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 13 of 345
Found at i:4544376 original size:15 final size:16
Alignment explanation
Indices: 4544346--4544378 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4544336 TTATATGTCC
*
4544346 TTTTTTTATATATTTA
1 TTTTTTAATATATTTA
4544362 TTTTTTAATAT-TTTA
1 TTTTTTAATATATTTA
4544377 TT
1 TT
4544379 ATATCTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTAATATATTTA
Found at i:4544716 original size:12 final size:12
Alignment explanation
Indices: 4544699--4544727 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
4544689 GTTGGATTAT
4544699 TTGATGTTGAAA
1 TTGATGTTGAAA
4544711 TTGATGTTGAAA
1 TTGATGTTGAAA
4544723 TTGAT
1 TTGAT
4544728 CGATTCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (12 bp):
TTGATGTTGAAA
Found at i:4553115 original size:5 final size:5
Alignment explanation
Indices: 4553105--4553134 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
4553095 TGTTTTAGGG
*
4553105 ATATT ATATT ATATT ATACT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT
4553135 TATGTAAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:4554075 original size:13 final size:13
Alignment explanation
Indices: 4554051--4554084 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
4554041 CAAATCTATC
4554051 ATTTTAATGTTTT
1 ATTTTAATGTTTT
4554064 -TTTTATATGTTTT
1 ATTTTA-ATGTTTT
4554077 ATTTTAAT
1 ATTTTAAT
4554085 ATCCACAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.26
13 9 0.47
14 5 0.26
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (13 bp):
ATTTTAATGTTTT
Found at i:4558601 original size:130 final size:130
Alignment explanation
Indices: 4558455--4558689 Score: 434
Period size: 130 Copynumber: 1.8 Consensus size: 130
4558445 ATGTGTTCTA
* *
4558455 AATTATATAATATATAAAAATAACATAATATAAAATATTATAAACTTAAAACCGGGTCGGACTCA
1 AATTATATAATATATAAAAATAACATAATATAAAATATTATAAACTTAAAACCGGATCAGACTCA
* *
4558520 AGTCTTGAATATCTAAGCCCAAGCCCAAATCCAAGTCCAAGCCAACCCATATTTTAAACGGACTT
66 AATCTTGAATATCTAAGCCCAAGCCCAAATCCAAATCCAAGCCAACCCATATTTTAAACGGACTT
4558585 AATTATATAATATATAAAAATAACATAATATAAAATATTATAAACTTAAAACCGGATCAGACTCA
1 AATTATATAATATATAAAAATAACATAATATAAAATATTATAAACTTAAAACCGGATCAGACTCA
4558650 AATCTTGAATATCTAAGCCCAAGCCCAAATCCAAATCCAA
66 AATCTTGAATATCTAAGCCCAAGCCCAAATCCAAATCCAA
4558690 ACCCAATCCT
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
130 101 1.00
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.26
Consensus pattern (130 bp):
AATTATATAATATATAAAAATAACATAATATAAAATATTATAAACTTAAAACCGGATCAGACTCA
AATCTTGAATATCTAAGCCCAAGCCCAAATCCAAATCCAAGCCAACCCATATTTTAAACGGACTT
Found at i:4562452 original size:17 final size:16
Alignment explanation
Indices: 4562423--4562465 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
4562413 AAAATATTAA
*
4562423 AAAAAACTAAAAATCT
1 AAAAAACTAAAAATCC
*
4562439 AAAAAGCTAGAAAATCC
1 AAAAAACTA-AAAATCC
4562456 -AAAAACTAAA
1 AAAAAACTAAA
4562466 TTTTTTCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 2 0.09
16 15 0.65
17 6 0.26
ACGTcount: A:0.67, C:0.14, G:0.05, T:0.14
Consensus pattern (16 bp):
AAAAAACTAAAAATCC
Found at i:4565937 original size:52 final size:48
Alignment explanation
Indices: 4565875--4566049 Score: 194
Period size: 47 Copynumber: 3.6 Consensus size: 48
4565865 GAAATGTGAT
* *
4565875 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
4565927 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * *
4565974 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * *
4566020 ATCCGTGTAAGACCATGGCTGGGCTATGGC
1 TTCCGTATAAGACCATAGCTGGGATATGGC
4566050 CTCGGTATGT
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
46 23 0.21
47 54 0.50
50 1 0.01
51 1 0.01
52 29 0.27
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:4571449 original size:28 final size:28
Alignment explanation
Indices: 4571418--4571484 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
4571408 TACAGTAGTT
4571418 TCTGAAAAAATAAATTAGAGAAGACGTA
1 TCTGAAAAAATAAATTAGAGAAGACGTA
* * *
4571446 TCTGAAAAAATAATTTTGAGAAGACGTT
1 TCTGAAAAAATAAATTAGAGAAGACGTA
*
4571474 TCTGAACAAAT
1 TCTGAAAAAAT
4571485 TGTGTCAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.27
Consensus pattern (28 bp):
TCTGAAAAAATAAATTAGAGAAGACGTA
Found at i:4571685 original size:125 final size:126
Alignment explanation
Indices: 4571448--4571696 Score: 403
Period size: 125 Copynumber: 2.0 Consensus size: 126
4571438 AAGACGTATC
* *
4571448 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATTGTGTCAAAAACGCTTCAAGCAGGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGC
* * *
4571513 ATGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGGCACTT-TTTTTTTACAGTAGTTTA
66 ATGTCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGACACTTCTTTTTCTACAGTAGTTTA
*
4571573 TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGC
* *
4571638 ACTGTCAGCAAAAGTACTAAAAAAAGCTCCCATGTGGACGC-TCTTTTTCTACAGTAGTT
66 A-TGTCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGACACTTCTTTTTCTACAGTAGTT
4571697 CCTATTTGGC
Statistics
Matches: 114, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
125 64 0.56
126 50 0.44
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.28
Consensus pattern (126 bp):
TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGC
ATGTCAGCAAAAGTACTAAAAAAAGCTCCCACGTGGACACTTCTTTTTCTACAGTAGTTTA
Found at i:4572361 original size:15 final size:15
Alignment explanation
Indices: 4572341--4572371 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4572331 GTGACAAAAA
4572341 AGGAAATTTTGGGTT
1 AGGAAATTTTGGGTT
4572356 AGGAAATTTTGGGTT
1 AGGAAATTTTGGGTT
4572371 A
1 A
4572372 TGTCAATATT
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:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
AGGAAATTTTGGGTT
Found at i:4574680 original size:46 final size:46
Alignment explanation
Indices: 4574628--4574752 Score: 171
Period size: 46 Copynumber: 2.7 Consensus size: 46
4574618 GTGTGCTCAT
* * *
4574628 TGATATGAAATGTGTAAGACCATGGTTGAAAGGTACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGGTACCATGACAACA
* * *
4574674 TGATATGAAATGAATAAGACCATGTTTGAAAGATACCATGACAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGGTACCATGACAACA
*
4574720 TGATA-GAAAATGAGTAAGACCATAGTTGAAAGG
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGG
4574753 CATTATGGCT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 1 0.01
46 67 0.99
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGGTACCATGACAACA
Found at i:4580015 original size:30 final size:30
Alignment explanation
Indices: 4579981--4580064 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 30
4579971 GTTGGGCTCG
*
4579981 GTGATTATGTGGGCGCTGTTGATGGGCCTA
1 GTGATTGTGTGGGCGCTGTTGATGGGCCTA
* * * *
4580011 GTGATTGTATGGCCGCTGTTGATGGGCTTG
1 GTGATTGTGTGGGCGCTGTTGATGGGCCTA
* *
4580041 GTAATTGTGTGGGCGCTATTGATG
1 GTGATTGTGTGGGCGCTGTTGATG
4580065 AGCTCGCGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.13, C:0.12, G:0.39, T:0.36
Consensus pattern (30 bp):
GTGATTGTGTGGGCGCTGTTGATGGGCCTA
Found at i:4580577 original size:7 final size:7
Alignment explanation
Indices: 4580567--4580592 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4580557 TTATATACAT
4580567 AATACTA
1 AATACTA
4580574 AATACTA
1 AATACTA
4580581 AATACTA
1 AATACTA
4580588 AATAC
1 AATAC
4580593 GAATCGACTA
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:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:4588505 original size:28 final size:28
Alignment explanation
Indices: 4588464--4588543 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 28
4588454 TTTAAAATGT
*
4588464 ATATTTATATTATATTATTTTAATATT-TA
1 ATATTT-TA-TATATTATTTTAATATTGAA
*
4588493 ATAATTTTATATATT-TTTTATTTATTGAA
1 AT-ATTTTATATATTATTTTA-ATATTGAA
*
4588522 ATATTTTATATAGTTATCTTAA
1 ATATTTTATATA-TTATTTTAA
4588544 CATTATTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
27 5 0.12
28 20 0.48
29 9 0.21
30 8 0.19
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (28 bp):
ATATTTTATATATTATTTTAATATTGAA
Found at i:4590935 original size:21 final size:19
Alignment explanation
Indices: 4590911--4590958 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
4590901 TGTATTTATT
4590911 TATAAATAAATCAT-TACAATA
1 TATAAA-AAATCATGT-CAA-A
4590932 TATACAAAAATCATGTCAAA
1 TATA-AAAAATCATGTCAAA
4590952 TATAAAA
1 TATAAAA
4590959 TTATTGATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 3 0.12
20 5 0.20
21 14 0.56
22 3 0.12
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.29
Consensus pattern (19 bp):
TATAAAAAATCATGTCAAA
Found at i:4592564 original size:11 final size:11
Alignment explanation
Indices: 4592550--4592601 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
4592540 TCTTTCAATA
4592550 TTCTCTCAAAT
1 TTCTCTCAAAT
4592561 TTCTCTCAAA-
1 TTCTCTCAAAT
4592571 -TCTCTCAAAT
1 TTCTCTCAAAT
*
4592581 TTCTCTTAAAT
1 TTCTCTCAAAT
*
4592592 TCCTCTCAAA
1 TTCTCTCAAA
4592602 ACTCTCGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:4592576 original size:20 final size:21
Alignment explanation
Indices: 4592544--4592601 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 21
4592534 CTTCAATCTT
4592544 TCAATATTCTCTCAAATTTCTC
1 TCAA-ATTCTCTCAAATTTCTC
4592566 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTTCTC
*
4592586 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
4592602 ACTCTCGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 19 0.58
21 2 0.06
22 12 0.36
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTTCTC
