Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 20 of 345
Found at i:6685242 original size:12 final size:12
Alignment explanation
Indices: 6685225--6685257 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
6685215 TATTTTTGAA
6685225 GTTAATTGAGAG
1 GTTAATTGAGAG
6685237 GTTAATT-AGAG
1 GTTAATTGAGAG
*
6685248 TTTAATTGAG
1 GTTAATTGAG
6685258 TGAATTTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.39
Consensus pattern (12 bp):
GTTAATTGAGAG
Found at i:6685428 original size:8 final size:8
Alignment explanation
Indices: 6685415--6685460 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
6685405 AAATTTTTAA
6685415 TATATTAT
1 TATATTAT
6685423 TATATTAT
1 TATATTAT
* *
6685431 TATGTTTAA
1 TAT-ATTAT
*
6685440 TGTATTAT
1 TATATTAT
6685448 TATATTAT
1 TATATTAT
6685456 TATAT
1 TATAT
6685461 AATAAAGATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
8 26 0.84
9 5 0.16
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (8 bp):
TATATTAT
Found at i:6685445 original size:25 final size:25
Alignment explanation
Indices: 6685410--6685458 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
6685400 ATCTAAAATT
6685410 TTTAATATATTATTATATTATTATG
1 TTTAATATATTATTATATTATTATG
*
6685435 TTTAATGTATTATTATATTATTAT
1 TTTAATATATTATTATATTATTAT
6685459 ATAATAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (25 bp):
TTTAATATATTATTATATTATTATG
Found at i:6686702 original size:53 final size:53
Alignment explanation
Indices: 6686640--6686761 Score: 190
Period size: 53 Copynumber: 2.3 Consensus size: 53
6686630 TGTCGGATAT
* * *
6686640 TGTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTATCGTAC
1 TGTTACTGTTACTGTTCCAGATTTGTTCCGATGAGGTACTCTGTGTACCGCAC
*
6686693 TGTTACTGTTATTGTTCCAGATTTGTTCCGATGAGGTACTCTGTGTACCGCAC
1 TGTTACTGTTACTGTTCCAGATTTGTTCCGATGAGGTACTCTGTGTACCGCAC
* *
6686746 TGCTACTATTACTGTT
1 TGTTACTGTTACTGTT
6686762 ACTGTTCCGG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 62 1.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (53 bp):
TGTTACTGTTACTGTTCCAGATTTGTTCCGATGAGGTACTCTGTGTACCGCAC
Found at i:6687017 original size:18 final size:18
Alignment explanation
Indices: 6686970--6687023 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
6686960 TGATACTGGG
*
6686970 TAATTGATTATTATTGAA
1 TAATTGATTGTTATTGAA
6686988 TAATTGATTGTTATTGAA
1 TAATTGATTGTTATTGAA
* *
6687006 TAATTGACTGTTACTGAA
1 TAATTGATTGTTATTGAA
6687024 AAAAATAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (18 bp):
TAATTGATTGTTATTGAA
Found at i:6689440 original size:2 final size:2
Alignment explanation
Indices: 6689433--6689463 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6689423 ATGATGTTAA
6689433 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6689464 AATTTATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6694884 original size:15 final size:15
Alignment explanation
Indices: 6694847--6694877 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6694837 AGAGATCAAG
6694847 GCATCCAAAAGGACA
1 GCATCCAAAAGGACA
6694862 GCATCCAAAAGGACA
1 GCATCCAAAAGGACA
6694877 G
1 G
6694878 TCTCCAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.26, G:0.23, T:0.06
Consensus pattern (15 bp):
GCATCCAAAAGGACA
Found at i:6703618 original size:3 final size:3
Alignment explanation
Indices: 6703610--6703639 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
6703600 GAAACTATCT
6703610 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6703640 ATTAAAAAAT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6705283 original size:26 final size:24
Alignment explanation
Indices: 6705243--6705302 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
6705233 TTATTTTATT
* * *
6705243 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
6705267 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
6705293 AAATAAATAT
1 AAATAAATAT
6705303 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:6705314 original size:22 final size:22
Alignment explanation
Indices: 6705273--6705331 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
6705263 ATAATAAATC
* *
6705273 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
6705293 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
6705315 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
6705332 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:6708607 original size:26 final size:25
Alignment explanation
Indices: 6708553--6708607 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
6708543 AGAGATTTGG
* *
6708553 TTTTTTTTTATAAAAATGACCTAAT
1 TTTTTTTTTACAAAAATGACCTAAC
* *
6708578 TTTTTTATTTACAAAAATGACTTACC
1 TTTTTT-TTTACAAAAATGACCTAAC
6708604 TTTT
1 TTTT
6708608 CAATTAAGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.53
Consensus pattern (25 bp):
TTTTTTTTTACAAAAATGACCTAAC
Found at i:6714803 original size:41 final size:41
Alignment explanation
Indices: 6714743--6714825 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
6714733 GTATATAGTT
*
6714743 AAAAAGAATAGCATAAAATACTCGTGGATTATCATACAACC
1 AAAAAGAATAGCATAAAATACACGTGGATTATCATACAACC
* * *
6714784 AAAAAGAATAGCATGAAATACACGTGGGTTGTCATACAACC
1 AAAAAGAATAGCATAAAATACACGTGGATTATCATACAACC
6714825 A
1 A
6714826 TGTTTAACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.20
Consensus pattern (41 bp):
AAAAAGAATAGCATAAAATACACGTGGATTATCATACAACC
Found at i:6721428 original size:17 final size:17
Alignment explanation
Indices: 6721402--6721444 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
6721392 AATTAATCTT
*
6721402 ATTTATTATAATA-AATA
1 ATTTAATATAATATAA-A
6721419 ATTTAATATAATATAAA
1 ATTTAATATAATATAAA
*
6721436 AGTTAATAT
1 ATTTAATAT
6721445 TCAATATACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
ATTTAATATAATATAAA
Found at i:6739827 original size:2 final size:2
Alignment explanation
Indices: 6739820--6739847 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6739810 AAATAATGAC
6739820 AT 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
6739848 GTTTAATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6745934 original size:14 final size:14
Alignment explanation
Indices: 6745879--6745947 Score: 61
Period size: 13 Copynumber: 4.9 Consensus size: 14
6745869 AACTAAGAGA
*
6745879 TTTAAAATATTCAT
1 TTTAAAATATTTAT
*
6745893 TTTATAATATTTATTT
1 TTTAAAATATTTA--T
6745909 TTTAAAAT-TTTAT
1 TTTAAAATATTTAT
*
6745922 TTTAAATTATTTA-
1 TTTAAAATATTTAT
**
6745935 AATAAAATATTTA
1 TTTAAAATATTTA
6745948 AACAGTTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
13 18 0.40
14 15 0.33
15 4 0.09
16 8 0.18
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAAAATATTTAT
Found at i:6746269 original size:17 final size:18
Alignment explanation
Indices: 6746230--6746267 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6746220 TATTTTTAAG
**
6746230 AAATATTTTTTTGATAAA
1 AAATATTTTTAAGATAAA
6746248 AAATATTTTTAAGATAAA
1 AAATATTTTTAAGATAAA
6746266 AA
1 AA
6746268 TAATAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
AAATATTTTTAAGATAAA
Found at i:6749339 original size:16 final size:15
Alignment explanation
Indices: 6749319--6749386 Score: 91
Period size: 16 Copynumber: 4.3 Consensus size: 15
6749309 TGCAGGAATG
6749319 GAATAGAGCTGTAAT
1 GAATAGAGCTGTAAT
*
6749334 GTAATAGAGTTGTAAT
1 G-AATAGAGCTGTAAT
6749350 GGAATAGAGCTGTAAT
1 -GAATAGAGCTGTAAT
*
6749366 AGAATAGACCTGTAAT
1 -GAATAGAGCTGTAAT
6749382 GAATA
1 GAATA
6749387 ATTCAGTTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.13
16 40 0.85
17 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.25, T:0.28
Consensus pattern (15 bp):
