Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 25 of 204
Found at i:9172703 original size:31 final size:31
Alignment explanation
Indices: 9172640--9172703 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
9172630 CATTTAGTGT
* * *
9172640 AAATGTATTCATAAAATTTTGATTGTGGTTC
1 AAATGTATTCATAAAACTTTAATTGTGATTC
*
9172671 AAATGTATAT-ATAAAACTTTAATTTTGATTC
1 AAATGTAT-TCATAAAACTTTAATTGTGATTC
9172702 AA
1 AA
9172704 TCATACACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (31 bp):
AAATGTATTCATAAAACTTTAATTGTGATTC
Found at i:9174885 original size:22 final size:22
Alignment explanation
Indices: 9174860--9174908 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
9174850 TATTTAACGT
*
9174860 ATTTGATAAAAAT-ATATATTTA
1 ATTTAATAAAAATAATAT-TTTA
*
9174882 ATTTTAATTAAAATAATATTTTA
1 A-TTTAATAAAAATAATATTTTA
9174905 ATTT
1 ATTT
9174909 TTTTCTAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
22 4 0.17
23 15 0.65
24 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTTAATAAAAATAATATTTTA
Found at i:9176238 original size:15 final size:16
Alignment explanation
Indices: 9176218--9176250 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9176208 TTTCAATTTT
9176218 ATTTTAAA-AATAATA
1 ATTTTAAATAATAATA
*
9176233 ATTTTAAATAATATTA
1 ATTTTAAATAATAATA
9176249 AT
1 AT
9176251 CACATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTTAAATAATAATA
Found at i:9176298 original size:15 final size:15
Alignment explanation
Indices: 9176278--9176334 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
9176268 ATTCAATATT
9176278 AATATTTTAATAATA
1 AATATTTTAATAATA
*
9176293 AATATTTCTTACAATTATA
1 AATA-TT-TT--AATAATA
*
9176312 AATATATTAATAATA
1 AATATTTTAATAATA
9176327 AATATTTT
1 AATATTTT
9176335 GTAGTGTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:9176811 original size:14 final size:14
Alignment explanation
Indices: 9176792--9176827 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
9176782 GAAAAATAAG
9176792 TCATTTTCCAAAAA
1 TCATTTTCCAAAAA
* *
9176806 TCATTTTCCGAAAG
1 TCATTTTCCAAAAA
9176820 TCATTTTC
1 TCATTTTC
9176828 AGTGAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (14 bp):
TCATTTTCCAAAAA
Found at i:9183806 original size:26 final size:24
Alignment explanation
Indices: 9183777--9183838 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 24
9183767 TCTTATTTTG
* *
9183777 AAATATATATAAAAATTATAATTTAT
1 AAATATATAAAAAAATTA-AATAT-T
*
9183803 AAATTTATAAAAAAATTAAATATT
1 AAATATATAAAAAAATTAAATATT
9183827 AAATAT-TAAAAA
1 AAATATATAAAAA
9183839 TATTTTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 6 0.19
24 6 0.19
25 4 0.12
26 16 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATATATAAAAAAATTAAATATT
Found at i:9183829 original size:24 final size:26
Alignment explanation
Indices: 9183777--9183862 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 26
9183767 TCTTATTTTG
* *
9183777 AAATATATATAAAAATTATAATTTAT
1 AAATATATAAAAAAATTATAATATAT
*
9183803 AAATTTATAAAAAAATTA-AATAT-T
1 AAATATATAAAAAAATTATAATATAT
* *
9183827 AAATAT-TAAAAATATTTTAA-A-A-
1 AAATATATAAAAAAATTATAATATAT
*
9183849 AAGTATATAAAAAA
1 AAATATATAAAAAA
9183863 CTAAACAGTG
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
22 5 0.10
23 16 0.33
24 8 0.16
25 4 0.08
26 16 0.33
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (26 bp):
AAATATATAAAAAAATTATAATATAT
Found at i:9184089 original size:21 final size:20
Alignment explanation
Indices: 9184065--9184104 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
9184055 TTTAAAAATA
9184065 AAAAATAAAAAAAAGTATTTT
1 AAAAATAAAAAAAA-TATTTT
9184086 AAAAATAAAAAAAATATTT
1 AAAAATAAAAAAAATATTT
9184105 ATTATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
AAAAATAAAAAAAATATTTT
Found at i:9184319 original size:16 final size:14
Alignment explanation
Indices: 9184282--9184312 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
9184272 GTCTAGAATC
9184282 ATTCTAGACAAATG
1 ATTCTAGACAAATG
9184296 ATTCTAGACAAATG
1 ATTCTAGACAAATG
9184310 ATT
1 ATT
9184313 GTCTAGATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (14 bp):
ATTCTAGACAAATG
Found at i:9184808 original size:21 final size:20
Alignment explanation
Indices: 9184779--9184843 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
9184769 TTTTAAAACT
*
9184779 TATAGAAAATAGAATTAAATA
1 TATAAAAAATAGAA-TAAATA
**
9184800 TATAAAAAATTCAA-AAATA
1 TATAAAAAATAGAATAAATA
9184819 TATAACAAAATAGAAATAAAT-
1 TATAA-AAAATAG-AATAAATA
9184840 TATA
1 TATA
9184844 GATTATAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 10 0.28
20 5 0.14
21 17 0.47
22 4 0.11
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (20 bp):
TATAAAAAATAGAATAAATA
Found at i:9187243 original size:19 final size:17
Alignment explanation
Indices: 9187212--9187249 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
9187202 ACCTATAATA
9187212 ATTTAAAAAAAAAAGAC
1 ATTTAAAAAAAAAAGAC
9187229 ATTTATAAAATAAAAAGAC
1 ATTTA-AAAA-AAAAAGAC
9187248 AT
1 AT
9187250 AAAGTAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 10 0.53
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (17 bp):
ATTTAAAAAAAAAAGAC
Found at i:9187257 original size:20 final size:19
Alignment explanation
Indices: 9187215--9187257 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
9187205 TATAATAATT
**
9187215 TAAAAAAAAAAGACATTTA
1 TAAAAAAAAAAGACATAAA
*
9187234 TAAAATAAAAAGACATAAA
1 TAAAAAAAAAAGACATAAA
9187253 GTAAA
1 -TAAA
9187258 GAGAAAAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.19
Consensus pattern (19 bp):
TAAAAAAAAAAGACATAAA
Found at i:9194616 original size:33 final size:33
Alignment explanation
Indices: 9194574--9194663 Score: 101
Period size: 33 Copynumber: 2.7 Consensus size: 33
9194564 ATTTATATCT
9194574 ATATATATATATATACATACATACATTTTCATA
1 ATATATATATATATACATACATACATTTTCATA
* * * * *
9194607 ATATATATATGTACACATATATA-TTTTTTATA
1 ATATATATATATATACATACATACATTTTCATA
* *
9194639 ATTTATTTAATATATACATACATAC
1 ATATATAT-ATATATACATACATAC
9194664 TCATATTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
32 13 0.29
33 32 0.71
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.46
Consensus pattern (33 bp):
ATATATATATATATACATACATACATTTTCATA
Found at i:9194652 original size:39 final size:40
Alignment explanation
Indices: 9194609--9194684 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
9194599 TTTTCATAAT
**
9194609 ATATATATGTACACA-T-ATATATTTTTTATAATTTATTTA
1 ATATATACATACACACTCATAT-TTTTTTATAATTTATTTA
*
9194648 ATATATACATACATACTCATATTTTTTTATAATTTAT
1 ATATATACATACACACTCATATTTTTTTATAATTTAT
9194685 ATACATATCC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 12 0.38
40 16 0.50
41 4 0.12
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.53
Consensus pattern (40 bp):
ATATATACATACACACTCATATTTTTTTATAATTTATTTA
Found at i:9194707 original size:20 final size:20
Alignment explanation
Indices: 9194682--9194730 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
9194672 TTTTATAATT
*
9194682 TATATACATATCCATATATA
1 TATATACATATACATATATA
*
9194702 TATATACATATACATATATC
1 TATATACATATACATATATA
9194722 TATATACAT
1 TATATACAT
9194731 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (20 bp):
TATATACATATACATATATA
Found at i:9194953 original size:156 final size:156
Alignment explanation
Indices: 9194769--9195081 Score: 608
Period size: 156 Copynumber: 2.0 Consensus size: 156
9194759 TACTTATATT
*
9194769 TTTTTTATAATTTTTATGTACATATACGTGTATATACATACTTACATATACTTTTATATTTAATA
1 TTTTTTAGAATTTTTATGTACATATACGTGTATATACATACTTACATATACTTTTATATTTAATA
*
9194834 ATTTTAAAATACATATATATACATATATTTTTCATATTTTCATAATTTTATGTATATACATACAT
66 ATTTTAAAATACATATATATACATATATTTTTCATATTTTCATAATTTTATATATATACATACAT
9194899 ATATATTTCTCTTATATGTACACATA
131 ATATATTTCTCTTATATGTACACATA
9194925 TTTTTTAGAATTTTTATGTACATATACGTGTATATACATACTTACATATACTTTTATATTTAATA
1 TTTTTTAGAATTTTTATGTACATATACGTGTATATACATACTTACATATACTTTTATATTTAATA
9194990 ATTTTAAAATACATATATATACATATATTTTTCATATTTTCATAATTTTATATATATACATACAT
