58
101 104 0.36
102 7 0.02
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (101 bp):
AGCTTTAATCCGATCCACTACAACTTCAGGGATATAAGATTTGATGTTGTAGCTTCATCTTGCTC
CACTGCAACTTCAAGGAGATAAAAATTTTCTATTAT
Found at i:595795 original size:50 final size:50
Alignment explanation
Indices: 595537--595903 Score: 210
Period size: 50 Copynumber: 7.3 Consensus size: 50
595527 TTTAATCCGA
* * * *
595537 TCCACTGCAACTTCAGGGATATAAGATTTGATGTCGTAACTTCATCTTGC
1 TCCACTGCAACTTCAAGGATATAAGATTTGATTTTGTAGCTTCATCTTGC
* ** * * *
595587 TCCACTGTATGTTCAAGGAGATAAGATTTG-TTTCTATAGCTTCAATC-CGAC
1 TCCACTGCAACTTCAAGGATATAAGATTTGATTT-TGTAGCTTC-ATCTTG-C
* * * *
595638 -CCACTGCAACTTCAAGGGTATAGGATTTGATATGGTAGCTTCATCTTGC
1 TCCACTGCAACTTCAAGGATATAAGATTTGATTTTGTAGCTTCATCTTGC
* * * * ** * * * * *
595687 TCTATTGCAACTTTAGAGAGATA-AAAATTTTCTATTGTAGTGTTAATC-CGA
1 TCCACTGCAACTTCA-AG-GATATAAGATTTGATTTTGTAG-CTTCATCTTGC
* * * *
595738 TTC-CTACAACTTTAAGGATATAGGATTTGATTTTGTAGCTTCATCTTGC
1 TCCACTGCAACTTCAAGGATATAAGATTTGATTTTGTAGCTTCATCTTGC
* * * * * * * * *
595787 TCCACTACAACTTCAGGGAGATAAAAATTTGGTTCTATAGTTTAAT-TCTGAC
1 TCCACTGCAACTTCAAGGATAT-AAGATTTGATTTTGTAGCTTCATCT-TG-C
* * *
595839 -CCACTACAACTTCAAGGTTATAAGATTTGGTTTTGTAGCTTCATCTTGC
1 TCCACTGCAACTTCAAGGATATAAGATTTGATTTTGTAGCTTCATCTTGC
* *
595888 TCTACTGCAATTTCAA
1 TCCACTGCAACTTCAA
595904 AGAGATAAAA
Statistics
Matches: 232, Mismatches: 68, Indels: 34
0.69 0.20 0.10
Matches are distributed among these distances:
48 9 0.04
49 24 0.10
50 131 0.56
51 59 0.25
52 9 0.04
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.37
Consensus pattern (50 bp):
TCCACTGCAACTTCAAGGATATAAGATTTGATTTTGTAGCTTCATCTTGC
Found at i:595882 original size:201 final size:201
Alignment explanation
Indices: 595528--595979 Score: 529
Period size: 201 Copynumber: 2.3 Consensus size: 201
595518 TAATGCAGCT
* *
595528 TTAATCCGATCCACTGCAACTTCAGGGATATAAGATTTGATGTCGTAACTTCATCTTGCTCCACT
1 TTAATCCGATCCACTACAACTTCAAGGATATAAGATTTGATGTCGTAACTTCATCTTGCTCCACT
** ** * * *
595593 GTATGTTCAAGGAGATAAGATTTGTTTCTATAGCTTCAATCCGACCCACTGCAACTTCAAGGGTA
66 ACAACTTCAAGGAGATAAAATTTGGTTCTATAGCTTCAATCCGACCCACTACAACTTCAAGGGTA
* * *
595658 TAGGATTTGATATGGTAGCTTCATCTTGCTCTATTGCAACTTT-AGAGAGATAAAAATTTTCTAT
131 TAAGATTTGATATGGTAGCTTCATCTTGCTCTACTGCAA-TTTCAAAGAGATAAAAATTTTCTAT
595722 TGTAGTG
195 TGTAGTG
* * * * * *
595729 TTAATCCGATTC-CTACAACTTTAAGGATATAGGATTTGATTTTGTAGCTTCATCTTGCTCCACT
1 TTAATCCGATCCACTACAACTTCAAGGATATAAGATTTGATGTCGTAACTTCATCTTGCTCCACT
* * * *
595793 ACAACTTCAGGGAGATAAAAATTTGGTTCTATAG-TTTAATTCTGACCCACTACAACTTCAAGGT
66 ACAACTTCAAGGAGAT-AAAATTTGGTTCTATAGCTTCAA-TCCGACCCACTACAACTTCAAGGG
* * *
595857 TATAAGATTTGGTTTTGTAGCTTCATCTTGCTCTACTGCAATTTCAAAGAGATAAAAATTTTCTA
129 TATAAGATTTGATATGGTAGCTTCATCTTGCTCTACTGCAATTTCAAAGAGATAAAAATTTTCTA
*
595922 TTATAGCT-
194 TTGTAG-TG
** * * * *
595930 TTAATTTGATCC-CT-CTAACTTCAGGGATATATGATTTGGTGTTGTAACTT
1 TTAATCCGATCCACTAC-AACTTCAAGGATATAAGATTTGATGTCGTAACTT
595980 TACTCCATTC
Statistics
Matches: 211, Mismatches: 35, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
200 64 0.30
201 146 0.69
202 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (201 bp):
TTAATCCGATCCACTACAACTTCAAGGATATAAGATTTGATGTCGTAACTTCATCTTGCTCCACT
ACAACTTCAAGGAGATAAAATTTGGTTCTATAGCTTCAATCCGACCCACTACAACTTCAAGGGTA
TAAGATTTGATATGGTAGCTTCATCTTGCTCTACTGCAATTTCAAAGAGATAAAAATTTTCTATT
GTAGTG
Found at i:603775 original size:42 final size:42
Alignment explanation
Indices: 603687--603995 Score: 361
Period size: 42 Copynumber: 7.4 Consensus size: 42
603677 TCAAAATGTG
* * * *
603687 ATGAAAAGTAAATGAGCCTCCACACTTGGTCCTCTAAA--CA
1 ATGAAAAGTAAATGGGCCTCCACACCTGGGCCTGTAAATGCA
* * * * * *
603727 TGATGAAAAGTAAATGGACCTCTACACCTAGGCTTGTGAGTGCA
1 --ATGAAAAGTAAATGGGCCTCCACACCTGGGCCTGTAAATGCA
*
603771 ATGAAAAGTAAATGGGCCTCCACACTTGGGCCTGTAAATGCA
1 ATGAAAAGTAAATGGGCCTCCACACCTGGGCCTGTAAATGCA
* *
603813 ATGAAAAGTAAATAGGCCTCCACACCTGGGCCTATAAATGCA
1 ATGAAAAGTAAATGGGCCTCCACACCTGGGCCTGTAAATGCA
603855 ATGAAAAGTAAATGGGCCTCCACACCTGGGCCTGTAAATGCA
1 ATGAAAAGTAAATGGGCCTCCACACCTGGGCCTGTAAATGCA
* * * * *
603897 ATGAAAAGTAAATAGGCCTCCATACCTGAGCCTCTAAATACA
1 ATGAAAAGTAAATGGGCCTCCACACCTGGGCCTGTAAATGCA
* * * * * *
603939 ATGAAAAGTAAATTGACCTCCATACCTGAGCCTCTAAATACA
1 ATGAAAAGTAAATGGGCCTCCACACCTGGGCCTGTAAATGCA
*
603981 ATGAAAAGAAAATGG
1 ATGAAAAGTAAATGG
603996 ACCTGATGGC
Statistics
Matches: 234, Mismatches: 31, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
42 232 0.99
44 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (42 bp):
ATGAAAAGTAAATGGGCCTCCACACCTGGGCCTGTAAATGCA
Found at i:610515 original size:80 final size:80
Alignment explanation
Indices: 610382--610572 Score: 267
Period size: 80 Copynumber: 2.4 Consensus size: 80
610372 TAAATCGACG
* * * *
610382 ATCCTGGCACCCAGTGCCTAACGGATAAATCGAAAAAGTGAGCCTAGCTCTAGTTGGATTAACCA
1 ATCCTGGCACCCAGTGCCTAGCGGATAAACCGAAAAAGTGAGCCCAACTCTAGTTGGATTAACCA
610447 ACAAATATCCGTCAA-
66 ACAAATATCCGT-AAT
* * * * *
610462 ATCCTGGCACCTAATGCCTAGCGAATAAACCGCAAAAGTGAGCCCAACTCTAGTTTGATTAACCA
1 ATCCTGGCACCCAGTGCCTAGCGGATAAACCGAAAAAGTGAGCCCAACTCTAGTTGGATTAACCA
*
610527 ACAAATATCTGTAAT
66 ACAAATATCCGTAAT
*
610542 ATCCTGGCTCCCAGTGCCTAGCGGATAAACC
1 ATCCTGGCACCCAGTGCCTAGCGGATAAACC
610573 ACAATTTTGT
Statistics
Matches: 96, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
79 2 0.02
80 94 0.98
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (80 bp):
ATCCTGGCACCCAGTGCCTAGCGGATAAACCGAAAAAGTGAGCCCAACTCTAGTTGGATTAACCA
ACAAATATCCGTAAT
Found at i:613843 original size:27 final size:27
Alignment explanation
Indices: 613779--613844 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
613769 GAATTTACCA
*
613779 CCAAGGCTACCACAAAATGACATTCAT
1 CCAATGCTACCACAAAATGACATTCAT
* * *
613806 TCAGTGCTACCACAAAATGACATTCCT
1 CCAATGCTACCACAAAATGACATTCAT
*
613833 CCAATGTTACCA
1 CCAATGCTACCA
613845 GAAGATTTAC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.36, C:0.30, G:0.11, T:0.23
Consensus pattern (27 bp):
CCAATGCTACCACAAAATGACATTCAT
Found at i:619778 original size:18 final size:18
Alignment explanation
Indices: 619742--619779 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
619732 AGACAGATAC
*
619742 CACAATATCATGCTCAAA
1 CACAATATCATCCTCAAA
619760 CACAATATTCATCCT-AAA
1 CACAATA-TCATCCTCAAA
619778 CA
1 CA