GAATAGAGCTGTAAT
Found at i:6749351 original size:32 final size:32
Alignment explanation
Indices: 6749315--6749386 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
6749305 TAGTTGCAGG
**
6749315 AATGGAATAGAGCTGTAAT-GTAATAGAGTTGT
1 AATGGAATAGAGCTGTAATAG-AATAGACCTGT
6749347 AATGGAATAGAGCTGTAATAGAATAGACCTGT
1 AATGGAATAGAGCTGTAATAGAATAGACCTGT
6749379 AAT-GAATA
1 AATGGAATA
6749387 ATTCAGTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 5 0.14
32 31 0.84
33 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (32 bp):
AATGGAATAGAGCTGTAATAGAATAGACCTGT
Found at i:6755865 original size:20 final size:21
Alignment explanation
Indices: 6755827--6755865 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
6755817 ATTCAATTCT
*
6755827 TTTTATTTTCTTTAATTTTCC
1 TTTTATTTTCTCTAATTTTCC
*
6755848 TTTTA-TTTCTCTATTTTT
1 TTTTATTTTCTCTAATTTT
6755866 TTGTTCTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTATTTTCTCTAATTTTCC
Found at i:6756552 original size:21 final size:20
Alignment explanation
Indices: 6756526--6756571 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
6756516 GGGTACAATT
*
6756526 ATGAAAGGGAGAAGAAAGAAA
1 ATGAAAGGAAGAAG-AAGAAA
*
6756547 ATGAAAGGAAGGAGAAGAAA
1 ATGAAAGGAAGAAGAAGAAA
6756567 A-GAAA
1 ATGAAA
6756572 AAGGTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 7 0.30
21 12 0.52
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.04
Consensus pattern (20 bp):
ATGAAAGGAAGAAGAAGAAA
Found at i:6757162 original size:57 final size:57
Alignment explanation
Indices: 6757097--6757211 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
6757087 ATTCAATATC
6757097 AAAATATTATAAGATAACCGTAACTCTCTTGATCATATCAATGGTGATACAATATAA
1 AAAATATTATAAGATAACCGTAACTCTCTTGATCATATCAATGGTGATACAATATAA
*
6757154 AAAATATTATAAGATAACTGTAACTCTCTTGATCATATCAATGGTGATACAATATAA
1 AAAATATTATAAGATAACCGTAACTCTCTTGATCATATCAATGGTGATACAATATAA
6757211 A
1 A
6757212 TGTTTTACTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.32
Consensus pattern (57 bp):
AAAATATTATAAGATAACCGTAACTCTCTTGATCATATCAATGGTGATACAATATAA
Found at i:6759394 original size:16 final size:15
Alignment explanation
Indices: 6759385--6759422 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
6759375 AAAGATAGCT
6759385 AAAGAAAAAGAAGAG
1 AAAGAAAAAGAAGAG
6759400 AAAGAAAAA-AA-AG
1 AAAGAAAAAGAAGAG
*
6759413 AAAGAGAAAG
1 AAAGAAAAAG
6759423 CCATTAGTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAAGAG
Found at i:6760865 original size:2 final size:2
Alignment explanation
Indices: 6760858--6760891 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6760848 TCATCTTTAA
6760858 AT AT AT AT 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
6760892 CCCTCGTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6763095 original size:5 final size:5
Alignment explanation
Indices: 6763085--6763131 Score: 85
Period size: 5 Copynumber: 9.4 Consensus size: 5
6763075 TAAGTATAAA
*
6763085 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TGTAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
6763132 GTTTAGTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:6763137 original size:5 final size:5
Alignment explanation
Indices: 6763129--6763166 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
6763119 TTATATTGTA
*
6763129 TTAGT TTAGT TTGGT TTAGT TTAGT TTAGT TTAGT TTA
1 TTAGT TTAGT TTAGT TTAGT TTAGT TTAGT TTAGT TTA
6763167 ATAATAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.61
Consensus pattern (5 bp):
TTAGT
Found at i:6764525 original size:16 final size:16
Alignment explanation
Indices: 6764487--6764525 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
6764477 TAAGAGATAA
6764487 GAATTGATAGTGTTAT
1 GAATTGATAGTGTTAT
6764503 GAA-TGAT-GTGTTAT
1 GAATTGATAGTGTTAT
6764517 GAAATTGAT
1 G-AATTGAT
6764526 TATTTGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.38
15 6 0.29
16 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (16 bp):
GAATTGATAGTGTTAT
Found at i:6765532 original size:19 final size:20
Alignment explanation
Indices: 6765502--6765540 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
6765492 AAAGGGACAT
6765502 TATGATTAAATTATGATGTG
1 TATGATTAAATTATGATGTG
*
6765522 TATGA-TAAATTATTATGTG
1 TATGATTAAATTATGATGTG
6765541 ATTGTTCGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (20 bp):
TATGATTAAATTATGATGTG
Found at i:6768957 original size:39 final size:39
Alignment explanation
Indices: 6768911--6769089 Score: 232
Period size: 39 Copynumber: 4.6 Consensus size: 39
6768901 GCTCTGGTGA
*
6768911 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTCTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
6768950 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTCTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * * *
6768989 GCTTCAGTCAGCCTTCGGCCTTCTGTTTTGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* **
6769028 GCTTCAGCTAAACTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * **
6769067 GCTTTAGCTAAACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
6769090 AGATCACGAA
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 127 1.00
ACGTcount: A:0.13, C:0.28, G:0.22, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:6770809 original size:19 final size:17
Alignment explanation
Indices: 6770772--6770814 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
6770762 GTGGTATTAT
* *
6770772 CATAATTCAATTCATAA
1 CATAAATCAATTCAAAA
6770789 CATCAAATCAAGTTCAAAA
1 CAT-AAATCAA-TTCAAAA
6770808 CATAAAT
1 CATAAAT
6770815 GCACAAGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (17 bp):
CATAAATCAATTCAAAA
Found at i:6781267 original size:18 final size:18
Alignment explanation
Indices: 6781240--6781275 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6781230 AAATATAATA
* *
6781240 TTAAATAATTATTTTATT
1 TTAAAAAATTATATTATT
6781258 TTAAAAAATTATATTATT
1 TTAAAAAATTATATTATT
6781276 AAAAATATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAAAAAATTATATTATT
Found at i:6786745 original size:2 final size:2
Alignment explanation
Indices: 6786738--6786773 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
6786728 GCGAGTGAAG
* *
6786738 GA GA GA GA GA GA TA GA GA GA GA GA GA GA TA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6786774 CAAGAAACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.44, T:0.06
Consensus pattern (2 bp):
GA
Found at i:6786757 original size:16 final size:16
Alignment explanation
Indices: 6786738--6786773 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
6786728 GCGAGTGAAG
6786738 GAGAGAGAGAGATAGA
1 GAGAGAGAGAGATAGA
6786754 GAGAGAGAGAGATAGA
1 GAGAGAGAGAGATAGA
6786770 GAGA
1 GAGA
6786774 CAAGAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.44, T:0.06
Consensus pattern (16 bp):
GAGAGAGAGAGATAGA
Found at i:6787185 original size:18 final size:18
Alignment explanation
Indices: 6787158--6787202 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
6787148 GACAACATAA
6787158 CATATACATATACATATG
1 CATATACATATACATATG
* * *
6787176 CATATGCATATGCATGTG
1 CATATACATATACATATG
*
6787194 CATTTACAT
1 CATATACAT
6787203 GGGCATGCTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (18 bp):
CATATACATATACATATG
Found at i:6787187 original size:6 final size:6
Alignment explanation
Indices: 6787158--6787196 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
6787148 GACAACATAA
* * *
6787158 CATATA CATATA CATATG CATATG CATATG CATGTG CAT
1 CATATG CATATG CATATG CATATG CATATG CATATG CAT
6787197 TTACATGGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (6 bp):
