Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 187 of 199
Found at i:59435032 original size:25 final size:25
Alignment explanation
Indices: 59435004--59435053 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
59434994 CAGTTAAAAA
* *
59435004 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACGGCGAATCTT
*
59435029 GATTAAAGCTACAACGGCGAATCTT
1 GATTAAAGCCACAACGGCGAATCTT
59435054 ACGCCCCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACGGCGAATCTT
Found at i:59435300 original size:25 final size:25
Alignment explanation
Indices: 59435254--59435303 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
59435244 CAGTTAAAAA
* * *
59435254 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
59435279 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
59435304 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:59435425 original size:25 final size:25
Alignment explanation
Indices: 59435379--59435428 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
59435369 CAGTTAAAAA
* * *
59435379 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
59435404 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
59435429 ACGCCCAAGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:59435549 original size:25 final size:25
Alignment explanation
Indices: 59435503--59435552 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
59435493 CAGTTAAAAA
* * *
59435503 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
59435528 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
59435553 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:59437344 original size:3 final size:3
Alignment explanation
Indices: 59437329--59437366 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
59437319 ATAAATTTCA
* *
59437329 TAT TAT TAC TAT TAT TAT TAC TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
59437367 GTTTTATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:59437344 original size:12 final size:12
Alignment explanation
Indices: 59437329--59437366 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
59437319 ATAAATTTCA
59437329 TATTATTACTAT
1 TATTATTACTAT
59437341 TATTATTACTAT
1 TATTATTACTAT
*
59437353 TATTATTATTAT
1 TATTATTACTAT
59437365 TA
1 TA
59437367 GTTTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:59437735 original size:5 final size:5
Alignment explanation
Indices: 59437712--59437786 Score: 70
Period size: 5 Copynumber: 15.4 Consensus size: 5
59437702 TCTATTTTCC
*
59437712 TTTAT TGTTAT TATTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTTAC TTTAT
1 TTTAT T-TTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
*
59437763 GTTCA- TTTA- TTTA- TTTA- TTTAT TT
1 -TTTAT TTTAT TTTAT TTTAT TTTAT TT
59437787 ATATGTCCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
4 19 0.31
5 29 0.48
6 13 0.21
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:59437738 original size:4 final size:4
Alignment explanation
Indices: 59437729--59437830 Score: 64
Period size: 4 Copynumber: 23.8 Consensus size: 4
59437719 TTATTATTAT
59437729 TTTA TTTA TTTTA TTTTA TTTTA TTTTA CTTTA TGTTCA TTTA TTTA TTTA
1 TTTA TTTA -TTTA -TTTA -TTTA -TTTA -TTTA T-TT-A TTTA TTTA TTTA
* * ** *
59437780 TTTA TTTA TATG TCCAA TTT- TTTA TGT- TTTA GTTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA
59437828 TTT
1 TTT
59437831 GTTGTTGTAT
Statistics
Matches: 81, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
3 5 0.06
4 42 0.52
5 32 0.40
6 2 0.02
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:59438183 original size:107 final size:107
Alignment explanation
Indices: 59437962--59438283 Score: 439
Period size: 106 Copynumber: 3.0 Consensus size: 107
59437952 AAAAAAAAAG
* * * * * * * *
59437962 AAAATTTTTCTAAATGAGGCAATATTTAGCTTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCT
* * * *
59438027 GGGTGTCGATTTTTCTCGTTCAACCAAATTGCTTAATATTCTTTT
65 GGGTTTCGA--TTTCTCGTTCAACCAAATTGCTAAATATCCTTTC
*
59438072 AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGGAACGTGCCCTAAGGTGCTG
1 AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTG
*
59438137 GGTTTCGATTTCTCGTTCAACCAAATAGCTAAATATCCTTTC
66 GGTTTCGATTTCTCGTTCAACCAAATTGCTAAATATCCTTTC
*
59438179 AAAAA-TTACAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTG
1 AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTG
* * * *
59438243 GATTTTGATTTCTCGTTTAACCAAATTGCCAAATATCCTTT
66 GGTTTCGATTTCTCGTTCAACCAAATTGCTAAATATCCTTT
59438284 TGAATTTTAA
Statistics
Matches: 191, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
106 93 0.49
107 35 0.18
109 25 0.13
110 38 0.20
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.35
Consensus pattern (107 bp):
AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTG
GGTTTCGATTTCTCGTTCAACCAAATTGCTAAATATCCTTTC
Found at i:59439116 original size:17 final size:18
Alignment explanation
Indices: 59439082--59439116 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
59439072 TTTAGATGAG
59439082 ATCACTTTCCACAAATTT
1 ATCACTTTCCACAAATTT
59439100 ATCACTTTCCA-AAATTT
1 ATCACTTTCCACAAATTT
59439117 GATAGAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (18 bp):
ATCACTTTCCACAAATTT
Found at i:59443474 original size:20 final size:20
Alignment explanation
Indices: 59443442--59443479 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
59443432 ATCATTTTCT
59443442 TAAATTTAGAATT-TTATCC
1 TAAATTTAGAATTCTTATCC
59443461 TAAATTTAAGAATTCTTAT
1 TAAATTT-AGAATTCTTAT
59443480 TTGAATTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (20 bp):
TAAATTTAGAATTCTTATCC
Found at i:59447156 original size:25 final size:25
Alignment explanation
Indices: 59447120--59447175 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
59447110 GGACACACCA
*
59447120 CAGCTCGTATGAGC-TTCACGTTATT
1 CAGCTCGCATGAGCTTTC-CGTTATT
*
59447145 CAGCTCGCATGAGCTTTCTGTTATT
1 CAGCTCGCATGAGCTTTCCGTTATT
59447170 CAGCTC
1 CAGCTC
59447176 AGAAGAGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 25 0.89
26 3 0.11
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.36
Consensus pattern (25 bp):
CAGCTCGCATGAGCTTTCCGTTATT
Found at i:59447207 original size:24 final size:25
Alignment explanation
Indices: 59447139--59447207 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
59447129 TGAGCTTCAC
*
59447139 GTTATTCAGCTC-GCATGAGCTTTCT
1 GTTATACAGCTCAG-ATGAGCTTTCT
* *
59447164 GTTATTCAGCTCAGAAGAGCTTAT-T
1 GTTATACAGCTCAGATGAGCTT-TCT
*
59447189 GTT-TACAGCTCATATGAGC
1 GTTATACAGCTCAGATGAGC
59447208 ATACATGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
24 13 0.34
25 23 0.61
26 2 0.05