619780 TGGCTTCCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.45, C:0.29, G:0.03, T:0.24
Consensus pattern (18 bp):
CACAATATCATCCTCAAA
Found at i:626822 original size:22 final size:21
Alignment explanation
Indices: 626780--626822 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
626770 GTTATTGCAA
* *
626780 TTAATTTTACTTACTTAGTTT
1 TTAATTTTAATTAATTAGTTT
*
626801 TTAACTTTTAATTAATTTGTTT
1 TTAA-TTTTAATTAATTAGTTT
626823 ATCGTTCTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.63
Consensus pattern (21 bp):
TTAATTTTAATTAATTAGTTT
Found at i:645021 original size:133 final size:133
Alignment explanation
Indices: 644783--645051 Score: 529
Period size: 133 Copynumber: 2.0 Consensus size: 133
644773 TTGATTTATT
*
644783 TTTGATGATTTGTCATAACAGATCCTGGTTTACAGTTTAAAGTTTTATTTCAATTTTATTTTACA
1 TTTGATGATTTGTCATAACAGATCCTAGTTTACAGTTTAAAGTTTTATTTCAATTTTATTTTACA
644848 ATTCTAATAATTTTACCAAATGATTCTCATTCGGTTTAGAGATGATATGGAATCACAGGTTTATA
66 ATTCTAATAATTTTACCAAATGATTCTCATTCGGTTTAGAGATGATATGGAATCACAGGTTTATA
644913 CAA
131 CAA
644916 TTTGATGATTTGTCATAACAGATCCTAGTTTACAGTTTAAAGTTTTATTTCAATTTTATTTTACA
1 TTTGATGATTTGTCATAACAGATCCTAGTTTACAGTTTAAAGTTTTATTTCAATTTTATTTTACA
644981 ATTCTAATAATTTTACCAAATGATTCTCATTCGGTTTAGAGATGATATGGAATCACAGGTTTATA
66 ATTCTAATAATTTTACCAAATGATTCTCATTCGGTTTAGAGATGATATGGAATCACAGGTTTATA
645046 CAA
131 CAA
645049 TTT
1 TTT
645052 TCTCTCCTCA
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 135 1.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (133 bp):
TTTGATGATTTGTCATAACAGATCCTAGTTTACAGTTTAAAGTTTTATTTCAATTTTATTTTACA
ATTCTAATAATTTTACCAAATGATTCTCATTCGGTTTAGAGATGATATGGAATCACAGGTTTATA
CAA
Found at i:648454 original size:20 final size:20
Alignment explanation
Indices: 648415--648474 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
648405 TTTTGAAACA
* *
648415 ATTTTAAAATCAAGTTAAAATT
1 ATTTT-AAAT-AAGTCAAAATG
648437 ATTTTAAATAAGTCAAAATG
1 ATTTTAAATAAGTCAAAATG
* **
648457 ATTTCAACCAAGTCAAAA
1 ATTTTAAATAAGTCAAAA
648475 CCATTTCAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 24 0.73
21 4 0.12
22 5 0.15
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (20 bp):
ATTTTAAATAAGTCAAAATG
Found at i:648499 original size:19 final size:20
Alignment explanation
Indices: 648446--648511 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
648436 TATTTTAAAT
*
648446 AAGTCAAAATGATTTCAACC
1 AAGTCAAAATCATTTCAACC
*
648466 AAGTCAAAACCATTTCAA-C
1 AAGTCAAAATCATTTCAACC
*
648485 ACA-TCAAAATTATTTTCAACC
1 A-AGTCAAAATCA-TTTCAACC
648506 AAGTCA
1 AAGTCA
648512 GAATTGCTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 9 0.24
20 24 0.63
21 5 0.13
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.26
Consensus pattern (20 bp):
AAGTCAAAATCATTTCAACC
Found at i:649932 original size:21 final size:22
Alignment explanation
Indices: 649892--649942 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
649882 AAACTCTAGT
649892 AAATTAAAAGAATACATTTGAA
1 AAATTAAAAGAATACATTTGAA
* * *
649914 AAATTACAAG-ATACCTTTGAT
1 AAATTAAAAGAATACATTTGAA
*
649935 GAATTAAA
1 AAATTAAA
649943 TATAGATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.29
Consensus pattern (22 bp):
AAATTAAAAGAATACATTTGAA
Found at i:651643 original size:10 final size:10
Alignment explanation
Indices: 651628--651655 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
651618 TAATGGAAAA
651628 GAAAATTTAG
1 GAAAATTTAG
651638 GAAAATTTAG
1 GAAAATTTAG
651648 GAAAATTT
1 GAAAATTT
651656 GATACCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (10 bp):
GAAAATTTAG
Found at i:654000 original size:20 final size:20
Alignment explanation
Indices: 653936--654005 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
653926 TGCAATTTGG
*
653936 TATCGATA-TCGATTTAAAAT
1 TATCGATACTC-ATATAAAAT
* ** *
653956 TATAGATACTTTTATAAAAAA
1 TATCGATACTCATAT-AAAAT
*
653977 TATCGATACTCATGTAAAAT
1 TATCGATACTCATATAAAAT
653997 TATCGATAC
1 TATCGATAC
654006 CACGGGGGTT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (20 bp):
TATCGATACTCATATAAAAT
Found at i:656082 original size:20 final size:20
Alignment explanation
Indices: 656054--656131 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
656044 TTTTAAAATT
* *
656054 AAGTTAAAATTATTTTAAAC
1 AAGTCAAAATGATTTTAAAC
*
656074 AAGTCAAAATGA-TTTCAAC
1 AAGTCAAAATGATTTTAAAC
*
656093 TAAGTCAAAATCATTTT-AAC
1 -AAGTCAAAATGATTTTAAAC
656113 ACA-TCAAAATGATTTTAAA
1 A-AGTCAAAATGATTTTAAA
656132 ATGATTTTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 19 0.39
20 27 0.55
21 3 0.06
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (20 bp):
AAGTCAAAATGATTTTAAAC
Found at i:656995 original size:24 final size:24
Alignment explanation
Indices: 656934--656996 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
656924 TAGACTAATA
* * *
656934 AGAGTTTGACTCAAATAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* *
656958 AGAGTTTAATTGAAACAATTAAAC
1 AGAGTTTAACTGAAACAAATAAAC
656982 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
656997 GATTATTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:658940 original size:25 final size:24
Alignment explanation
Indices: 658889--658948 Score: 84
Period size: 25 Copynumber: 2.5 Consensus size: 24
658879 CTAATAAGAA
*
658889 TTTAACTCAAACAAATAAACAGAG
1 TTTAACTGAAACAAATAAACAGAG
* *
658913 TTTAATTGAAACAAATTAAACAGGG
1 TTTAACTGAAACAAA-TAAACAGAG
658938 TTTAACTGAAA
1 TTTAACTGAAA
658949 GATTATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 13 0.42
25 18 0.58
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (24 bp):
TTTAACTGAAACAAATAAACAGAG
Found at i:668903 original size:21 final size:21
Alignment explanation
Indices: 668874--668926 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
668864 TGGGTAGCCT
* *
668874 TTGAATGTTGTGTTTGGAGGG
1 TTGATTGTTGTGTTTGCAGGG
*
668895 TTGATTGTTGTTTTTGCAGGG
1 TTGATTGTTGTGTTTGCAGGG
668916 TTGATTGTTGT
1 TTGATTGTTGT
668927 CTATGCGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.11, C:0.02, G:0.36, T:0.51
Consensus pattern (21 bp):
TTGATTGTTGTGTTTGCAGGG
Found at i:672081 original size:91 final size:91
Alignment explanation
Indices: 671967--672148 Score: 364
Period size: 91 Copynumber: 2.0 Consensus size: 91
671957 AATAATGATT
671967 GATATACAAGAATTTAAACAAGTTGTTTATGATGCAAAAAATGAGTATGATTGGAATGTGGTATG
1 GATATACAAGAATTTAAACAAGTTGTTTATGATGCAAAAAATGAGTATGATTGGAATGTGGTATG