Found at i:4592657 original size:16 final size:15
Alignment explanation
Indices: 4592628--4592658 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4592618 TCAAAAAAGC
*
4592628 TCTAATTTTATTTTT
1 TCTAAATTTATTTTT
4592643 TCTAAATTTATTTTT
1 TCTAAATTTATTTTT
4592658 T
1 T
4592659 AAAATAAAAA
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:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTAAATTTATTTTT
Found at i:4594299 original size:30 final size:30
Alignment explanation
Indices: 4594258--4594323 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
4594248 TGACGAAGCA
* *
4594258 GGCCCATCAACAGTGGCC-ACACAATCACCC
1 GGCCCAGCAACAG-GACCTACACAATCACCC
* *
4594288 GGCCCAGCAACAGGACCTACACAGTCACCG
1 GGCCCAGCAACAGGACCTACACAATCACCC
4594318 GGCCCA
1 GGCCCA
4594324 ACAGTTCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 3 0.10
30 28 0.90
ACGTcount: A:0.29, C:0.42, G:0.21, T:0.08
Consensus pattern (30 bp):
GGCCCAGCAACAGGACCTACACAATCACCC
Found at i:4594413 original size:18 final size:18
Alignment explanation
Indices: 4594377--4594419 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
4594367 TGCCAAGTAC
* *
4594377 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCATTATAT
*
4594395 GTATCTTAGCCATTATAT
1 GTATCCTAGCCATTATAT
*
4594413 GTTTCCT
1 GTATCCT
4594420 TTTTCTAGTC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.19, C:0.23, G:0.12, T:0.47
Consensus pattern (18 bp):
GTATCCTAGCCATTATAT
Found at i:4595008 original size:116 final size:116
Alignment explanation
Indices: 4594804--4595533 Score: 1264
Period size: 116 Copynumber: 6.3 Consensus size: 116
4594794 TATTTGTACA
* * *
4594804 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAATGTTGCTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
4594869 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAGTAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
4594920 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
4594985 TATAATTTACTTTTATATTTTTAATAAAATGGAAA-TATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
4595035 AACATTTTGAATATTTTTATATTATTTCATTTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
4595100 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
4595151 AACATTTTGAATATTTTTATATTATTTCATGTAACTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
4595216 TGTAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * *
4595267 AACATTTTGAATATTTTTATATTATTCCATGTAATTAAATAAAAGGTTGTTTTAAATAAAGTAAC
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
4595332 TGTAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * * *
4595383 AACATTTTGAATATTTTTATATTATTTCATATGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* * * *
4595448 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGT
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
4595499 AATATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
4595534 AAAATATAAA
Statistics
Matches: 583, Mismatches: 30, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
115 112 0.19
116 471 0.81
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:4598706 original size:126 final size:125
Alignment explanation
Indices: 4598474--4598888 Score: 625
Period size: 126 Copynumber: 3.3 Consensus size: 125
4598464 GCCCAAGTTA
* * * *
4598474 TTTCAGAAACCACTGTAGCAAAAGAGCGTCTACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTCTTTCAGTAATTTTGCTGAAAA
* *
4598539 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGTAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTT-ACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* *
4598600 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTAGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTCTTTCAGTAATTTTGCTGAAAA
* * *
4598665 TGCATCCCGCTTGAAGTGTTTTTACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTA-CACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* * *
4598726 TTTTAGAGACTACTGTAGCAAAAGAGCGTCCACGT-GGAAGCTTCTTTCAGTAATTTTGCTGACA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTAGG-AGCTTCTTTCAGTAATTTTGCTGAAA
* *
4598790 ATGCATCCTGCTTGAAGCGTTTTTGGCACTATTTACGCAGACACGTCTTCTCAAATTTATTT
65 ATGCATCCTGCTTGAAGCGTTTTT-ACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* *
4598852 TTTCACAGACTACTGTAGCAAAAGAGCGTCCACGTAG
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTAG
4598889 AAACTTTTTT
Statistics
Matches: 262, Mismatches: 23, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
125 3 0.01
126 258 0.98
127 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (125 bp):
TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTCTTTCAGTAATTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
Found at i:4604281 original size:18 final size:17
Alignment explanation
Indices: 4604254--4604290 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
4604244 ATGTTACTAT
*
4604254 ATTAATAAATATTTAAAA
1 ATTAAAAAATA-TTAAAA
4604272 ATTAAAAAATATTAAAA
1 ATTAAAAAATATTAAAA
4604289 AT
1 AT
4604291 AAATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTAAAAAATATTAAAA
Found at i:4604474 original size:30 final size:30
Alignment explanation
Indices: 4604440--4604496 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
4604430 ATAGACAAGT
*
4604440 AAGTTTAGATTAAAAGGAGTTAGAAAAATG
1 AAGTTTAGATTAAAAGGAGCTAGAAAAATG
4604470 AAGTTTAGATTAAAAGGAGCTAGAAAA
1 AAGTTTAGATTAAAAGGAGCTAGAAAA
4604497 TCATTTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.51, C:0.02, G:0.23, T:0.25
Consensus pattern (30 bp):
AAGTTTAGATTAAAAGGAGCTAGAAAAATG
Found at i:4604493 original size:15 final size:15
Alignment explanation
Indices: 4604444--4604493 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
4604434 ACAAGTAAGT
4604444 TTAGATTAAAAGGAG
1 TTAGATTAAAAGGAG
*
4604459 TTAGA--AAAATGAAG
1 TTAGATTAAAA-GGAG
4604473 TTTAGATTAAAAGGAG
1 -TTAGATTAAAAGGAG
*
4604489 CTAGA
1 TTAGA
4604494 AAATCATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
13 4 0.14
14 3 0.11
15 14 0.50
16 3 0.11
17 4 0.14
ACGTcount: A:0.48, C:0.02, G:0.24, T:0.26
Consensus pattern (15 bp):
TTAGATTAAAAGGAG
Found at i:4604584 original size:10 final size:10
Alignment explanation
Indices: 4604555--4604605 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
4604545 AACTATATAT
4604555 AATTATTAAA
1 AATTATTAAA
*
4604565 ATTTATTTAAA
1 AATTA-TTAAA
*
4604576 AATTATTAAT
1 AATTATTAAA
*
4604586 AATTA-TAAG
1 AATTATTAAA
*
4604595 AATTAATAAA
1 AATTATTAAA
4604605 A
1 A
4604606 TAAGATTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 8 0.24
10 17 0.50
11 9 0.26
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
AATTATTAAA
Found at i:4604706 original size:2 final size:2
Alignment explanation
Indices: 4604653--4604686 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4604643 GAATAAGAAG
4604653 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
4604687 GTGTGTGTGT
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:4604825 original size:19 final size:18
Alignment explanation
Indices: 4604775--4604826 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
4604765 ATAATCATTA
*
4604775 TTTATAATTATTAATAAT
1 TTTATAATTATTTATAAT
*
4604793 TTT-TAAATACATTTATATAT
1 TTTAT-AAT-TATTTATA-AT
4604813 TTTATAATTATTTA
1 TTTATAATTATTTA
4604827 AGAAACCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
17 1 0.04
18 6 0.22
19 11 0.41
20 8 0.30
21 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTATAATTATTTATAAT
Found at i:4607199 original size:11 final size:11
Alignment explanation
Indices: 4607183--4607253 Score: 64
Period size: 11 Copynumber: 6.9 Consensus size: 11
4607173 GATTTTTTTA
4607183 AAATAATTATT
1 AAATAATTATT
4607194 AAATAATTA-T
1 AAATAATTATT
* *
4607204 ACA-AACTA-T
1 AAATAATTATT
*
4607213 ATATAATTATT
1 AAATAATTATT
4607224 AAA-AATTATTT
1 AAATAATTA-TT
4607235 AAA-AATTATT
1 AAATAATTATT
4607245 -AATAATTAT
1 AAATAATTAT
4607254 AAGAATTAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
9 9 0.18
10 20 0.39
11 22 0.43
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (11 bp):
AAATAATTATT
Found at i:4607323 original size:2 final size:2
Alignment explanation
Indices: 4607316--4607347 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4607306 GAATAAGAAG
4607316 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
4607348 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4607352 original size:2 final size:2
Alignment explanation
Indices: 4607347--4607376 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4607337 TATATATATA
4607347 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
4607377 CGCGCGCATA
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:4608087 original size:22 final size:23
Alignment explanation
Indices: 4608053--4608101 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
4608043 TAAGAATAGT
* *
4608053 GAAAGAAATGAAA-AAGAGAGAAA
1 GAAAGAAAGGAAAGAA-AGAAAAA
4608076 GAAAG-AAGGAAAGAAAGAAAAA
1 GAAAGAAAGGAAAGAAAGAAAAA
4608098 GAAA
1 GAAA
4608102 AGGGAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (23 bp):
GAAAGAAAGGAAAGAAAGAAAAA
Found at i:4612526 original size:79 final size:79
Alignment explanation
Indices: 4612397--4612626 Score: 331
Period size: 79 Copynumber: 2.9 Consensus size: 79
4612387 AATTTATTCC
* * *
4612397 TGATTCACTATGGTAACTTAAGG-CGA-AAGATTTGACCTGAAAAGGGTAATCCTGATTCGCTAC
1 TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTAC
*
4612460 GGTTACATGATATA
66 GGTTACATGATACA
*
4612474 TGATTCATTATGGTAACATAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTAC
1 TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTAC
*
4612539 GGTTACACGATACA
66 GGTTACATGATACA
* * * * *
4612553 TGAATCCTTATGATAACTTAAGGTGGGTAGGATTTGACCTGAAAA-GGTAATCCTGATTCACTAC
1 TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTAC
*
4612617 AGTTACATGA
66 GGTTACATGA
4612627 GATGTGACTC
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
77 21 0.15
78 28 0.20
79 88 0.64
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (79 bp):
TGATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTAC
GGTTACATGATACA
Found at i:4613262 original size:2 final size:2
Alignment explanation
Indices: 4613255--4613282 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4613245 CCAGATCAAT
4613255 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
4613283 AAACAAATCA
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):
TA
Found at i:4613707 original size:66 final size:66
Alignment explanation
Indices: 4613631--4613801 Score: 220
Period size: 66 Copynumber: 2.6 Consensus size: 66
4613621 ACTAACCCAA
* * * *
4613631 AAAATAAAATATTCAAATATAAAATTACACAA-CCTAATTAAATTACTCAATAAATTATCCAAGT
1 AAAATTAAATACTCAAATATAAAATAACACAATCC-AATTAAATTACTCAATAAATTATCCAAAT
4613695 AT
65 AT
** * * *
4613697 AAAATTAAATACTCAAATATAAAATAACTTAATCCAATTAAATTATTTAATTAATTATCCAAATA
1 AAAATTAAATACTCAAATATAAAATAACACAATCCAATTAAATTACTCAATAAATTATCCAAATA
4613762 T
66 T
*
4613763 AAAATTAAATACTCAAATATAGAAA-AACTCAATCCAATT
1 AAAATTAAATACTCAAATATA-AAATAACACAATCCAATT
4613802 TATCATTTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
66 88 0.95
67 5 0.05
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (66 bp):
AAAATTAAATACTCAAATATAAAATAACACAATCCAATTAAATTACTCAATAAATTATCCAAATA
T
Found at i:4613770 original size:20 final size:20
Alignment explanation
Indices: 4613683--4613783 Score: 55
Period size: 20 Copynumber: 4.8 Consensus size: 20
4613673 TTACTCAATA
*
4613683 AATTATCCAAGTATAAAATT
1 AATTATCCAAATATAAAATT
*
4613703 AAATA-CTCAAATATAAAA-T
1 AATTATC-CAAATATAAAATT
**
4613722 AACTTAATCCAATTAAATTATTTAATT
1 AA-TT-ATCC----AAA-TATAAAATT
4613749 AATTATCCAAATATAAAATT
1 AATTATCCAAATATAAAATT
*
4613769 AAATA-CTCAAATATA
1 AATTATC-CAAATATA
4613784 GAAAAACTCA
Statistics
Matches: 62, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
19 5 0.08
20 34 0.55
21 5 0.08
22 1 0.02
25 7 0.11
26 7 0.11
27 3 0.05
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.35
Consensus pattern (20 bp):
AATTATCCAAATATAAAATT
Found at i:4624896 original size:20 final size:22
Alignment explanation
Indices: 4624861--4624907 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
4624851 AAAAAATTAA
4624861 AAAAATAAAAATAATATAT-AT
1 AAAAATAAAAATAATATATAAT
*
4624882 AAAAATCAAAA-AATATATAAT
1 AAAAATAAAAATAATATATAAT
4624903 AAAAA
1 AAAAA
4624908 AGTATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAAATAAAAATAATATATAAT
Found at i:4624916 original size:22 final size:20
Alignment explanation
Indices: 4624860--4624906 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
4624850 TAAAAAATTA
4624860 AAAAAATAAAAATAATATAT
1 AAAAAATAAAAATAATATAT
*
4624880 ATAAAAATCAAAA-AATATAT
1 A-AAAAATAAAAATAATATAT
4624900 AATAAAA
1 AA-AAAA
4624907 AAGTATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.04
20 13 0.54
21 10 0.42
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAAATAAAAATAATATAT
Found at i:4624916 original size:23 final size:22
Alignment explanation
Indices: 4624858--4624917 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
4624848 TTTAAAAAAT
4624858 TAAAAAA-ATAAAAATAATATA
1 TAAAAAATATAAAAATAATATA
4624879 TATAAAAATCA-AAAAAT-ATATAA
1 TA-AAAAAT-ATAAAAATAATAT-A
4624902 TAAAAAAGTATAAAAA
1 TAAAAAA-TATAAAAA
4624918 ATAAAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
21 2 0.06
22 15 0.45
23 15 0.45
24 1 0.03
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (22 bp):
TAAAAAATATAAAAATAATATA
Found at i:4624980 original size:26 final size:28
Alignment explanation
Indices: 4624910--4624967 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
4624900 AATAAAAAAG
*
4624910 TATAAAAAATAAAAATTTATTAATTCCA
1 TATAAAAAATAAAAATTCATTAATTCCA
4624938 TATAAAAAATAAAAATTCATTAATTCCA
1 TATAAAAAATAAAAATTCATTAATTCCA
4624966 TA
1 TA
4624968 AAACAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (28 bp):
TATAAAAAATAAAAATTCATTAATTCCA
Found at i:4625587 original size:29 final size:30
Alignment explanation
Indices: 4625554--4625621 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
4625544 AATAGTTCAT
* * * *
4625554 GTACCAAATTGGACTTTT-TCAAAGTACAA
1 GTACCAAATTAGAATTTTATAAAAATACAA
* *
4625583 GTACCATATTAGAATTTTATAAAAATACAG
1 GTACCAAATTAGAATTTTATAAAAATACAA
4625613 GTACCAAAT
1 GTACCAAAT
4625622 ATGACATTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.31
Consensus pattern (30 bp):
GTACCAAATTAGAATTTTATAAAAATACAA
Found at i:4625994 original size:11 final size:11
Alignment explanation
Indices: 4625980--4626020 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
4625970 TATTTTCTCC
4625980 CTATTTTGCTA
1 CTATTTTGCTA
*
4625991 CTATTTTACTA
1 CTATTTTGCTA
* *
4626002 TTATGTTGCTA
1 CTATTTTGCTA
4626013 CTATTTTG
1 CTATTTTG
4626021 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:4626101 original size:30 final size:30
Alignment explanation
Indices: 4626065--4626122 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
4626055 TATTGTTAAT
4626065 TTTTTTTATTATTTTAAAGACAATTACTAA
1 TTTTTTTATTATTTTAAAGACAATTACTAA
* *
4626095 TTTTTTTATTATTTTAGAGACATTTACT
1 TTTTTTTATTATTTTAAAGACAATTACT
4626123 TGTTAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (30 bp):
TTTTTTTATTATTTTAAAGACAATTACTAA
Found at i:4627946 original size:83 final size:77
Alignment explanation
Indices: 4627801--4627960 Score: 248
Period size: 83 Copynumber: 2.0 Consensus size: 77
4627791 AAAGAATGCC
*
4627801 ATTCAAAGTCTTCTTCCCGCCACATTCATGGTATTTCTCCACAAGAGATCAATTATTATGTGACA
1 ATTCAAAGTATTCTTCCCGCCACATTCATGGTATTTCTCCACAAGAGATCAATTATTATGTGACA
4627866 CCAAAAAAAAGT
66 CCAAAAAAAAGT
*
4627878 ATTCAAAGTATTCTTCCCGCCACATTCATGGTATTTCTCAAATTCCACAAGAGATCAATTATTGT
1 ATTCAAAGTATTCTTCCCGCCACATTCATGGTA-TT-TC----TCCACAAGAGATCAATTATTAT
4627943 GTGACACCAAAAAAAAGT
60 GTGACACCAAAAAAAAGT
4627961 TCCCAAAATA
Statistics
Matches: 75, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
77 32 0.43
78 2 0.03
79 2 0.03
83 39 0.52
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.30
Consensus pattern (77 bp):
ATTCAAAGTATTCTTCCCGCCACATTCATGGTATTTCTCCACAAGAGATCAATTATTATGTGACA
CCAAAAAAAAGT
Found at i:4630289 original size:1 final size:1
Alignment explanation
Indices: 4630283--4630307 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
4630273 AACAGACTGC
4630283 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
4630308 TCATTATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4635077 original size:2 final size:2
Alignment explanation
Indices: 4635070--4635095 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4635060 CTTTCTTACT
4635070 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
4635096 ATCAATTTTT
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):
TA
Found at i:4635826 original size:16 final size:18
Alignment explanation
Indices: 4635805--4635840 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
4635795 ATATTAATGT
4635805 TATTTAAT-TTAAAA-AA
1 TATTTAATATTAAAATAA
4635821 TATTTAATATTAAAATAA
1 TATTTAATATTAAAATAA
4635839 TA
1 TA
4635841 CAAAAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTTAATATTAAAATAA
Found at i:4637209 original size:16 final size:17
Alignment explanation
Indices: 4637188--4637221 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4637178 GGTATATTAA
*
4637188 ATTACAT-TATATATTT
1 ATTACATGTATAGATTT
4637204 ATTACATGTATAGATTT
1 ATTACATGTATAGATTT
4637221 A
1 A
4637222 AGGCCTATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (17 bp):
ATTACATGTATAGATTT
Found at i:4639552 original size:14 final size:14
Alignment explanation
Indices: 4639461--4639554 Score: 50
Period size: 14 Copynumber: 6.7 Consensus size: 14
4639451 TGAATCCCAG
*
4639461 ACCTTGAATCTTAA
1 ACCTTAAATCTTAA
* * *
4639475 ACTTTAAACCTTGA
1 ACCTTAAATCTTAA
* *
4639489 ACCATT-AACCTTGA
1 ACC-TTAAATCTTAA
* *
4639503 ACCTTAGAT-TCTAG
1 ACCTTAAATCT-TAA
* *
4639517 ACCTCAAATCTTGA
1 ACCTTAAATCTTAA
4639531 A-CTCTAAATCTTAA
1 ACCT-TAAATCTTAA
4639545 ACCTTAAATC
1 ACCTTAAATC
4639555 ATATACCCTA
Statistics
Matches: 59, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
13 5 0.08
14 49 0.83
15 5 0.08
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (14 bp):
ACCTTAAATCTTAA
Found at i:4644717 original size:16 final size:18
Alignment explanation
Indices: 4644696--4644728 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
4644686 CATCCTAGCT
4644696 CCAAAAT-ATA-ATAGTA
1 CCAAAATGATAGATAGTA
4644712 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
4644729 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:4645358 original size:45 final size:45
Alignment explanation
Indices: 4645256--4645431 Score: 182
Period size: 45 Copynumber: 4.0 Consensus size: 45
4645246 CGAATTCATC
* * *
4645256 CACCGGCA-TATTGCCTGTTAGGCTCGAA-GCCCG-ATA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-ATCT
* *
4645298 CAACTGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCT
* * * **
4645343 CACCGGCATTATAGCCTACTAAGCTC-AAGGGTCCGGTTAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCGAA-GGCCCGAATAGTATCT
* * *
4645388 CACCGGCATTATAGCCTGTTAGGCTCAAAGGCCCGATTAGTATC
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
4645432 ATACGATATT