CATATG
Found at i:6788841 original size:26 final size:25
Alignment explanation
Indices: 6788794--6788858 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
6788784 AGTTTCCAAA
6788794 TTTAGTTATTTTTATTTGTGTTGTG
1 TTTAGTTATTTTTATTTGTGTTGTG
* *
6788819 TTTATTTATTATTTA-TTGATGTTTTG
1 TTTAGTTATT-TTTATTTG-TGTTGTG
*
6788845 TTTTAATTATTTTT
1 -TTTAGTTATTTTT
6788859 TTTATATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 12 0.35
26 13 0.38
27 9 0.26
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (25 bp):
TTTAGTTATTTTTATTTGTGTTGTG
Found at i:6788845 original size:28 final size:24
Alignment explanation
Indices: 6788794--6788858 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 24
6788784 AGTTTCCAAA
*
6788794 TTTAGTTATTTTTATTTGTGTTGT
1 TTTAATTATTTTTATTTGTGTTGT
* *
6788818 GTTTATTTATTATTTATTGATGTTTTGT
1 -TTTAATTATT-TTTATT--TGTGTTGT
6788846 TTTAATTATTTTT
1 TTTAATTATTTTT
6788859 TTTATATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 9 0.26
26 9 0.26
27 9 0.26
28 7 0.21
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (24 bp):
TTTAATTATTTTTATTTGTGTTGT
Found at i:6789290 original size:16 final size:16
Alignment explanation
Indices: 6789269--6789301 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6789259 GAAATTAATA
6789269 ATAATATTATTAA-ATT
1 ATAATA-TATTAATATT
6789285 ATAATATATTAATATT
1 ATAATATATTAATATT
6789301 A
1 A
6789302 ATATCCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATATATTAATATT
Found at i:6789365 original size:10 final size:11
Alignment explanation
Indices: 6789350--6789389 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
6789340 TTATTTTTTT
6789350 TAAAATTAA-A
1 TAAAATTAATA
6789360 TAAAATTAATA
1 TAAAATTAATA
*
6789371 T-AAA-TAATT
1 TAAAATTAATA
6789380 TAAAATTAAT
1 TAAAATTAAT
6789390 TACATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
9 5 0.19
10 15 0.58
11 6 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAAATTAATA
Found at i:6790816 original size:18 final size:19
Alignment explanation
Indices: 6790789--6790827 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
6790779 CTGGACTTTG
*
6790789 ATTTGCTGAACTTTCA-GC
1 ATTTGCTGAAATTTCATGC
*
6790807 ATTTGTTGAAATTTCATGC
1 ATTTGCTGAAATTTCATGC
6790826 AT
1 AT
6790828 GGAATTGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (19 bp):
ATTTGCTGAAATTTCATGC
Found at i:6791427 original size:1 final size:1
Alignment explanation
Indices: 6791423--6791461 Score: 60
Period size: 1 Copynumber: 39.0 Consensus size: 1
6791413 GAATGAGATC
* *
6791423 TTTTTTTTCTTTTCTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6791462 GTGAAGGGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:6793311 original size:25 final size:26
Alignment explanation
Indices: 6793269--6793322 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
6793259 GACTTTAAAC
* *
6793269 ACCTAAACTATCAGACCCAAAAC-AA
1 ACCTAAACTAACAAACCCAAAACTAA
*
6793294 ACCTAATCTAACAAACCCAAAACTAA
1 ACCTAAACTAACAAACCCAAAACTAA
6793320 ACC
1 ACC
6793323 ATACACCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.52, C:0.33, G:0.02, T:0.13
Consensus pattern (26 bp):
ACCTAAACTAACAAACCCAAAACTAA
Found at i:6794413 original size:3 final size:3
Alignment explanation
Indices: 6794394--6794458 Score: 103
Period size: 3 Copynumber: 21.7 Consensus size: 3
6794384 TATTAAATAA
* * *
6794394 ATT AAT ATT ACT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6794442 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
6794459 ATAATTTGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:6794637 original size:3 final size:3
Alignment explanation
Indices: 6794629--6794694 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
6794619 TCAAAATTTA
* * * * *
6794629 TAT TAT TAT T-T TAAT TAT AAT TCT TGT TGT TAT TAT TAT TGT TAT
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
6794674 TAT TGT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
6794695 CATTTGTTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
2 2 0.04
3 48 0.92
4 2 0.04
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6794745 original size:23 final size:24
Alignment explanation
Indices: 6794685--6794746 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 24
6794675 ATTGTTATTA
6794685 TTATTATTATCATTTGTTATTTTGTT
1 TTATTATT-T-ATTTGTTATTTTGTT
*
6794711 TTATT-TAATATTT-TTATTTTGTT
1 TTATTAT-TTATTTGTTATTTTGTT
6794734 TTATTATTTATTT
1 TTATTATTTATTT
6794747 ATTTATTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
23 20 0.62
24 5 0.16
25 2 0.06
26 5 0.16
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.73
Consensus pattern (24 bp):
TTATTATTTATTTGTTATTTTGTT
Found at i:6794746 original size:4 final size:4
Alignment explanation
Indices: 6794733--6794762 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
6794723 TTTATTTTGT
6794733 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
6794763 TACTATTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:6800258 original size:13 final size:14
Alignment explanation
Indices: 6800242--6800277 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
6800232 CAATCTCATA
6800242 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
6800255 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
6800268 TCTC-ATTTCA
1 TCTCAATTTCA
6800278 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:6800267 original size:18 final size:19
Alignment explanation
Indices: 6800229--6800269 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
6800219 TGGTTCATGT
6800229 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
6800248 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
6800266 TTTC
1 TTTC
6800270 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:6800930 original size:15 final size:15
Alignment explanation
Indices: 6800910--6800956 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
6800900 TATTATATAT
6800910 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
6800925 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
6800940 TTCAATCAATATAAA
1 TTCAATCAATATAAA
6800955 TT
1 TT
6800957 TGATTAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:6801753 original size:2 final size:2
Alignment explanation
Indices: 6801746--6801781 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
6801736 ATTTATTTAC
6801746 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6801782 ATAAAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:6801950 original size:31 final size:32
Alignment explanation
Indices: 6801892--6801955 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
6801882 CATACATTTG
*
6801892 TCATAATTTAATATATTTATTACATAAAAATC
1 TCATAATATAATATATTTATTACATAAAAATC
*
6801924 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTACATAAAAATC
6801955 T
1 T
6801956 TATTTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TCATAATATAATATATTTATTACATAAAAATC
Found at i:6802487 original size:13 final size:14
Alignment explanation
Indices: 6802469--6802497 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6802459 GATTAACTTC
6802469 ATAAATATTTT-TA
1 ATAAATATTTTCTA
6802482 ATAAATATTTTCTA
1 ATAAATATTTTCTA
6802496 AT
1 AT
6802498 CCATTTTTCA
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:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATATTTTCTA
Found at i:6803838 original size:14 final size:15
Alignment explanation
Indices: 6803816--6803844 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6803806 AAAAAAAGGG
6803816 AAGAGAAAAGAAAAA
1 AAGAGAAAAGAAAAA
6803831 AAGA-AAAAGAAAAA
1 AAGAGAAAAGAAAAA