672032 AATAGGATTTGAATTAATGTTTATGA
66 AATAGGATTTGAATTAATGTTTATGA
672058 GATATACAAGAATTTAAACAAGTTGTTTATGATGCAAAAAATGAGTATGATTGGAATGTGGTATG
1 GATATACAAGAATTTAAACAAGTTGTTTATGATGCAAAAAATGAGTATGATTGGAATGTGGTATG
672123 AATAGGATTTGAATTAATGTTTATGA
66 AATAGGATTTGAATTAATGTTTATGA
672149 AATGAACATT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.35
Consensus pattern (91 bp):
GATATACAAGAATTTAAACAAGTTGTTTATGATGCAAAAAATGAGTATGATTGGAATGTGGTATG
AATAGGATTTGAATTAATGTTTATGA
Found at i:673818 original size:36 final size:36
Alignment explanation
Indices: 673760--673972 Score: 234
Period size: 36 Copynumber: 6.0 Consensus size: 36
673750 CCGAGCTATT
*
673760 CATAGCATT--ACGCTAACCGAGACGTAAGCAATCA
1 CATAGCATTACACTCTAACCGAGACGTAAGCAATCA
*
673794 CATAGCATTACACTCTAACCGAGACGTAAGCAACCA
1 CATAGCATTACACTCTAACCGAGACGTAAGCAATCA
* *
673830 CATATCATTA-AGCTCTAATCGAGACGTAAGCAATCA
1 CATAGCATTACA-CTCTAACCGAGACGTAAGCAATCA
* *
673866 CATAGCATTACGCTCTAACCGAGATGTAAGCAATCA
1 CATAGCATTACACTCTAACCGAGACGTAAGCAATCA
* * ** * * *
673902 TATATCATTATGCTCTAACAGAGACATAAACAATCA
1 CATAGCATTACACTCTAACCGAGACGTAAGCAATCA
* * * * *
673938 CATAGCAGTACGCTTTAACCTAAACGTAAGCAATC
1 CATAGCATTACACTCTAACCGAGACGTAAGCAATC
673973 CATCGAAGTA
Statistics
Matches: 149, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
34 9 0.06
35 1 0.01
36 139 0.93
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (36 bp):
CATAGCATTACACTCTAACCGAGACGTAAGCAATCA
Found at i:673965 original size:108 final size:106
Alignment explanation
Indices: 673760--673972 Score: 264
Period size: 108 Copynumber: 2.0 Consensus size: 106
673750 CCGAGCTATT
* * *
673760 CATAGCATTACGCTAACCGAGACGTAAGCAATCACATAGCATTACACTCTAACCGAGACGTAAGC
1 CATAGCATTACGCTAACCGAGACGTAAGCAATCACATAGCATTACACTCTAACAGAGACATAAAC
* * * *
673825 AACCACATATCATTAAGCTCTAATCGAGACGTAAGCAATCA
66 AACCACATAGCAGTAAGCTCTAACCGAAACGTAAGCAATCA
* * * **
673866 CATAGCATTACGCTCTAACCGAGATGTAAGCAATCATATATCATTATGCTCTAACAGAGACATAA
1 CATAGCATTACG--CTAACCGAGACGTAAGCAATCACATAGCATTACACTCTAACAGAGACATAA
* * * *
673931 ACAATCACATAGCAGTACGCTTTAACCTAAACGTAAGCAATC
64 ACAACCACATAGCAGTAAGCTCTAACCGAAACGTAAGCAATC
673973 CATCGAAGTA
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
106 12 0.13
108 77 0.87
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (106 bp):
CATAGCATTACGCTAACCGAGACGTAAGCAATCACATAGCATTACACTCTAACAGAGACATAAAC
AACCACATAGCAGTAAGCTCTAACCGAAACGTAAGCAATCA
Found at i:673971 original size:72 final size:71
Alignment explanation
Indices: 673772--673972 Score: 276
Period size: 72 Copynumber: 2.8 Consensus size: 71
673762 TAGCATTACG
* *
673772 CTAACCGAGACGTAAGCAATCACATAGCATTACACTCTAACCGAGACGTAAGCAACCACATATCA
1 CTAA-CGAGACGTAAGCAATCACATAGCATTACGCTCTAACCGAGACGTAAGCAATCACATATCA
673837 TTAAGCT
65 TTAAGCT
* *
673844 CTAATCGAGACGTAAGCAATCACATAGCATTACGCTCTAACCGAGATGTAAGCAATCATATATCA
1 CTAA-CGAGACGTAAGCAATCACATAGCATTACGCTCTAACCGAGACGTAAGCAATCACATATCA
*
673909 TTATGCT
65 TTAAGCT
* * * * * *
673916 CTAACAGAGACATAAACAATCACATAGCAGTACGCTTTAACCTAAACGTAAGCAATC
1 CTAAC-GAGACGTAAGCAATCACATAGCATTACGCTCTAACCGAGACGTAAGCAATC
673973 CATCGAAGTA
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
71 1 0.01
72 114 0.99
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (71 bp):
CTAACGAGACGTAAGCAATCACATAGCATTACGCTCTAACCGAGACGTAAGCAATCACATATCAT
TAAGCT
Found at i:681587 original size:19 final size:20
Alignment explanation
Indices: 681563--681601 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
681553 TGTTTTGACC
681563 ATTTTA-GTTAAAAGACTTT
1 ATTTTATGTTAAAAGACTTT
*
681582 ATTTTATTTTTAAAAGACTT
1 ATTTTA-TGTTAAAAGACTT
681602 GTAATTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTTTATGTTAAAAGACTTT
Found at i:682996 original size:22 final size:22
Alignment explanation
Indices: 682968--683023 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
682958 TTGGGGCCGA
*
682968 TGTCGCGACACACTAGGACTTG
1 TGTCGCGACACACTAAGACTTG
682990 TGTCGCGACACACTAAGACTTG
1 TGTCGCGACACACTAAGACTTG
*
683012 TGTTGCGACACA
1 TGTCGCGACACA
683024 GCAGGCAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (22 bp):
TGTCGCGACACACTAAGACTTG
Found at i:683349 original size:5 final size:5
Alignment explanation
Indices: 683339--683384 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
683329 TCAAGCAAAC
*
683339 AACAA AACAA AA-AA AATAA CAA-AGA AACAA AACAA AACAA AACAA A
1 AACAA AACAA AACAA AACAA -AACA-A AACAA AACAA AACAA AACAA A
683385 GATAAGTGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 4 0.11
5 29 0.78
6 4 0.11
ACGTcount: A:0.80, C:0.15, G:0.02, T:0.02
Consensus pattern (5 bp):
AACAA
Found at i:684049 original size:16 final size:15
Alignment explanation
Indices: 684030--684069 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
684020 TTTCTACTCA
684030 TTTTCTCTTTGCTTTT
1 TTTTCTCTTTGC-TTT
* *
684046 TTTTCTTTTTTCTTT
1 TTTTCTCTTTGCTTT
684061 TTTTCTCTT
1 TTTTCTCTT
684070 CTTTGATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTCTCTTTGCTTT
Found at i:697203 original size:16 final size:17
Alignment explanation
Indices: 697172--697210 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
697162 TTTAAAGAGC
*
697172 ATAAAGTAAAAGAGAAA
1 ATAAAATAAAAGAGAAA
*
697189 A-AAAATAAAATAGAAA
1 ATAAAATAAAAGAGAAA
697205 ATAAAA
1 ATAAAA
697211 GCAAAAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (17 bp):
ATAAAATAAAAGAGAAA
Found at i:702232 original size:13 final size:13
Alignment explanation
Indices: 702214--702247 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
702204 GGGGATAAAA
702214 ATAAATAACTAAG
1 ATAAATAACTAAG
*
702227 ATAAATAACTATG
1 ATAAATAACTAAG
*
702240 AAAAATAA
1 ATAAATAA
702248 ACAAACAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (13 bp):
ATAAATAACTAAG
Found at i:703448 original size:31 final size:31
Alignment explanation
Indices: 703410--703496 Score: 140
Period size: 31 Copynumber: 2.8 Consensus size: 31
703400 TATAAGGGCA
*
703410 AATGACAAAACAGGT-ACTCAACTTTGATCTC
1 AATGACAAAGCA-GTCACTCAACTTTGATCTC
*
703441 AATGACAAAGCAATCACTCAACTTTGATCTC
1 AATGACAAAGCAGTCACTCAACTTTGATCTC
703472 AATGACAAAGCAGTCACTCAACTTT
1 AATGACAAAGCAGTCACTCAACTTT
703497 CAAACAATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
30 1 0.02
31 51 0.98
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.25