Statistics
Matches: 111, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
42 6 0.05
43 18 0.16
44 7 0.06
45 77 0.69
46 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (45 bp):
CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCT
Found at i:4647848 original size:21 final size:21
Alignment explanation
Indices: 4647824--4647894 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
4647814 CCATGGTATC
4647824 TTTCAACCATGGTCTTACACG
1 TTTCAACCATGGTCTTACACG
* * *
4647845 TTTCATATCA-GGTGCCATGATATC-
1 TTTCA-ACCATGGT--C-TTACA-CG
4647869 TTTCAACCATGGTCTTACACG
1 TTTCAACCATGGTCTTACACG
4647890 TTTCA
1 TTTCA
4647895 TATCAGGCTG
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
20 1 0.03
21 16 0.43
22 4 0.11
23 4 0.11
24 11 0.30
25 1 0.03
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACG
Found at i:4647910 original size:91 final size:91
Alignment explanation
Indices: 4647673--4647992 Score: 381
Period size: 91 Copynumber: 3.5 Consensus size: 91
4647663 TTTGACATGA
* * * * * *
4647673 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
** *** *
4647737 CCATGGTCTTATTCATTTCCCCGTCACGT
65 CCATGGTCTTACACATTT-CATATCA-GG
*** *** *
4647766 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
*
4647831 CATGGTCTTACACGTTTCATATCAGG
66 CATGGTCTTACACATTTCATATCAGG
* * *
4647857 TGCCATGATATCTTTCAACCATGGTCTTACACGTTTCATATCAGGCTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
4647922 CATGGTCTTACACATTTCATATCAGG
66 CATGGTCTTACACATTTCATATCAGG
*
4647948 TTGCCATGGTATGTTTCAACCATGGTCTTACACATTTCATATCAG
1 -TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
4647993 ATAGCACACT
Statistics
Matches: 198, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
91 81 0.41
92 49 0.25
93 68 0.34
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.39
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGG
Found at i:4647939 original size:137 final size:138
Alignment explanation
Indices: 4647668--4647992 Score: 393
Period size: 137 Copynumber: 2.4 Consensus size: 138
4647658 TTATCTTTGA
* * * * * * * *
4647668 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCA-GGTGCCATGATATCT
** * * * **
4647732 TTCAACCATGGTCTTATTCATTTCCCCGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATT
64 TTCAACCATGGTCTTACACATTTCCACATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACA
* * *
4647797 TATTTCCCGT
129 CATTTCACAT
*
4647807 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTGCCATGATATCTTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTGCCATGATATCTTT
* * *
4647872 CAACCATGGTCTTACACGTTT-CATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
66 CAACCATGGTCTTACACATTTCCACATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
4647936 TTTCATAT
131 TTTCACAT
* *
4647944 CAGGTTGCCATGGTATGTTTCAACCATGGTCTTACACATTTCATATCAG
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
4647993 ATAGCACACT
Statistics
Matches: 159, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
137 86 0.54
138 37 0.23
139 36 0.23
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (138 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTGCCATGATATCTTT
CAACCATGGTCTTACACATTTCCACATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
TTTCACAT
Found at i:4647992 original size:46 final size:46
Alignment explanation
Indices: 4647673--4647992 Score: 392
Period size: 46 Copynumber: 7.0 Consensus size: 46
4647663 TTTGACATGA
* * * * * *
4647673 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** *** *
4647719 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-CATATCAGGT
*** *** *
4647766 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
4647812 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGG-
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
4647857 TGCCATGATATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
4647903 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
4647949 TGCCATGGTATGTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
4647993 ATAGCACACT
Statistics
Matches: 250, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 47 0.19
46 162 0.65
47 41 0.16
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:4650172 original size:18 final size:20
Alignment explanation
Indices: 4650157--4650193 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4650147 TAATAATAAA
*
4650157 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
4650177 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
4650194 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:4656327 original size:15 final size:14
Alignment explanation
Indices: 4656309--4656339 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
4656299 TTAATTTATT
4656309 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
4656324 TAATAATAATCTAA
1 TAATAATAATCTAA
4656338 TA
1 TA
4656340 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:4656350 original size:21 final size:20
Alignment explanation
Indices: 4656326--4656394 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
4656316 AATGCTAATA
4656326 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
4656347 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
4656366 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
4656387 ATAATAAT
1 ATAATAAT
4656395 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:4656740 original size:12 final size:12
Alignment explanation
Indices: 4656723--4656755 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
4656713 ATTAATTGTA
4656723 AATTAATATTAC
1 AATTAATATTAC
4656735 AATTAATATTAC
1 AATTAATATTAC
4656747 AATTAATAT
1 AATTAATAT
4656756 AATTTACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (12 bp):
AATTAATATTAC
Found at i:4657049 original size:12 final size:13
Alignment explanation
Indices: 4657034--4657063 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
4657024 TCCCTTTTTA
4657034 TTTTCTTTCCCT-
1 TTTTCTTTCCCTG
4657046 TTTTCTTTCCCTG
1 TTTTCTTTCCCTG
4657059 TTTTC
1 TTTTC
4657064 GTTTTGTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.00, C:0.30, G:0.03, T:0.67
Consensus pattern (13 bp):
TTTTCTTTCCCTG
Found at i:4657075 original size:18 final size:18
Alignment explanation
Indices: 4657047--4657089 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
4657037 TCTTTCCCTT
*
4657047 TTTCT-TTCCCTGTTTTCG
1 TTTCTGTTCCCTG-CTTCG
4657065 TTT-TGTTCCCTGCTTCG
1 TTTCTGTTCCCTGCTTCG
4657082 TTTCTGTT
1 TTTCTGTT
4657090 TCTTTTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.00, C:0.26, G:0.14, T:0.60
Consensus pattern (18 bp):
TTTCTGTTCCCTGCTTCG
Found at i:4657105 original size:14 final size:14
Alignment explanation
Indices: 4657081--4657113 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4657071 TCCCTGCTTC
4657081 GTTTCTGTTTCTTTT
1 GTTTCTGTTTC-TTT
4657096 GTTT-TGTTTCTTT
1 GTTTCTGTTTCTTT
4657109 GTTTC
1 GTTTC
4657114 CTTAATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.00, C:0.12, G:0.15, T:0.73
Consensus pattern (14 bp):
GTTTCTGTTTCTTT
Found at i:4657446 original size:15 final size:14
Alignment explanation
Indices: 4657428--4657458 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
4657418 TTAATTTATT
4657428 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
4657443 TAATAATAATCTAA
1 TAATAATAATCTAA
4657457 TA
1 TA
4657459 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:4657469 original size:21 final size:20
Alignment explanation
Indices: 4657445--4657513 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
4657435 AATGCTAATA
4657445 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
4657466 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
4657485 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
4657506 ATAATAAT
1 ATAATAAT
4657514 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:4665804 original size:21 final size:21
Alignment explanation
Indices: 4665780--4665851 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
4665770 CTCTCTGATA
4665780 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
**
4665801 TGAAA-GATACCATAGCAACC-TGGT
1 TGAAATG-T-GTA-AG--ACCATGGT
4665825 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
4665847 TGAAA
1 TGAAA
4665852 GATACCATGG
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
20 1 0.03
21 14 0.36
22 5 0.13
23 4 0.10
24 5 0.13
25 9 0.23
26 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:4665830 original size:46 final size:46
Alignment explanation
Indices: 4665774--4666094 Score: 399
Period size: 46 Copynumber: 7.0 Consensus size: 46
4665764 AGTGTGCTCT
*
4665774 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
4665820 CTGGTATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
4665866 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
4665912 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *** * **
4665958 ATGACAGGAAATAAATAGGACCATGGTTGAAAGATACCATGGCAGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
4666004 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * * * *
4666050 ATGACAAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
4666095 TCATGTCAAA
Statistics
Matches: 244, Mismatches: 30, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
46 211 0.86
47 33 0.14
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:4668026 original size:24 final size:25
Alignment explanation
Indices: 4667994--4668041 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
4667984 TAGGCTATTC
* *
4667994 GTGAGCTTCCCGA-TATGGTTCTTT
1 GTGAACTTCCCGATTATGGCTCTTT
*