6803845 GAAAAATGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAGAGAAAAGAAAAA
Found at i:6804753 original size:44 final size:44
Alignment explanation
Indices: 6804689--6805123 Score: 219
Period size: 44 Copynumber: 9.7 Consensus size: 44
6804679 CAAAACAAAC
* **
6804689 CTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATTACGAAT
* * *
6804733 ATTATCTCCCTAAAGTTGCAGTGGAGCAAACTGAAGA-TAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA-ATTA-CGAAT
* * *
6804778 CTTATTTCCCTCAAGTTGCAGTGGAACTTATTGAAGCT-ATAATTAC-AGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGC--A--G-A-CTGA-AATTACGA-AT
* * * * * *
6804828 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-TAA-CACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATTACGAAT
* * ** *
6804869 CTTATCTTCCTGAAGTTGCAATGGAGCAGGTTAAAATTAC-AAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATTACGAA-T
*
6804913 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA-ATTACGAAT
* * * ** *
6804958 CTTATTTCCCTGAAGTCGTAGTGGAATATGTTGAAGCTATAAATTAC-AGAT
1 CTTATCTCCCTGAAGTTGCAGTGG---A-GCAG-A-CT-GAAATTACGA-AT
* * * * *
6805009 CTTATCTCTCTGAAATTGCAGTAGAGCAGA-TCAAA--ACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATTACGAAT
* * * * ** ** *
6805050 ATTATCTCCTTAAAGTTGTAGTGGAGTTGGTTGAAATCAC-AAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATTACGAA-T
*
6805094 CTTATCTTCCTGAAGTTGCAGTGGAGCAGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA
6805124 TTAAAACGAC
Statistics
Matches: 292, Mismatches: 68, Indels: 62
0.69 0.16 0.15
Matches are distributed among these distances:
41 52 0.18
42 9 0.03
43 10 0.03
44 89 0.30
45 56 0.19
46 4 0.01
47 3 0.01
48 3 0.01
49 3 0.01
50 30 0.10
51 31 0.11
52 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATTACGAAT
Found at i:6804927 original size:85 final size:88
Alignment explanation
Indices: 6804683--6805123 Score: 285
Period size: 85 Copynumber: 4.9 Consensus size: 88
6804673 CAAGATCAAA
* * *
6804683 ACAAACCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACGAA-TATTATCTCCCTAAA
1 ACAAACCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTAAAATTAC-AAGTCTTATCTCCCTGAA
* *
6804747 GTTGCAGTGGAGCAAACTGAAGAT
65 GTTGCAGTGGAGCAGACTGAAGAC
* * * * * *
6804771 AGCGAATCTTAT-TTCCCTCAAGTTGCAGTGGAACTTATTGAAGCTATAATTAC-AGATCTTATC
1 A-CAAACCTTATCTT-CCTGAAGTTGCAGTGGAGC--A--G--GTTAAAATTACAAG-TCTTATC
* * *
6804834 TCTCTGAAGTTGCAGTAGAGCAGA-T-TA-AC
57 TCCCTGAAGTTGCAGTGGAGCAGACTGAAGAC
*
6804863 ACAAACCTTATCTTCCTGAAGTTGCAATGGAGCAGGTTAAAATTACAAGTCTTATCTCCCTGAAG
1 ACAAACCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTAAAATTACAAGTCTTATCTCCCTGAAG
*
6804928 TTGCAGTGGAGCAGACTGAAGATA
66 TTGCAGTGGAGCAGACTGAAGA-C
* * * * * * *
6804952 ACGAATCTTAT-TTCCCTGAAGTCGTAGTGGAATATGTTGAAGCTATAAATTAC-AGATCTTATC
1 ACAAACCTTATCTT-CCTGAAGTTGCAGTGG---A-G--CAGGTTA-AAATTACAAG-TCTTATC
* * * *
6805015 TCTCTGAAATTGCAGTAGAGCAGA-TCAA-A-
57 TCCCTGAAGTTGCAGTGGAGCAGACTGAAGAC
** * * ** * * *
6805044 ACAAATATTATC-TCCTTAAAGTTGTAGTGGAGTTGGTTGAAATCACAAGTCTTATCTTCCTGAA
1 ACAAACCTTATCTTCC-TGAAGTTGCAGTGGAGCAGGTTAAAATTACAAGTCTTATCTCCCTGAA
6805108 GTTGCAGTGGAGCAGA
65 GTTGCAGTGGAGCAGA
6805124 TTAAAACGAC
Statistics
Matches: 274, Mismatches: 51, Indels: 59
0.71 0.13 0.15
Matches are distributed among these distances:
85 71 0.26
86 7 0.03
87 2 0.01
88 7 0.03
89 49 0.18
91 27 0.10
92 27 0.10
93 4 0.01
94 2 0.01
95 43 0.16
96 35 0.13
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.30
Consensus pattern (88 bp):
ACAAACCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTAAAATTACAAGTCTTATCTCCCTGAAG
TTGCAGTGGAGCAGACTGAAGAC
Found at i:6804994 original size:180 final size:181
Alignment explanation
Indices: 6804675--6805123 Score: 654
Period size: 180 Copynumber: 2.5 Consensus size: 181
6804665 CGATATAGCA
*
6804675 AGATCAAAACAAACCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACGAA-TATTATC
1 AGATCAAAACAAACCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTGAAATTAC-AAGTCTTATC
* * * *
6804739 TCCCTAAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATTTCCCTCAAGTTGCAGTGGAA
65 TCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTCAAGTCGCAGTGGAA
*
6804804 CTTATTGAAGCTAT-AATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGC
130 CTTATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAATTGCAGTAGAGC
* * * *
6804855 AGATTAACACAAACCTTATCTTCCTGAAGTTGCAATGGAGCAGGTTAAAATTACAAGTCTTATCT
1 AGATCAAAACAAACCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCT
* *
6804920 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTCGTAGTGGAA-
66 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTCAAGTCGCAGTGGAAC
*
6804984 TATGTTGAAGCTATAAATTACAGATCTTATCTCTCTGAAATTGCAGTAGAGC
131 T-TATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAATTGCAGTAGAGC
** * * ** *
6805036 AGATCAAAACAAATATTATC-TCCTTAAAGTTGTAGTGGAGTTGGTTGAAATCACAAGTCTTATC
1 AGATCAAAACAAACCTTATCTTCC-TGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATC
*
6805100 TTCCTGAAGTTGCAGTGGAGCAGA
65 TCCCTGAAGTTGCAGTGGAGCAGA
6805124 TTAAAACGAC
Statistics
Matches: 240, Mismatches: 25, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
179 3 0.01
180 129 0.54
181 108 0.45
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (181 bp):
AGATCAAAACAAACCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCT
CCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTCAAGTCGCAGTGGAAC
TTATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAATTGCAGTAGAGC
Found at i:6806736 original size:3 final size:3
Alignment explanation
Indices: 6806728--6806875 Score: 113
Period size: 3 Copynumber: 49.0 Consensus size: 3
6806718 TTTTAGCTAC
* * *
6806728 ATT ATT ATT A-A ATT AATT AAT ATT ACT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
6806773 ACT ATTT ATT ATT ATTT ATT ACT ATT ATC ATT ATT CTT ATT ATC ATG
1 ATT A-TT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
6806820 CTT ATT ATT ATT ACT ATT ATT AAT A-T GTT ATT ATT CTTT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
6806864 ATT ATT ATT ATT
1 ATT ATT ATT ATT
6806876 TGTTTTATTT
Statistics
Matches: 112, Mismatches: 26, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
2 4 0.04
3 98 0.88
4 10 0.09
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:6806884 original size:59 final size:59
Alignment explanation
Indices: 6806762--6806874 Score: 151
Period size: 59 Copynumber: 1.9 Consensus size: 59
6806752 ACTATTATTA
* *
6806762 TTATTATTATTACTATTTATTATTATTTATTACTATTATCATTATTCTTATTATCATGC
1 TTATTATTATTACTATTTATTAATATTTATTACTATTATCATTATTATTATTATCATGC
*
6806821 TTATTATTATTACTA-TTATTAATATGTTATTATTCT-TTAT-TTTATTATTATTAT
1 TTATTATTATTACTATTTATTAATAT-TTATTA--CTATTATCATTATTATTATTAT
6806875 TTGTTTTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
58 9 0.19
59 33 0.69
60 4 0.08
61 2 0.04
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (59 bp):
TTATTATTATTACTATTTATTAATATTTATTACTATTATCATTATTATTATTATCATGC
Found at i:6807038 original size:3 final size:3
Alignment explanation
Indices: 6807030--6807080 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
6807020 TCAAAATTTA
* * *
6807030 TAT TAT TAT TAT T-T TAAT TAT AAT TCT TGT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6807075 TAT TAT
1 TAT TAT
6807081 CATTTTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6809361 original size:3 final size:3
Alignment explanation
Indices: 6809347--6809388 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
6809337 TCACGCCATA
*
6809347 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6809389 TTAAAAGCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6812076 original size:17 final size:16