Consensus pattern (31 bp):
AATGACAAAGCAGTCACTCAACTTTGATCTC
Found at i:703516 original size:30 final size:31
Alignment explanation
Indices: 703471--703531 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
703461 ACTTTGATCT
*
703471 CAATGACAAAGCAGT-C-ACTCAACTTTCAAA
1 CAATAACAAAGCAGTCCTACT-AACTTTCAAA
*
703501 CAATAACAAATCAGTCCTACTAACTTTCAAA
1 CAATAACAAAGCAGTCCTACTAACTTTCAAA
703532 AAACCAGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 13 0.48
31 11 0.41
32 3 0.11
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.23
Consensus pattern (31 bp):
CAATAACAAAGCAGTCCTACTAACTTTCAAA
Found at i:731316 original size:23 final size:23
Alignment explanation
Indices: 731286--731337 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
731276 CTAACTTGTC
731286 ACTGCATCTCTCGATGTCAGTAG
1 ACTGCATCTCTCGATGTCAGTAG
731309 ACTGCATCTCTCGATGTCAGTAG
1 ACTGCATCTCTCGATGTCAGTAG
731332 ACTGCA
1 ACTGCA
731338 AAGACACTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (23 bp):
ACTGCATCTCTCGATGTCAGTAG
Found at i:732122 original size:14 final size:14
Alignment explanation
Indices: 732105--732133 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
732095 ATAATGAGTT
732105 AGAAAACATAAAAA
1 AGAAAACATAAAAA
732119 AGAAAACATAAAAA
1 AGAAAACATAAAAA
732133 A
1 A
732134 CTAAGTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (14 bp):
AGAAAACATAAAAA
Found at i:736036 original size:33 final size:33
Alignment explanation
Indices: 735989--736058 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
735979 AAATGACTAC
*
735989 TTTTTTGGTGTTTGGATGAATCTGTGTAAAATA
1 TTTTCTGGTGTTTGGATGAATCTGTGTAAAATA
*
736022 TTTTCTGGTGTTTGGATGAATCTTTGTAAAATA
1 TTTTCTGGTGTTTGGATGAATCTGTGTAAAATA
736055 TTTT
1 TTTT
736059 TTTTGGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.23, C:0.04, G:0.21, T:0.51
Consensus pattern (33 bp):
TTTTCTGGTGTTTGGATGAATCTGTGTAAAATA
Found at i:746041 original size:12 final size:13
Alignment explanation
Indices: 746013--746046 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
746003 GTCATTTTGT
*
746013 TTTTATTTTCTAT
1 TTTTATTTTCTAC
746026 TTTTATTTTCT-C
1 TTTTATTTTCTAC
746038 TTTTATTTT
1 TTTTATTTT
746047 ATGCTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTATTTTCTAC
Found at i:756313 original size:21 final size:21
Alignment explanation
Indices: 756287--756337 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
756277 AATAGTGCAG
*
756287 ACTTCTATAAATACAAGTGAC
1 ACTTCTACAAATACAAGTGAC
* *
756308 AGTTCTACCAATACAAGTGAC
1 ACTTCTACAAATACAAGTGAC
756329 ACTTCTACA
1 ACTTCTACA
756338 GAAATAAGTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (21 bp):
ACTTCTACAAATACAAGTGAC
Found at i:756891 original size:12 final size:12
Alignment explanation
Indices: 756870--756902 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
756860 ATTCTATCTT
756870 CAATCAACAAAA
1 CAATCAACAAAA
*
756882 CAATCTACAAAA
1 CAATCAACAAAA
756894 CAA-CAACAA
1 CAATCAACAA
756903 TATCTTTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.64, C:0.27, G:0.00, T:0.09
Consensus pattern (12 bp):
CAATCAACAAAA
Found at i:758089 original size:3 final size:3
Alignment explanation
Indices: 758081--758110 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
758071 TTGGTCGTGT
758081 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
758111 AATATATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:758221 original size:21 final size:23
Alignment explanation
Indices: 758197--758238 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
758187 CATAATTAAG
*
758197 CTTACTTAATCA-CTC-TTAATC
1 CTTAATTAATCATCTCATTAATC
758218 CTTAATTAATCATCTCATTAA
1 CTTAATTAATCATCTCATTAA
758239 CACCTAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 3 0.17
23 4 0.22
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (23 bp):
CTTAATTAATCATCTCATTAATC
Found at i:762940 original size:18 final size:18
Alignment explanation
Indices: 762917--762958 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
762907 ATCACAGGAA
762917 GAGGTGGAGGCCTTA-CGG
1 GAGGTGGAGGCCTTATC-G
*
762935 GAGGTGTAGGCCTTATCG
1 GAGGTGGAGGCCTTATCG
762953 GAGGTG
1 GAGGTG
762959 CCACAGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.17, C:0.14, G:0.48, T:0.21
Consensus pattern (18 bp):
GAGGTGGAGGCCTTATCG
Found at i:764796 original size:26 final size:26
Alignment explanation
Indices: 764747--764844 Score: 90
Period size: 26 Copynumber: 3.8 Consensus size: 26
764737 ATTCCAGGCG
* * * *
764747 CAATTTTGAACATGCTCATACAACAA
1 CAATTCTGGACATGCTCATGCAACGA
* *
764773 CAACTCTGGACATGTTCATGCAACGA
1 CAATTCTGGACATGCTCATGCAACGA
* * * *
764799 TAATTCTGGACAAGTTTC-TGCAGCGA
1 CAATTCTGGACATG-CTCATGCAACGA
764825 CAATTCTGGACATGCTCATG
1 CAATTCTGGACATGCTCATG
764845 TAGCAAAATT
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
25 2 0.04
26 52 0.91
27 3 0.05
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (26 bp):
CAATTCTGGACATGCTCATGCAACGA
Found at i:766762 original size:21 final size:23
Alignment explanation
Indices: 766738--766779 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
766728 CATCATTCAA
*
766738 CTTACTTAATCA-CTC-TTAATC
1 CTTAATTAATCATCTCATTAATC
766759 CTTAATTAATCATCTCATTAA
1 CTTAATTAATCATCTCATTAA
766780 CACCTAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 3 0.17
23 4 0.22
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (23 bp):
CTTAATTAATCATCTCATTAATC
Found at i:772403 original size:26 final size:23
Alignment explanation
Indices: 772374--772423 Score: 55
Period size: 26 Copynumber: 2.0 Consensus size: 23
772364 TAAATTTTTT
772374 TATTGATAATAACTAATATATAATTA
1 TATTGATAATAA-T-ATAT-TAATTA
* *
772400 TATTTATTATAATATATTAATTA
1 TATTGATAATAATATATTAATTA
772423 T
1 T
772424 TATCAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 7 0.32
24 4 0.18
25 1 0.05
26 10 0.45
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TATTGATAATAATATATTAATTA
Found at i:772739 original size:26 final size:26
Alignment explanation
Indices: 772710--772773 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
772700 ACACCCAGCG
*
772710 CGCATAGCAGCATCCTGCCGAGACCC
1 CGCATAGCACCATCCTGCCGAGACCC
772736 CGCATAGCACCATCCTGCCGAGACCC
1 CGCATAGCACCATCCTGCCGAGACCC
772762 CGCATAGCACCA
1 CGCATAGCACCA
772774 ATCACACCCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.25, C:0.44, G:0.20, T:0.11