66 ATTTTAAAATACATATATATACATATATTTTTCATATTTTCATAATTTTATATATATACATACAT
9195055 ATATATTTCTCTTATATGTACACATA
131 ATATATTTCTCTTATATGTACACATA
9195081 T
1 T
9195082 ACTTTTATAT
Statistics
Matches: 155, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
156 155 1.00
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.50
Consensus pattern (156 bp):
TTTTTTAGAATTTTTATGTACATATACGTGTATATACATACTTACATATACTTTTATATTTAATA
ATTTTAAAATACATATATATACATATATTTTTCATATTTTCATAATTTTATATATATACATACAT
ATATATTTCTCTTATATGTACACATA
Found at i:9197468 original size:3 final size:3
Alignment explanation
Indices: 9197462--9197511 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
9197452 TAATACTTAC
* *
9197462 AAT AAT AAT AAT AAT AAT AAT AAT -CT AATT AGTT AAT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T A-AT AAT AAT AAT AAT
9197507 AAT AA
1 AAT AA
9197512 CAATGAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 3 0.08
3 32 0.82
4 4 0.10
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:9207564 original size:15 final size:15
Alignment explanation
Indices: 9207529--9207580 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
9207519 TTAAGAATTT
*
9207529 TATTAAATTAT-ATA
1 TATTTAATTATAATA
9207543 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
9207557 TATTTAATAATAAT-
1 TATTTAATTATAATA
9207571 TATGTTAATT
1 TAT-TTAATT
9207581 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:9207662 original size:61 final size:61
Alignment explanation
Indices: 9207477--9207664 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
9207467 TTATAGTATC
* *
9207477 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTTATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * *
9207538 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTTATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
9207597 ATATATTATGATTTGAGTAAATTTATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTTATATAAGAATATTGATTATTAAGAATTTTATTAAATT
9207658 ATATATT
1 ATATATT
9207665 TTAATTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 25 0.26
61 36 0.37
62 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTTATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:9207678 original size:120 final size:120
Alignment explanation
Indices: 9207460--9207696 Score: 447
Period size: 120 Copynumber: 2.0 Consensus size: 120
9207450 NNATTTCAAA
*
9207460 TTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
1 TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
9207525 ATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAT
66 ATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAT
* *
9207580 TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTTATATAAGAATATTGATTATTAAGA
1 TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
9207645 ATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 ATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
9207697 TAAATATGAT
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 114 1.00
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (120 bp):
TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
ATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAT
Found at i:9207679 original size:16 final size:16
Alignment explanation
Indices: 9207658--9207699 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
9207648 TTATTAAATT
*
9207658 ATATATTTTAATTATA
1 ATATATTTTAATAATA
9207674 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
9207689 AT-TATGTTTAA
1 ATATAT-TTTAA
9207700 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:9207684 original size:15 final size:15
Alignment explanation
Indices: 9207649--9207690 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9207639 TTAAGAATTT
*
9207649 TATTAAATTAT-ATA
1 TATTTAATTATAATA
9207663 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
9207677 TATTTAATAATAAT
1 TATTTAATTATAAT
9207691 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:9207926 original size:45 final size:44
Alignment explanation
Indices: 9207845--9207934 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
9207835 AACTCTATTC
9207845 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
* * *
9207889 CATTCAACCAAACA-ATTGATTTGCTATTACGTCTCTATTCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTACGCCTCTATTCCATTA
9207934 C
1 C
9207935 GCCTCTAATC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.39
45 24 0.59
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
Found at i:9219543 original size:17 final size:17
Alignment explanation
Indices: 9219506--9219542 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
9219496 GGAGGAAAAC
9219506 AAAATGAGAAACAGAAG
1 AAAATGAGAAACAGAAG
9219523 AAAATG-GAAA-ATGAAG
1 AAAATGAGAAACA-GAAG
9219539 AAAA
1 AAAA
9219543 AAAAAGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.05
16 12 0.63
17 6 0.32
ACGTcount: A:0.68, C:0.03, G:0.22, T:0.08
Consensus pattern (17 bp):
AAAATGAGAAACAGAAG
Found at i:9225214 original size:162 final size:162
Alignment explanation
Indices: 9224947--9225267 Score: 520
Period size: 162 Copynumber: 2.0 Consensus size: 162
9224937 GAAGGAAGAT
*
9224947 CTGCAAAGCTAGATGGTACTGTCAATGGTGGTTCATTGTTGCCCCGGAAAAGAAAACCTGCAAAG
1 CTGCAAAGCTAGATGGTACTGTCAATGGTGGTTCATTGTTGCCCCGAAAAAGAAAACCTGCAAAG
**
9225012 AAAAGTTCTAAAATTGATCCACACCAGGTCTGTTTTCCTGAAGAAAACGCTGCAGATGAGATTAA
66 AAAAGTTCTAAAATTGATCCACACCAGGTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATTAA
9225077 GCAAACAACATATAGGACTGAAACTCCACCGC
131 GCAAACAACATATAGGACTGAAACTCCACCGC
* **
9225109 CTGCAAAGCTAGCTGGTACTGTCAATGGTGGTTCATTGTTGCCCCAGAAAAAGGGAA-CTG-AGA
1 CTGCAAAGCTAGATGGTACTGTCAATGGTGGTTCATTGTTGCCCC-GAAAAAGAAAACCTGCA-A
* *
9225172 AGAAAAGTTCTAAAATTGATCCACATCAGTTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATT
64 AGAAAAGTTCTAAAATTGATCCACACCAGGTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATT
* *
9225237 AAGCAAACAACATGTAGGAGTGAAACTCCAC
129 AAGCAAACAACATATAGGACTGAAACTCCAC
9225268 TTCCTGCAGA
Statistics
Matches: 147, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
161 1 0.01
162 138 0.94
163 8 0.05
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (162 bp):
CTGCAAAGCTAGATGGTACTGTCAATGGTGGTTCATTGTTGCCCCGAAAAAGAAAACCTGCAAAG
AAAAGTTCTAAAATTGATCCACACCAGGTCTGTTTTCCTGAAGAAAACAATGCAGATGAGATTAA
GCAAACAACATATAGGACTGAAACTCCACCGC
Found at i:9238114 original size:41 final size:40
Alignment explanation
Indices: 9238019--9238117 Score: 96
Period size: 41 Copynumber: 2.5 Consensus size: 40
9238009 AAGCAATAGT
* *
9238019 TGACACCCAGTGTCTCATCG-GCCAAGCCGAAGAAAGTTG
1 TGACACCCAGTGTCTCATCGAACCAAGCCGAAGAAAATTG
* ** * * *
9238058 -G-TACCCAGTACCTCATCGAATCTATCCGAAGAAATATTG
1 TGACACCCAGTGTCTCATCGAACCAAGCCGAAGAAA-ATTG
9238097 TGACACCCAGTGTCTCATCGA
1 TGACACCCAGTGTCTCATCGA
9238118 CTCGAGGTCG
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
37 14 0.31
38 12 0.27
39 3 0.07
40 1 0.02
41 15 0.33
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (40 bp):
TGACACCCAGTGTCTCATCGAACCAAGCCGAAGAAAATTG
Found at i:9238439 original size:3 final size:3
Alignment explanation
Indices: 9238431--9238497 Score: 98
Period size: 3 Copynumber: 22.0 Consensus size: 3
9238421 ATTCCCACTC
*
9238431 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CTAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* *
9238477 ATA ATA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA
9238498 CTTACCTCAC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
3 55 0.96
4 2 0.04
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:9239435 original size:14 final size:17
Alignment explanation
Indices: 9239416--9239453 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
9239406 ATTTATTTCT
9239416 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
9239430 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
9239447 TAATATA
1 TAATATA
9239454 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:9239461 original size:12 final size:11