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (25 bp):
GTTATACAGCTCAGATGAGCTTTCT
Found at i:59448806 original size:17 final size:17
Alignment explanation
Indices: 59448781--59448824 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
59448771 CGTTACAGTG
*
59448781 ACAGTTCACACATTTAC
1 ACAGTTCACACATTGAC
*
59448798 ACGGTTCACACATTGAC
1 ACAGTTCACACATTGAC
59448815 ACAGTTCACA
1 ACAGTTCACA
59448825 TATAAACACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.34, C:0.30, G:0.11, T:0.25
Consensus pattern (17 bp):
ACAGTTCACACATTGAC
Found at i:59448833 original size:17 final size:17
Alignment explanation
Indices: 59448781--59448851 Score: 61
Period size: 17 Copynumber: 4.2 Consensus size: 17
59448771 CGTTACAGTG
**
59448781 ACAGTTCACACATTTAC
1 ACAGTTCACACATAAAC
* **
59448798 ACGGTTCACACATTGAC
1 ACAGTTCACACATAAAC
*
59448815 ACAGTTCACATATAAAC
1 ACAGTTCACACATAAAC
* * *
59448832 ACAGCTCGCATATAAAC
1 ACAGTTCACACATAAAC
59448849 ACA
1 ACA
59448852 ACTCGCATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 46 1.00
ACGTcount: A:0.39, C:0.28, G:0.10, T:0.23
Consensus pattern (17 bp):
ACAGTTCACACATAAAC
Found at i:59448856 original size:17 final size:17
Alignment explanation
Indices: 59448823--59448861 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
59448813 ACACAGTTCA
*
59448823 CATATAAACACAGCTCG
1 CATATAAACACAACTCG
59448840 CATATAAACACAACTCG
1 CATATAAACACAACTCG
59448857 CATAT
1 CATAT
59448862 TGTCATAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.44, C:0.28, G:0.08, T:0.21
Consensus pattern (17 bp):
CATATAAACACAACTCG
Found at i:59460257 original size:21 final size:20
Alignment explanation
Indices: 59460219--59460258 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
59460209 ATTTTAAAAA
*
59460219 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTT
59460239 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAAT-AATTTTT
59460259 AGTGTTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:59462811 original size:35 final size:35
Alignment explanation
Indices: 59462729--59462801 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
59462719 TCACTTCACA
59462729 AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
1 AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
59462764 AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
1 AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
59462799 AAA
1 AAA
59462802 AGTATGCACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (35 bp):
AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
Found at i:59467578 original size:31 final size:30
Alignment explanation
Indices: 59467543--59467621 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 30
59467533 AACTATGAAA
59467543 ATTTTCAATTTAGTCA-TTA-ACGTTTTAAATC
1 ATTTT-AATTTAGTCACTTATA--TTTTAAATC
*
59467574 ATTTTATTTTAGTCACTTATATTTTAAATC
1 ATTTTAATTTAGTCACTTATATTTTAAATC
*
59467604 ATTTCTATTTTAGTCACT
1 ATTT-TAATTTAGTCACT
59467622 CTCTGTTAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
30 22 0.50
31 21 0.48
32 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.05, T:0.53
Consensus pattern (30 bp):
ATTTTAATTTAGTCACTTATATTTTAAATC
Found at i:59467614 original size:16 final size:15
Alignment explanation
Indices: 59467565--59467615 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
59467555 GTCATTAACG
59467565 TTTTAAATCATTTTA
1 TTTTAAATCATTTTA
* *
59467580 TTTT-AGTCACTTATA
1 TTTTAAATCA-TTTTA
59467595 TTTTAAATCATTTCTA
1 TTTTAAATCATTT-TA
59467611 TTTTA
1 TTTTA
59467616 GTCACTCTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 4 0.14
15 14 0.48
16 11 0.38
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (15 bp):
TTTTAAATCATTTTA
Found at i:59467867 original size:14 final size:14
Alignment explanation
Indices: 59467828--59467869 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
59467818 AAAAATACAA
*
59467828 AAATAATATTATTT
1 AAATAATATTATAT
*
59467842 ATAT-ATATTTATAT
1 AAATAATA-TTATAT
59467856 AAATAATATTATAT
1 AAATAATATTATAT
59467870 GTGTTTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 3 0.13
14 17 0.74
15 3 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAATAATATTATAT
Found at i:59475428 original size:3 final size:3
Alignment explanation
Indices: 59475420--59475454 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
59475410 GATTTAGTCC
59475420 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
59475455 CCTACTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:59479757 original size:21 final size:21
Alignment explanation
Indices: 59479724--59479763 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
59479714 AAAAGAAAAA
* *
59479724 AGAAAAATCAAAATCAAAAGT
1 AGAAAAAACAAAATAAAAAGT
*
59479745 AGAAAAAAGAAAATAAAAA
1 AGAAAAAACAAAATAAAAA
59479764 AAAATAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.75, C:0.05, G:0.10, T:0.10
Consensus pattern (21 bp):
AGAAAAAACAAAATAAAAAGT
Found at i:59480661 original size:27 final size:27
Alignment explanation
Indices: 59480631--59480705 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 27
59480621 TCTGAGTTAA
* *
59480631 AAAAATAAAATAATAAAAAT-AAGAATG
1 AAAAATGAAA-AATAAAAATGAAAAATG
*
59480658 AAAAATGAAAAATGAAAATGAAAAATG
1 AAAAATGAAAAATAAAAATGAAAAATG
59480685 AAAAATGAAAAATGAAAAATG
1 AAAAATGAAAAAT-AAAAATG
59480706 GAGAGGCTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 8 0.19
27 28 0.67
28 6 0.14
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (27 bp):
AAAAATGAAAAATAAAAATGAAAAATG
Found at i:59480666 original size:7 final size:7
Alignment explanation
Indices: 59480631--59480705 Score: 102
Period size: 7 Copynumber: 11.0 Consensus size: 7
59480621 TCTGAGTTAA
*
59480631 AAAAATA
1 AAAAATG
59480638 AAATAAT-
1 AAA-AATG
59480645 AAAAAT-
1 AAAAATG
*
59480651 AAGAATG
1 AAAAATG
59480658 AAAAATG
1 AAAAATG
59480665 AAAAATG
1 AAAAATG
59480672 -AAAATG
1 AAAAATG
59480678 AAAAATG
1 AAAAATG
59480685 AAAAATG
1 AAAAATG
59480692 AAAAATG
1 AAAAATG
59480699 AAAAATG
1 AAAAATG
59480706 GAGAGGCTAA
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
6 14 0.22
7 46 0.73
8 3 0.05
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (7 bp):
AAAAATG
Found at i:59480670 original size:20 final size:20
Alignment explanation
Indices: 59480632--59480705 Score: 98
Period size: 20 Copynumber: 3.6 Consensus size: 20
59480622 CTGAGTTAAA
*
59480632 AAAATAAAATAAT-AAAAAT-
1 AAAATGAAA-AATGAAAAATG
59480651 AAGAATGAAAAATGAAAAATG
1 AA-AATGAAAAATGAAAAATG
59480672 AAAATGAAAAATGAAAAATG
1 AAAATGAAAAATGAAAAATG
59480692 AAAAATGAAAAATG
1 -AAAATGAAAAATG
59480706 GAGAGGCTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