Consensus pattern (26 bp):
CGCATAGCACCATCCTGCCGAGACCC
Found at i:775469 original size:14 final size:14
Alignment explanation
Indices: 775450--775492 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
775440 TATGATGCTC
775450 GAAAAAGAGAAAGA
1 GAAAAAGAGAAAGA
*
775464 GAAAAA-ATGAAAAA
1 GAAAAAGA-GAAAGA
775478 GAAAAAGAGAAAGA
1 GAAAAAGAGAAAGA
775492 G
1 G
775493 CATATGTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 1 0.04
14 23 0.92
15 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (14 bp):
GAAAAAGAGAAAGA
Found at i:782375 original size:17 final size:17
Alignment explanation
Indices: 782349--782392 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
782339 TTGAAACCCA
*
782349 AAAAATGAAAAGGAAA-
1 AAAAAGGAAAAGGAAAG
782365 AAAAAGAGAAAAGGAAAG
1 AAAAAG-GAAAAGGAAAG
782383 AAAAAGGAAA
1 AAAAAGGAAA
782393 GAAGAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 5 0.20
17 14 0.56
18 6 0.24
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (17 bp):
AAAAAGGAAAAGGAAAG
Found at i:785737 original size:12 final size:12
Alignment explanation
Indices: 785720--785772 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
785710 AAATTCCACC
785720 AAAAAAAAAGAG
1 AAAAAAAAAGAG
*
785732 AAAAAAAAAGAA
1 AAAAAAAAAGAG
*
785744 AAAAAGAAAAAAG
1 AAAAA-AAAAGAG
785757 AAAAGAAAAAGA-
1 AAAA-AAAAAGAG
785769 AAAA
1 AAAA
785773 TGAGAGGTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
12 20 0.57
13 14 0.40
14 1 0.03
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:785747 original size:20 final size:20
Alignment explanation
Indices: 785722--785766 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
785712 ATTCCACCAA
785722 AAAAAAAGAGAAAAA-AAAAG
1 AAAAAAAGA-AAAAAGAAAAG
785742 AAAAAAAGAAAAAAGAAAAG
1 AAAAAAAGAAAAAAGAAAAG
785762 AAAAA
1 AAAAA
785767 GAAAAATGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAAAAAAGAAAAG
Found at i:785751 original size:18 final size:18
Alignment explanation
Indices: 785720--785772 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
785710 AAATTCCACC
785720 AAAAAAAAAGAGAAAAAA-
1 AAAAAAAAA-AGAAAAAAG
785738 AAAGAAAAAAAGAAAAAAG
1 AAA-AAAAAAAGAAAAAAG
*
785757 AAAAGAAAAAGAAAAA
1 AAAAAAAAAAGAAAAA
785773 TGAGAGGTCG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 23 0.72
19 9 0.28
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAGAAAAAAG
Found at i:785767 original size:11 final size:10
Alignment explanation
Indices: 785721--785771 Score: 59
Period size: 10 Copynumber: 4.9 Consensus size: 10
785711 AATTCCACCA
785721 AAAAAAAAGAG
1 AAAAAAAA-AG
785732 AAAAAAAAAG
1 AAAAAAAAAG
785742 AAAAAAAGAA-
1 AAAAAAA-AAG
*
785752 AAAAGAAAAG
1 AAAAAAAAAG
785762 AAAAAGAAAA
1 AAAAA-AAAA
785772 ATGAGAGGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 19 0.54
11 14 0.40
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:786993 original size:101 final size:99
Alignment explanation
Indices: 786869--787194 Score: 345
Period size: 101 Copynumber: 3.3 Consensus size: 99
786859 AATCTCCACA
* *
786869 GAAGTTGCAGTGGAATGGAGTGAAGCCACAACCATCAATCCTATATCCCTGAAGTAGCAGTGGAT
1 GAAGTTGCAGTGGAATGGAGTGAAGTCACAACCA--AATCCTATATCCCTGAAGTTGCAGTGGAT
786934 CGGATTAAAACAACAGTAACGGATCTCAATCTCCTT
64 CGGATTAAAACAACAGTAACGGATCTCAATCTCCTT
* * * * *
786970 GAAGTTGCAGTGGAATGGAGTGAAGTTACATCACCAAATCCTATACCCCTAAAGTTGTAGTGGGT
1 GAAGTTGCAGTGGAATGGAGTGAAGTCACA--ACCAAATCCTATATCCCTGAAGTTGCAGTGGAT
* * * * *
787035 CGGATTAAAGTC-A-TGAAAGCGAATCTCAATCTCTTT
64 CGGATTAAA-ACAACAGTAA-CGGATCTCAATCTCCTT
* * * * * * * *
787071 GAAGTTGCAGTGGAATTGAGTGAAGTCA-TACCAAATCATATCTTCCAGAAGTTGCAGTGAAGCG
1 GAAGTTGCAGTGGAATGGAGTGAAGTCACAACCAAATCCTATATCCCTGAAGTTGCAGTGGATCG
* *
787135 GATTAAAACAACAATAGCGGATCTCAATCT-CTCT
66 GATTAAAACAACAGTAACGGATCTCAATCTCCT-T
* *
787169 AAAGTTACAGTGGAATGGAGTGAAGT
1 GAAGTTGCAGTGGAATGGAGTGAAGT
787195 TACATCACCA
Statistics
Matches: 183, Mismatches: 35, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
97 2 0.01
98 69 0.38
99 1 0.01
100 3 0.02
101 103 0.56
102 1 0.01
103 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (99 bp):
GAAGTTGCAGTGGAATGGAGTGAAGTCACAACCAAATCCTATATCCCTGAAGTTGCAGTGGATCG
GATTAAAACAACAGTAACGGATCTCAATCTCCTT
Found at i:787174 original size:98 final size:98
Alignment explanation
Indices: 786823--787194 Score: 316
Period size: 101 Copynumber: 3.8 Consensus size: 98
786813 CTATCCTCTT
** *
786823 GAAGTTGCAGCAAAGCGGATTAAAAC-A-AATAGC---T-TCAATCTCCACAGAAGTTGCAGTGG
1 GAAGTTGCAGTGAAGCGGATTAAAACAACAATAGCGGATCTCAATCTCCATA-AAGTTGCAGTGG
* * * *
786882 AATGGAGTGAAGCCACAACCATCAATCCTATATCCCT
65 AATGGAGTGAAGTCA-TACCA--AATCCTATCTCCCA
* * * * * * *
786919 GAAGTAGCAGTGGATCGGATTAAAACAACAGTAACGGATCTCAATCTCCTTGAAGTTGCAGTGGA
1 GAAGTTGCAGTGAAGCGGATTAAAACAACAATAGCGGATCTCAATCTCCATAAAGTTGCAGTGGA
786984 ATGGAGTGAAGTTACATCACCAAATCCTATAC-CCCTA
66 ATGGAGTGAAG-T-CAT-ACCAAATCCTAT-CTCCC-A
* * * ** * ** *
787021 -AAGTTGTAGTG-GGTCGGATTAAAGTCATGAA-AGCGAATCTCAATCTCTTTGAAGTTGCAGTG
1 GAAGTTGCAGTGAAG-CGGATTAAA-ACAACAATAGCGGATCTCAATCTCCATAAAGTTGCAGTG
* * *
787083 GAATTGAGTGAAGTCATACCAAATCATATCTTCCA
64 GAATGGAGTGAAGTCATACCAAATCCTATCTCCCA
*
787118 GAAGTTGCAGTGAAGCGGATTAAAACAACAATAGCGGATCTCAATCTCTC-TAAAGTTACAGTGG
1 GAAGTTGCAGTGAAGCGGATTAAAACAACAATAGCGGATCTCAATCTC-CATAAAGTTGCAGTGG
787182 AATGGAGTGAAGT
65 AATGGAGTGAAGT
787195 TACATCACCA
Statistics
Matches: 220, Mismatches: 38, Indels: 34
0.75 0.13 0.12
Matches are distributed among these distances:
96 21 0.10
97 7 0.03
98 75 0.34
99 4 0.02
100 1 0.00
101 94 0.43
102 12 0.05
103 6 0.03
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (98 bp):
GAAGTTGCAGTGAAGCGGATTAAAACAACAATAGCGGATCTCAATCTCCATAAAGTTGCAGTGGA
ATGGAGTGAAGTCATACCAAATCCTATCTCCCA
Found at i:787292 original size:42 final size:42
Alignment explanation
Indices: 787200--787949 Score: 858
Period size: 42 Copynumber: 17.5 Consensus size: 42
787190 GAAGTTACAT
* *
787200 CACCATCAAATCTTTTACCCCTATATCCAAATGGGCAGATTGAAGC
1 CACCATCCAATCTTTTACCCC---ATCCAGA-GGGCAGATTGAAGC
* * * *
787246 CACCATCCAACCTTTTACCCCATCTAGAGGGCAAATTGAAGT
1 CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGC
* * *
787288 CACCATCCAATCTTTTACCCCCATCTAGAGTGGTAGATTGAAGT
1 CACCATCCAATCTTTTA-CCCCATCCAGAG-GGCAGATTGAAGC
* * * * * * *
787332 TACCATCCAATATTTTATCCCTATCTAGAGTGGTAGACTGAAGT
1 CACCATCCAATCTTTTA-CCCCATCCAGAG-GGCAGATTGAAGC