Alignment explanation
Indices: 9239433--9239476 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
9239423 ATATTTATAA
9239433 TATAATTAATT
1 TATAATTAATT
*
9239444 TAATAATATACTT
1 T-ATAAT-TAATT
9239457 TATAATTAATT
1 TATAATTAATT
9239468 TATATATTA
1 TATA-ATTA
9239477 TATAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 9 0.32
12 14 0.50
13 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TATAATTAATT
Found at i:9239480 original size:20 final size:23
Alignment explanation
Indices: 9239428--9239490 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
9239418 ATATAATATT
9239428 TATA-ATATAATTAATTTAATAA
1 TATATATATAATTAATTTAATAA
* *
9239450 TATACTTTATAATTAATTTATATAT
1 TATA-TATATAATTAATTTA-ATAA
* *
9239475 TATATAAATAAATAAT
1 TATATATATAATTAAT
9239491 ATAAATATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 4 0.12
24 22 0.67
25 7 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TATATATATAATTAATTTAATAA
Found at i:9239492 original size:20 final size:20
Alignment explanation
Indices: 9239445--9239493 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
9239435 TAATTAATTT
*
9239445 AATAATATACTTTATAATTA
1 AATAATATACTTTATAAATA
* *
9239465 ATTTATATA-TTATATAAATA
1 AATAATATACTT-TATAAATA
9239485 AATAATATA
1 AATAATATA
9239494 AATATCTAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAATATACTTTATAAATA
Found at i:9241452 original size:3 final size:3
Alignment explanation
Indices: 9241444--9241491 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
9241434 TAATATTTTC
* *
9241444 ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT ACTC A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
9241489 ATT
1 ATT
9241492 GATACTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 36 0.92
4 2 0.05
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:9241460 original size:12 final size:12
Alignment explanation
Indices: 9241445--9241502 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
9241435 AATATTTTCA
9241445 TTATTATTATTG
1 TTATTATTATTG
*
9241457 TTATTATTATTA
1 TTATTATTATTG
* *
9241469 TTATTATTACTC
1 TTATTATTATTG
*
9241481 ATATTATTATTG
1 TTATTATTATTG
* *
9241493 ATACTATTAT
1 TTATTATTAT
9241503 ATTTAGTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.60
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:9244695 original size:22 final size:21
Alignment explanation
Indices: 9244660--9244700 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
9244650 CTTAATTGAC
* *
9244660 AATATTTTTTTTAAGATAAAT
1 AATATTTATTTTAAAATAAAT
9244681 AATATTATATTTTAAAATAA
1 AATATT-TATTTTAAAATAA
9244701 GTATCATCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATATTTATTTTAAAATAAAT
Found at i:9251336 original size:14 final size:13
Alignment explanation
Indices: 9251313--9251354 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
9251303 TAATCTTTGA
9251313 TTTATTATTTTAT
1 TTTATTATTTTAT
9251326 TTTAGTTA-TTTAT
1 TTTA-TTATTTTAT
*
9251339 TTTAATTGTTTTAT
1 TTT-ATTATTTTAT
9251353 TT
1 TT
9251355 GACTTGGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:9253849 original size:14 final size:14
Alignment explanation
Indices: 9253830--9253869 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
9253820 TTGATTGGCT
9253830 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
9253844 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
9253858 GGAAAATGTTTT
1 GTAAAATGTTTT
9253870 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:9253882 original size:34 final size:35
Alignment explanation
Indices: 9253838--9253904 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
9253828 CTGTAAAATG
* *
9253838 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
9253872 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
9253905 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:9253891 original size:20 final size:20
Alignment explanation
Indices: 9253853--9253892 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9253843 CGTAAAATGA
**
9253853 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
9253873 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
9253893 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:9256848 original size:38 final size:38
Alignment explanation
Indices: 9256797--9256874 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
9256787 TAAGCATATA
9256797 ATGAACAAAAAAATAAAATAAGATTACTTATTTTTTCC
1 ATGAACAAAAAAATAAAATAAGATTACTTATTTTTTCC
9256835 ATGAACAAAAAAATAAAATAAGATTACTTATTTTTTCC
1 ATGAACAAAAAAATAAAATAAGATTACTTATTTTTTCC
9256873 AT
1 AT
9256875 TAGATTAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (38 bp):
ATGAACAAAAAAATAAAATAAGATTACTTATTTTTTCC
Found at i:9260320 original size:7 final size:7
Alignment explanation
Indices: 9260308--9260333 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9260298 GTAAAAATAT
9260308 AAATTTA
1 AAATTTA
9260315 AAATTTA
1 AAATTTA
9260322 AAATTTA
1 AAATTTA
9260329 AAATT
1 AAATT
9260334 AAATTGGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:9260483 original size:23 final size:25
Alignment explanation
Indices: 9260452--9260508 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 25
9260442 AATTTCATAG
*
9260452 TGTACATTTTTAAAT-AAA-TAA-TA
1 TGTA-ATTTTGAAATGAAATTAATTA
9260475 TGTTAATTTTGAAATGAAATTAATTA
1 TG-TAATTTTGAAATGAAATTAATTA
9260501 TGTAATTT
1 TGTAATTT
9260509 ATTTAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 11 0.38
24 5 0.17
25 9 0.31
26 4 0.14
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (25 bp):
TGTAATTTTGAAATGAAATTAATTA
Found at i:9266640 original size:14 final size:13
Alignment explanation
Indices: 9266617--9266658 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
9266607 TAATCTTTGA
9266617 TTTATTATTTTAT
1 TTTATTATTTTAT
9266630 TTTAGTTA-TTTAT
1 TTTA-TTATTTTAT
*
9266643 TTTAATTGTTTTAT
1 TTT-ATTATTTTAT
9266657 TT
1 TT
9266659 GACTTAGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:9267301 original size:36 final size:35
Alignment explanation
Indices: 9267251--9267321 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
9267241 GATGTTGGAG
9267251 ATATTTTAGATTAATTAAATAAATATTAGTTTATTA
1 ATATTTTAGATTAATT-AATAAATATTAGTTTATTA
** *
9267287 ATATTTTA-ATTTAATTTTTAAATATTATTTTATTA
1 ATATTTTAGA-TTAATTAATAAATATTAGTTTATTA
9267322 TTTTATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 17 0.55
36 14 0.45
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (35 bp):
ATATTTTAGATTAATTAATAAATATTAGTTTATTA
Found at i:9269726 original size:25 final size:25
Alignment explanation
Indices: 9269572--9269717 Score: 202
Period size: 25 Copynumber: 5.8 Consensus size: 25
9269562 GGAGTTTAGC
*
9269572 GTGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
* * *
9269597 GTGCTTTCTGATTATTAGTACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
9269622 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
9269647 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTACTAGCACGTCA
* * *
9269672 GTGCTCTCTGATTACTAGTATGTTA
1 GTGCTCTCTGATTACTAGCACGTCA
* * *
9269697 ATGCTCTCCGATTATTAGCAC
1 GTGCTCTCTGATTACTAGCAC
9269718 ATTCGTGCTA
Statistics
Matches: 108, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 108 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (25 bp):
GTGCTCTCTGATTACTAGCACGTCA
Found at i:9270548 original size:15 final size:17
Alignment explanation
Indices: 9270528--9270559 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9270518 CTCCTGCAAC
9270528 AAACAA-CA-GCAACAA
1 AAACAACCACGCAACAA
9270543 AAACAACCACGCAACAA
1 AAACAACCACGCAACAA
9270560 GAAAGATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.62, C:0.31, G:0.06, T:0.00
Consensus pattern (17 bp):
AAACAACCACGCAACAA
Found at i:9276500 original size:20 final size:18
Alignment explanation
Indices: 9276475--9276521 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
9276465 AAGAATTTGG
9276475 GAAAAAATATATAAAATCTA
1 GAAAAAATATAT-AAAT-TA
*
9276495 GAAAAAAAATATAAATTA
1 GAAAAAATATATAAATTA
*