Alignment explanation
Indices: 6812043--6812077 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6812033 TTAATTTTTA
6812043 TTATATAAAAAATATT
1 TTATATAAAAAATATT
* *
6812059 TTATATTAAAAATAAT
1 TTATATAAAAAATATT
6812075 TTA
1 TTA
6812078 AAAATTCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTATATAAAAAATATT
Found at i:6812158 original size:21 final size:21
Alignment explanation
Indices: 6812116--6812165 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
6812106 AATATTTAAA
*
6812116 AAAATAGATATTAAAATTTTAT
1 AAAATA-ATATTAAAATGTTAT
*
6812138 CAAATAATATTTAAAA-GTTAT
1 AAAATAATA-TTAAAATGTTAT
6812159 AAAATAA
1 AAAATAA
6812166 AACTCATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (21 bp):
AAAATAATATTAAAATGTTAT
Found at i:6812212 original size:13 final size:13
Alignment explanation
Indices: 6812194--6812227 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6812184 AAAATTAGAG
6812194 AATTAAAACAAAA
1 AATTAAAACAAAA
* *
6812207 AATTAATATAAAA
1 AATTAAAACAAAA
6812220 AATTAAAA
1 AATTAAAA
6812228 ACCGAACTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (13 bp):
AATTAAAACAAAA
Found at i:6812705 original size:3 final size:3
Alignment explanation
Indices: 6812697--6812730 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
6812687 AAAAACACTC
6812697 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6812731 GACATCTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6816122 original size:16 final size:18
Alignment explanation
Indices: 6816082--6816124 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
6816072 TGCACTGTCA
6816082 TTTT-ATTTTTCTATCCC
1 TTTTAATTTTTCTATCCC
*
6816099 TTTCAATTTTTC-AT-CC
1 TTTTAATTTTTCTATCCC
6816115 TTTTAATTTT
1 TTTTAATTTT
6816125 CTTTTCACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 11 0.48
17 5 0.22
18 7 0.30
ACGTcount: A:0.16, C:0.19, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTAATTTTTCTATCCC
Found at i:6824235 original size:27 final size:27
Alignment explanation
Indices: 6824205--6824259 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
6824195 TGACTCAGTG
6824205 ACTAAAATATTACAACACGTTAATGTA
1 ACTAAAATATTACAACACGTTAATGTA
* *
6824232 ACTAAAATGTTACAACATGTTAATGTA
1 ACTAAAATATTACAACACGTTAATGTA
6824259 A
1 A
6824260 GTGATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (27 bp):
ACTAAAATATTACAACACGTTAATGTA
Found at i:6825422 original size:15 final size:15
Alignment explanation
Indices: 6825386--6825415 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
6825376 GTAAAATATG
6825386 GATATATAATATAAA
1 GATATATAATATAAA
6825401 GATATAT-ATATAAA
1 GATATATAATATAAA
6825415 G
1 G
6825416 TTCATATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (15 bp):
GATATATAATATAAA
Found at i:6828766 original size:16 final size:16
Alignment explanation
Indices: 6828728--6828762 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6828718 TTAATTTATT
*
6828728 ATAATTATATTATAAG
1 ATAATTATATGATAAG
6828744 ATAATTATATGATAA-
1 ATAATTATATGATAAG
6828759 ATAA
1 ATAA
6828763 ATTAAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (16 bp):
ATAATTATATGATAAG
Found at i:6828878 original size:20 final size:21
Alignment explanation
Indices: 6828841--6828888 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
6828831 ATATATGTAT
*
6828841 TTAATTATTAATAGATATTTA
1 TTAATTATTAAAAGATATTTA
6828862 TTAATTA-TAAAAGATATTTA
1 TTAATTATTAAAAGATATTTA
6828882 TTAATTA
1 TTAATTA
6828889 AATAATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (21 bp):
TTAATTATTAAAAGATATTTA
Found at i:6829018 original size:162 final size:163
Alignment explanation
Indices: 6828690--6829032 Score: 356
Period size: 162 Copynumber: 2.1 Consensus size: 163
6828680 TAATATATAT
* * * * *
6828690 ATATTTATTAGTAATAAATGATATTAAATTAATTTATTATAATTATATTATAAGATAATTATATG
1 ATATTTATTAATTATAAAAGATATTAAATTAATTTATAATAATTATATTATAAGATAATTATATA
*** * * *
6828755 ATAAATAAATTAAATTGTGACAAGTGTGTGATAAAAATAAAATACATGTGTAATAAATATTATGC
66 ATAAATAAATTAAAACATGACAAATGTATGATAAAAATAAAATACATGTGTAATAAATAATAT--
* *
6828820 ATACATTTGTAATATATGTATTTAATTATTAATAG
129 ATACATTTGTAATAAATATATTTAATTATTAATAG
* **
6828855 ATATTTATTAATTATAAAAGATATT-TATTAA-TTA-AATAATTATATTATAAGATTTTTATATA
1 ATATTTATTAATTATAAAAGATATTAAATTAATTTATAATAATTATATTATAAGATAATTATATA
* ** ***
6828917 ATAAATAAATTAAAACATGACAAATGTATGATGATGATATGTTACATGTGTAAATATAAATAATA
66 ATAAATAAATTAAAACATGACAAATGTATGATAAAAATAAAATACATGTGT--A-ATAAATAATA
*
6828982 T-TACAATTT-TAATAAATATA-TTGATTATTAAATAG
128 TATAC-ATTTGTAATAAATATATTTAATTATT-AATAG
*
6829017 ATATTTAATAAGTTAT
1 ATATTTATTAA-TTAT
6829033 TATATTATAT
Statistics
Matches: 148, Mismatches: 24, Indels: 14
0.80 0.13 0.08
Matches are distributed among these distances:
161 8 0.05
162 91 0.61
163 11 0.07
164 6 0.04
165 32 0.22
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.42
Consensus pattern (163 bp):
ATATTTATTAATTATAAAAGATATTAAATTAATTTATAATAATTATATTATAAGATAATTATATA
ATAAATAAATTAAAACATGACAAATGTATGATAAAAATAAAATACATGTGTAATAAATAATATAT
ACATTTGTAATAAATATATTTAATTATTAATAG
Found at i:6829849 original size:17 final size:17
Alignment explanation
Indices: 6829829--6829862 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6829819 ATTGAATTGA
*
6829829 ATTATATATATATATAT
1 ATTATACATATATATAT
6829846 ATTATACATATATATAT
1 ATTATACATATATATAT
6829863 GTGTGTGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTATACATATATATAT
Found at i:6829851 original size:15 final size:15
Alignment explanation
Indices: 6829833--6829862 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6829823 AATTGAATTA
*
6829833 TATATATATATATAT
1 TATACATATATATAT
6829848 TATACATATATATAT
1 TATACATATATATAT
6829863 GTGTGTGTGT
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:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TATACATATATATAT
Found at i:6835269 original size:28 final size:28
Alignment explanation
Indices: 6835238--6835295 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
6835228 TTGTGTAATT
6835238 TTTTTTATTTTTAAGAATTAAGTTTAAA
1 TTTTTTATTTTTAAGAATTAAGTTTAAA
6835266 TTTTTTATTTTTAAGAATTAAGTTTAAA
1 TTTTTTATTTTTAAGAATTAAGTTTAAA
6835294 TT
1 TT
6835296 GATAAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (28 bp):
TTTTTTATTTTTAAGAATTAAGTTTAAA
Found at i:6844505 original size:47 final size:47
Alignment explanation
Indices: 6844406--6844535 Score: 138
Period size: 47 Copynumber: 2.8 Consensus size: 47
6844396 GTTGTAGACA
* * *
6844406 GTAGTTTGGAAGATATTCATCTGAAATCTTATAGTTCTGTTTACACT
1 GTAGTTTGGAAAATGTTCATCTGAAATCTTATAGTACTGTTTACACT
* * * **
6844453 ATAGTTTGGAAAATGCTCATCTGAAATCTTATAGTACTTTTTATGCT
1 GTAGTTTGGAAAATGTTCATCTGAAATCTTATAGTACTGTTTACACT
* *
6844500 GTAGTTCAGG-AAATGTTCATCTCAAAT-TCTATAGTA
1 GTAGTT-TGGAAAATGTTCATCTGAAATCT-TATAGTA
6844536 TTGTGTAGAT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 1 0.01
47 66 0.96
48 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (47 bp):
GTAGTTTGGAAAATGTTCATCTGAAATCTTATAGTACTGTTTACACT
Found at i:6857527 original size:15 final size:17
Alignment explanation
Indices: 6857506--6857546 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
6857496 TTATTTTTTA
6857506 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
6857522 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
6857538 AAAATTATA
1 AAAATTATA
6857547 TTTTTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:6857528 original size:29 final size:29
Alignment explanation
Indices: 6857449--6857529 Score: 74