* *
787376 TACCATCCAATCTTTTACCCCATCCAAAGGGCAGATTGAAGC
1 CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGC
* * *
787418 CACAATCCAAAT-TTTTACCCCATCCAAAGGGCATATTGAAGC
1 CACCATCC-AATCTTTTACCCCATCCAGAGGGCAGATTGAAGC
* *
787460 CACCATCCAATCTTTTACCCCATCTAGAGGGTAGATTGAAGC
1 CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGC
* * * *
787502 TATCATCCAATCTTTTACCCCCA-CCTAGAGGAACAGATTGAAGT
1 CACCATCCAATCTTTTA-CCCCATCC-AGAGG-GCAGATTGAAGC
* * *
787546 CACCATTCAATCTTTTACCCAATCTAGAGGGCAGATTGAAGC
1 CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGC
* * * *
787588 CACCATCCAATCTTTTACCCGATCCAAATGGTAGATTGAAGC
1 CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGC
* * *
787630 CACCATCCAATCTTTTACCCTATCCAGAGGGCAGGTTAAAGC
1 CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGC
* * * * *
787672 CATCATCCAATCTTTTACCCCATCCAAAAGGCAAATTGAAGT
1 CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGC
* *
787714 TACCATCCAATCTTTTACCCCCATCCAGAGGGGCAGATTGAAAC
1 CACCATCCAATCTTTTA-CCCCATCCAGA-GGGCAGATTGAAGC
* * *
787758 TACCATCCAATCTTTTACCCCATCTAGAGGGCAGATTGAAAC
1 CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGC
787800 CACCATCCAATCTTTTACCCCCCATCCAGAGGGGCAGATTGAAAG-
1 CACCATCCAATCTTTTA--CCCCATCCAGA-GGGCAGATTG-AAGC
* *
787845 CACCATCCAATCTTTTACCCCATCTAGAGGGGCAGATTGATGC
1 CACCATCCAATCTTTTACCCCATCCAGA-GGGCAGATTGAAGC
787888 CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGC
1 CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGC
*
787930 CACCATCCAATCTTTAACCC
1 CACCATCCAATCTTTTACCC
787950 TTATCTATAA
Statistics
Matches: 611, Mismatches: 78, Indels: 34
0.85 0.11 0.05
Matches are distributed among these distances:
41 3 0.00
42 317 0.52
43 116 0.19
44 127 0.21
45 27 0.04
46 21 0.03
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.25
Consensus pattern (42 bp):
CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGC
Found at i:787348 original size:86 final size:84
Alignment explanation
Indices: 787200--787992 Score: 879
Period size: 86 Copynumber: 9.2 Consensus size: 84
787190 GAAGTTACAT
* * *
787200 CACCATCAAATCTTTTACCCCTATATCCAAATGGGCAGATTGAAGCCACCATCCAACCTTTTACC
1 CACCATCCAATCTTTTACCCC---ATCCAGA-GGGCAGATTGAAGCCACCATCCAATCTTTTACC
* *
787265 CCATCTAGAGGGCAAATTGAAGT
62 CCATCTAGAGGGCAGATTGAAGC
* * ** *
787288 CACCATCCAATCTTTTACCCCCATCTAGAGTGGTAGATTGAAGTTACCATCCAATATTTTATCCC
1 CACCATCCAATCTTTTA-CCCCATCCAGAG-GGCAGATTGAAGCCACCATCCAATCTTTTA-CCC
* * * *
787353 TATCTAGAGTGGTAGACTGAAGT
63 CATCTAGAG-GGCAGATTGAAGC
* * *
787376 TACCATCCAATCTTTTACCCCATCCAAAGGGCAGATTGAAGCCACAATCCAAAT-TTTTACCCCA
1 CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCCACCATCC-AATCTTTTACCCCA
* * *
787440 TCCAAAGGGCATATTGAAGC
65 TCTAGAGGGCAGATTGAAGC
* * * *
787460 CACCATCCAATCTTTTACCCCATCTAGAGGGTAGATTGAAGCTATCATCCAATCTTTTACCCCCA
1 CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCCACCATCCAATCTTTTA-CCCCA
* * *
787525 CCTAGAGGAACAGATTGAAGT
65 TCTAGAGG-GCAGATTGAAGC
* * * *
787546 CACCATTCAATCTTTTACCCAATCTAGAGGGCAGATTGAAGCCACCATCCAATCTTTTACCCGAT
1 CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCAT
* * * *
787611 CCAAATGGTAGATTGAAGC
66 CTAGAGGGCAGATTGAAGC
* * * *
787630 CACCATCCAATCTTTTACCCTATCCAGAGGGCAGGTTAAAGCCATCATCCAATCTTTTACCCCAT
1 CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCAT
* * * * *
787695 CCAAAAGGCAAATTGAAGT
66 CTAGAGGGCAGATTGAAGC
* * *
787714 TACCATCCAATCTTTTACCCCCATCCAGAGGGGCAGATTGAAACTACCATCCAATCTTTTACCCC
1 CACCATCCAATCTTTTA-CCCCATCCAGA-GGGCAGATTGAAGCCACCATCCAATCTTTTACCCC
*
787779 ATCTAGAGGGCAGATTGAAAC
64 ATCTAGAGGGCAGATTGAAGC
787800 CACCATCCAATCTTTTACCCCCCATCCAGAGGGGCAGATTGAAAG-CACCATCCAATCTTTTACC
1 CACCATCCAATCTTTTA--CCCCATCCAGA-GGGCAGATTG-AAGCCACCATCCAATCTTTTACC
*
787864 CCATCTAGAGGGGCAGATTGATGC
62 CCATCTAGA-GGGCAGATTGAAGC
* *
787888 CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCCACCATCCAATCTTTAACCCTTA
1 CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCCACCATCCAATCTTTTACCC-CA
* ***
787953 TCTATAAGGGTTTATTGAAGC
65 TCTA-GAGGGCAGATTGAAGC
* *
787974 CACCATCTAATTTTTTACC
1 CACCATCCAATCTTTTACC
787993 TCAATCTAGA
Statistics
Matches: 599, Mismatches: 90, Indels: 34
0.83 0.12 0.05
Matches are distributed among these distances:
83 3 0.01
84 158 0.26
85 67 0.11
86 219 0.37
87 75 0.13
88 73 0.12
89 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (84 bp):
CACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCAT
CTAGAGGGCAGATTGAAGC
Found at i:787606 original size:170 final size:168
Alignment explanation
Indices: 787199--788008 Score: 906
Period size: 170 Copynumber: 4.7 Consensus size: 168
787189 TGAAGTTACA
* * *
787199 TCACCATCAAATCTTTTACCCCTATATCCAAATGGGCAGATTGAAGCCACCATCCAACCTTTTAC
1 TCACCATCCAATCTTTTACCCC---ATCCAGA-GGGCAGATTGAAGCCACCATCCAATCTTTTAC
* * * *
787264 CCCATCTAGAGGGCAAATTGAAGTCACCATCCAATCTTTTACCCCCATCTAGAGTGGTAGATTGA
62 CCCATCTAAAGGGCAGATTGAAGCCACCATCCAATCTTTTA-CCCCATCTAGAG-GGCAGATTGA
* * * * * *
787329 AGTTACCATCCAATATTTTATCCCTATCTAGAGTGGTAGACTGAAG
125 AGCTACCATCCAATCTTTTA-CCCCACCTAGAG-GGCAGATTGAAG
* * *
787375 TTACCATCCAATCTTTTACCCCATCCAAAGGGCAGATTGAAGCCACAATCCAAAT-TTTTACCCC
1 TCACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCCACCATCC-AATCTTTTACCCC
* * *
787439 ATCCAAAGGGCATATTGAAGCCACCATCCAATCTTTTACCCCATCTAGAGGGTAGATTGAAGCTA
65 ATCTAAAGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCATCTAGAGGGCAGATTGAAGCTA
* *
787504 TCATCCAATCTTTTACCCCCACCTAGAGGAACAGATTGAAG
130 CCATCCAATCTTTTA-CCCCACCTAGAGG-GCAGATTGAAG
* * * *
787545 TCACCATTCAATCTTTTACCCAATCTAGAGGGCAGATTGAAGCCACCATCCAATCTTTTACCCGA
1 TCACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCA
* * * * * * * * *
787610 TCCAAATGGTAGATTGAAGCCACCATCCAATCTTTTACCCTATCCAGAGGGCAGGTTAAAGCCAT
66 TCTAAAGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCATCTAGAGGGCAGATTGAAGCTAC
* * *
787675 CATCCAATCTTTTACCCCATCC-AAAAGGCAAATTGAAG
131 CATCCAATCTTTTACCCCA-CCTAGAGGGCAGATTGAAG
* * *
787713 TTACCATCCAATCTTTTACCCCCATCCAGAGGGGCAGATTGAAACTACCATCCAATCTTTTACCC
1 TCACCATCCAATCTTTTA-CCCCATCCAGA-GGGCAGATTGAAGCCACCATCCAATCTTTTACCC
* * *
787778 CATCTAGAGGGCAGATTGAAACCACCATCCAATCTTTTACCCCCCATCCAGAGGGGCAGATTGAA
64 CATCTAAAGGGCAGATTGAAGCCACCATCCAATCTTTTA--CCCCATCTAGA-GGGCAGATTG-A
* *
787843 AGC-ACCATCCAATCTTTTACCCCATCTAGAGGGGCAGATTGATG