4668018 GTGAACTTCCTGATTATGGCTCTT
1 GTGAACTTCCCGATTATGGCTCTT
4668042 ATGAGTTTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.42
Consensus pattern (25 bp):
GTGAACTTCCCGATTATGGCTCTTT
Found at i:4672539 original size:75 final size:76
Alignment explanation
Indices: 4672415--4672574 Score: 270
Period size: 75 Copynumber: 2.1 Consensus size: 76
4672405 GGCCTAAAGA
*
4672415 CCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
1 CCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATAT
4672480 CCGGGTTAAAT
66 CCGGGTTAAAT
* *
4672491 CCCGCAGGCT-TCGTGCTGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATA
1 CCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATA
4672554 TCCGGGTTAAAT
65 TCCGGGTTAAAT
4672566 CCCGCAGGC
1 CCCGCAGGC
4672575 CTAGTGTTGG
Statistics
Matches: 80, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
75 63 0.79
76 17 0.21
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (76 bp):
CCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATAT
CCGGGTTAAAT
Found at i:4672586 original size:38 final size:38
Alignment explanation
Indices: 4672415--4672597 Score: 264
Period size: 38 Copynumber: 4.8 Consensus size: 38
4672405 GGCCTAAAGA
*
4672415 CCCGCAGGCTAT-ATGCTGG-AATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCGTGCTGGTAA-TATATCCGGGTTAAAT
4672453 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
4672491 CCCGCAGGCTTCGTGCT-GTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
*
4672528 CCCGCAGGCTTCGTACTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* * * * *
4672566 CCCGCAGGCCTAGTGTTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGG
4672598 CCTTCGTGCC
Statistics
Matches: 134, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
37 37 0.28
38 95 0.71
39 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
Found at i:4672638 original size:43 final size:44
Alignment explanation
Indices: 4672590--4672714 Score: 184
Period size: 43 Copynumber: 2.9 Consensus size: 44
4672580 GTTGGTATTA
*
4672590 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGA-TGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGAGTGATGCG
*
4672633 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCC-AGTGATGCG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGAGTGATGCG
* * *
4672676 TATTCGGGTCTTCGTGCCTAGCAGGCATAATGCCG-GTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGAGTGA
4672715 AATGATATGT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.01
43 73 0.99
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (44 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGAGTGATGCG
Found at i:4675001 original size:15 final size:15
Alignment explanation
Indices: 4674981--4675011 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4674971 TATGTACTGC
4674981 TTTTTCTATCATTGT
1 TTTTTCTATCATTGT
4674996 TTTTTCTATCATTGT
1 TTTTTCTATCATTGT
4675011 T
1 T
4675012 GAGTTGATTT
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:0.13, C:0.13, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTTCTATCATTGT
Found at i:4690962 original size:20 final size:20
Alignment explanation
Indices: 4690936--4690984 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
4690926 TTGAACTTAA
*
4690936 ATTAAAATTA-CTTACAAAT
1 ATTAAAATTATATTACAAAT
*
4690955 ATTTAAAACTTATATTACATAT
1 A-TTAAAA-TTATATTACAAAT
4690977 ATTAAAAT
1 ATTAAAAT
4690985 ATTAATAACG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 7 0.28
21 9 0.36
22 8 0.32
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTAAAATTATATTACAAAT
Found at i:4691161 original size:13 final size:13
Alignment explanation
Indices: 4691143--4691205 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
4691133 TTTAAACTAA
*
4691143 ACTTTTTAAAAAC
1 ACTTTTTAAAAGC
* *
4691156 ACTTTTCATAAGC
1 ACTTTTTAAAAGC
* * *
4691169 ATTTTTTTAGAGC
1 ACTTTTTAAAAGC
4691182 A-TTTTTCAAAAGC
1 ACTTTTT-AAAAGC
4691195 ACTTTTTAAAA
1 ACTTTTTAAAA
4691206 ACAGTGAGAA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
12 5 0.13
13 28 0.74
14 5 0.13
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (13 bp):
ACTTTTTAAAAGC
Found at i:4705319 original size:16 final size:16
Alignment explanation
Indices: 4705287--4705335 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
4705277 TCGGAAATAT
*
4705287 TTTAATTATTA-ATTTA
1 TTTAATT-TTATAATTA
4705303 TTTAATTTTATAATTA
1 TTTAATTTTATAATTA
*
4705319 TTT--TTTTATAAATA
1 TTTAATTTTATAATTA
4705333 TTT
1 TTT
4705336 TGACATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 13 0.43
15 3 0.10
16 14 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAATTTTATAATTA
Found at i:4708521 original size:23 final size:23
Alignment explanation
Indices: 4708493--4708541 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
4708483 CTATGATAAA
*
4708493 TTAAATTAATAATTAAAT-CAAAT
1 TTAAATT-ATAATTAAATAAAAAT
*
4708516 TTAAATTATATTTAAATAAAAAT
1 TTAAATTATAATTAAATAAAAAT
4708539 TTA
1 TTA
4708542 CCCTAGAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TTAAATTATAATTAAATAAAAAT
Found at i:4716042 original size:14 final size:14
Alignment explanation
Indices: 4716023--4716058 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4716013 AAGAATATAA
4716023 AAATTAAAAT-GAT
1 AAATTAAAATAGAT
4716036 CAAATTAAAATAGAT
1 -AAATTAAAATAGAT
4716051 AAATTAAA
1 AAATTAAA
4716059 TCCGTATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 18 0.86
15 3 0.14
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.28
Consensus pattern (14 bp):
AAATTAAAATAGAT
Found at i:4719158 original size:7 final size:7
Alignment explanation
Indices: 4719148--4719172 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4719138 ATTTTTTTCC
4719148 ATTTAAA
1 ATTTAAA
4719155 ATTTAAA
1 ATTTAAA
4719162 ATTTAAA
1 ATTTAAA
4719169 ATTT
1 ATTT
4719173 TTATTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
ATTTAAA
Found at i:4736864 original size:28 final size:28
Alignment explanation
Indices: 4736831--4736912 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
4736821 TTTGAATCAT
* *
4736831 TCGATATTTTGCACACTAAGTGTCATTC
1 TCGATATTTCGCACACTAAGTGCCATTC
* *
4736859 TCGATATCTCGCACACTAAGTGCCGTTC
1 TCGATATTTCGCACACTAAGTGCCATTC
* * * *
4736887 TCAATATTTCGTACACTGAGTACCAT
1 TCGATATTTCGCACACTAAGTGCCAT
4736913 ATTTGATTGC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.34
Consensus pattern (28 bp):
TCGATATTTCGCACACTAAGTGCCATTC
Found at i:4740413 original size:31 final size:31
Alignment explanation
Indices: 4740375--4740435 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
4740365 AATCTCCCTT
4740375 CCCACCTATCTATATTACTATGCTAATAAGC
1 CCCACCTATCTATATTACTATGCTAATAAGC
*
4740406 CCCACCTATCTATATTATTATGCTAATAAG
1 CCCACCTATCTATATTACTATGCTAATAAG
4740436 TTGGATTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.34
Consensus pattern (31 bp):
CCCACCTATCTATATTACTATGCTAATAAGC
Found at i:4752105 original size:29 final size:29
Alignment explanation
Indices: 4752038--4752106 Score: 68
Period size: 33 Copynumber: 2.2 Consensus size: 29
4752028 GGATTTAATT
*
4752038 AATTATTTTTTTTATTTTAAAGTAAATAAA
1 AATT-TTTTTTTTATTTTAAAGCAAATAAA
*
4752068 ATTATTTTTTATTTTTATTTTGAAGCAAAT-AA
1 A--A-TTTTT-TTTTTATTTTAAAGCAAATAAA
4752100 AATTTTT
1 AATTTTT
4752107 GTTAGTTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
29 5 0.15
30 2 0.06
32 7 0.21
33 19 0.58
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (29 bp):
AATTTTTTTTTTATTTTAAAGCAAATAAA
Found at i:4752501 original size:114 final size:113
Alignment explanation
Indices: 4752291--4752509 Score: 375
Period size: 114 Copynumber: 1.9 Consensus size: 113
4752281 GATCAAATCG
*
4752291 AATATGATCAGATTCAAGATTTTAGCTTGTCACATATGTTAAAGCAATAAGTAAAATGTTGTACA
1 AATATGATCAGATTCAAGATTTTAGCTTGTCACATATGTTAAAGAAATAAGTAAAATGTTGTACA
* *
4752356 TTAACTTGATGCGAGTTGTTCCTTACTCGATTTGATAATACCAAATTA
66 CTAACTTGATGCCAGTTGTTCCTTACTCGATTTGATAATACCAAATTA
* *
4752404 AATATGATCATATTCAAGATTTTAGCTTGTCACATATGTTAAAGGAAATAAGTAAAATGTTGTAT
1 AATATGATCAGATTCAAGATTTTAGCTTGTCACATATGTTAAA-GAAATAAGTAAAATGTTGTAC
*
4752469 GCTAACTTGATGCCAGTTGTTCCTTACTCGATTTGATAATA
65 ACTAACTTGATGCCAGTTGTTCCTTACTCGATTTGATAATA
4752510 GTAATTCTTG
Statistics
Matches: 99, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
113 42 0.42
114 57 0.58
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (113 bp):
AATATGATCAGATTCAAGATTTTAGCTTGTCACATATGTTAAAGAAATAAGTAAAATGTTGTACA
CTAACTTGATGCCAGTTGTTCCTTACTCGATTTGATAATACCAAATTA
Found at i:4756051 original size:22 final size:23
Alignment explanation
Indices: 4756012--4756055 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
4756002 GTGTTGTTAA
4756012 AAATTATTTCATTTAAAAATAAT
1 AAATTATTTCATTTAAAAATAAT
4756035 AAATT-TTT-ATTCTAAAAATAA
1 AAATTATTTCATT-TAAAAATAA
4756056 GTATTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 3 0.15
22 12 0.60
23 5 0.25
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATTATTTCATTTAAAAATAAT
Found at i:4760700 original size:2 final size:2
Alignment explanation
Indices: 4760693--4760719 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4760683 GCATGGAACT
4760693 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
4760720 AAGGGACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4780171 original size:17 final size:17
Alignment explanation
Indices: 4780149--4780205 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 17
4780139 CTCCTAAACT
4780149 ACCCCACTAACTTCATC
1 ACCCCACTAACTTCATC
*
4780166 ACCCCACTAA--GC--C
1 ACCCCACTAACTTCATC
4780179 ACCCCACTAACTTCATC
1 ACCCCACTAACTTCATC