19 5 0.10
20 30 0.60
21 15 0.30
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (20 bp):
AAAATGAAAAATGAAAAATG
Found at i:59482113 original size:44 final size:43
Alignment explanation
Indices: 59482016--59482837 Score: 417
Period size: 44 Copynumber: 18.8 Consensus size: 43
59482006 AAGAATTTCA
* ** * *
59482016 GATCTTATCTCCCTGAGGTTACAACGGAGCAGATT-GAAGCTAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATC-AG
* * * * ** *
59482059 TAATCCTATCTCTCTGAGATTATAGTGGAGTGGATTAAAATAAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-CAG
* ** * ****
59482104 GATCTTATCTCTCTGA-AGTTACAGCAGAGTAGA-TCGCGTCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAG
**
59482146 G-TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TCAG
* * *
59482191 GATCTTATCTCCCTGAAATTACAGTGGAGCAGATT-GAAGCTAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATC-AG
* * ** *
59482234 TAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-CAG
* * * * ***
59482279 GATATTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCATCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAG
* *
59482321 G-TCTTATCTCCCTGAGATTACAGTGGAGTAGACTGAAGAATTTCA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TCAG
* * **
59482366 GATATTATCTCCCTGAGATTACAGCGGAGCAGATTGATGAT-AG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATCAG
* * * *
59482409 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-CAG
* * * ***
59482454 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCATCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAG
**
59482496 G-TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAAGATTTCA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAAA-A--TCAG
* *
59482541 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAT-AG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATCAG
* * *
59482584 TAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-CAG
* ** * ***
59482629 GATCTTATCTCTCTGA-AGTTACAGCAGAGTAGA-TCGCATCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAG
**
59482671 G-TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATTTCA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TCAG
* * * *
59482716 GATCTTATCTCCCTGAGATTACAGCGGAGTAGATT-GAAGCTAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATC-AG
* * * * * * *
59482759 TAATCCTATCTCCTTGAGATTACAGTGGAACGGATTAAAATAAAT
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-CAG
* * * * *
59482804 GATCTTATCTCTCTAAGGTTACAGTAGAGTAGAT
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGAT
59482838 CGTTTCAGAT
Statistics
Matches: 579, Mismatches: 145, Indels: 108
0.70 0.17 0.13
Matches are distributed among these distances:
41 104 0.18
42 20 0.03
43 28 0.05
44 273 0.47
45 22 0.04
46 132 0.23
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (43 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATCAG
Found at i:59482297 original size:175 final size:175
Alignment explanation
Indices: 59481997--59482857 Score: 1429
Period size: 175 Copynumber: 4.9 Consensus size: 175
59481987 ACGACGGCGA
* * * *
59481997 AGCAGATCAAAGAATTTCAGATCTTATCTCCCTGAGGTTACAACGGAGCAGATTGAAGCTAGTAA
1 AGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
* * *
59482062 TCCTATCTCTCTGAGATTATAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
66 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
* *
59482127 GCAGAGTAGATCGCGTCAGGTCTTATCTCCCTGAGATTACAGTGG
131 GTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGG
* *
59482172 AGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAAATTACAGTGGAGCAGATTGAAGCTAGTAA
1 AGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
* *
59482237 TCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATATTATCTCTCTGAAGTTACA
66 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
59482302 GTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGG
131 GTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGG
* * * * *
59482347 AGTAGACTGAAGAATTTCAGATATTATCTCCCTGAGATTACAGCGGAGCAGATTGATGATAGTAA
1 AGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
59482412 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
66 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
59482477 GTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGG
131 GTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGG
*
59482522 AGCAGACCGAA-AGATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
1 AGCAGACCGAAGA-ATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
*
59482586 ATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
65 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
*
59482651 AGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGG
130 AGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGG
* *
59482697 AGCAGACCAAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAA
1 AGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
* * *
59482762 TCCTATCTCCTTGAGATTACAGTGGAACGGATTAAAATAAATGATCTTATCTCTCT-AAGGTTAC
66 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA-GTTAC
** *
59482826 AGTAGAGTAGATCGTTTCAGATCTTATCTCCC
130 AGTAGAGTAGATCGCATCAGGTCTTATCTCCC
59482858 AAAGTGGAGC
Statistics
Matches: 646, Mismatches: 37, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
174 3 0.00
175 642 0.99
176 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (175 bp):
AGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
GTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGTGG
Found at i:59484465 original size:3 final size:3
Alignment explanation
Indices: 59484457--59484488 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
59484447 GATTTAGTCC
59484457 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
59484489 CCTACTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:59484630 original size:2 final size:2
Alignment explanation
Indices: 59484625--59484659 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
59484615 TTTTACAACT
* *
59484625 TA TA TA CA TA TC 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 T
59484660 TTTCATTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:59487913 original size:17 final size:16
Alignment explanation
Indices: 59487882--59487917 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
59487872 ACGTTTGTGG
*
59487882 TTAATGAAAATATACT
1 TTAATGAAAACATACT
59487898 TTAATAGAAAACATACT
1 TTAAT-GAAAACATACT
59487915 TTA
1 TTA
59487918 TTTATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (16 bp):
TTAATGAAAACATACT
Found at i:59488076 original size:19 final size:17
Alignment explanation
Indices: 59488043--59488077 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