Period size: 30 Copynumber: 2.8 Consensus size: 29
6857439 TTTAAATTAG
* * *
6857449 AAATTATAAAATTATATATTA-TTCTTCA
1 AAATTATAAAAATATAAATTATTTCTTAA
* * * * *
6857477 AAATAATAAAGATTTAATTTTATTTTTTAA
1 AAATTATAAAAATATAA-ATTATTTCTTAA
6857507 AAATTATAAAAATATAAATTATT
1 AAATTATAAAAATATAAATTATT
6857530 AAAATAATAA
Statistics
Matches: 39, Mismatches: 12, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
28 12 0.31
29 8 0.21
30 19 0.49
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (29 bp):
AAATTATAAAAATATAAATTATTTCTTAA
Found at i:6857568 original size:22 final size:22
Alignment explanation
Indices: 6857506--6857568 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
6857496 TTATTTTTTA
6857506 AAAATTATAAAAATATAAATTATT
1 AAAATTATAAAAATAT--ATTATT
* * *
6857530 AAAATAATAAAATTATATTTTT
1 AAAATTATAAAAATATATTATT
**
6857552 ACTATTATAAAAATATA
1 AAAATTATAAAAATATA
6857569 CAATTTAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
22 18 0.56
24 14 0.44
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTATAAAAATATATTATT
Found at i:6860124 original size:25 final size:25
Alignment explanation
Indices: 6860096--6860145 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
6860086 CGTCTGTTAG
6860096 TTTTCTCTTTCCTTTCCTTTGATTT
1 TTTTCTCTTTCCTTTCCTTTGATTT
6860121 TTTTCTCTTTCCTTTCCTTTGATTT
1 TTTTCTCTTTCCTTTCCTTTGATTT
6860146 CTCCTTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.04, C:0.24, G:0.04, T:0.68
Consensus pattern (25 bp):
TTTTCTCTTTCCTTTCCTTTGATTT
Found at i:6860154 original size:25 final size:25
Alignment explanation
Indices: 6860099--6860154 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
6860089 CTGTTAGTTT
**
6860099 TCTCTTTCCTTTCCTTTGATTTTTT
1 TCTCTTTCCTTTCCTTTGATTTTCC
6860124 TCTCTTTCCTTTCCTTTGATTTCTCC
1 TCTCTTTCCTTTCCTTTGATTT-TCC
6860150 T-TCTT
1 TCTCTT
6860155 CTATTAGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 26 0.93
26 2 0.07
ACGTcount: A:0.04, C:0.29, G:0.04, T:0.64
Consensus pattern (25 bp):
TCTCTTTCCTTTCCTTTGATTTTCC
Found at i:6861433 original size:21 final size:21
Alignment explanation
Indices: 6861409--6861500 Score: 166
Period size: 21 Copynumber: 4.4 Consensus size: 21
6861399 ACTACAAATT
6861409 GCCTCCTGCTGCTTTTGCACC
1 GCCTCCTGCTGCTTTTGCACC
*
6861430 GCCTCCTGCCGCTTTTGCACC
1 GCCTCCTGCTGCTTTTGCACC
6861451 GCCTCCTGCTGCTTTTGCACC
1 GCCTCCTGCTGCTTTTGCACC
6861472 GCCTCCTGCTGCTTTTGCACC
1 GCCTCCTGCTGCTTTTGCACC
*
6861493 TCCTCCTG
1 GCCTCCTG
6861501 TAAGTGTCAC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 68 1.00
ACGTcount: A:0.04, C:0.45, G:0.18, T:0.33
Consensus pattern (21 bp):
GCCTCCTGCTGCTTTTGCACC
Found at i:6866731 original size:2 final size:2
Alignment explanation
Indices: 6866724--6866748 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6866714 ACTATGAATA
6866724 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
6866749 AATCATCTAT
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:6867181 original size:18 final size:17
Alignment explanation
Indices: 6867149--6867182 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6867139 TATTATTTTA
6867149 TGATATTGTAATAATAG
1 TGATATTGTAATAATAG
*
6867166 TGATATATGTACTAATA
1 TGATAT-TGTAATAATA
6867183 TTTTTAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (17 bp):
TGATATTGTAATAATAG
Found at i:6878426 original size:12 final size:12
Alignment explanation
Indices: 6878409--6878434 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6878399 GTTGTTTTCT
6878409 TTTAACTAATCC
1 TTTAACTAATCC
6878421 TTTAACTAATCC
1 TTTAACTAATCC
6878433 TT
1 TT
6878435 CTCCTATTCT
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:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTAACTAATCC
Found at i:6881886 original size:108 final size:108
Alignment explanation
Indices: 6881697--6881910 Score: 419
Period size: 108 Copynumber: 2.0 Consensus size: 108
6881687 GGTTTGAAGT
6881697 TATAGATGTGCAGAAACTGATGGCTGGTGATTGGGTCCTGACTCTGGAGCTTGACTTGGCTAACT
1 TATAGATGTGCAGAAACTGATGGCTGGTGATTGGGTCCTGACTCTGGAGCTTGACTTGGCTAACT
6881762 TCATTCCTTCTAAATGGGGGTTCCAACAATAAAATTCCAAAGA
66 TCATTCCTTCTAAATGGGGGTTCCAACAATAAAATTCCAAAGA
6881805 TATAGATGTGCAGAAACTGATGGCTGGTGATTGGGTCCTGACTCTGGAGCTTGACTTGGCTAACT
1 TATAGATGTGCAGAAACTGATGGCTGGTGATTGGGTCCTGACTCTGGAGCTTGACTTGGCTAACT
*
6881870 TCATTCCTTCTAAATGGGGGTTCTAACAATAAAATTCCAAA
66 TCATTCCTTCTAAATGGGGGTTCCAACAATAAAATTCCAAA
6881911 TGACCGATTC
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (108 bp):
TATAGATGTGCAGAAACTGATGGCTGGTGATTGGGTCCTGACTCTGGAGCTTGACTTGGCTAACT
TCATTCCTTCTAAATGGGGGTTCCAACAATAAAATTCCAAAGA
Found at i:6889686 original size:2 final size:2
Alignment explanation
Indices: 6889679--6889708 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6889669 TTACCATAGT
6889679 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6889709 AAAGATGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6898546 original size:17 final size:17
Alignment explanation
Indices: 6898520--6898555 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6898510 TGTTTGTTTA
*
6898520 TAAAAATTATTTATTTT
1 TAAAAATTATTTAATTT
*
6898537 TAAAATTTATTTAATTT
1 TAAAAATTATTTAATTT
6898554 TA
1 TA
6898556 GTTATTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TAAAAATTATTTAATTT
Found at i:6899352 original size:23 final size:23
Alignment explanation
Indices: 6899325--6899368 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
6899315 TTTTAACCAT
6899325 TTGTA-ATTATATTGTACTTGTGA
1 TTGTACATTAT-TTGTACTTGTGA
6899348 TTGTACATTATTTGTACTTGT
1 TTGTACATTATTTGTACTTGT
6899369 AAACTTACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.23, C:0.07, G:0.16, T:0.55
Consensus pattern (23 bp):
TTGTACATTATTTGTACTTGTGA
Found at i:6902346 original size:28 final size:30
Alignment explanation
Indices: 6902314--6902371 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
6902304 TTTGAAGCCA
*
6902314 TTTTTTTATCA-A-TGTAAAATTAAACTTC
1 TTTTTTGATCAGAGTGTAAAATTAAACTTC
* *
6902342 TTTTTTGGTCAGAGTGTAACATTAAACTTC
1 TTTTTTGATCAGAGTGTAAAATTAAACTTC
6902372 ATATAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 9 0.36
29 1 0.04
30 15 0.60
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (30 bp):
TTTTTTGATCAGAGTGTAAAATTAAACTTC
Found at i:6905921 original size:4 final size:4
Alignment explanation
Indices: 6905912--6905936 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6905902 TTGAGAGAAA
6905912 AGTG AGTG AGTG AGTG AGTG AGTG A
1 AGTG AGTG AGTG AGTG AGTG AGTG A
6905937 CCCTTTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.48, T:0.24
Consensus pattern (4 bp):
AGTG
Found at i:6907453 original size:2 final size:2
Alignment explanation
Indices: 6907446--6907482 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6907436 GAAATGGATT
6907446 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6907483 TTTTGAGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:6908746 original size:69 final size:69
Alignment explanation
Indices: 6908635--6908774 Score: 280
Period size: 69 Copynumber: 2.0 Consensus size: 69
6908625 AACTTCAAAG
6908635 TCATCTACTTAATCATTACTACTAAATTTGTTAGTTAAAATTTACAATCTACCTTAAACAAGTAA
1 TCATCTACTTAATCATTACTACTAAATTTGTTAGTTAAAATTTACAATCTACCTTAAACAAGTAA
6908700 TCAT
66 TCAT
6908704 TCATCTACTTAATCATTACTACTAAATTTGTTAGTTAAAATTTACAATCTACCTTAAACAAGTAA
1 TCATCTACTTAATCATTACTACTAAATTTGTTAGTTAAAATTTACAATCTACCTTAAACAAGTAA
6908769 TCAT
66 TCAT
6908773 TC
1 TC
6908775 TTACCAACCC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (69 bp):
TCATCTACTTAATCATTACTACTAAATTTGTTAGTTAAAATTTACAATCTACCTTAAACAAGTAA
TCAT