9276513 TAAAAAATA
1 GAAAAAATA
9276522 AAAAAATACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.38
19 4 0.17
20 11 0.46
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.23
Consensus pattern (18 bp):
GAAAAAATATATAAATTA
Found at i:9276524 original size:24 final size:24
Alignment explanation
Indices: 9276497--9276543 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
9276487 AAAATCTAGA
* * *
9276497 AAAAAAATATAAATTATAAAAAAT
1 AAAAAAATACAAAATACAAAAAAT
9276521 AAAAAAATACAAAATACAAAAAA
1 AAAAAAATACAAAATACAAAAAA
9276544 ATACGACAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (24 bp):
AAAAAAATACAAAATACAAAAAAT
Found at i:9276534 original size:17 final size:17
Alignment explanation
Indices: 9276514--9276547 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9276504 TATAAATTAT
*
9276514 AAAAAATAAAAAAATAC
1 AAAAAACAAAAAAATAC
*
9276531 AAAATACAAAAAAATAC
1 AAAAAACAAAAAAATAC
9276548 GACAATTAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAACAAAAAAATAC
Found at i:9276659 original size:15 final size:15
Alignment explanation
Indices: 9276636--9276666 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9276626 GTTTTTTTCT
9276636 TATAAAATTCTAAAA
1 TATAAAATTCTAAAA
*
9276651 TATATAATTCTAAAA
1 TATAAAATTCTAAAA
9276666 T
1 T
9276667 TCTAAAAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAATTCTAAAA
Found at i:9283779 original size:40 final size:40
Alignment explanation
Indices: 9283715--9283791 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
9283705 ATTTTTCGGC
* * *
9283715 GAAATCGCGTCCACGTCGGCGCGATGTCAAGGTACGCCAA
1 GAAATCGCGTCCACGCCAGAGCGATGTCAAGGTACGCCAA
*
9283755 GAAATCGCGTCCACGCCAGAGCGATGTCATGGTACGC
1 GAAATCGCGTCCACGCCAGAGCGATGTCAAGGTACGC
9283792 GCCAGGAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.25, C:0.30, G:0.30, T:0.16
Consensus pattern (40 bp):
GAAATCGCGTCCACGCCAGAGCGATGTCAAGGTACGCCAA
Found at i:9285131 original size:21 final size:21
Alignment explanation
Indices: 9285089--9285131 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9285079 TTTTAAATAT
*
9285089 ATTTATGAAAAAATCTTAAAA
1 ATTTATGAAAAAATATTAAAA
* * *
9285110 ATTTATTAAATAATATTCAAA
1 ATTTATGAAAAAATATTAAAA
9285131 A
1 A
9285132 GCCATAAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
ATTTATGAAAAAATATTAAAA
Found at i:9308388 original size:23 final size:23
Alignment explanation
Indices: 9308359--9308411 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
9308349 TGATAAACAA
* * *
9308359 TAAGCTCTATTGAGCTGAGACGG
1 TAAGCTCCATAGAGCTGAAACGG
*
9308382 TAAGCTCCGTAGAGCTGAAACGG
1 TAAGCTCCATAGAGCTGAAACGG
9308405 TAAGCTC
1 TAAGCTC
9308412 ATACAAGCTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (23 bp):
TAAGCTCCATAGAGCTGAAACGG
Found at i:9308420 original size:23 final size:23
Alignment explanation
Indices: 9308371--9308421 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
9308361 AGCTCTATTG
* * *
9308371 AGCTGAGACGGTAAGCTCCGTAG
1 AGCTGAAACGGTAAGCTCCATAA
9308394 AGCTGAAACGGTAAGCT-CATACA
1 AGCTGAAACGGTAAGCTCCATA-A
9308417 AGCTG
1 AGCTG
9308422 TGGTGAGTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.31, C:0.22, G:0.29, T:0.18
Consensus pattern (23 bp):
AGCTGAAACGGTAAGCTCCATAA
Found at i:9311548 original size:17 final size:16
Alignment explanation
Indices: 9311507--9311549 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
9311497 TTATACATTA
9311507 TTTAAAATATATTATT
1 TTTAAAATATATTATT
* *
9311523 TGTAAAAATGTATTATT
1 T-TTAAAATATATTATT
9311540 TTTATAAATA
1 TTTA-AAATA
9311550 AATTTAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
TTTAAAATATATTATT
Found at i:9332170 original size:16 final size:17
Alignment explanation
Indices: 9332140--9332172 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9332130 AGTACCATTC
*
9332140 TTTTATAATTTATAAAA
1 TTTTATAATTAATAAAA
9332157 TTTTA-AATTAATAAAA
1 TTTTATAATTAATAAAA
9332173 GTAAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTATAATTAATAAAA
Found at i:9336134 original size:12 final size:12
Alignment explanation
Indices: 9336117--9336142 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9336107 CAAAACAGGC
9336117 TTTTAGCGGCGT
1 TTTTAGCGGCGT
9336129 TTTTAGCGGCGT
1 TTTTAGCGGCGT
9336141 TT
1 TT
9336143 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:9336786 original size:2 final size:2
Alignment explanation
Indices: 9336779--9336818 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
9336769 ATTGTTAATA
*
9336779 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9336819 CCTAAATGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9336914 original size:19 final size:20
Alignment explanation
Indices: 9336878--9336917 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
9336868 ACTTAAGTGG
*
9336878 TTTTACACAATTTTATAATT
1 TTTTACACAATTTAATAATT
*
9336898 TTTTATACAA-TTAATAATT
1 TTTTACACAATTTAATAATT
9336917 T
1 T
9336918 AACAATCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTACACAATTTAATAATT
Found at i:9337135 original size:13 final size:16
Alignment explanation
Indices: 9337095--9337125 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9337085 AACGGTTAAA
9337095 TAAT-TAAAATATTAT
1 TAATATAAAATATTAT
9337110 TAATATAAAATATTAT
1 TAATATAAAATATTAT
9337126 AAAAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATATAAAATATTAT
Found at i:9348540 original size:21 final size:20
Alignment explanation
Indices: 9348514--9348553 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
9348504 AAATGCATTC
9348514 ATGTTTAAATGGTTGTGATTT
1 ATGTTTAAATGG-TGTGATTT
* *
9348535 ATGTTTGAATTGTGTGATT
1 ATGTTTAAATGGTGTGATT
9348554 AATGAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.53
Consensus pattern (20 bp):
ATGTTTAAATGGTGTGATTT
Found at i:9359973 original size:2 final size:2
Alignment explanation
Indices: 9359968--9359996 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9359958 AAAAAAAAAA
9359968 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 A
9359997 GCTTCCAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9362143 original size:2 final size:2
Alignment explanation
Indices: 9362136--9362160 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9362126 AATTTGTACC
9362136 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 A
9362161 AAATATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9366541 original size:75 final size:76
Alignment explanation
Indices: 9366435--9366587 Score: 222
Period size: 75 Copynumber: 2.0 Consensus size: 76
9366425 AAACAACAAC
* * *
9366435 AAATATCGTTACTAGGGAATTGATGTCTTTTAAAATTTTATATAAAATC-TTTAAAACAAA-CTG
1 AAATATCATTACTAGAGAATTGATGTATTTTAAAATTTTATATAAAATCTTTTAAAA-AAATCTG
*
9366498 CTTAAAAAACAT
65 ATTAAAAAACAT
*
9366510 AAATATCATTACTAGAGAATAT-ATGTATTTTAAATTTTTATATAAAATCTTTTAAAAAAATCTG
1 AAATATCATTACTAGAGAAT-TGATGTATTTTAAAATTTTATATAAAATCTTTTAAAAAAATCTG
9366574 ATTAAAAAACAT
65 ATTAAAAAACAT
9366586 AA
1 AA
9366588 TACCAAAGTT
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
75 46 0.66
76 24 0.34
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.37
Consensus pattern (76 bp):
AAATATCATTACTAGAGAATTGATGTATTTTAAAATTTTATATAAAATCTTTTAAAAAAATCTGA
TTAAAAAACAT
Found at i:9370198 original size:73 final size:73
Alignment explanation
Indices: 9370079--9370244 Score: 237
Period size: 73 Copynumber: 2.3 Consensus size: 73
9370069 AGCATTAGAG
*
9370079 GCGTTTTTCAA-AAAGCGCTGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTAAACTTTTGGG
1 GCGTTTTT-AAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAACTTTTGGG
9370142 GATTTAGCA
65 GATTTAGCA
* * * * * *
9370151 GCGTTTTTGAGAAAGTGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTGTGAGCTTTTGGGG
1 GCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAACTTTTGGGG
*
9370216 ATTTAGCG
66 ATTTAGCA
9370224 GCGTTTTTAAGAAAGCGCCGC
1 GCGTTTTTAAGAAAGCGCCGC
9370245 TAATGGTCAG
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
71 1 0.01
72 16 0.20
73 65 0.79
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (73 bp):
GCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAACTTTTGGGG
ATTTAGCA
Found at i:9370289 original size:114 final size:114
Alignment explanation
Indices: 9370144--9370704 Score: 838
Period size: 114 Copynumber: 4.9 Consensus size: 114
9370134 CTTTTGGGGA
* * * * *
9370144 TTTAGCAGCGTTTTTGAGAAAGTGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCT
*
9370209 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGC
66 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
9370258 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCT
* *
9370323 TTTTGGGATTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTCAGGGC
66 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * *
9370372 TTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACATAAGCCCAATGACGCCGTTTTTTGGGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCT
* *
9370437 TTTGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGC
66 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* *
9370486 TTTAGCGGCGTTTTTGAAAAAGCACCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCT
* * * * * * *
9370551 TTTAGGGATTTAGCTGCATTTTTAAGAAAGTGTCGCTAATACTTAGGGC
66 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * * * * *
9370600 TTTAACGGCGTTTTTGAGAAATCGCCGCAAAAAAAACCTAAGCCCAATGACGCCATTTTGTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGC
*
9370665 TTTTGGGGATTTAGCGGCG-TTTTAAG-AAGCGTCGCTAATG
65 TTTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATG
9370705 ATTTATTTAA
Statistics
Matches: 404, Mismatches: 42, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
113 12 0.03
114 344 0.85
115 48 0.12
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCT
TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:9370746 original size:15 final size:14
Alignment explanation
Indices: 9370726--9370790 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
9370716 TTTTAAGGCC
9370726 GGTTTAGGGAGTAT
1 GGTTTAGGGAGTAT
*
9370740 GGGTTTAGGGATTAT
1 -GGTTTAGGGAGTAT
* *
9370755 GGATTAGGGATTAT
1 GGTTTAGGGAGTAT
*
9370769 GGATTAGGG-GT-T
1 GGTTTAGGGAGTAT
9370781 GGATTTAGGG
1 GG-TTTAGGG
9370791 TTAGGGGTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
12 3 0.07
13 7 0.16
14 22 0.49
15 13 0.29
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (14 bp):
GGTTTAGGGAGTAT
Found at i:9370763 original size:14 final size:14
Alignment explanation
Indices: 9370729--9370777 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
9370719 TAAGGCCGGT
* *
9370729 TTAGGGAGTATGGGT
1 TTAGGGATTAT-GGA
9370744 TTAGGGATTATGGA
1 TTAGGGATTATGGA
9370758 TTAGGGATTATGGA
1 TTAGGGATTATGGA
9370772 TTAGGG
1 TTAGGG
9370778 GTTGGATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 22 0.69
15 10 0.31
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:9372622 original size:15 final size:16
Alignment explanation
Indices: 9372593--9372623 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9372583 TTGCGGCATT
9372593 TTTTAAAATAAATCAA
1 TTTTAAAATAAATCAA
9372609 TTTTAAAA-AAATCAA
1 TTTTAAAATAAATCAA
9372624 AAAAAAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
TTTTAAAATAAATCAA
Found at i:9372949 original size:122 final size:123
Alignment explanation
Indices: 9372809--9373050 Score: 441
Period size: 123 Copynumber: 2.0 Consensus size: 123
9372799 ACGCCGCTAA
* *
9372809 AGGTAAGCAATAGTGGCGTTTTT-TATAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGC
1 AGGTAAGCAATAGCGGCGTTTTTATAAAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGC
9372873 CCCCTTTTAGCATAGCATAGCAAAACGGCATAGTTTTATTCAAAATGAAAATTTTTTT
66 CCCCTTTTAGCATAGCATAGCAAAACGGCATAGTTTTATTCAAAATGAAAATTTTTTT
9372931 AGGTAAGCAATAGCGGCGTTTTTATAAAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGC
1 AGGTAAGCAATAGCGGCGTTTTTATAAAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGC
* *
9372996 CCCCTTTTAGGATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAAATTTT
66 CCCCTTTTAGCATAGCATAGCAAAACGGCATAGTTTTATTCAAAATGAAAATTTT
9373051 CATAAAAACG
Statistics
Matches: 115, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
122 22 0.19
123 93 0.81
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (123 bp):
AGGTAAGCAATAGCGGCGTTTTTATAAAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGC
CCCCTTTTAGCATAGCATAGCAAAACGGCATAGTTTTATTCAAAATGAAAATTTTTTT
Found at i:9373178 original size:22 final size:21
Alignment explanation
Indices: 9373153--9373193 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
9373143 AATCCCTCTT
9373153 CTAAAATTCCC-AACTTTCCCCC
1 CTAAAA-TCCCTAA-TTTCCCCC
9373175 CTAAAATCCCTAATTTCCC
1 CTAAAATCCCTAATTTCCC
9373194 ACATCCAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.29, C:0.41, G:0.00, T:0.29
Consensus pattern (21 bp):
CTAAAATCCCTAATTTCCCCC
Found at i:9374547 original size:15 final size:15
Alignment explanation
Indices: 9374527--9374556 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9374517 CTTATAGGTT
*
9374527 TAAATTATTATATAG
1 TAAATTAGTATATAG
9374542 TAAATTAGTATATAG
1 TAAATTAGTATATAG
9374557 AATCATCGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (15 bp):
TAAATTAGTATATAG
Found at i:9377121 original size:43 final size:42
Alignment explanation
Indices: 9377034--9377322 Score: 337
Period size: 43 Copynumber: 6.7 Consensus size: 42
9377024 TTTTTGCTAG
* * * * * *
9377034 AAGCGCCGCTAAAGGT-TTGTTCTTTAGTGGCGTTTATAATAA
1 AAGCG-CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAA
** *
9377076 AAGCGACGCTAAAGGTCATGACCTTTAGCGGCATTTGTGACAA
1 AAGCG-CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAA
* *
9377119 AAGCGCCGCTAAAGTTCATGGTCTTTTAGCGGCGTTTGTAACAA
1 AAGCG-CGCTAAAGGTCATGGTC-TTTAGCGGCGTTTGTGACAA
*
9377163 AAGCGCAGCGAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAA
1 AAGCGC-GCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAA
* *
9377206 AAGCGCTGCTAAAGCTCATGGTCTTTAGCGGCGTTTGTGACAG
1 AAGCGC-GCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAA
**
9377249 ACCCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAA
1 AAGCG-CGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAA
* *
9377292 ACGCGATGCTAAAGGTCATGGTCTTTAGCGG
1 AAGCG-CGCTAAAGGTCATGGTCTTTAGCGG
9377323 TGTCTTCTGT
Statistics
Matches: 214, Mismatches: 29, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
42 15 0.07
43 161 0.75
44 38 0.18
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (42 bp):
AAGCGCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGACAA
Found at i:9377422 original size:22 final size:22
Alignment explanation
Indices: 9377388--9377429 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9377378 AGTGGCGCTT
* *
9377388 AAAAGCGCCGCTAAAGGCCTAG
1 AAAAACGCCGCTAAAAGCCTAG
*
9377410 AAAAACGCTGCTAAAAGCCT
1 AAAAACGCCGCTAAAAGCCT
9377430 GTTTTAGTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAACGCCGCTAAAAGCCTAG
Found at i:9379428 original size:29 final size:30
Alignment explanation
Indices: 9379368--9379428 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
9379358 GGAGGAGAGG
* * **
9379368 GGAGTAAAAGTTTTGGGGGGAAAGTGGGAA
1 GGAGTAAAAGTTTTGAGGGAAAAGTGAAAA
9379398 GGAGTAAAAGTTTTGAGGGAAAAGT-AAAA
1 GGAGTAAAAGTTTTGAGGGAAAAGTGAAAA
9379427 GG
1 GG
9379429 GTTTGGGAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (30 bp):
GGAGTAAAAGTTTTGAGGGAAAAGTGAAAA
Found at i:9379485 original size:9 final size:9
Alignment explanation
Indices: 9379471--9379507 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9379461 TATAGTTTGA
9379471 TATTCGAAT
1 TATTCGAAT
9379480 TATTCGAAT
1 TATTCGAAT
*
9379489 TATTCGAGT
1 TATTCGAAT
9379498 TATTCGAAT
1 TATTCGAAT
9379507 T
1 T
9379508 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9389614 original size:17 final size:17
Alignment explanation
Indices: 9389587--9389619 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9389577 TTTTCTAAAA
9389587 TTAGTGAATTTCTTTTTT
1 TTAGTGAATTT-TTTTTT
9389605 TTAGTG-ATTTTTTTT
1 TTAGTGAATTTTTTTT
9389620 AGATAAGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.15, C:0.03, G:0.12, T:0.70