59488033 AAAATGTGAT
59488043 AAATTTTATAAATAATA
1 AAATTTTATAAATAATA
59488060 AAATATTTATAATATAAT
1 AAAT-TTTATAA-ATAAT
59488078 TTCAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 7 0.44
19 5 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATTTTATAAATAATA
Found at i:59490307 original size:31 final size:29
Alignment explanation
Indices: 59490245--59490307 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
59490235 AGTAGATTAT
* *
59490245 AATTTATTTTTTTATTTAAAAAATGAGTA
1 AATTAATTTTTATATTTAAAAAATGAGTA
59490274 AATTAATTTTTATATATTAAATTAAA-GAGTA
1 AATTAATTTTTATAT-TTAAA--AAATGAGTA
59490305 AAT
1 AAT
59490308 AGTATAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 13 0.45
30 5 0.17
31 8 0.28
32 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (29 bp):
AATTAATTTTTATATTTAAAAAATGAGTA
Found at i:59492088 original size:33 final size:33
Alignment explanation
Indices: 59492050--59492165 Score: 112
Period size: 33 Copynumber: 3.5 Consensus size: 33
59492040 AGATTAATTT
* *
59492050 ATATTTTATGTACCATTATATTAAATTATTTAA
1 ATATTTCATGTATCATTATATTAAATTATTTAA
* * * **
59492083 ATATTTCATGTATTATCATTTTAGGTTATTTAA
1 ATATTTCATGTATCATTATATTAAATTATTTAA
* *
59492116 ATA-TT-ATTTATCATTATATTTAAAATTA-TAAA
1 ATATTTCATGTATCATTATA-TT-AAATTATTTAA
59492148 ATATTTCATGTATCATTA
1 ATATTTCATGTATCATTA
59492166 AATTTACACA
Statistics
Matches: 64, Mismatches: 15, Indels: 7
0.74 0.17 0.08
Matches are distributed among these distances:
31 9 0.14
32 10 0.16
33 35 0.55
34 10 0.16
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (33 bp):
ATATTTCATGTATCATTATATTAAATTATTTAA
Found at i:59493003 original size:18 final size:19
Alignment explanation
Indices: 59492975--59493010 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
59492965 ATAATCACAC
59492975 TTTAGTCTGGTGCCACCAA
1 TTTAGTCTGGTGCCACCAA
*
59492994 TTTA-TCTGGTGGCACCA
1 TTTAGTCTGGTGCCACCA
59493011 CTAAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.33
Consensus pattern (19 bp):
TTTAGTCTGGTGCCACCAA
Found at i:59494737 original size:19 final size:20
Alignment explanation
Indices: 59494708--59494757 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
59494698 AATAAAACAA
59494708 ATAAAAATATTTTAAAAA-T
1 ATAAAAATATTTTAAAAAGT
*
59494727 -TAAAAAT-TATTAAAAAGT
1 ATAAAAATATTTTAAAAAGT
59494745 ATAAAAATATTTT
1 ATAAAAATATTTT
59494758 TTAATCTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 8 0.31
18 8 0.31
19 7 0.27
20 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAAAATATTTTAAAAAGT
Found at i:59497054 original size:14 final size:14
Alignment explanation
Indices: 59497029--59497070 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
59497019 TACCATTTAC
59497029 AATTC-CTTTTTCA
1 AATTCTCTTTTTCA
59497042 AATT-TCATTTTTCA
1 AATTCTC-TTTTTCA
59497056 AATTCTCTTTTTCA
1 AATTCTCTTTTTCA
59497070 A
1 A
59497071 CCACCCCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.19
14 19 0.73
15 2 0.08
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTCTCTTTTTCA
Found at i:59508482 original size:19 final size:20
Alignment explanation
Indices: 59508458--59508497 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
59508448 TGGTAGTAAA
* *
59508458 TTATAT-ATGAATTTTGATT
1 TTATATAATAAATTATGATT
59508477 TTATATAATAAATTATGATT
1 TTATATAATAAATTATGATT
59508497 T
1 T
59508498 AAATTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TTATATAATAAATTATGATT
Found at i:59511908 original size:16 final size:16
Alignment explanation
Indices: 59511887--59511918 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
59511877 TGTTAGCTTG
59511887 GTCATTAATAATGGAA
1 GTCATTAATAATGGAA
59511903 GTCATTAATAATGGAA
1 GTCATTAATAATGGAA
59511919 CCAACTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
GTCATTAATAATGGAA
Found at i:59515226 original size:77 final size:77
Alignment explanation
Indices: 59515099--59515257 Score: 291
Period size: 77 Copynumber: 2.1 Consensus size: 77
59515089 ATAATTTTGG
*
59515099 CTTTTCACCGATTATCTTCGGTTTGGTTCAATTTCTGATTTATACAACTATTTTATTCAATTTAT
1 CTTTTCACCGATTATCTTCAGTTTGGTTCAATTTCTGATTTATACAACTATTTTATTCAATTTAT
59515164 CAATACCAAAAA
66 CAATACCAAAAA
* *
59515176 CTTTTCACCGATTATCTTTAGTTTGGTTCAATTTTTGATTTATACAACTATTTTATTCAATTTAT
1 CTTTTCACCGATTATCTTCAGTTTGGTTCAATTTCTGATTTATACAACTATTTTATTCAATTTAT
59515241 CAATACCAAAAA
66 CAATACCAAAAA
59515253 CTTTT
1 CTTTT
59515258 TTATCATCCC
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.47
Consensus pattern (77 bp):
CTTTTCACCGATTATCTTCAGTTTGGTTCAATTTCTGATTTATACAACTATTTTATTCAATTTAT
CAATACCAAAAA
Found at i:59527284 original size:35 final size:36
Alignment explanation
Indices: 59527241--59527324 Score: 93
Period size: 35 Copynumber: 2.4 Consensus size: 36
59527231 TTATTGATTG
*
59527241 GTCC-TTCGGGGTGACATTGTGTAAACGATATATAA
1 GTCCTTTCGGGGTGACACTGTGTAAACGATATATAA
** * * *
59527276 GT-CTTTCGGGACGACACTGTGTAAATGATATTTAG
1 GTCCTTTCGGGGTGACACTGTGTAAACGATATATAA
59527311 GTCCTTT-GGGGTGA
1 GTCCTTTCGGGGTGA
59527325 AACCTTGAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
34 1 0.03
35 34 0.87
36 4 0.10
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (36 bp):
GTCCTTTCGGGGTGACACTGTGTAAACGATATATAA
Found at i:59532579 original size:14 final size:14
Alignment explanation
Indices: 59532560--59532590 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
59532550 TATTTCTTTA
59532560 AATGTGTACAATTG
1 AATGTGTACAATTG
59532574 AATGTGTACAATTG
1 AATGTGTACAATTG
59532588 AAT
1 AAT
59532591 CAAAATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (14 bp):
AATGTGTACAATTG
Found at i:59532621 original size:31 final size:31
Alignment explanation
Indices: 59532586--59532645 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
59532576 TGTGTACAAT
*
59532586 TGAATCA-AAATCAAAGTTTCTTGTATATATA
1 TGAATCACAAATC-AAGTTTCATGTATATATA
* *
59532617 TGAATCACAATTCAAGTTTCATGTTTATA
1 TGAATCACAAATCAAGTTTCATGTATATA
59532646 ATTGCACCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (31 bp):
TGAATCACAAATCAAGTTTCATGTATATATA
Found at i:59532666 original size:29 final size:30
Alignment explanation
Indices: 59532645--59532707 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
59532635 TCATGTTTAT
59532645 AATTGC-ACCAAAACAAAGTTCATGTATCA
1 AATTGCAACCAAAACAAAGTTCATGTATCA
**
59532674 AATTGCATATTAAAACAAAGTTCATGTAT-A
1 AATTGCA-ACCAAAACAAAGTTCATGTATCA
59532704 AATT
1 AATT
59532708 TAATATTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 6 0.20
30 5 0.17
31 19 0.63
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (30 bp):
AATTGCAACCAAAACAAAGTTCATGTATCA
Found at i:59532714 original size:30 final size:31