Found at i:6917538 original size:105 final size:104
Alignment explanation
Indices: 6917408--6917617 Score: 402
Period size: 105 Copynumber: 2.0 Consensus size: 104
6917398 GTCCTACTAC
6917408 ATATTTGTTGCTTCTTCTCCTTTATAACATTTCCATTTCATGTGTTCTTAAATTAAACTGTCTTC
1 ATATTTGTTGCTTCTTCTCCTTTATAACATTTCCATTTCATGTGTTCTTAAATTAAACTGTC-TC
6917473 CTTTTCCTGCATGTCATCCTAATTTCAGCAGATGAAATGA
65 CTTTTCCTGCATGTCATCCTAATTTCAGCAGATGAAATGA
6917513 ATATTTGTTGCTTCTTCTCCTTTATAACATTTCCATTTCATGTGTTCTTAAATTAAACTGTCTCC
1 ATATTTGTTGCTTCTTCTCCTTTATAACATTTCCATTTCATGTGTTCTTAAATTAAACTGTCTCC
*
6917578 TTTTCCTGCCTGTCATCCTAATTTCAGCAGATGAAATGA
66 TTTTCCTGCATGTCATCCTAATTTCAGCAGATGAAATGA
6917617 A
1 A
6917618 AAGTAGCCAT
Statistics
Matches: 104, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
104 42 0.40
105 62 0.60
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.44
Consensus pattern (104 bp):
ATATTTGTTGCTTCTTCTCCTTTATAACATTTCCATTTCATGTGTTCTTAAATTAAACTGTCTCC
TTTTCCTGCATGTCATCCTAATTTCAGCAGATGAAATGA
Found at i:6921448 original size:16 final size:16
Alignment explanation
Indices: 6921427--6921457 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6921417 AACTGAATAT
*
6921427 ATACATTCATATATAC
1 ATACATACATATATAC
6921443 ATACATACATATATA
1 ATACATACATATATA
6921458 TATAGAGAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.35
Consensus pattern (16 bp):
ATACATACATATATAC
Found at i:6924174 original size:27 final size:27
Alignment explanation
Indices: 6924143--6924196 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
6924133 ATTGTGGCAG
6924143 AGAATTTCATAAATTATGGTTCAACAA
1 AGAATTTCATAAATTATGGTTCAACAA
6924170 AGAATTTCATAAATTATGGTTCAACAA
1 AGAATTTCATAAATTATGGTTCAACAA
6924197 TTATTTGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (27 bp):
AGAATTTCATAAATTATGGTTCAACAA
Found at i:6925040 original size:25 final size:24
Alignment explanation
Indices: 6924984--6925044 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
6924974 AACGAGAGAA
*
6924984 ATTTTTCATTTCCTTTTATTCTTTT
1 ATTTTTC-TTTTCTTTTATTCTTTT
* *
6925009 ATCTTTCTTTTCTTTTCTTCTTTTT
1 ATTTTTCTTTTCTTTTATTC-TTTT
*
6925034 TTTTTTCTTTT
1 ATTTTTCTTTT
6925045 TGAGAAGGCG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (24 bp):
ATTTTTCTTTTCTTTTATTCTTTT
Found at i:6925105 original size:10 final size:11
Alignment explanation
Indices: 6925079--6925104 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6925069 AGGGAAAGAG
6925079 AAAAAGAAAAA
1 AAAAAGAAAAA
6925090 AAAAAGAAAAA
1 AAAAAGAAAAA
6925101 AAAA
1 AAAA
6925105 GCCCTAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:6929659 original size:2 final size:2
Alignment explanation
Indices: 6929652--6929677 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6929642 TACCAATTGA
6929652 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
6929678 TAATTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6930122 original size:5 final size:5
Alignment explanation
Indices: 6930114--6930142 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
6930104 AAAAATTAAA
6930114 ATTTG ATTTG ATTTG ATTTG ATTTG ATTT
1 ATTTG ATTTG ATTTG ATTTG ATTTG ATTT
6930143 AAACAATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.17, T:0.62
Consensus pattern (5 bp):
ATTTG
Found at i:6931136 original size:21 final size:22
Alignment explanation
Indices: 6931106--6931146 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
6931096 TTGTTGTTGG
6931106 ATATCATAAATG-ATCACATCA
1 ATATCATAAATGCATCACATCA
*
6931127 ATATCCTAAATGCATCACAT
1 ATATCATAAATGCATCACAT
6931147 TTACCATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (22 bp):
ATATCATAAATGCATCACATCA
Found at i:6935559 original size:13 final size:14
Alignment explanation
Indices: 6935517--6935561 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
6935507 TAATAATGAT
6935517 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
6935532 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
6935545 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
6935558 TAAA
1 TAAA
6935562 ACAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:6936445 original size:18 final size:18
Alignment explanation
Indices: 6936422--6936485 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
6936412 ACATTGTGAT
6936422 CTGAAGCCCGAAGTCTAA
1 CTGAAGCCCGAAGTCTAA
**
6936440 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CCGAAGT-CT-AA
* *
6936461 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGTCTAA
6936479 CTGAAGC
1 CTGAAGC
6936486 TCACCAGAGC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 15 0.42
19 7 0.19
20 6 0.17
21 8 0.22
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.14
Consensus pattern (18 bp):
CTGAAGCCCGAAGTCTAA
Found at i:6940391 original size:20 final size:20
Alignment explanation
Indices: 6940363--6940411 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
6940353 CCCATGGCCT
*
6940363 GGCCCCACGACCATGTCCCA
1 GGCCACACGACCATGTCCCA
**
6940383 GGCCACACGGTCATGTCCCA
1 GGCCACACGACCATGTCCCA
6940403 GGCCACACG
1 GGCCACACG
6940412 GGCGTGTGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.45, G:0.24, T:0.10
Consensus pattern (20 bp):
GGCCACACGACCATGTCCCA
Found at i:6940412 original size:20 final size:20
Alignment explanation
Indices: 6940374--6940412 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
6940364 GCCCCACGAC
6940374 CATGTCCCAGGCCACACGGT
1 CATGTCCCAGGCCACACGGT
6940394 CATGTCCCAGGCCACACGG
1 CATGTCCCAGGCCACACGG
6940413 GCGTGTGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.41, G:0.26, T:0.13
Consensus pattern (20 bp):
CATGTCCCAGGCCACACGGT
Found at i:6945167 original size:24 final size:24
Alignment explanation
Indices: 6945140--6945199 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
6945130 ATGTATTAAA
6945140 TATATTTAATTATTATCATGGTTT
1 TATATTTAATTATTATCATGGTTT
** * *
6945164 TATATAAAACTATTATTATGGTTT
1 TATATTTAATTATTATCATGGTTT
*
6945188 TATAATT-ATTAT
1 TATATTTAATTAT
6945200 GATTATTTAA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (24 bp):
TATATTTAATTATTATCATGGTTT
Found at i:6948266 original size:29 final size:28
Alignment explanation
Indices: 6948234--6948296 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
6948224 ATTTATTTTG
*
6948234 TTATTCTAATACTATTATTAT-TTATCTAT
1 TTATT-TAATACTAATATTATATT-TCTAT
**
6948263 TTATATTTCTACTAATATTATATTTCTAT
1 TTAT-TTAATACTAATATTATATTTCTAT
6948292 TTATT
1 TTATT
6948297 ATATTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 1 0.03
29 25 0.86
30 3 0.10
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (28 bp):
TTATTTAATACTAATATTATATTTCTAT
Found at i:6948283 original size:17 final size:15
Alignment explanation
Indices: 6948263--6948302 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
6948253 ATTTATCTAT
6948263 TTATATTTCTACTAATA
1 TTATATTTCTA-T-ATA
*
6948280 TTATATTTCTATTTA
1 TTATATTTCTATATA
6948295 TTATATTT
1 TTATATTT
6948303 TTATTTCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.45
16 1 0.05
17 11 0.50
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATATTTCTATATA
Found at i:6948298 original size:15 final size:15
Alignment explanation
Indices: 6948263--6948308 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
6948253 ATTTATCTAT
*
6948263 TTATATTTCTACTAATA
1 TTATATTTCTA-T-TTA
6948280 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
6948295 TTATATTTTTATTT
1 TTATATTTCTATTT
6948309 CTATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 15 0.56
16 1 0.04
17 11 0.41
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:6948331 original size:38 final size:37