125 AGCTACCATCCAATCTTTTACCCCACCTAGA-GGGCAGATTGAAG
* * *
787887 CCACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCCACCATCCAATCTTTAACCCTT
1 TCACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCCACCATCCAATCTTTTACCC-C
*** * * *
787952 ATCTATAAGGGTTTATTGAAGCCACCATCTAATTTTTTACCTCAATCTAGAGAGGCA
65 ATCTA-AAGGGCAGATTGAAGCCACCATCCAATCTTTTACC-CCATCTAGAG-GGCA
788009 ATTTTTTACC
Statistics
Matches: 545, Mismatches: 73, Indels: 35
0.83 0.11 0.05
Matches are distributed among these distances:
168 25 0.05
169 21 0.04
170 236 0.43
171 12 0.02
172 109 0.20
173 66 0.12
174 56 0.10
176 20 0.04
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (168 bp):
TCACCATCCAATCTTTTACCCCATCCAGAGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCA
TCTAAAGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCATCTAGAGGGCAGATTGAAGCTAC
CATCCAATCTTTTACCCCACCTAGAGGGCAGATTGAAG
Found at i:787684 original size:212 final size:212
Alignment explanation
Indices: 787200--788008 Score: 930
Period size: 212 Copynumber: 3.8 Consensus size: 212
787190 GAAGTTACAT
* * *
787200 CACCATCAAATCTTTTACCCCTATATCCAAATGGGCAGATTGAAGCCACCATCCAACCTTTTACC
1 CACCATCCAATCTTTTACCCC---ATCCAAAGGGGCAGATTGAAGCCACCATCCAATCTTTTACC
* * *
787265 CCATCTAGAGGGCAAATTGAAG-TCACCATCCAATCTTTTACCCCCATCTAGAGTGGTAGATTGA
63 CCATCCAGAGGGCAAATTGAAGCT-ACCATCCAATCTTTTACCCCCACCTAGAG-GGCAGATTGA
* * * * * **
787329 AGTTACCATCCAATATTTTATCCCTATCTAGAGTGGTAGACTGAAGTTACCATCCAATCTTTTAC
126 AGTCACCATCCAATCTTTTA-CCCAATCTAGAG-GGCAGATTGAAGCCACCATCCAATCTTTTAC
787394 CCCATCCAAAGGGCAGATTGAAGC
189 CCCATCCAAAGGGCAGATTGAAGC
* *
787418 CACAATCCAAAT-TTTTACCCCATCCAAA-GGGCATATTGAAGCCACCATCCAATCTTTTACCCC
1 CACCATCC-AATCTTTTACCCCATCCAAAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCC
* * * * *
787481 ATCTAGAGGGTAGATTGAAGCTATCATCCAATCTTTTACCCCCACCTAGAGGAACAGATTGAAGT
65 ATCCAGAGGGCAAATTGAAGCTACCATCCAATCTTTTACCCCCACCTAGAGG-GCAGATTGAAGT
* *
787546 CACCATTCAATCTTTTACCCAATCTAGAGGGCAGATTGAAGCCACCATCCAATCTTTTACCCGAT
129 CACCATCCAATCTTTTACCCAATCTAGAGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCAT
* *
787611 CCAAATGGTAGATTGAAGC
194 CCAAAGGGCAGATTGAAGC
* * * * *
787630 CACCATCCAATCTTTTACCCTATCCAGA-GGGCAGGTTAAAGCCATCATCCAATCTTTTACCCCA
1 CACCATCCAATCTTTTACCCCATCCAAAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCA
* * * *
787694 TCCAAAAGGCAAATTGAAGTTACCATCCAATCTTTTACCCCCATCC-AGAGGGGCAGATTGAA-A
66 TCCAGAGGGCAAATTGAAGCTACCATCCAATCTTTTACCCCCA-CCTAGA-GGGCAGATTGAAGT
* *
787757 CTACCATCCAATCTTTTACCCCATCTAGAGGGCAGATTGAAACCACCATCCAATCTTTTACCCCC
129 C-ACCATCCAATCTTTTACCCAATCTAGAGGGCAGATTGAAGCCACCATCCAATCTTTTA--CCC
*
787822 CATCCAGAGGGGCAGATTGAAAG-
191 CATCCA-AAGGGCAGATTG-AAGC
* * *
787845 CACCATCCAATCTTTTACCCCATCTAGAGGGGCAGATTGATGCCACCATCCAATCTTTTACCCCA
1 CACCATCCAATCTTTTACCCCATCCAAAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCA
* * * ** * * *** *
787910 TCCAGAGGGCAGATTGAAGCCACCATCCAATCTTTAACCCTTATCTATAAGGGTTTATTGAAGCC
66 TCCAGAGGGCAAATTGAAGCTACCATCCAATCTTTTACCCCCACCTA-GAGGGCAGATTGAAGTC
* *
787975 ACCATCTAATTTTTTACCTCAATCTAGAGAGGCA
130 ACCATCCAATCTTTTACC-CAATCTAGAG-GGCA
788009 ATTTTTTACC
Statistics
Matches: 507, Mismatches: 67, Indels: 34
0.83 0.11 0.06
Matches are distributed among these distances:
211 4 0.01
212 204 0.40
213 16 0.03
214 110 0.22
215 44 0.09
216 96 0.19
217 11 0.02
218 19 0.04
219 3 0.01
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (212 bp):
CACCATCCAATCTTTTACCCCATCCAAAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCA
TCCAGAGGGCAAATTGAAGCTACCATCCAATCTTTTACCCCCACCTAGAGGGCAGATTGAAGTCA
CCATCCAATCTTTTACCCAATCTAGAGGGCAGATTGAAGCCACCATCCAATCTTTTACCCCATCC
AAAGGGCAGATTGAAGC
Found at i:788011 original size:26 final size:26
Alignment explanation
Indices: 787982--788035 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
787972 GCCACCATCT
787982 AATTTTTTACCTCAATCTAGAGAGGC
1 AATTTTTTACCTCAATCTAGAGAGGC
788008 AATTTTTTACCTCAATCTAGAGAGGC
1 AATTTTTTACCTCAATCTAGAGAGGC
788034 AA
1 AA
788036 ATTGAAGCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (26 bp):
AATTTTTTACCTCAATCTAGAGAGGC
Found at i:788099 original size:43 final size:44
Alignment explanation
Indices: 788007--788107 Score: 116
Period size: 43 Copynumber: 2.3 Consensus size: 44
787997 TCTAGAGAGG
* *
788007 CAATTTTTTACCTCAATCTAGAGAGGCAAATTGAAGCCACCATC
1 CAATCTTTTACCTCAATCCAGAGAGGCAAATTGAAGCCACCATC
* * *
788051 CAATCTTTTACC-CCATCCAGAGGGGCAAATTGAAGACCA-TATC
1 CAATCTTTTACCTCAATCCAGAGAGGCAAATTGAAG-CCACCATC
* *
788094 TAATCTTATACCTC
1 CAATCTTTTACCTC
788108 TAAATCCAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
43 33 0.69
44 15 0.31
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.28
Consensus pattern (44 bp):
CAATCTTTTACCTCAATCCAGAGAGGCAAATTGAAGCCACCATC
Found at i:789848 original size:14 final size:13
Alignment explanation
Indices: 789835--789904 Score: 52
Period size: 15 Copynumber: 5.1 Consensus size: 13
789825 TGGTCCTTTG
789835 TTTTATTTATTTT
1 TTTTATTTATTTT
789848 GTTTTATATTATTTCT
1 -TTTTAT-TTATTT-T
*
789864 TTTTACATTATTTAT
1 TTTTA-TTTATTT-T
789879 TTTTATTT-TTTT
1 TTTTATTTATTTT
** *
789891 ACTTATTTAGTTT
1 TTTTATTTATTTT
789904 T
1 T
789905 ATGTCTTGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
12 7 0.16
13 6 0.13
14 8 0.18
15 23 0.51
16 1 0.02
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (13 bp):
TTTTATTTATTTT
Found at i:789861 original size:15 final size:15
Alignment explanation
Indices: 789831--789876 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
789821 AATTTGGTCC
789831 TTTGTTTTAT-TTAT
1 TTTGTTTTATATTAT
789845 TTTGTTTTATATTAT
1 TTTGTTTTATATTAT
*
789860 TTCT-TTTTACATTAT
1 TT-TGTTTTATATTAT
789875 TT
1 TT
789877 ATTTTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 10 0.34
15 18 0.62
16 1 0.03
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (15 bp):
TTTGTTTTATATTAT
Found at i:789888 original size:22 final size:22
Alignment explanation
Indices: 789863--789906 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
789853 ATATTATTTC
*
789863 TTTTTACATTATTTATTTTTATT
1 TTTTTAC-TTATTTAGTTTTATT
789886 TTTTTACTTATTTAGTTTTAT
1 TTTTTACTTATTTAGTTTTAT
789907 GTCTTGTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTTACTTATTTAGTTTTATT
Found at i:792591 original size:68 final size:68
Alignment explanation
Indices: 792410--792592 Score: 188