Alignment explanation
Indices: 59532654--59532714 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
59532644 TAATTGCACC
*
59532654 AAAACAAAGTTCATGTATCAAATTGCATATT
1 AAAACAAAGTTCATGTATCAAATTGAATATT
*
59532685 AAAACAAAGTTCATGTAT-AAATTTAATATT
1 AAAACAAAGTTCATGTATCAAATTGAATATT
59532715 CATCCCACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (31 bp):
AAAACAAAGTTCATGTATCAAATTGAATATT
Found at i:59535015 original size:13 final size:13
Alignment explanation
Indices: 59534980--59535027 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
59534970 TTTGATTTTC
*
59534980 AAATATTATATTT
1 AAATATTTTATTT
*
59534993 TAAT-TTTTATTT
1 AAATATTTTATTT
*
59535005 AAATATTTTATAT
1 AAATATTTTATTT
*
59535018 AAAAATTTTA
1 AAATATTTTA
59535028 AAAATATGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AAATATTTTATTT
Found at i:59539912 original size:27 final size:26
Alignment explanation
Indices: 59539882--59539952 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 26
59539872 GATTTATAAG
* *
59539882 AACAATAAATAATAAAAGTTTCAAATA
1 AACAATAAATAATAAAA-CTTAAAATA
* **
59539909 AACAATATATAGGAAAACTTAAAATA
1 AACAATAAATAATAAAACTTAAAATA
59539935 AA-AA-AAATAATAAAACTT
1 AACAATAAATAATAAAACTT
59539953 TTTAAAATCA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
24 11 0.31
25 2 0.06
26 9 0.25
27 14 0.39
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (26 bp):
AACAATAAATAATAAAACTTAAAATA
Found at i:59542212 original size:46 final size:46
Alignment explanation
Indices: 59542122--59542213 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
59542112 ACTGAGGAAG
*
59542122 CCATATGGAAACCTGAAGACTCGGTTCTACAACAATATATGCATTT
1 CCATATGGAAACCTGAAGACTCGGTTCTACAACAATATACGCATTT
* *
59542168 CCATATGGGAACCTGAAGACTCGGTTCTACAACAATATCCGCATTT
1 CCATATGGAAACCTGAAGACTCGGTTCTACAACAATATACGCATTT
59542214 TTTTTAGTCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (46 bp):
CCATATGGAAACCTGAAGACTCGGTTCTACAACAATATACGCATTT
Found at i:59545565 original size:35 final size:36
Alignment explanation
Indices: 59545507--59545578 Score: 128
Period size: 35 Copynumber: 2.0 Consensus size: 36
59545497 ATCATTACTC
59545507 AATACATAAATATTTTTTAAATAAATGATATGTCGT
1 AATACATAAATATTTTTTAAATAAATGATATGTCGT
*
59545543 AATACAT-AATTTTTTTTAAATAAATGATATGTCGT
1 AATACATAAATATTTTTTAAATAAATGATATGTCGT
59545578 A
1 A
59545579 TTTTGAGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 28 0.80
36 7 0.20
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (36 bp):
AATACATAAATATTTTTTAAATAAATGATATGTCGT
Found at i:59547337 original size:16 final size:16
Alignment explanation
Indices: 59547316--59547365 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
59547306 AAATAGTATT
59547316 AAAAATAAAATACTGA
1 AAAAATAAAATACTGA
***
59547332 AAAAATATGTTTA-TGA
1 AAAAATA-AAATACTGA
59547348 AAAAATAAAATAC-GA
1 AAAAATAAAATACTGA
59547363 AAA
1 AAA
59547366 GAAATAAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
15 7 0.27
16 17 0.65
17 2 0.08
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.22
Consensus pattern (16 bp):
AAAAATAAAATACTGA
Found at i:59547783 original size:160 final size:156
Alignment explanation
Indices: 59547379--59547904 Score: 679
Period size: 160 Copynumber: 3.4 Consensus size: 156
59547369 ATAAATAGCA
* ** * * * * *
59547379 AAAATAGTGTATTTACTGAAAGTAATAAAATCTGAAAAAAAAAGAAATATATGAATAAAGGGTCA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCG--AAAAAAAGAAAAATACGAACAAAGGGCCA
* * *
59547444 AAATAAGGGTTTTTCACTAAATTTATATAAAAAAACACTAAAATAATACATTTCAAACATTATCT
64 AAATAAGGGTTTTTAACTAAATTTATATAAAAAAACACT-AAATAATACATTTCAAACTTTATGT
* **
59547509 ACTAAAATAATATAAAATAAAAAAATAAA
128 ACTAAAATAATATAAAATAATAAAATACG
* * * *
59547538 AAAATAGTATCTTTTTTTTAAAGTAATAAAATCCGAAAATAAGAAAAATACGAACAAATGGCCAA
1 AAAATAGTAT-ATTTTTTGAAAGTAATAAAATCCGAAAAAAAGAAAAATACGAACAAAGGGCCAA
59547603 AATAAGGGTTTTTAACTAAATTTATATAAAAAAAACACACTAAATTAATACATTTCAAACTTTAT
65 AATAAGGGTTTTTAACTAAATTTATAT--AAAAAA-ACACTAAA-TAATACATTTCAAACTTTAT
59547668 GTACTAAAATAATATAAAATAATAAAATACG
126 GTACTAAAATAATATAAAATAATAAAATACG
*
59547699 AAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAAAAAGAAAAATACGAACAAAGGGCCAAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAAAAAGAAAAATACGAACAAAGGGCCAAA
* * * *
59547764 ATGAGGGTTTTTTACTAAATTTATATAAAAAAAGAC------A-ACATTTCAAACTTTATGTAAT
66 ATAAGGGTTTTTAACTAAATTTATATAAAAAAACACTAAATAATACATTTCAAACTTTATGTACT
59547822 AAAATAATATAAAATAATAAAATACG
131 AAAATAATATAAAATAATAAAATACG
* * * * *
59547848 AAAATAATATATATTTTAAAAGTAATAAAATCCGAAAATAAGAAAAGTACGAACAAA
1 AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAAAAAGAAAAATACGAACAAA
59547905 AGGGGGTGCC
Statistics
Matches: 329, Mismatches: 33, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
149 97 0.29
150 1 0.00
157 3 0.01
158 56 0.17
159 9 0.03
160 102 0.31
161 61 0.19
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.28
Consensus pattern (156 bp):
AAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAAAAAGAAAAATACGAACAAAGGGCCAAA
ATAAGGGTTTTTAACTAAATTTATATAAAAAAACACTAAATAATACATTTCAAACTTTATGTACT
AAAATAATATAAAATAATAAAATACG
Found at i:59547853 original size:16 final size:16
Alignment explanation
Indices: 59547832--59547900 Score: 57
Period size: 17 Copynumber: 4.1 Consensus size: 16
59547822 AAAATAATAT
59547832 AAAATAATAAAATACG
1 AAAATAATAAAATACG
* ***
59547848 AAAATAATATATATTTT
1 AAAATAATA-AAATACG
*
59547865 AAAAGTAATAAAATCCG
1 AAAA-TAATAAAATACG
*
59547882 AAAATAAGAAAAGTACG
1 AAAATAATAAAA-TACG
59547899 AA
1 AA
59547901 CAAAAGGGGG
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
16 16 0.40
17 19 0.47
18 5 0.12
ACGTcount: A:0.62, C:0.06, G:0.09, T:0.23
Consensus pattern (16 bp):
AAAATAATAAAATACG
Found at i:59549897 original size:44 final size:44
Alignment explanation
Indices: 59549847--59550022 Score: 316
Period size: 44 Copynumber: 4.0 Consensus size: 44
59549837 TATTGCACCT
* *
59549847 ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTTTAGTGCC
1 ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTCTGGTGCC
59549891 ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTCTGGTGCC
1 ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTCTGGTGCC
59549935 ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTCTGGTGCC
1 ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTCTGGTGCC
* *
59549979 ACAATTATTCCACTAACAGAAAAGTGAAAGAAGCTTCTGGTGCC
1 ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTCTGGTGCC
59550023 TTGCATTTCT
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 128 1.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (44 bp):