Alignment explanation
Indices: 6948242--6948345 Score: 88
Period size: 38 Copynumber: 2.7 Consensus size: 37
6948232 TGTTATTCTA
* *
6948242 ATACTATTATTATTTA-TCTATTTATATTTCTACTAAT
1 ATACTA-TATTATTTATTATATTTTTATTTCTACTAAT
*
6948279 ATTA-TATTTCTATTTATTATATTTTTATTTCTA-TATAT
1 A-TACTATAT-TATTTATTATATTTTTATTTCTACTA-AT
6948317 ATACTAGTATTATTTTCATTATTATTTTT
1 ATACTA-TATTA-TTT-ATTA-TATTTTT
6948346 CTTATATATG
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 23 0.43
39 5 0.09
40 4 0.07
41 7 0.13
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.62
Consensus pattern (37 bp):
ATACTATATTATTTATTATATTTTTATTTCTACTAAT
Found at i:6948354 original size:40 final size:42
Alignment explanation
Indices: 6948245--6948354 Score: 98
Period size: 46 Copynumber: 2.5 Consensus size: 42
6948235 TATTCTAATA
* * * *
6948245 CTATTATTATTTATCTATTTATATTTCTACTAATATTATATTT
1 CTATTATTATTTTTCT-TATATATATATACTAATATTATATTT
* * *
6948288 CTATTTATTATATTTTTATTTCTATATATATACTAGTATTAT-TTT
1 CTA-TTA-T-TATTTTT-CTTATATATATATACTAATATTATATTT
6948333 C-ATTATTATTTTTCTTATATAT
1 CTATTATTATTTTTCTTATATAT
6948355 GTTTTTTACT
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
40 7 0.13
41 7 0.13
42 1 0.02
43 6 0.11
44 4 0.07
45 5 0.09
46 24 0.44
47 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.62
Consensus pattern (42 bp):
CTATTATTATTTTTCTTATATATATATACTAATATTATATTT
Found at i:6948507 original size:25 final size:25
Alignment explanation
Indices: 6948452--6948508 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
6948442 CGCTCATTTT
* *
6948452 AAATTTTTATACATTATTTACTTTA
1 AAATTTTCATACATTATGTACTTTA
* *
6948477 ATATTTTCATATATTATGTA-TTTCA
1 AAATTTTCATACATTATGTACTTT-A
6948502 AAATTTT
1 AAATTTT
6948509 TTTTATACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (25 bp):
AAATTTTCATACATTATGTACTTTA
Found at i:6950830 original size:2 final size:2
Alignment explanation
Indices: 6950825--6950850 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6950815 TTTTTTTCTA
6950825 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
6950851 TGCAAGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6951118 original size:2 final size:2
Alignment explanation
Indices: 6951107--6951142 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
6951097 TAAAATAACG
6951107 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6951143 GACCTAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6951680 original size:12 final size:12
Alignment explanation
Indices: 6951665--6951704 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
6951655 AATTATGATA
*
6951665 AAAATTTATAAT
1 AAAATTAATAAT
*
6951677 AAAATTAATATT
1 AAAATTAATAAT
6951689 AAAATATAATAAT
1 AAAAT-TAATAAT
6951702 AAA
1 AAA
6951705 TATAAATTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 15 0.62
13 9 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAATTAATAAT
Found at i:6951698 original size:13 final size:13
Alignment explanation
Indices: 6951672--6951709 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
6951662 ATAAAAATTT
6951672 ATAATAAAAT-TA
1 ATAATAAAATATA
*
6951684 ATATTAAAATATA
1 ATAATAAAATATA
6951697 ATAAT-AAATATA
1 ATAATAAAATATA
6951709 A
1 A
6951710 ATTGAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 17 0.74
13 6 0.26
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAATAAAATATA
Found at i:6957435 original size:32 final size:32
Alignment explanation
Indices: 6957399--6957496 Score: 187
Period size: 32 Copynumber: 3.1 Consensus size: 32
6957389 TAGTGTCAAA
6957399 CGATTGCCGACTGTTTAATTGTTGTACTGAGT
1 CGATTGCCGACTGTTTAATTGTTGTACTGAGT
*
6957431 CGATTGCCGACTGTTTAATTGTTGTACTTAGT
1 CGATTGCCGACTGTTTAATTGTTGTACTGAGT
6957463 CGATTGCCGACTGTTTAATTGTTGTACTGAGT
1 CGATTGCCGACTGTTTAATTGTTGTACTGAGT
6957495 CG
1 CG
6957497 TGTATCTTAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.41
Consensus pattern (32 bp):
CGATTGCCGACTGTTTAATTGTTGTACTGAGT
Found at i:6961525 original size:17 final size:18
Alignment explanation
Indices: 6961486--6961539 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 18
6961476 ACCATTAAAT
* *
6961486 TAATTATATATTTATTAAA
1 TAATTATAT-TTAATTCAA
6961505 TAATT-TATTTAATTCAA
1 TAATTATATTTAATTCAA
*
6961522 TAATTAGATTTAA-TCAA
1 TAATTATATTTAATTCAA
6961539 T
1 T
6961540 TGGACTGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 17 0.55
18 9 0.29
19 5 0.16
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (18 bp):
TAATTATATTTAATTCAA
Found at i:6970611 original size:46 final size:52
Alignment explanation
Indices: 6970528--6970722 Score: 148
Period size: 53 Copynumber: 4.0 Consensus size: 52
6970518 TTGCAAATAG
* * * ** *
6970528 TCACA-TATCACA--CACCGAAGCCATAGCTCTGCCATGGTCTTACACGG-A
1 TCACATTATCACATTCACCGATGCCATAGCCCAGATATGGTCTTATACGGAA
*
6970576 TCACA-TAT-A-A-T-ACCGATGCCATATCCCAGATATGGTCTTATACGGAA
1 TCACATTATCACATTCACCGATGCCATAGCCCAGATATGGTCTTATACGGAA
* *
6970623 TCACATTATCACATTGCACCGATGCCATAGCCTAGCTATGGTCTTATACGGGAA
1 TCACATTATCACATT-CACCGATGCCATAGCCCAGATATGGTCTTATAC-GGAA
* * * *
6970677 -CAC-GTATCACATTGCACTGATGCC--A-CCCAGCTATGGTTTTATACGG
1 TCACATTATCACATT-CACCGATGCCATAGCCCAGATATGGTCTTATACGG
6970723 GCGCACATAT
Statistics
Matches: 124, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
46 28 0.23
47 7 0.06
48 13 0.10
49 18 0.15
50 2 0.02
51 1 0.01
52 19 0.15
53 32 0.26
54 4 0.03
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (52 bp):
TCACATTATCACATTCACCGATGCCATAGCCCAGATATGGTCTTATACGGAA
Found at i:6970734 original size:49 final size:51
Alignment explanation
Indices: 6970587--6970737 Score: 173
Period size: 53 Copynumber: 2.9 Consensus size: 51
6970577 CACATATAAT
* *
6970587 ACCGATGCCATATCCCAGATATGGTCTTATAC-GGAATCACATTATCACATTGC
1 ACCGATGCCA-AGCCCAGCTATGGTCTTATACGGGAA-CACA-TATCACATTGC
* *
6970640 ACCGATGCCATAGCCTAGCTATGGTCTTATACGGGAACACGTATCACATTGC
1 ACCGATGCCA-AGCCCAGCTATGGTCTTATACGGGAACACATATCACATTGC
* * **
6970692 ACTGATGCC-A-CCCAGCTATGGTTTTATACGGGCGCACATATCACAT
1 ACCGATGCCAAGCCCAGCTATGGTCTTATACGGGAACACATATCACAT
6970738 CTTTTCCGTC
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
49 31 0.36
50 1 0.01
52 19 0.22
53 32 0.37
54 4 0.05
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (51 bp):
ACCGATGCCAAGCCCAGCTATGGTCTTATACGGGAACACATATCACATTGC
Found at i:6975539 original size:17 final size:17
Alignment explanation
Indices: 6975513--6975552 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
6975503 TTTACAGAAT
*
6975513 CAAATTTTCTAAAATTG
1 CAAATCTTCTAAAATTG
*
6975530 CAAATCTTCTAAGATTG
1 CAAATCTTCTAAAATTG
6975547 CAAATC
1 CAAATC
6975553 CTCTTAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.35
Consensus pattern (17 bp):
CAAATCTTCTAAAATTG
Found at i:6975562 original size:18 final size:17
Alignment explanation
Indices: 6975520--6975563 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
6975510 AATCAAATTT
* *
6975520 TCTAAAATTGCAAATCT
1 TCTAAGATTGCAAATCC
6975537 TCTAAGATTGCAAATCC
1 TCTAAGATTGCAAATCC
6975554 TCTTAAGATT
1 TC-TAAGATT
6975564 ACTTCCCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (17 bp):
TCTAAGATTGCAAATCC
Found at i:6976344 original size:31 final size:31
Alignment explanation
Indices: 6976303--6976365 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
6976293 ATTATATCTA
6976303 TATTTAATTTATTATTGATTTAGAGAATAAT
1 TATTTAATTTATTATTGATTTAGAGAATAAT
* *
6976334 TATTTTATTTATTATTTATTTAGAGAATAAT
1 TATTTAATTTATTATTGATTTAGAGAATAAT
6976365 T
1 T
6976366 GAAGAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.56
Consensus pattern (31 bp):
TATTTAATTTATTATTGATTTAGAGAATAAT
Done.