Period size: 68 Copynumber: 2.7 Consensus size: 68
792400 AATTGAAGGT
* * * * * * *
792410 TGCGATCTTAAATCAGTCAACCTTTATAATACCAATTGAGAACGTAGGTCCGCGAGCTGTTTTGG
1 TGCGATATTAAATCACT-AACTTTTATAATATCAATTGAGAACGTAGATCCGCAAGCTGTTTCGG
792475 AGGC
65 AGGC
* ** * ** *
792479 TGCGATATTAAATTACCGAGTCTTTATAATATCAGCTGAGAACGTAGAT-CGCAAGTTGTTTCGG
1 TGCGATATTAAATCACTAACT-TTTATAATATCAATTGAGAACGTAGATCCGCAAGCTGTTTCGG
792543 AGGC
65 AGGC
* *
792547 TGCGATATTAAATCAACTAACTTTTATAATATCAATTAAAAACGTA
1 TGCGATATTAAATC-ACTAACTTTTATAATATCAATTGAGAACGTA
792593 AATTCATGAA
Statistics
Matches: 90, Mismatches: 22, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
68 50 0.56
69 40 0.44
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (68 bp):
TGCGATATTAAATCACTAACTTTTATAATATCAATTGAGAACGTAGATCCGCAAGCTGTTTCGGA
GGC
Found at i:792669 original size:41 final size:40
Alignment explanation
Indices: 792624--792718 Score: 113
Period size: 39 Copynumber: 2.4 Consensus size: 40
792614 CTAAAAGTTA
* *
792624 TAATCTTAAATCAACAGACCGTAAAAAAAAATCGAAAAT-TT
1 TAATCGTAAATCAACAAACC--AAAAAAAAATCGAAAATCTT
* * *
792665 TAATCGTAAATCAATAAACCATAAAAAAATTGAAAATCTT
1 TAATCGTAAATCAACAAACCAAAAAAAAATCGAAAATCTT
792705 T-ATCGTAAATCAAC
1 TAATCGTAAATCAAC
792719 GATTCTTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 27 0.57
40 3 0.06
41 17 0.36
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (40 bp):
TAATCGTAAATCAACAAACCAAAAAAAAATCGAAAATCTT
Found at i:793023 original size:15 final size:16
Alignment explanation
Indices: 792995--793025 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
792985 TGTAAAACAC
792995 AACAAATCTAAATAAA
1 AACAAATCTAAATAAA
793011 AACAAAT-TAAATAAA
1 AACAAATCTAAATAAA
793026 TATTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (16 bp):
AACAAATCTAAATAAA
Found at i:797473 original size:16 final size:16
Alignment explanation
Indices: 797452--797489 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
797442 CTTTGACCCC
797452 TTAAAAATGATAAAAA
1 TTAAAAATGATAAAAA
*
797468 TTAAAAATTATAAAAA
1 TTAAAAATGATAAAAA
797484 TATAAA
1 T-TAAA
797490 CAATTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
TTAAAAATGATAAAAA
Found at i:810568 original size:153 final size:148
Alignment explanation
Indices: 810285--810594 Score: 406
Period size: 153 Copynumber: 2.1 Consensus size: 148
810275 ATCTCGAGTT
* ** * *
810285 ATTTTTCCAAAACCATCTTCTCAAGTTTATTTTTCAGAATCATCAATACTAGAAAAGCGTCCAAC
1 ATTTTTTCAAAACCATCTTCTCAAAATTATTTTTCAGAATCATCAATACGAAAAAAGCGTCCAAC
* * * *
810350 TGGAAGCTTTTTCTGTACTACCTCCAATATGGCATCCTACTTAAAGCGTGTTTTCAAAAATAAAA
66 TGAAAGCTTTTTCTGTACTACCTCCAACATGACATCCTACTTAAAGCATGTTTTC---AA-AAAA
*
810415 ACAAAATTCATCTTGTCAAAATA
127 A-AAAATTCATCTTCTCAAAATA
* * * *
810438 ATTTTTTCAAAACCATCTTCTCAAAATTATTTTTCAGAATCATTAGTACGAAAAAAGCGTTCAGC
1 ATTTTTTCAAAACCATCTTCTCAAAATTATTTTTCAGAATCATCAATACGAAAAAAGCGTCCAAC
* * *
810503 TGAAAGCTTTTTTTGTACTATCTCCAACATGACATCCTAC-TAAGAGCATTTTTTCAAAAAAAAA
66 TGAAAGCTTTTTCTGTACTACCTCCAACATGACATCCTACTTAA-AGCATGTTTTCAAAAAAAAA
810567 AATTCATCTTCTCAAAATA
130 AATTCATCTTCTCAAAATA
810586 ATTTTTTCA
1 ATTTTTTCA
810595 GAACAAATCA
Statistics
Matches: 139, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
148 29 0.21
149 5 0.04
150 2 0.01
152 3 0.02
153 100 0.72
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (148 bp):
ATTTTTTCAAAACCATCTTCTCAAAATTATTTTTCAGAATCATCAATACGAAAAAAGCGTCCAAC
TGAAAGCTTTTTCTGTACTACCTCCAACATGACATCCTACTTAAAGCATGTTTTCAAAAAAAAAA
ATTCATCTTCTCAAAATA
Found at i:812209 original size:23 final size:23
Alignment explanation
Indices: 812183--812267 Score: 66
Period size: 23 Copynumber: 3.7 Consensus size: 23
812173 TGATAGTAGT
* *
812183 ATGCGAACCCATATAGTTGTTAC
1 ATGCGAAACCATATATTTGTTAC
* *
812206 ATGC-AAACCTTATATTTGTAAC
1 ATGCGAAACCATATATTTGTTAC
* *
812228 ATGCAAAACTATAT-TTATGTTAC
1 ATGCGAAACCATATATT-TGTTAC
* *
812251 ATGTGAACCCTATATAT
1 ATGCGAAACC-ATATAT
812268 ACATGTTATA
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
22 20 0.43
23 22 0.47
24 4 0.09
25 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (23 bp):
ATGCGAAACCATATATTTGTTAC
Found at i:812224 original size:22 final size:21
Alignment explanation
Indices: 812194--812253 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
812184 TGCGAACCCA
* *
812194 TATAGTTGTTACATGCAAACC
1 TATATTTGTTACATGCAAAAC
*
812215 TTATATTTGTAACATGCAAAAC
1 -TATATTTGTTACATGCAAAAC
812237 TATATTTATGTTACATG
1 TATA-TT-TGTTACATG
812254 TGAACCCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 4 0.12
22 20 0.62
23 8 0.25
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (21 bp):
TATATTTGTTACATGCAAAAC
Found at i:812273 original size:26 final size:26
Alignment explanation
Indices: 812244--812293 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
812234 AACTATATTT
*
812244 ATGTTACATGTGAACCCTATATATAC
1 ATGTTACATGTGAACCCTACATATAC
*
812270 ATGTTATATGTGAACCCTACATAT
1 ATGTTACATGTGAACCCTACATAT
812294 GATATATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (26 bp):
ATGTTACATGTGAACCCTACATATAC
Found at i:814017 original size:17 final size:17
Alignment explanation
Indices: 813995--814033 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
813985 GGTAAGTACT
*
813995 CACAATCCTTTCGTATA
1 CACAATCCTTTCATATA
814012 CACAATCCTTTCATATA
1 CACAATCCTTTCATATA
814029 C-CAAT
1 CACAAT
814034 ATATCTAACG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.33, C:0.31, G:0.03, T:0.33
Consensus pattern (17 bp):
CACAATCCTTTCATATA
Found at i:822066 original size:16 final size:16
Alignment explanation
Indices: 822034--822067 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
822024 ATTGAAATAA
*
822034 ATAATATATGTTATAT
1 ATAATATATATTATAT
*
822050 ATAATATATATTTTAT
1 ATAATATATATTATAT
822066 AT
1 AT
822068 TGGAAATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATAATATATATTATAT
Found at i:830804 original size:17 final size:18
Alignment explanation
Indices: 830784--830826 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
830774 AATAAATAAA
* *
830784 AAATGTATAAAATTAT-T
1 AAATATATAAAATAATAT
830801 AAATAT-TAAAATAATAT
1 AAATATATAAAATAATAT
830818 AAATATATA
1 AAATATATA
830827 CATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 8 0.36
17 12 0.55
18 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AAATATATAAAATAATAT
Done.