ACAATTAGTCCACTAACAGAAAAATGAAAGAAGCTTCTGGTGCC
Found at i:59550423 original size:60 final size:60
Alignment explanation
Indices: 59550352--59550485 Score: 173
Period size: 60 Copynumber: 2.2 Consensus size: 60
59550342 ACGCTTATGG
*
59550352 TCCATGTAGAAGCCACAGAAGTATC-GACAGACCATGCAGAAGCCGTAGAAGC-CCTGACTA
1 TCCATGTAGAAGCCACAGAAG-AGCTGACAGACCATGCAGAAGCCGTAGAAGCACC-GACTA
* * * * * *
59550412 TCCATGTAGAAGCCGCAGAAGCGCTGACTGTCCATGCCGAAGCTGTAGAAGCACCGACTA
1 TCCATGTAGAAGCCACAGAAGAGCTGACAGACCATGCAGAAGCCGTAGAAGCACCGACTA
59550472 TCCATGTAGAAGCC
1 TCCATGTAGAAGCC
59550486 TTAAAAGCGC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
59 1 0.02
60 62 0.95
61 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.25, T:0.16
Consensus pattern (60 bp):
TCCATGTAGAAGCCACAGAAGAGCTGACAGACCATGCAGAAGCCGTAGAAGCACCGACTA
Found at i:59550499 original size:30 final size:30
Alignment explanation
Indices: 59550383--59550499 Score: 128
Period size: 30 Copynumber: 3.9 Consensus size: 30
59550373 TATCGACAGA
59550383 CCATGCAGAAGCCGTAGAAGC-CCTGACTAT
1 CCATGCAGAAGCCGTAGAAGCGCC-GACTAT
* * * *
59550413 CCATGTAGAAGCCGCAGAAGCGCTGACTGT
1 CCATGCAGAAGCCGTAGAAGCGCCGACTAT
* * *
59550443 CCATGCCGAAGCTGTAGAAGCACCGACTAT
1 CCATGCAGAAGCCGTAGAAGCGCCGACTAT
* * *
59550473 CCATGTAGAAGCCTTAAAAGCGCCGAC
1 CCATGCAGAAGCCGTAGAAGCGCCGAC
59550500 AATTGAGGAA
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
30 68 0.99
31 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.25, T:0.16
Consensus pattern (30 bp):
CCATGCAGAAGCCGTAGAAGCGCCGACTAT
Found at i:59551073 original size:30 final size:30
Alignment explanation
Indices: 59551039--59551186 Score: 134
Period size: 30 Copynumber: 4.9 Consensus size: 30
59551029 TCCTCAATTA
* * *
59551039 TCGGCGCTTCTGCGGCTTCGGCATGGATAG
1 TCGGCGCTTCTGCGTCTTCTGCATGGACAG
** *
59551069 TCGGCGCTTCTGCAACTTTTGCATGGACAG
1 TCGGCGCTTCTGCGTCTTCTGCATGGACAG
* * *
59551099 TCAGCACTTCTGCGTCTTTTGCATGGACAG
1 TCGGCGCTTCTGCGTCTTCTGCATGGACAG
* * * *
59551129 TCGACGCTTTTGCGTCTTCTGCATGGTCCG
1 TCGGCGCTTCTGCGTCTTCTGCATGGACAG
* * * * *
59551159 ACGGTGCTACTGTGGCTTCTGCATGGAC
1 TCGGCGCTTCTGCGTCTTCTGCATGGAC
59551187 CGTGGACATT
Statistics
Matches: 94, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 94 1.00
ACGTcount: A:0.13, C:0.27, G:0.29, T:0.31
Consensus pattern (30 bp):
TCGGCGCTTCTGCGTCTTCTGCATGGACAG
Found at i:59553993 original size:17 final size:18
Alignment explanation
Indices: 59553967--59554005 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
59553957 TTAAAATTCA
59553967 AAAAATAT-AAAATTATTT
1 AAAAATATAAAAATTA-TT
59553985 AAAAA-ATAAAAATTATT
1 AAAAATATAAAAATTATT
59554002 AAAA
1 AAAA
59554006 TTATTTAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAATATAAAAATTATT
Found at i:59553996 original size:18 final size:18
Alignment explanation
Indices: 59553966--59554005 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
59553956 TTTAAAATTC
59553966 AAAAAATATAAAATTATTT
1 AAAAAATATAAAATTA-TT
59553985 AAAAAATA-AAAATTATT
1 AAAAAATATAAAATTATT
59554002 AAAA
1 AAAA
59554006 TTATTTAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 7 0.33
19 8 0.38
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAAATATAAAATTATT
Found at i:59554028 original size:27 final size:26
Alignment explanation
Indices: 59553967--59554032 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
59553957 TTAAAATTCA
59553967 AAAAATA-TAAAATTATTTAAAAAAT
1 AAAAATATTAAAATTATTTAAAAAAT
**
59553992 AAAAATTATTAAAATTATTTAAAGCAT
1 AAAAA-TATTAAAATTATTTAAAAAAT
59554019 ACAAAATATTAAAA
1 A-AAAATATTAAAA
59554033 AATATATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
25 5 0.14
26 2 0.06
27 25 0.69
28 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (26 bp):
AAAAATATTAAAATTATTTAAAAAAT
Found at i:59556039 original size:16 final size:18
Alignment explanation
Indices: 59556010--59556044 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
59556000 AAACAAATTT
59556010 TTAAAATATATATTTTTA
1 TTAAAATATATATTTTTA
59556028 TTAAAAT-T-TATTTTTA
1 TTAAAATATATATTTTTA
59556044 T
1 T
59556045 AATATATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAAAATATATATTTTTA
Found at i:59557264 original size:3 final size:3
Alignment explanation
Indices: 59557256--59557338 Score: 105
Period size: 3 Copynumber: 26.7 Consensus size: 3
59557246 TAAGTGGGTA
* *
59557256 AAT AAT AAT AAG AA- AAGT AAT AAT AAT AAAT GCAAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT --AAT AAT AAT AAT AAT
59557304 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
59557339 ACGGGGTTAG
Statistics
Matches: 72, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.03
3 62 0.86
4 5 0.07
5 3 0.04
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:59559102 original size:82 final size:82
Alignment explanation
Indices: 59558980--59560047 Score: 1717
Period size: 82 Copynumber: 13.0 Consensus size: 82
59558970 GAGATAGGAT
* ** *
59558980 TGGTTGTGATCTGCTCCACTACCACTTAGGGAGATAAGACTTGATGCGATCTGCTCCGCTACTGC
1 TGGTTCTG-TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGC
59559045 TTAGGGAGATAAGATCTG
65 TTAGGGAGATAAGATCTG
* * * * * *
59559063 TGATTTTGTCTACTCCGCTACCGCTTAGGGAGATAAGACTTGATGCGATTTGCTCCACTACTGCT
1 TGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCT
*
59559128 TAGAGAGATAAGATCTG
66 TAGGGAGATAAGATCTG
* * *
59559145 TGGTTCTATCTGCTCCGCTACTACTTAGGGAGATAAGA-TCTGATGCGATCTGCTCCACTACTGC
1 TGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACT-TGATGCGATCTGCTCCACTACTGC
59559209 TTAGGGAGATAAGATCTG
65 TTAGGGAGATAAGATCTG
* *
59559227 TGGTTCTGTCTGCTCCGCTACTGCTTTGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCT
1 TGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCT
59559292 TAGGGAGATAAGATCTG
66 TAGGGAGATAAGATCTG
*
59559309 TGGTTCTGTCTGCTCCACTACTGCTTTGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCT
1 TGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCT
59559374 TAGGGAGATAAGATCTG
66 TAGGGAGATAAGATCTG
* * *
59559391 TGGTTCTGTCTGCTCCGCTACTACTTTGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCT
1 TGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCT
59559456 TAGGGAGATAAGATCTG
66 TAGGGAGATAAGATCTG
* *
59559473 TGGTTCTGTCTGCTCCGCTACTGCTTTGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCT
1 TGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCT
59559538 TAGGGAGATAAGATCTG
66 TAGGGAGATAAGATCTG
* *
59559555 TGGTTCTGTCTACTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATATGCTCCACTACTGCT
1 TGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCT
*
59559620 TAGAGAGATAAGATCTG
66 TAGGGAGATAAGATCTG
* * *
59559637 TAGTTCTGTCTACTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTACT
1 TGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCT
*
59559702 TAGGAAGATAAGATCTG
66 TAGGGAGATAAGATCTG
* * *
59559719 TGGTTCTATCTGCTCCACTACTACTTAGGGAGATAAGACTTGATGCGATCTACTCCACTACTGCT
1 TGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCT
*
59559784 TAGGGAGATAAGATTTG
66 TAGGGAGATAAGATCTG
*
59559801 TGGTTCTGTCTACTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCT
1 TGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCT
59559866 TAGGGAGATAAGATCTG
66 TAGGGAGATAAGATCTG
* *
59559883 TGGTTCTGTCTACTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTACTCCACTACTGCT
1 TGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCT
59559948 TAGGGAGATAAGATCTG
66 TAGGGAGATAAGATCTG
* ** * * *
59559965 TGGTT-TCGTCTGCTCCGCTACTATTTAGGGAGATAAGACTTGATGTGATCTGCTCCATTACTAC
1 TGGTTCT-GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGC
59560029 TTAGGGAGATAAGATCTG
65 TTAGGGAGATAAGATCTG
59560047 T
1 T
59560048 AATCTTCAAT
Statistics
Matches: 927, Mismatches: 55, Indels: 7
0.94 0.06 0.01
Matches are distributed among these distances:
81 2 0.00
82 918 0.99
83 7 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.31
Consensus pattern (82 bp):
TGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCT
TAGGGAGATAAGATCTG
Found at i:59560316 original size:130 final size:131
Alignment explanation
Indices: 59560014--59560321 Score: 474
Period size: 132 Copynumber: 2.4 Consensus size: 131
59560004 TTGATGTGAT
* * *
59560014 CTGCTCCATTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGCTGCCCAGGG
* * * * **
59560079 AGATAGAACTACTAGCTTCAATGTACTCCATTGTAATCTCAATGAGGTAAAATCTGCCATCTTCG
66 AGATAGAACTACCAGCTTCAATGTACTCAACTGTAA-CTCAAGGAGGTAAAATCCACCATCTTCG
59560144 AC
130 AC
* * *
59560146 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAGTCTTCGATCTATTCCACTGTTTCCCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGCTGCCCAGGG
*
59560211 AGATAGAACTACCAGCTTCAATGTACTCAACTGTAA-TCAGGGAGGTAAAATCCACCATCTTCGA
66 AGATAGAACTACCAGCTTCAATGTACTCAACTGTAACTCAAGGAGGTAAAATCCACCATCTTCGA
59560275 C
131 C
*
59560276 CTGCTCCACTACTGCTTAGGAAGATAAGATCTGTAATCTTCGATCT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCT
59560322 GCTTCGCCGT
Statistics
Matches: 161, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
130 69 0.43
132 92 0.57
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (131 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGCTGCCCAGGG
AGATAGAACTACCAGCTTCAATGTACTCAACTGTAACTCAAGGAGGTAAAATCCACCATCTTCGA
C
Found at i:59560449 original size:88 final size:89
Alignment explanation
Indices: 59560312--59560626 Score: 490
Period size: 89 Copynumber: 3.6 Consensus size: 89
59560302 AGATCTGTAA
* *
59560312 TCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATTTGATATCTTTAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCTCCGCTGT
* *
59560377 CAGTGCAGGAAAGCAAGACTAGTT
66 CAGTGCAGGAAGGCAAGACTAGCT
* * * *
59560401 TCTCCGATCTGCTTCGCCGT-GGTACAGAAAGGCAAGATCTGCTATCTTTAGTTTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCTCCGCTGT
*
59560465 CAGTGTAGGAAGGCAAGACTAGCT
66 CAGTGCAGGAAGGCAAGACTAGCT
* *
59560489 TCTTCGATCTGCTTCGCCGTC-GATACAGGAAGGCAAGATCTACTATCTTTAGTCTGCTCCACTG
1 TCTTCGATCTGCTTCGCCGTCAG-TACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCTCCGCTG
*
59560553 TCTGTGCAGGAAGGCAAGACTAGCT
65 TCAGTGCAGGAAGGCAAGACTAGCT
*
59560578 TCTTCGATCTGCTTCGCCGTTAGTACAGGAAGGCAAGATCTGCTATCTT
1 TCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTT
59560627 CAACCAGCTC
Statistics
Matches: 205, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
88 80 0.39
89 124 0.60
90 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (89 bp):
TCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCTCCGCTGT
CAGTGCAGGAAGGCAAGACTAGCT
Found at i:59560658 original size:177 final size:174
Alignment explanation
Indices: 59560312--59560705 Score: 461
Period size: 177 Copynumber: 2.2 Consensus size: 174
59560302 AGATCTGTAA
* *
59560312 TCTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGATTTGATATCTTTAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCCGTCA-TACAGGAAGGCAAGATCTGATATCTTTAGTCTGCTCCACTGT
* *
59560377 CAGTGCAGGAAAGCAAGACTAGTTTCTCCGATCTGCTTCGCCGTGGTACAGAAAGGCAAGATCTG
65 CAGTGCAGGAAAGCAAGACTAGCTTCTCCGATCTGCTTCGCCGTAGTACAGAAAGGCAAGATCTG
* **** * ****
59560442 CTATCTTTAGTTTGCTCCGCTGTCAGTGTAGGAAGGCAAGACTAG
130 CTATCTTCAACCAGCTCCGCTGACAAACAAGGAAGGCAAGACTAG
59560487 CTTCTTCGATCTGCTTCGCCGTCGATACAGGAAGGCAAGATCT-ACTATCTTTAGTCTGCTCCAC
1 --TCTTCGATCTGCTTCGCCGTC-ATACAGGAAGGCAAGATCTGA-TATCTTTAGTCTGCTCCAC
* * * *
59560551 TGTCTGTGCAGGAAGGCAAGACTAGCTTCTTCGATCTGCTTCGCCGTTAGTACAGGAAGGCAAGA
62 TGTCAGTGCAGGAAAGCAAGACTAGCTTCTCCGATCTGCTTCGCCG-TAGTACAGAAAGGCAAGA
* ** *
59560616 TCTGCTATCTTCAACCAGCTCTGCT-ACAAACAA-GAGAGGCAAGGTTTG
126 TCTGCTATCTTCAACCAGCTCCGCTGACAAACAAGGA-AGGCAAGACTAG
* ** *
59560664 TCTTCGATCTGCTTCGCTGTCAATGTAGGAAAGCAAGATCTG
1 TCTTCGATCTGCTTCGCCGTC-ATACAGGAAGGCAAGATCTG
59560706 TTGTCTTCAA
Statistics
Matches: 185, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
175 36 0.19
176 3 0.02
177 110 0.59
178 36 0.19
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (174 bp):
TCTTCGATCTGCTTCGCCGTCATACAGGAAGGCAAGATCTGATATCTTTAGTCTGCTCCACTGTC
AGTGCAGGAAAGCAAGACTAGCTTCTCCGATCTGCTTCGCCGTAGTACAGAAAGGCAAGATCTGC
TATCTTCAACCAGCTCCGCTGACAAACAAGGAAGGCAAGACTAG
Found at i:59560700 original size:86 final size:86
Alignment explanation
Indices: 59560578--59561048 Score: 717
Period size: 86 Copynumber: 5.5 Consensus size: 86
59560568 AAGACTAGCT
* * * * * *
59560578 TCTTCGATCTGCTTCGCCGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTAC
* *
59560643 AAACAAGAGAGGCAAGGTTTG
66 AACCGAGAGAGGCAAGGTTTG
* * * * *
59560664 TCTTCGATCTGCTTCGCTGTCAATGTAGGAAAGCAAGATCTGTTGTCTTCAACCCGTTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTAC
59560729 AACCGAGAGAGGCAAGGTTTG
66 AACCGAGAGAGGCAAGGTTTG
*
59560750 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTAC
*
59560815 AACCGAGAGAGGTAAGGTTTG
66 AACCGAGAGAGGCAAGGTTTG
* * ** * *
59560836 TCTTCGATCTGCTTCACTATCAATGCATAAAGACAAGATCTGTTGTATTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTAC
*
59560901 AATCGAGAGAGGCAAGGTTTG
66 AACCGAGAGAGGCAAGGTTTG
* *
59560922 TCTTCGATCTGCTTCGTTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTAC
59560987 AACCGAGAGAGGCAAGGTTTG
66 AACCGAGAGAGGCAAGGTTTG
*
59561008 TCTTCGATCTGTTTCGCTGTCAATGCAGGAAGGCAAGATCT
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
59561049 AGTAATTTCT
Statistics