*
4780196 ACCCTACTAA
1 ACCCCACTAA
4780206 GCTACCCCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
13 11 0.33
15 2 0.06
17 20 0.61
ACGTcount: A:0.32, C:0.47, G:0.02, T:0.19
Consensus pattern (17 bp):
ACCCCACTAACTTCATC
Found at i:4780230 original size:30 final size:30
Alignment explanation
Indices: 4780142--4780233 Score: 139
Period size: 30 Copynumber: 3.1 Consensus size: 30
4780132 CCACTAACTC
* *
4780142 CTAAACTACCCCACTAACTTCATCACCCCA
1 CTAAGCTACCCCACTAACTTCATCACCCTA
*
4780172 CTAAGCCACCCCACTAACTTCATCACCCTA
1 CTAAGCTACCCCACTAACTTCATCACCCTA
* *
4780202 CTAAGCTACCCCACTAACTCCATTACCCTA
1 CTAAGCTACCCCACTAACTTCATCACCCTA
4780232 CT
1 CT
4780234 TGCCACCATG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.30, C:0.46, G:0.02, T:0.22
Consensus pattern (30 bp):
CTAAGCTACCCCACTAACTTCATCACCCTA
Found at i:4780633 original size:22 final size:20
Alignment explanation
Indices: 4780588--4780636 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
4780578 TATTATTATT
*
4780588 ATTATTTTATTACTTTTACT
1 ATTATTTTATTACTTTTACC
4780608 ATTATTTTATATA-TATATTACC
1 ATTATTTTAT-TACT-T-TTACC
4780630 ATTATTT
1 ATTATTT
4780637 ATTTATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 11 0.44
21 3 0.12
22 11 0.44
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTATTTTATTACTTTTACC
Found at i:4780808 original size:20 final size:20
Alignment explanation
Indices: 4780767--4780808 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4780757 TTGCTATATT
*
4780767 TTAGGTATTAATATATGTTA
1 TTAGGTATTAATATATGCTA
*
4780787 TTAGG-ATTATTATATTGCTA
1 TTAGGTATTAATATA-TGCTA
4780807 TT
1 TT
4780809 TTCATATTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.52
Consensus pattern (20 bp):
TTAGGTATTAATATATGCTA
Found at i:4782702 original size:15 final size:15
Alignment explanation
Indices: 4782679--4782740 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
4782669 CTTTTGCATT
*
4782679 CATTCCATGCATTTG
1 CATTTCATGCATTTG
*
4782694 CATTTCATGCATTTA
1 CATTTCATGCATTTG
*
4782709 CATTACATTGCA--T-
1 CATTTCA-TGCATTTG
*
4782722 CATTGCAT-CATTTG
1 CATTTCATGCATTTG
4782736 CATTT
1 CATTT
4782741 TATTTTCATA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
11 2 0.05
12 1 0.03
13 7 0.18
14 5 0.13
15 19 0.50
16 4 0.11
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.44
Consensus pattern (15 bp):
CATTTCATGCATTTG
Found at i:4789551 original size:28 final size:29
Alignment explanation
Indices: 4789499--4789561 Score: 92
Period size: 32 Copynumber: 2.1 Consensus size: 29
4789489 ACCCGGATTG
4789499 ATGATTTATTTGATCAGCTGAAAGGTGCTACT
1 ATGATTTATTTGATCA---GAAAGGTGCTACT
4789531 ATGATTTATTTGATCA-AAAGGTGCTACT
1 ATGATTTATTTGATCAGAAAGGTGCTACT
4789559 ATG
1 ATG
4789562 TTTTCATTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
28 15 0.48
32 16 0.52
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (29 bp):
ATGATTTATTTGATCAGAAAGGTGCTACT
Found at i:4796200 original size:18 final size:18
Alignment explanation
Indices: 4796177--4796212 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4796167 TTAACAGTTT
4796177 CAAAAAAAGGGAAAAATA
1 CAAAAAAAGGGAAAAATA
4796195 CAAAAAAAGGGAAAAATA
1 CAAAAAAAGGGAAAAATA
4796213 AAATAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.06, G:0.17, T:0.06
Consensus pattern (18 bp):
CAAAAAAAGGGAAAAATA
Found at i:4797865 original size:176 final size:177
Alignment explanation
Indices: 4797553--4798232 Score: 917
Period size: 176 Copynumber: 3.9 Consensus size: 177
4797543 GCGACATCGG
* * * *
4797553 TGAAGATACAGGTCTTGT-TTTCTGAAGTTGCAGGAAGTAGGCCGAAGATTTCA-A-ATATTATC
1 TGAAGATACAGGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACCGAAGATTT-ATAGATCTTATC
* * * *
4797615 TCCATGTATCGGCTATAGAGCAGATAAAAAATGGCGAGTCTTAACTCTATGTATCGGCTATGGAG
65 TCCATATATCGGCTATGGAGCAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAG
* *
4797680 CAGATTTTAGTCATCAACCTTATCTCTCTGAAGTTACAGAGAGCAGGT
130 CAGATTTTAGCCATCAGCCTTATCTCTCTGAAGTTACAGAGAGCAGGT
*
4797728 TGAAGATACAGGTATTATCTTTCTGAAGTTGCAGGAAGCAGACCGAA-ATTTATAGATCTTATCT
1 TGAAGATACAGGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACCGAAGATTTATAGATCTTATCT
* *
4797792 CCATATATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCTATGTATCGGCTATGGAGC
66 CCATATATCGGCTATGGAGCAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGC
* * *
4797857 AGATTTTAGCCATCAGCTTTATCTCTCCGAAGTTATAGAGAGCAGGT
131 AGATTTTAGCCATCAGCCTTATCTCTCTGAAGTTACAGAGAGCAGGT
* * * * * *
4797904 TGAAGATACAGGTCTTATCTGTCTGAAGTTACTA-GAAGTAGACC-AAAATTTACAGATTTTATC
1 TGAAGATACAGGTCTTATCTTTCTGAAGTTGC-AGGAAGCAGACCGAAGATTTATAGATCTTATC
* *
4797967 TCCATATATCGGCTATGGAGCAGATAAAAAATGGCGAGTTTTACCTCCATGTATCGGCTATGGAG
65 TCCATATATCGGCTATGGAGCAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAG
*
4798032 CAGATTTTAGCCATCAGCCTTATCTCTCTGAAGTTGCAGAGAGCAGGT
130 CAGATTTTAGCCATCAGCCTTATCTCTCTGAAGTTACAGAGAGCAGGT
**
4798080 TGAAGATACAAATCTTATCTTTCTGAAGTTGCAGGAAGCAGACCGAAGATTT-T-GAATCTTATC
1 TGAAGATACAGGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACCGAAGATTTATAG-ATCTTATC
* * * ** * * * **
4798143 TCTATGTATTGGCTATGGAGCAGATCGAAGATAGCGAGTCTCATCTCCATGTATCGGAAATGGAG
65 TCCATATATCGGCTATGGAGCAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAG
* * *
4798208 CAGATTTCAACCACCAGCCTTATCT
130 CAGATTTTAGCCATCAGCCTTATCT
4798233 TCACTGAGCA
Statistics
Matches: 446, Mismatches: 51, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
174 1 0.00
175 25 0.06
176 413 0.93
177 7 0.02
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (177 bp):
TGAAGATACAGGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACCGAAGATTTATAGATCTTATCT
CCATATATCGGCTATGGAGCAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGC
AGATTTTAGCCATCAGCCTTATCTCTCTGAAGTTACAGAGAGCAGGT
Found at i:4798276 original size:43 final size:42
Alignment explanation
Indices: 4798226--4798565 Score: 161
Period size: 43 Copynumber: 7.7 Consensus size: 42
4798216 AACCACCAGC
*
4798226 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTATATACTAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCA-GATATATACTAGAT
* * ** *
4798269 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAGT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGAT-ATATACTAG--A-T
* * ** * * *
4798315 CTTATCTCCA-TGTATC-GGCAAAGGAGCAGATTTCAGCCACTAG-C
1 CTTATCTTCACTG-AGCAGG-AGTGGAGCAGATAT-A--TACTAGAT
* *
4798359 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCA-GATATATACTAGAT
* * * ** *
4798402 CTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGAT-ATATACT--AG-AT
* * * * * * *
4798448 CTTATCTCCA-TGTATC-GGCAATGGAGCAGATTTCAGCCACCAG-C
1 CTTATCTTCACTG-AGCAGG-AGTGGAGCAGATAT-A--TACTAGAT
*
4798492 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTATATACTAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCA-GATATATACTAGAT
* * *
4798535 CTTATCTTCGCTGAGTAGGAGCGGAGCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGAT
4798566 CAAATTTTGA
Statistics
Matches: 213, Mismatches: 58, Indels: 53
0.66 0.18 0.16
Matches are distributed among these distances:
42 15 0.07
43 88 0.41
44 39 0.18
45 23 0.11
46 46 0.22
48 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (42 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGATATATACTAGAT
Found at i:4798322 original size:133 final size:131
Alignment explanation
Indices: 4798185--4798706 Score: 749
Period size: 133 Copynumber: 3.9 Consensus size: 131
4798175 AGCGAGTCTC
4798185 ATCTCCATGTATCGGAAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGG
1 ATCTCCATGTATCGGAAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGG
*
4798250 AGCAGGCTATATACTAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAGT
66 AGCAGGCTATATACTAGATCTTATCTTCACTGAGCAGGAGCGAAGCAGATCAAATTTTGG-AA-T
4798315 CTT
129 CTT
* *
4798318 ATCTCCATGTATCGGCAAA-GGAGCAGATTTCAGCCACTAGCCTTATCTTCACTGAGCAGGAGTG
1 ATCTCCATGTATCGG-AAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTG
* * *
4798382 GAGCAGGCTAAATACTAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAA
65 GAGCAGGCTATATACTAGATCTTATCTTCACTGAGCAGGAGCGAAGCAGATCAAATTTT-G-GAA
4798447 TCTT
128 TCTT
* *
4798451 ATCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGG
1 ATCTCCATGTATCGGAAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGG
* * *
4798516 AGCAGGCTATATACTAGATCTTATCTTCGCTGAGTAGGAGCGGAGCAGATCAAATTTTGATGAAT
66 AGCAGGCTATATACTAGATCTTATCTTCACTGAGCAGGAGCGAAGCAGATCAAATTTTG--GAAT
4798581 CTT
129 CTT
* * * * * * *
4798584 ATCTCCATGTATCGGCAATGGAGCAGGTTCCAATCATCAACCTTATCTTCACTAAGCAGGAGTGG
1 ATCTCCATGTATCGGAAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGG
* * * **
4798649 AGCAGGCTAAACATACCAGATCTTATCTTTACTGAGCAGGAGTAAAGCAGATCAAATT
66 AGCAGGCT--ATATACTAGATCTTATCTTCACTGAGCAGGAGCGAAGCAGATCAAATT
4798707 ACAGCAGATC
Statistics
Matches: 357, Mismatches: 25, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
132 3 0.01
133 307 0.86
134 6 0.02
135 41 0.11
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (131 bp):
ATCTCCATGTATCGGAAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGG
AGCAGGCTATATACTAGATCTTATCTTCACTGAGCAGGAGCGAAGCAGATCAAATTTTGGAATCT
T
Found at i:4798986 original size:17 final size:17
Alignment explanation
Indices: 4798964--4799044 Score: 70
Period size: 17 Copynumber: 5.2 Consensus size: 17
4798954 CTCTTAAACT
4798964 ACCCCACTAACTCCATC
1 ACCCCACTAACTCCATC
*
4798981 ACCCCACTAA--GC--C
1 ACCCCACTAACTCCATC
*
4798994 ACCCTACTAACTCCATC
1 ACCCCACTAACTCCATC
*
4799011 ACCCCACTAA--GC-T-
1 ACCCCACTAACTCCATC
*
4799024 ACCCCACTAACTCCATT