Consensus pattern (17 bp):
TTAGTGAATTTTTTTTT
Found at i:9406984 original size:26 final size:26
Alignment explanation
Indices: 9406948--9407007 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
9406938 CATACAACGT
*
9406948 GATTCATGACCGTCGAGGATCTCTCG
1 GATTCATGACCGTCAAGGATCTCTCG
9406974 GATTCATGACCGTCAAGGATCTCTCG
1 GATTCATGACCGTCAAGGATCTCTCG
*
9407000 GATCCATG
1 GATTCATG
9407008 TCTCACCTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.27
Consensus pattern (26 bp):
GATTCATGACCGTCAAGGATCTCTCG
Found at i:9407341 original size:72 final size:72
Alignment explanation
Indices: 9407223--9407393 Score: 233
Period size: 72 Copynumber: 2.4 Consensus size: 72
9407213 AAAATCATAT
* ** *
9407223 ATAAACAAATATTGATAAAACTA-ATTTAGTATAAATAAGTAGAACATAAATTTAATAT-CAAAA
1 ATAAACAACTATTGATAAAACTAGATTTAACATAAATAAGTAGAACATAAATTCAATATCCAAAA
9407286 GACCAAAC
66 -ACCAAAC
* *
9407294 ATAAACAACTATTAATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATGTCCAAA
1 ATAAACAACTATTGATAAAACTAGATTTA-ACATAAATAAGTAGAACATAAATTCAATATCCAAA
9407358 AACCAAAC
65 AACCAAAC
*
9407366 ATAAATAACTATTGATAAAACTAG-TTTA
1 ATAAACAACTATTGATAAAACTAGATTTA
9407394 GCATTGTTGT
Statistics
Matches: 88, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
71 24 0.27
72 59 0.67
73 5 0.06
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.26
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTTAACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:9407839 original size:18 final size:18
Alignment explanation
Indices: 9407818--9407864 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
9407808 CCCATCAATT
*
9407818 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
9407836 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
9407854 TGAACATCATT
1 TGAACATCATT
9407865 CTCATATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:9409470 original size:60 final size:59
Alignment explanation
Indices: 9409404--9409521 Score: 175
Period size: 60 Copynumber: 2.0 Consensus size: 59
9409394 TTCTTTTTTT
*
9409404 AAAACATAAAATTGAACTATTATTTAGAAAACATACGGCAAACAAACAAAAAAA-AAAACA
1 AAAACATAAAATTGAACTATTATTTAGAAAACATACAGCAAA-AAA-AAAAAAACAAAACA
* * *
9409464 AAAACATCAAATTGAACTATTATTTCGAAAACATGCAGCAAAAAAAAAAAAACAAAAC
1 AAAACATAAAATTGAACTATTATTTAGAAAACATACAGCAAAAAAAAAAAAACAAAAC
9409522 CATGGCCCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 7 0.13
59 8 0.15
60 38 0.72
ACGTcount: A:0.62, C:0.14, G:0.07, T:0.17
Consensus pattern (59 bp):
AAAACATAAAATTGAACTATTATTTAGAAAACATACAGCAAAAAAAAAAAAACAAAACA
Found at i:9413972 original size:63 final size:63
Alignment explanation
Indices: 9413882--9414030 Score: 253
Period size: 63 Copynumber: 2.4 Consensus size: 63
9413872 ACAGTATGCA
* *
9413882 GGGCCGAATGGTGGTGGGCCCAAGCCGAATTTTGAGAACCATGGGTATAGGCCACAAACTATT
1 GGGCCGAATGGTGGAGGGCCCAAGCCGAATTTTGAGAACCATGGGTATAGGCCACAAACAATT
* * *
9413945 GGGTCGAATAGTGGAGGGCCCAGGCCGAATTTTGAGAACCATGGGTATAGGCCACAAACAATT
1 GGGCCGAATGGTGGAGGGCCCAAGCCGAATTTTGAGAACCATGGGTATAGGCCACAAACAATT
9414008 GGGCCGAATGGTGGAGGGCCCAA
1 GGGCCGAATGGTGGAGGGCCCAA
9414031 TGGTGATTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 78 1.00
ACGTcount: A:0.28, C:0.20, G:0.34, T:0.18
Consensus pattern (63 bp):
GGGCCGAATGGTGGAGGGCCCAAGCCGAATTTTGAGAACCATGGGTATAGGCCACAAACAATT
Found at i:9421989 original size:80 final size:81
Alignment explanation
Indices: 9421856--9422020 Score: 296
Period size: 80 Copynumber: 2.0 Consensus size: 81
9421846 ATTGTGGGCT
* *
9421856 AAATCGTGTAGCAGAATGATAATTTAAGTATGAAAGAGAAATTT-AAAAAAAAAAGAAGATGATG
1 AAATCGTGTAGCAGAATGATAATTTAAGTATGAAAGAGAAATTTAAAAAAAAAAAAAAGAAGATG
9421920 AAAGTGAAATTAAAAA
66 AAAGTGAAATTAAAAA
9421936 AAATCGTGTAGCAGAATGATAATTTAAGTATGAAAGAGAAATTTAAAAAAAAAAAAAAGAAGATG
1 AAATCGTGTAGCAGAATGATAATTTAAGTATGAAAGAGAAATTTAAAAAAAAAAAAAAGAAGATG
*
9422001 AAAGTGAAATTTAAAA
66 AAAGTGAAATTAAAAA
9422017 AAAT
1 AAAT
9422021 TCTAAGTGCT
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
80 44 0.54
81 37 0.46
ACGTcount: A:0.58, C:0.02, G:0.18, T:0.22
Consensus pattern (81 bp):
AAATCGTGTAGCAGAATGATAATTTAAGTATGAAAGAGAAATTTAAAAAAAAAAAAAAGAAGATG
AAAGTGAAATTAAAAA
Found at i:9432108 original size:21 final size:20
Alignment explanation
Indices: 9432084--9432122 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9432074 TGTTTTTAAC
*
9432084 TAAAACAGAATTTATTTTTAT
1 TAAAACACAA-TTATTTTTAT
*
9432105 TAAAGCACAATTATTTTT
1 TAAAACACAATTATTTTT
9432123 TAAAGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (20 bp):
TAAAACACAATTATTTTTAT
Found at i:9433856 original size:13 final size:13
Alignment explanation
Indices: 9433838--9433867 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9433828 AACTCCACCC
9433838 TTTCTCTCGCCCT
1 TTTCTCTCGCCCT
*
9433851 TTTCTCTCGTCCT
1 TTTCTCTCGCCCT
9433864 TTTC
1 TTTC
9433868 ATTTAGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.40, G:0.07, T:0.53
Consensus pattern (13 bp):
TTTCTCTCGCCCT
Found at i:9434178 original size:24 final size:24
Alignment explanation
Indices: 9434145--9434225 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
9434135 TCCTTTTCCA
* *
9434145 GCACCCGAGCCTTCCAGTCCCTTT
1 GCACCTGAGCCTTCCAGTCCATTT
** *
9434169 GCACCTGAGCCTGCTTCTGGTCCTTTT
1 GCACCTGAG-C--CTTCCAGTCCATTT
* *
9434196 GCACCAGAGCCTTCCAGTCCATCT
1 GCACCTGAGCCTTCCAGTCCATTT
9434220 GCACCT
1 GCACCT
9434226 CACCCCACTG
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
24 23 0.52
25 1 0.02
26 1 0.02
27 19 0.43
ACGTcount: A:0.14, C:0.41, G:0.19, T:0.27
Consensus pattern (24 bp):
GCACCTGAGCCTTCCAGTCCATTT
Found at i:9438422 original size:23 final size:23
Alignment explanation
Indices: 9438379--9438422 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
9438369 TATATATATA
*
9438379 TATTTATAAATTTTAATAATTTT
1 TATTTATAAATTTTAAGAATTTT
* *
9438402 TATTTTTAAATTTTTAGAATT
1 TATTTATAAATTTTAAGAATT
9438423 AAAATTAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTTATAAATTTTAAGAATTTT
Found at i:9439417 original size:25 final size:26
Alignment explanation
Indices: 9439360--9439415 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
9439350 CTGCAAAATA
9439360 TCAAATGAACATCAACCTACAATTTT
1 TCAAATGAACATCAACCTACAATTTT
9439386 TCAAATGAACATCAACCTACAATTTT
1 TCAAATGAACATCAACCTACAATTTT
9439412 TCAA
1 TCAA
9439416 TGTACCAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.43, C:0.23, G:0.04, T:0.30
Consensus pattern (26 bp):
TCAAATGAACATCAACCTACAATTTT
Found at i:9440701 original size:206 final size:205
Alignment explanation
Indices: 9440348--9440747 Score: 678
Period size: 206 Copynumber: 1.9 Consensus size: 205
9440338 CCTATTAACT
* *
9440348 AGACACAGACTCAAAACGGATACGTGGATCCGCCACCCAGGTTTTCGGCAACGATGACGTTATAC
1 AGACACAGACTCAAAACGGATACATGGATCCGCCACCCAGGTTTTCAGCAACGATGACGTTATAC
* *
9440413 AAGTACATACTACCACCCTGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTGTTAG
66 AAGTACATACTACCACCCAGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTATTAG
* * *
9440478 CCCGAGTTGTTCGGCAACTATGACTCAATGTGTACAATCTACCACCCAGGGTTACTCGAAAACTG
131 CCCAAGTTGTTCGGCAACTATGACTCAATGTGTACAATCTACCACCCAGGGTTACCCAAAAACTG
9440543 ACTCAAAACG
196 ACTCAAAACG
* *
9440553 AGACACATACTCAAAACGGATACATGGATCCGTCACCC-GGATTTTTCAGCAACGATGACGTTAT
1 AGACACAGACTCAAAACGGATACATGGATCCGCCACCCAGG--TTTTCAGCAACGATGACGTTAT
9440617 ACAAGTACATACTACCACCCAGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTATT
64 ACAAGTACATACTACCACCCAGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTATT
9440682 AGCCCAAGTT-TCTCGGCAACTATGACTCAATGTGTACAATCTACCACCCAGGGTTACCCAAAAA
129 AGCCCAAGTTGT-TCGGCAACTATGACTCAATGTGTACAATCTACCACCCAGGGTTACCCAAAAA
9440746 CT
193 CT
9440748 ATGGTTTTCA
Statistics
Matches: 183, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
204 2 0.01
205 36 0.20
206 145 0.79
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (205 bp):
AGACACAGACTCAAAACGGATACATGGATCCGCCACCCAGGTTTTCAGCAACGATGACGTTATAC
AAGTACATACTACCACCCAGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTATTAG
CCCAAGTTGTTCGGCAACTATGACTCAATGTGTACAATCTACCACCCAGGGTTACCCAAAAACTG
ACTCAAAACG
Found at i:9450994 original size:15 final size:15
Alignment explanation
Indices: 9450974--9451044 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 15
9450964 ACTCGATATT
9450974 AATATTTTAATAATA
1 AATATTTTAATAATA
*
9450989 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
9451008 AATATATTAATAATA
1 AATATTTTAATAATA
9451023 AATATTTT-ATAGTATA
1 AATATTTTAATA--ATA
9451039 AATATT
1 AATATT
9451045 AAAATATGTC
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
14 3 0.07
15 18 0.39
16 10 0.22
17 2 0.04
18 2 0.04
19 11 0.24
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:9451569 original size:26 final size:26
Alignment explanation
Indices: 9451534--9451596 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
9451524 GCTCCATTTG
*
9451534 ATTTTTGAAAGTAATTTCT-ATTTTC-
1 ATTTTTGAAAATAATTT-TAATTTTCT
9451559 ATTTTTAGAAAATAATTTTAATTTTCT
1 ATTTTT-GAAAATAATTTTAATTTTCT
*
9451586 ATTTTTTAAAA
1 ATTTTTGAAAA
9451597 ATTAAAATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 7 0.21
26 20 0.61
27 6 0.18
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (26 bp):
ATTTTTGAAAATAATTTTAATTTTCT
Found at i:9453072 original size:14 final size:14
Alignment explanation
Indices: 9453048--9453089 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
9453038 TGTCTCCTTC
9453048 TTTTC-TTCTTTCT
1 TTTTCTTTCTTTCT
9453061 TTTTCTTTCTTTCT
1 TTTTCTTTCTTTCT
9453075 TTCTT-TTTCTTTCT
1 TT-TTCTTTCTTTCT
9453089 T
1 T
9453090 ATCTTAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.19
14 20 0.74
15 2 0.07
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTCTTTCTTTCT
Found at i:9453087 original size:18 final size:18
Alignment explanation
Indices: 9453049--9453094 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
9453039 GTCTCCTTCT
9453049 TTTC-TTCTTTCTTTTTC
1 TTTCTTTCTTTCTTTTTC
9453066 TTTCTTTCTTTCTTTTTC
1 TTTCTTTCTTTCTTTTTC
9453084 TTTCTTATCTT
1 TTTCTT-TCTT
9453095 AGATTGTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 4 0.15
18 19 0.70
19 4 0.15
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTCTTTCTTTTTC
Found at i:9456937 original size:20 final size:21
Alignment explanation
Indices: 9456908--9456947 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
9456898 GTTTTTTTTT
*
9456908 AAAATTTTAAATAT-ATTAAA
1 AAAATGTTAAATATAATTAAA
*
9456928 AAAATGTTAAGTATAATTAA
1 AAAATGTTAAATATAATTAA
9456948 TTTTAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
AAAATGTTAAATATAATTAAA
Found at i:9456971 original size:17 final size:17
Alignment explanation
Indices: 9456949--9456987 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
9456939 TATAATTAAT
9456949 TTTAAAAGTTTAATATA
1 TTTAAAAGTTTAATATA
*
9456966 TTTAAAATTTTAATATA
1 TTTAAAAGTTTAATATA
*
9456983 CTTAA
1 TTTAA
9456988 TATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAAAAGTTTAATATA
Found at i:9457071 original size:17 final size:17
Alignment explanation
Indices: 9457051--9457093 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
9457041 TTTAAAAAGC
9457051 TTAAAAAATTAAATATA
1 TTAAAAAATTAAATATA
**
9457068 TTAAAAGTTTAAATATA
1 TTAAAAAATTAAATATA
9457085 TTAAAAAAT
1 TTAAAAAAT
9457094 GCTAAGTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
TTAAAAAATTAAATATA
Found at i:9457092 original size:35 final size:35
Alignment explanation
Indices: 9457025--9457093 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 35
9457015 AAAGATTTTC
* *
9457025 TAAATATATTTAAAATTTTAAAAAGCTTAAAAAAT
1 TAAATATATTTAAAAGTTTAAAAAGATTAAAAAAT
* *
9457060 TAAATATA-TTAAAAGTTTAAATATATTAAAAAAT
1 TAAATATATTTAAAAGTTTAAAAAGATTAAAAAAT
9457094 GCTAAGTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 22 0.73
35 8 0.27
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (35 bp):
TAAATATATTTAAAAGTTTAAAAAGATTAAAAAAT
Found at i:9457262 original size:16 final size:17
Alignment explanation
Indices: 9457240--9457276 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9457230 GAAAACTTAA
*
9457240 AAAAATTTAAATATATT
1 AAAATTTTAAATATATT
*
9457257 AAAATTTTAAATATGTT
1 AAAATTTTAAATATATT
9457274 AAA
1 AAA
9457277 GAAAAGGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AAAATTTTAAATATATT
Found at i:9457337 original size:18 final size:19
Alignment explanation
Indices: 9457299--9457343 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
9457289 TATAACCAAT
9457299 TTAAAAT-TTT-AATATAC
1 TTAAAATATTTAAATATAC
*
9457316 TTAATATATTTAAATATA-
1 TTAAAATATTTAAATATAC
9457334 TTAAAATATT
1 TTAAAATATT
9457344 GAACATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 12 0.50
19 6 0.25
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAAATATTTAAATATAC
Found at i:9457372 original size:79 final size:80
Alignment explanation
Indices: 9457217--9457387 Score: 206
Period size: 79 Copynumber: 2.1 Consensus size: 80
9457207 TTTTTAATAT
* *
9457217 ATTTAAAATTTTAGAAAACTTAAAAAAATTTAAATATATTAAAATTTTAAATATGTTAAAGAAAA
1 ATTTAAAATTTTAGAAAACTTAAAAAAATTTAAATATATTAAAATTTGAAATATGTAAAAGAAAA
9457282 GGTTAAGTATAACCA
66 GGTTAAGTATAACCA
* * *
9457297 ATTTAAAATTTTA-ATATACTT-AATATATTTAAATATATTAAAATATTGAACATAT-TAAAAG-
1 ATTTAAAATTTTAGA-AAACTTAAAAAAATTTAAATATATTAAAAT-TTGAA-ATATGTAAAAGA
** *
9457358 AAATTTTAATTATAACCA
63 AAAGGTTAAGTATAACCA
9457376 ATTTTAAAATTT
1 A-TTTAAAATTT
9457388 AAATTTAAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
79 38 0.48
80 37 0.47
81 4 0.05
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.40
Consensus pattern (80 bp):
ATTTAAAATTTTAGAAAACTTAAAAAAATTTAAATATATTAAAATTTGAAATATGTAAAAGAAAA
GGTTAAGTATAACCA
Found at i:9461850 original size:15 final size:15
Alignment explanation
Indices: 9461830--9461873 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
9461820 ACTAAAGTTC
9461830 AACTTTAGATTTATA
1 AACTTTAGATTTATA
9461845 AACTTTAGATTTATA
1 AACTTTAGATTTATA
* *
9461860 AAATTTAAATTTAT
1 AACTTTAGATTTAT
9461874 CAAGTGCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (15 bp):
AACTTTAGATTTATA
Found at i:9464375 original size:13 final size:13
Alignment explanation
Indices: 9464352--9464404 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
9464342 AGTTCTTTAT
9464352 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
9464365 TGCTGTGGAAAAA
1 TGCTTTTGAAAAG
*
9464378 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
9464391 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
9464404 T
1 T
9464405 TTGGTTTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:9467048 original size:16 final size:16
Alignment explanation
Indices: 9467029--9467068 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
9467019 CTGCAAATAA
9467029 AACCATAAATTTTTAC
1 AACCATAAATTTTTAC
9467045 AACCATAAATTTTTAC
1 AACCATAAATTTTTAC
*
9467061 AAACATAA
1 AACCATAA
9467069 CCAATTCAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (16 bp):
AACCATAAATTTTTAC
Found at i:9472321 original size:22 final size:23
Alignment explanation
Indices: 9472295--9472349 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
9472285 TTTTATGTTT
*
9472295 TATATATATTATTTTATTATATAA
1 TATATATA-TATTGTATTATATAA
* *
9472319 TATA-ATATATTGTATTGTATTA
1 TATATATATATTGTATTATATAA
9472341 TAT-TATATA
1 TATATATATA
9472350 AATTAAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 20 0.74
23 3 0.11
24 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
TATATATATATTGTATTATATAA
Found at i:9472334 original size:27 final size:27
Alignment explanation
Indices: 9472296--9472350 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
9472286 TTTATGTTTT
*
9472296 ATATATATTATTTTATTATATAATATA
1 ATATATATTATTGTATTATATAATATA
*
9472323 ATATAT-TGTATTGTATTATATTATATA
1 ATATATAT-TATTGTATTATATAATATA
9472350 A
1 A
9472351 ATTAAATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (27 bp):
ATATATATTATTGTATTATATAATATA
Found at i:9473805 original size:22 final size:23
Alignment explanation