1 ACCCCACTAACTCCATC
4799041 ACCC
1 ACCC
4799045 TACTTGCCAC
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
13 20 0.40
14 1 0.02
15 4 0.08
16 1 0.02
17 24 0.48
ACGTcount: A:0.30, C:0.51, G:0.02, T:0.17
Consensus pattern (17 bp):
ACCCCACTAACTCCATC
Found at i:4799005 original size:30 final size:30
Alignment explanation
Indices: 4798964--4799044 Score: 135
Period size: 30 Copynumber: 2.7 Consensus size: 30
4798954 CTCTTAAACT
4798964 ACCCCACTAACTCCATCACCCCACTAAGCC
1 ACCCCACTAACTCCATCACCCCACTAAGCC
* *
4798994 ACCCTACTAACTCCATCACCCCACTAAGCT
1 ACCCCACTAACTCCATCACCCCACTAAGCC
*
4799024 ACCCCACTAACTCCATTACCC
1 ACCCCACTAACTCCATCACCC
4799045 TACTTGCCAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.30, C:0.51, G:0.02, T:0.17
Consensus pattern (30 bp):
ACCCCACTAACTCCATCACCCCACTAAGCC
Found at i:4802137 original size:3 final size:3
Alignment explanation
Indices: 4802129--4802284 Score: 142
Period size: 3 Copynumber: 52.0 Consensus size: 3
4802119 AGGGGGAGAG
4802129 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4802177 TAT TAT TAT T-T TAT TACT T-T TAC TAT TAT T-T TA- TAT ATATT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TA-T TAT
* * * * * * * *
4802221 TAC CAT TATT TATT TAT TAT TAG TAA CA- TAT TGT TAT TTT TGT TAT
1 TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4802267 TAT TAT TTT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
4802285 AATGGCACTA
Statistics
Matches: 127, Mismatches: 17, Indels: 18
0.78 0.10 0.11
Matches are distributed among these distances:
2 9 0.07
3 104 0.82
4 13 0.10
5 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4803554 original size:18 final size:18
Alignment explanation
Indices: 4803531--4803633 Score: 82
Period size: 18 Copynumber: 5.4 Consensus size: 18
4803521 ACATCGTGAT
4803531 CTGAAGCCCGAAGTCTAA
1 CTGAAGCCCGAAGTCTAA
**
4803549 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CCGAAGT-CT-AA
* *
4803570 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGTCTAA
4803588 CTGAAGCACAC-AAGTGCTAAA
1 CTGAAGC-C-CGAAGT-CT-AA
* *
4803609 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGTCTAA
4803627 CTGAAGC
1 CTGAAGC
4803634 TCACCAGAGC
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
18 23 0.35
19 14 0.21
20 13 0.20
21 16 0.24
ACGTcount: A:0.37, C:0.25, G:0.25, T:0.13
Consensus pattern (18 bp):
CTGAAGCCCGAAGTCTAA
Found at i:4803575 original size:21 final size:21
Alignment explanation
Indices: 4803551--4803615 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
4803541 AAGTCTAACT
*
4803551 GAAGCACATAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
*
4803572 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
4803590 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
4803611 GAAGC
1 GAAGC
4803616 CCGAAGGCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 8 0.22
19 7 0.19
20 8 0.22
21 13 0.36
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:4803588 original size:39 final size:39
Alignment explanation
Indices: 4803533--4803633 Score: 184
Period size: 39 Copynumber: 2.6 Consensus size: 39
4803523 ATCGTGATCT
* *
4803533 GAAGCCCGAAGTCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
4803572 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
4803611 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
4803634 TCACCAGAGC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.38, C:0.25, G:0.26, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:4807655 original size:32 final size:29
Alignment explanation
Indices: 4807617--4807700 Score: 98
Period size: 32 Copynumber: 2.8 Consensus size: 29
4807607 AATATTAAAA
4807617 TTATATATAAATTTTAATTTAATGCATAATAT
1 TTATATATAAATTTTAATTTAAT--AT-ATAT
* * *
4807649 TTATATATAAATTTTAGTTT-CTATATTT
1 TTATATATAAATTTTAATTTAATATATAT
4807677 TTATATATAAATTTATAATTTAAT
1 TTATATATAAATTT-TAATTTAAT
4807701 TTAATTTTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 17 0.38
29 7 0.16
30 1 0.02
31 1 0.02
32 19 0.42
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (29 bp):
TTATATATAAATTTTAATTTAATATATAT
Found at i:4807702 original size:26 final size:27
Alignment explanation
Indices: 4807643--4807702 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
4807633 ATTTAATGCA
* *
4807643 TAATATTTATATATAAATTTTAGTTTC
1 TAATTTTTATATATAAATTTTAGATTC
4807670 TATATTTTTATATATAAATTTATA-ATT-
1 TA-ATTTTTATATATAAATTT-TAGATTC
4807697 TAATTT
1 TAATTT
4807703 AATTTTCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 4 0.14
27 4 0.14
28 19 0.66
29 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
TAATTTTTATATATAAATTTTAGATTC
Found at i:4808821 original size:116 final size:114
Alignment explanation
Indices: 4808688--4809035 Score: 497
Period size: 113 Copynumber: 3.0 Consensus size: 114
4808678 AATACGAGAT
** *
4808688 AAAAAAATTTTTTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGT-CAACAAAAAAAAAATCG
1 AAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAAAAAAAAAATCG
* *
4808752 AATTTTTTAGAGCAAAAAAATTTTTTTTTGCTCTCTAAAAATACGAGTTTTA
66 AATTTTTT---TCAAAAAATTTTTTTTTTGCTCTCTAAAAATACGAGTTTTA
* *
4808804 AAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGTACAACAAAAAAAAATTTC
1 AAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAAAAAAAAA-ATC
*
4808869 GAATTTTTTTC--AAATTTTTTTTTTTGCTCTCTAAAAATACGAGTTTTA
65 GAATTTTTTTCAAAAAATTTTTTTTTTGCTCTCTAAAAATACGAGTTTTA
* *
4808917 AAAAAAAAAATTTTT-GGTGCTGGCCTGTCAATGGCCTGCACCCAGTACAACAAAAAAAAAAATT
1 AAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAC-AAAAAAAAAA--
*
4808981 TCAAATTTTTTTCAAAAAATTTTTTTTTTTGCTCTCTAAAAATACGAGTTTTA
63 TCGAATTTTTTTCAAAAAA-TTTTTTTTTTGCTCTCTAAAAATACGAGTTTTA
4809034 AA
1 AA
4809036 TTTTTTTTTT
Statistics
Matches: 210, Mismatches: 14, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
112 34 0.16
113 58 0.28
114 12 0.06
115 1 0.00
116 46 0.22
117 48 0.23
118 11 0.05
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (114 bp):
AAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAAAAAAAAAATCG
AATTTTTTTCAAAAAATTTTTTTTTTGCTCTCTAAAAATACGAGTTTTA
Found at i:4808958 original size:112 final size:114
Alignment explanation
Indices: 4808698--4809035 Score: 495
Period size: 117 Copynumber: 2.9 Consensus size: 114
4808688 AAAAAAATTT
* *
4808698 TTTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGT-CAACAAAAAAAAA-ATCGAATTTTTTA
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAAAAAAAAATTTCGAATTTTTT-
* ** *
4808761 GAGCAAAAAAATTTTTTTTTGCTCTCTAAAAATACGAGTTTTAAAAAAAAAAT
65 --TC-AAAATTTTTTTTTTTGCTCTCTAAAAATACGAGTTTTAAAAAAAAAAA
*
4808814 TTTTTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGTACAACAAAAAAAAATTTCGAATTTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAAAAAAAAATTTCGAATTTTTTT
4808879 C-AAATTTTTTTTTTTGCTCTCTAAAAATACGAGTTTTAAAAAAAAAAA
66 CAAAATTTTTTTTTTTGCTCTCTAAAAATACGAGTTTTAAAAAAAAAAA
* *
4808927 TTTTT-GGTGCTGGCCTGTCAATGGCCTGCACCCAGTACAACAAAAAAAAAAATTTCAAATTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAC--AAAAAAAAATTTCGAATTTTT
4808991 TTCAAAAAATTTTTTTTTTTGCTCTCTAAAAATACGAGTTTTAAA
64 TTC--AAAATTTTTTTTTTTGCTCTCTAAAAATACGAGTTTTAAA
4809036 TTTTTTTTTT
Statistics
Matches: 205, Mismatches: 10, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
112 34 0.17
113 49 0.24
114 23 0.11
115 1 0.00
116 35 0.17
117 52 0.25
118 11 0.05
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (114 bp):
TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAAAAAAAAATTTCGAATTTTTTT
CAAAATTTTTTTTTTTGCTCTCTAAAAATACGAGTTTTAAAAAAAAAAA
Found at i:4809433 original size:110 final size:108
Alignment explanation
Indices: 4809181--4809512 Score: 392
Period size: 110 Copynumber: 3.0 Consensus size: 108
4809171 AAACTCCAAC
*
4809181 AACTCGTATTTTTAGAGAGC-AAAATTTTTTTTTTAAAAAAAATTCGAAATTTTTTTTTTGGTTG
1 AACTCATATTTTTAGAGAGCAAAAATTTTTTTTTT-AAAAAAATTCG-AA--TTTTTTTT-GTTG
4809245 TACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTAA
61 TACTGGGTGCCGGCCATTGACA-GCCAGCACCCAAAATTTTTTTTTTAA
4809294 AACTCATATTTTTAGAGAGCAAAAATTTTTTTTTTGAAAAAAATTCGAATTTTTTTTGTTGTACT
1 AACTCATATTTTTAGAGAGCAAAAATTTTTTTTTT-AAAAAAATTCGAATTTTTTTTGTTGTACT
4809359 GGGTGCCGGCCATTGACAG-CA-C-CCC-AAA-TTTTTTTTTAA
65 GGGTGCCGGCCATTGACAGCCAGCACCCAAAATTTTTTTTTTAA
* * * *
4809398 AACTCGTATTTTTAGAGAGCAAAAAAAATTTTTTTTGCCCT-AAAAAATTTG-ATTTTTTTTTTT
1 AACTCATATTTTTAGAGAGC---AAAAATTTTTTTT---TTAAAAAAATTCGAATTTTTTTTGTT
**
4809461 GGTTGACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTA
60 -G-T-ACTGGGTGCCGGCCATTGACA-GCCAGCACCCAAAATTTTTTTTTTA
4809513 TCTCGTATTT
Statistics
Matches: 196, Mismatches: 7, Indels: 29
0.84 0.03 0.12
Matches are distributed among these distances:
104 30 0.15
105 3 0.02
106 3 0.02
107 25 0.13
108 12 0.06
109 2 0.01
110 48 0.24
111 9 0.05
112 2 0.01
113 22 0.11
114 28 0.14
115 3 0.02
116 9 0.05
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.40
Consensus pattern (108 bp):
AACTCATATTTTTAGAGAGCAAAAATTTTTTTTTTAAAAAAATTCGAATTTTTTTTGTTGTACTG
GGTGCCGGCCATTGACAGCCAGCACCCAAAATTTTTTTTTTAA
Found at i:4813261 original size:14 final size:14
Alignment explanation
Indices: 4813242--4813271 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4813232 CCTTGCAATC
*
4813242 AATATAAGAAGTTT
1 AATATAAGAAATTT
4813256 AATATAAGAAATTT
1 AATATAAGAAATTT
4813270 AA
1 AA
4813272 CCAACATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (14 bp):
AATATAAGAAATTT
Found at i:4817501 original size:3 final size:3
Alignment explanation
Indices: 4817495--4818108 Score: 327
Period size: 3 Copynumber: 202.7 Consensus size: 3