Indices: 9473777--9473837 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
9473767 TATGTACTAT
9473777 TAAATAGAGAGCACTAAA-GTGC
1 TAAATAGAGAGCACTAAATGTGC
* *
9473799 TATATAGAGAGCGC-AAATGTGC
1 TAAATAGAGAGCACTAAATGTGC
**
9473821 TAAACGGAGAGCACTAA
1 TAAATAGAGAGCACTAA
9473838 CATGCTAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 3 0.10
22 26 0.84
23 2 0.06
ACGTcount: A:0.43, C:0.15, G:0.25, T:0.18
Consensus pattern (23 bp):
TAAATAGAGAGCACTAAATGTGC
Found at i:9477972 original size:22 final size:24
Alignment explanation
Indices: 9477946--9477989 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
9477936 GAAAAATATT
9477946 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
9477968 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
9477990 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:9478100 original size:9 final size:9
Alignment explanation
Indices: 9478086--9478113 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
9478076 TTTTGTTACA
9478086 ACAATTAAT
1 ACAATTAAT
9478095 ACAATTAAT
1 ACAATTAAT
9478104 ACAATTAAT
1 ACAATTAAT
9478113 A
1 A
9478114 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:9478135 original size:68 final size:66
Alignment explanation
Indices: 9478056--9478197 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 66
9478046 TCAAGTTTGT
*
9478056 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
9478121 AAA
64 AAA
9478124 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
9478189 T
66 A
9478190 TTTACTAA
1 TTTACTAA
9478198 CAATTAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 44 0.61
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:9478207 original size:16 final size:16
Alignment explanation
Indices: 9478186--9478227 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
9478176 AATAATTTGA
*
9478186 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
9478202 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
9478218 TAGTTTTAAT
1 TAATTTTAAT
9478228 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:9478211 original size:22 final size:22
Alignment explanation
Indices: 9478201--9478261 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
9478191 TTACTAACAA
* * *
9478201 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
9478223 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
*
9478245 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
9478262 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:9478216 original size:59 final size:66
Alignment explanation
Indices: 9478056--9478219 Score: 216
Period size: 68 Copynumber: 2.5 Consensus size: 66
9478046 TCAAGTTTGT
*
9478056 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTT-ATACAACAATTAATACAATTAATACAATTAATAATTTGAT
9478121 AAA
64 AAA
9478124 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTA-TACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
9478187 AAT
64 AAA
*
9478190 TTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTA
1 TTTACTAATCAAAGTTAGATTTTATACAACAATTA
9478220 GTTTTAATTT
Statistics
Matches: 92, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
59 9 0.10
61 6 0.07
62 3 0.03
64 2 0.02
65 1 0.01
66 27 0.29
67 1 0.01
68 43 0.47
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAAGTTAGATTTTATACAACAATTAATACAATTAATACAATTAATAATTTGATAA
A
Found at i:9485009 original size:2 final size:2
Alignment explanation
Indices: 9485002--9485060 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
9484992 TAGTTTTGCT
9485002 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9485044 TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC T
9485061 TCAGATCTGC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:9491760 original size:3 final size:3
Alignment explanation
Indices: 9491754--9491817 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
9491744 TTTCCTTTTC
9491754 ATT ATT ATT ATT ATT ATT ATT ATT 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
9491802 ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
9491818 CTACTATATA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:9491969 original size:16 final size:16
Alignment explanation
Indices: 9491950--9491990 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
9491940 TTTATATACA
9491950 TATATATTTATACAT-T
1 TATATATTTATA-ATGT
9491966 TATAT-TTTATAATGT
1 TATATATTTATAATGT
9491981 TCATATATTT
1 T-ATATATTT
9491991 TCCATGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.09
15 8 0.36
16 9 0.41
17 3 0.14
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (16 bp):
TATATATTTATAATGT
Found at i:9501756 original size:21 final size:21
Alignment explanation
Indices: 9501715--9501757 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
9501705 NNNNNAAACT
* *
9501715 CTTAAACCTTTTTACTTTTCC
1 CTTAAAACTTTTTACTCTTCC
9501736 CTTAAAAC-TTTTACTCCTTCC
1 CTTAAAACTTTTTACT-CTTCC
9501757 C
1 C
9501758 ACTTTCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.33, G:0.00, T:0.47
Consensus pattern (21 bp):
CTTAAAACTTTTTACTCTTCC
Found at i:9501937 original size:30 final size:31
Alignment explanation
Indices: 9501892--9501951 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
9501882 CAACCTTTTA
9501892 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAATTTTTACTCCCTTCCCAC
* * *
9501922 TTTTTCCCTAAAATTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAATTTTTACTCCCTTCCCA
9501952 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTCCCCCAAAATTTTTACTCCCTTCCCAC
Found at i:9505284 original size:9 final size:9
Alignment explanation
Indices: 9505270--9505317 Score: 78
Period size: 9 Copynumber: 5.3 Consensus size: 9
9505260 AATTCGGTCG
*
9505270 ATTAACTGA
1 ATTAACCGA
9505279 ATTAACCGA
1 ATTAACCGA
*
9505288 ATTACCCGA
1 ATTAACCGA
9505297 ATTAACCGA
1 ATTAACCGA
9505306 ATTAACCGA
1 ATTAACCGA
9505315 ATT
1 ATT
9505318 TAATTCCTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (9 bp):
ATTAACCGA
Found at i:9507153 original size:26 final size:26
Alignment explanation
Indices: 9507042--9507154 Score: 78
Period size: 26 Copynumber: 4.5 Consensus size: 26
9507032 AGCTCCAGAT
* * * *
9507042 AGCCATATATCGGGAAGTTCAAG-CG
1 AGCCATATATCGGAAAGCTCACGAAG
9507067 AGCC--ATATCGGAAAGCTC-CGAAG
1 AGCCATATATCGGAAAGCTCACGAAG
* * *
9507090 AGCCAT-TAATC-AATAAGCTCACAAAA
1 AGCCATAT-ATCGGA-AAGCTCACGAAG
*
9507116 AGCC-TTTAATCGGAAAGCTCACGAAG
1 AGCCATAT-ATCGGAAAGCTCACGAAG
9507142 AGCCATATATCGG
1 AGCCATATATCGG
9507155 GACACTCAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
22 1 0.01
23 17 0.25
24 2 0.03
25 14 0.21
26 31 0.46
27 3 0.04
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (26 bp):
AGCCATATATCGGAAAGCTCACGAAG
Found at i:9511006 original size:77 final size:77
Alignment explanation
Indices: 9510894--9511064 Score: 229
Period size: 77 Copynumber: 2.2 Consensus size: 77
9510884 AAATAATCAA
* * * ** *
9510894 TGCATGCATATT-AAAAATAGTCAACAGCATATGACCATCTCCACTGACAATCATACACAGACAA
1 TGCATGCATATTAAAAAATAGTCAACAACATATGACCAGCCCCACCAACAATCATACACAAACAA
9510958 ATTA-AAAAACAC
66 ATTAGAAAAA-AC
* * * *
9510970 TGCATGCATGTTAAAAAATAGTCAATAACATGTGACCAGCCCCACCAACAATCATACATAAACAA
1 TGCATGCATATTAAAAAATAGTCAACAACATATGACCAGCCCCACCAACAATCATACACAAACAA
9511035 ATTAGAAAAAAC
66 ATTAGAAAAAAC
9511047 TGCATGCATATTAAAAAA
1 TGCATGCATATTAAAAAA
9511065 CACTCACTAA
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
76 11 0.13
77 66 0.80
78 5 0.06
ACGTcount: A:0.47, C:0.22, G:0.10, T:0.21
Consensus pattern (77 bp):
TGCATGCATATTAAAAAATAGTCAACAACATATGACCAGCCCCACCAACAATCATACACAAACAA
ATTAGAAAAAAC
Found at i:9513019 original size:23 final size:24
Alignment explanation
Indices: 9512975--9513020 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
9512965 TTTCTCACAT
* **
9512975 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTAATCCACC
9512999 TTTCAA-TCAATAATTAATCCAC
1 TTTCAATTCAATAATTAATCCAC
9513021 AATTCACACG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTCAATTCAATAATTAATCCACC
Done.