4817485 TTATTTTTGC
4817495 TAT TAT T-T ATAT TAT TAT TAT T-T T-T TCAT GTAT ATAT TAT TAT T-T
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT T-AT -TAT -TAT TAT TAT TAT
* * * * *
4817540 ATAT TAT TGT TAT TAT TAC TAT TAT TAAA TAT TCT TAT TAT TAC TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * *
4817587 TAT TTT TAT TCCT T-T TAT TAT TACT TAT TAT CAA TA- TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* *
4817632 TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
4817680 TAT TAT TAT TAT TAT TAT TGT TAT CAT TAT TAT TAT TAT TAT TAT GAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
4817728 TCT T-T T-T TTT TGT TAA TAT TAC TAT TAT AAT TA- TAT T-T TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
4817771 T-T TGT GT-T TATT TATT TAT TCAT T-T TAT TAT TAAT TCAT TAA T-T
1 TAT TAT -TAT TA-T TA-T TAT T-AT TAT TAT TAT T-AT T-AT TAT TAT
* * * * *
4817815 TAT TAT TAC TAA CA- TAT TGT TAT TAT TTT TAT TACT GTAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T -TAT TAT TAT
* * * * *
4817861 TAT TAT TAT TATT TGT TGCT CTAT T-T TTT TAT TAC TAT TAT TAT TAC
1 TAT TAT TAT TA-T TAT T-AT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4817908 TA- TATT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
4817953 TAT TAC TA- TATT TAC TAT TCGT GTAT TGT TATT TCT TAT TTT TCA-
1 TAT TAT TAT TA-T TAT TAT T-AT -TAT TAT TA-T TAT TAT TAT T-AT
** * * *
4817998 TAT TAT TGC TGT TAT TAG TAT ATAT TGT TAT TAT TAT T-T CCTAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT --TAT TAT
* * * * * * * * * *
4818045 CAT TAT TAT TAC TAA TGT CAC TAT TAT CAT T-T TTT TAT TAC TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4818092 TAT TAT TTT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
4818109 CTTACTATCT
Statistics
Matches: 472, Mismatches: 95, Indels: 88
0.72 0.15 0.13
Matches are distributed among these distances:
2 37 0.08
3 379 0.80
4 50 0.11
5 6 0.01
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:4817761 original size:37 final size:35
Alignment explanation
Indices: 4817707--4817775 Score: 93
Period size: 37 Copynumber: 1.9 Consensus size: 35
4817697 TTGTTATCAT
* * *
4817707 TATTATTATTATTATTATGATTCTTTTTTTTTGTTAA
1 TATTACTATTATAATTAT-ATT-TTATTTTTTGTTAA
4817744 TATTACTATTATAATTATATTTTATTTTTTGT
1 TATTACTATTATAATTATATTTTATTTTTTGT
4817776 GTTTATTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 10 0.34
36 3 0.10
37 16 0.55
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.67
Consensus pattern (35 bp):
TATTACTATTATAATTATATTTTATTTTTTGTTAA
Found at i:4817807 original size:16 final size:17
Alignment explanation
Indices: 4817777--4817819 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
4817767 ATTTTTTGTG
*
4817777 TTTATTTATTTATTCAT
1 TTTATTTATTAATTCAT
4817794 TTTA-TTATTAATTCA-
1 TTTATTTATTAATTCAT
*
4817809 TTAATTTATTA
1 TTTATTTATTA
4817820 TTACTAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 3 0.13
16 16 0.70
17 4 0.17
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTATTTATTAATTCAT
Found at i:4820855 original size:29 final size:29
Alignment explanation
Indices: 4820813--4820871 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
4820803 AAGACGAAAG
4820813 AGAGATTATTGTGTTAATGGTCCCAACGT
1 AGAGATTATTGTGTTAATGGTCCCAACGT
4820842 AGAGATTATTGTGTTAATGGTCCCAACGT
1 AGAGATTATTGTGTTAATGGTCCCAACGT
4820871 A
1 A
4820872 CCTTGTGCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (29 bp):
AGAGATTATTGTGTTAATGGTCCCAACGT
Found at i:4821693 original size:36 final size:36
Alignment explanation
Indices: 4821653--4821723 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
4821643 ACCTAGCTCA
4821653 AGCATTTAAACAAACAATACATTGATGTAATTTGTG
1 AGCATTTAAACAAACAATACATTGATGTAATTTGTG
4821689 AGCATTTAAACAAACAATACATTGATGTAATTTGT
1 AGCATTTAAACAAACAATACATTGATGTAATTTGT
4821724 TCTTTCTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (36 bp):
AGCATTTAAACAAACAATACATTGATGTAATTTGTG
Found at i:4828656 original size:40 final size:40
Alignment explanation
Indices: 4828610--4828817 Score: 195
Period size: 40 Copynumber: 5.2 Consensus size: 40
4828600 CGGAATACAA
* * *
4828610 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * * *
4828650 TCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
*
4828690 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * * *
4828730 CCGGATTTAGTC-ACTAGCA-TAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACGAA-TGCCTTCGGGTCTTAGC
* * * ** * *
4828770 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
4828810 CCGGATAT
1 CCGGATAT
4828818 CATTTAATTG
Statistics
Matches: 141, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.02
40 135 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:4828757 original size:80 final size:81
Alignment explanation
Indices: 4828610--4828815 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 81
4828600 CGGAATACAA
* * * ** *
4828610 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGGTCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
4828674 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
4828690 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
4828753 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
4828770 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
4828816 ATCATTTAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 1 0.01
80 102 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:4835598 original size:8 final size:8
Alignment explanation
Indices: 4835585--4835615 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
4835575 ATTTAAGTAA
4835585 ATATTATT
1 ATATTATT
4835593 ATATTATT
1 ATATTATT
4835601 ATATTATT
1 ATATTATT
4835609 ATATTAT
1 ATATTAT
4835616 ATTAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATTATT
Found at i:4835632 original size:49 final size:48
Alignment explanation
Indices: 4835544--4835636 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 48
4835534 ATAATATACA
* *
4835544 TATATTAGTAATTATTATATATTTACTTATAATTTAAGTAAATATTAT
1 TATATTAGTAATTATTATATATTTAATTATAATTAAAGTAAATATTAT
*
4835592 TATATTATTATATTATTATATTATATTAATTA-AA-TAAAGTAAATA
1 TATATTAGTA-ATTATTATA-TAT-TTAATTATAATTAAAGTAAATA
4835637 AAATAAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
48 9 0.23
49 19 0.49
50 5 0.13
51 6 0.15
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (48 bp):
TATATTAGTAATTATTATATATTTAATTATAATTAAAGTAAATATTAT
Found at i:4835841 original size:23 final size:23
Alignment explanation
Indices: 4835787--4835867 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 23
4835777 TAAATAAACA
** *
4835787 AAAGAAAAAAAAAAGGAAGAATAG
1 AAAGAAAGGAAAAAGGGAGAA-AG
4835811 AATAGAAACGAAGAAACAAGGGAGAAAG
1 AA-AGAAA-G--GAAA-AAGGGAGAAAG
4835839 AAAGAAAGGAAAAAGGG-GAAAG
1 AAAGAAAGGAAAAAGGGAGAAAG
4835861 AAAGAAA
1 AAAGAAA
4835868 AGGGAGAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
22 12 0.24
23 5 0.10
24 6 0.12
25 5 0.10
26 1 0.02
27 5 0.10
28 7 0.14
29 8 0.16
ACGTcount: A:0.68, C:0.02, G:0.27, T:0.02
Consensus pattern (23 bp):
AAAGAAAGGAAAAAGGGAGAAAG
Found at i:4835862 original size:22 final size:24
Alignment explanation
Indices: 4835823--4835867 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
4835813 TAGAAACGAA
4835823 GAAACAAGGGAGAAAGAAAGAAAG
1 GAAACAAGGGAGAAAGAAAGAAAG
4835847 GAAA-AAGGG-GAAAGAAAGAAA
1 GAAACAAGGGAGAAAGAAAGAAA
4835868 AGGGAGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.57
23 5 0.24
24 4 0.19
ACGTcount: A:0.64, C:0.02, G:0.33, T:0.00
Consensus pattern (24 bp):
GAAACAAGGGAGAAAGAAAGAAAG
Found at i:4836315 original size:40 final size:39
Alignment explanation
Indices: 4836259--4836374 Score: 151
Period size: 40 Copynumber: 2.9 Consensus size: 39
4836249 CCTTCTTGAG
*
4836259 AATTAAAAGTGAATAGGATCTATTCCTGATTCACTAAAAGA
1 AATT-AAAGTGAATAGGATTTATTCCTGATTCACTAAAA-A
*
4836300 AATTAAAGTGAATAGGATTTATTCCTGATTCACTAGAAA
1 AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAAA
* * * *
4836339 TATATAAAGTGGATAGGATTTTTTCCTAATTCACTA
1 AAT-TAAAGTGAATAGGATTTATTCCTGATTCACTA
4836375 TGGTAACTCA
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.04
40 61 0.90
41 4 0.06
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (39 bp):
AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAAA
Found at i:4837228 original size:21 final size:21
Alignment explanation
Indices: 4837204--4837245 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4837194 AACTATGTTC
*
4837204 ATAATATGATAGTGA-AGGAAA
1 ATAA-ATGAGAGTGATAGGAAA
*
4837225 ATAAATGGGAGTGATAGGAAA
1 ATAAATGAGAGTGATAGGAAA
4837246 TATTGTAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (21 bp):
ATAAATGAGAGTGATAGGAAA
Found at i:4841181 original size:13 final size:14
Alignment explanation
Indices: 4841158--4841186 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4841148 AAATTATCTG
4841158 AATTGGATTAAATT
1 AATTGGATTAAATT
4841172 AATT-GATTAAATT
1 AATTGGATTAAATT
4841185 AA
1 AA
4841187 AAATAGATTT
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:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (14 bp):
AATTGGATTAAATT
Found at i:4856624 original size:20 final size:21
Alignment explanation
Indices: 4856590--4856643 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
4856580 TGATGATATT
*
4856590 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
4856611 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
4856631 TTTTATTATTTTA
1 TTATATTATTTTA
4856644 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Done.