Matches: 345, Mismatches: 40, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 345 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTAC
AACCGAGAGAGGCAAGGTTTG
Found at i:59562275 original size:5 final size:5
Alignment explanation
Indices: 59562254--59562316 Score: 76
Period size: 5 Copynumber: 12.2 Consensus size: 5
59562244 CTCTCCCTTA
59562254 TCTTT TCGTTAT TCTTT TCTTT TCTTT TCTTT T-TTT TCATTT T-TTT
1 TCTTT TC-TT-T TCTTT TCTTT TCTTT TCTTT TCTTT TC-TTT TCTTT
59562300 TCTTTT TCTTT TCTTT T
1 TC-TTT TCTTT TCTTT T
59562317 TTGGAATATT
Statistics
Matches: 52, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
4 8 0.15
5 28 0.54
6 13 0.25
7 3 0.06
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:59566484 original size:3 final size:3
Alignment explanation
Indices: 59566476--59566585 Score: 132
Period size: 3 Copynumber: 35.7 Consensus size: 3
59566466 TAAGTGGGTA
* * * *
59566476 AAT AAT AAT AAG AA- AAGT AAT AAT AAT AAAT GCAAT AAC AAG AAT GAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT --AAT AAT AAT AAT AAT
*
59566524 GAT AAT AAT AAT 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 AAT AAT
59566572 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
59566586 ACGGGGTTAG
Statistics
Matches: 96, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
2 2 0.02
3 86 0.90
4 5 0.05
5 3 0.03
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:59567860 original size:18 final size:18
Alignment explanation
Indices: 59567832--59567872 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
59567822 AATTATATAA
59567832 AAAATTAAAATATGTATC
1 AAAATTAAAATATGTATC
* *
59567850 GAAATTCAAATATGTATC
1 AAAATTAAAATATGTATC
59567868 AAAAT
1 AAAAT
59567873 AATAAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (18 bp):
AAAATTAAAATATGTATC
Found at i:59571432 original size:37 final size:38
Alignment explanation
Indices: 59571382--59571470 Score: 126
Period size: 37 Copynumber: 2.4 Consensus size: 38
59571372 CCACTATCGT
* *
59571382 GGTGTGTAGGGTGGACGAGCCTACTATAGCC-CATTGC
1 GGTGTGTAGGGTGGACGAGCCTACCATAGCCAAATTGC
* *
59571419 GGTGTGCAGGGTGGATGAGCCTACCATAGCCAAATTGC
1 GGTGTGTAGGGTGGACGAGCCTACCATAGCCAAATTGC
*
59571457 AGTGTGTAGGGTGG
1 GGTGTGTAGGGTGG
59571471 TCGGAGTAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
37 28 0.62
38 17 0.38
ACGTcount: A:0.20, C:0.18, G:0.38, T:0.24
Consensus pattern (38 bp):
GGTGTGTAGGGTGGACGAGCCTACCATAGCCAAATTGC
Found at i:59573908 original size:86 final size:87
Alignment explanation
Indices: 59573759--59573934 Score: 300
Period size: 86 Copynumber: 2.0 Consensus size: 87
59573749 GCTAACATTC
59573759 ATGTTTTACGTGATTGTCCTATTGTGATTAATTGGGACGTGGCAGAGTATTTACCTTGTCAAGTG
1 ATGTTTTACGTGATTGTCCTATTGTG---AATTGGGACGTGGCAGAGTATTTACCTTGTCAAGTG
59573824 GTTCAAGATTTCTTTTCGATACCTT
63 GTTCAAGATTTCTTTTCGATACCTT
*
59573849 ATGTTTTACGTGATTGTCCTATTGTG-GTTGGGACGTGGCAGAGTATTTACCTTGTCAAGTGGTT
1 ATGTTTTACGTGATTGTCCTATTGTGAATTGGGACGTGGCAGAGTATTTACCTTGTCAAGTGGTT
*
59573913 CAAGATTTCTTTTTGATACCTT
66 CAAGATTTCTTTTCGATACCTT
59573935 TGCAAGTCTG
Statistics
Matches: 84, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
86 58 0.69
90 26 0.31
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.43
Consensus pattern (87 bp):
ATGTTTTACGTGATTGTCCTATTGTGAATTGGGACGTGGCAGAGTATTTACCTTGTCAAGTGGTT
CAAGATTTCTTTTCGATACCTT
Found at i:59577756 original size:86 final size:86
Alignment explanation
Indices: 59577611--59577782 Score: 310
Period size: 86 Copynumber: 2.0 Consensus size: 86
59577601 GCTAACATTC
59577611 ATGTTTTACGTGATTGTCCTATTGTGGTTGGGACGTGCTAGAGTATTTACCTTGTCAAGTGGTTC
1 ATGTTTTACGTGATTGTCCTATTGTGGTTGGGACGTGCTAGAGTATTTACCTTGTCAAGTGGTTC
59577676 AAGACTTCTTTTCGATACCTT
66 AAGACTTCTTTTCGATACCTT
59577697 ATGTTTTACGTGATTGTCCTATTGTGGTTGGGACGTGGC-AGAGTATTTACCTTGTCAAGTGGTT
1 ATGTTTTACGTGATTGTCCTATTGTGGTTGGGACGT-GCTAGAGTATTTACCTTGTCAAGTGGTT
* *
59577761 CAAGATTTCTTTTTGATACCTT
65 CAAGACTTCTTTTCGATACCTT
59577783 TGCAAGACTG
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
86 81 0.98
87 2 0.02
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.42
Consensus pattern (86 bp):
ATGTTTTACGTGATTGTCCTATTGTGGTTGGGACGTGCTAGAGTATTTACCTTGTCAAGTGGTTC
AAGACTTCTTTTCGATACCTT
Found at i:59585282 original size:20 final size:21
Alignment explanation
Indices: 59585259--59585317 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
59585249 TACAAAATCA
59585259 AAACAC-TAAACTCTAAATTC
1 AAACACATAAACTCTAAATTC
*
59585279 AAAC-CATTAA-TACTAAATTC
1 AAACACATAAACT-CTAAATTC
*
59585299 ATACACATAAACTC-AAATT
1 AAACACATAAACTCTAAATT
59585318 TATTGAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 2 0.06
20 23 0.72
21 6 0.19
22 1 0.03
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (21 bp):
AAACACATAAACTCTAAATTC
Found at i:59587131 original size:20 final size:20
Alignment explanation
Indices: 59587095--59587143 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
59587085 AATTCTATCC
*
59587095 TTCTTTTATTTTATATTTACT
1 TTCTTTAATTTTATATTTA-T
59587116 TTCTTTAATTTT-TATTTAT
1 TTCTTTAATTTTATATTTAT
*
59587135 TTTTTTAAT
1 TTCTTTAAT
59587144 CTGACTTAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 9 0.35
20 6 0.23
21 11 0.42
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (20 bp):
TTCTTTAATTTTATATTTAT
Found at i:59590367 original size:104 final size:105
Alignment explanation
Indices: 59590122--59590369 Score: 295
Period size: 105 Copynumber: 2.4 Consensus size: 105
59590112 TTTATATGCC
* * * *
59590122 ACACGGCCTGGACACACATCCATGTCCTTGCCCATGTGGCTCACACGGCCTGGGCACATGCCCAT
1 ACACGGCCTAGACACACACCCGTGTCCTTGCCCATGTGACTCACACGGCCTGGGCACATGCCCAT
* * * * *
59590187 GTCTTCTGCCTGTGTAGTTCTAAAGCATAAAAAGTGATTT
66 GTCTTCGGCCTGTGTAGGTCTAAAGCACAAAAAGAGAGTT
* * * * * *
59590227 ACATGGCTTAGACACACGCCCGTGTCCTTACCCATGTGACTCATACGGCCTGGGTACATGCCCAT
1 ACACGGCCTAGACACACACCCGTGTCCTTGCCCATGTGACTCACACGGCCTGGGCACATGCCCAT
* *
59590292 GTCCTT-GGCC-GTGT-GGTCTTAAGTCACAAACAGAGAGTT
66 GT-CTTCGGCCTGTGTAGGTCTAAAG-CACAAAAAGAGAGTT
*
59590331 ACACGGCCTAGACACACACCCGTATCCTTGCCCATGTGA
1 ACACGGCCTAGACACACACCCGTGTCCTTGCCCATGTGA
59590370 ACCTTACACT
Statistics
Matches: 119, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
103 7 0.06
104 49 0.41
105 60 0.50
106 3 0.03
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (105 bp):
ACACGGCCTAGACACACACCCGTGTCCTTGCCCATGTGACTCACACGGCCTGGGCACATGCCCAT
GTCTTCGGCCTGTGTAGGTCTAAAGCACAAAAAGAGAGTT
Found at i:59591898 original size:18 final size:19
Alignment explanation
Indices: 59591875--59591918 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
59591865 ACTAAATTTA
*
59591875 TATTTAAATTTATTA-TAG
1 TATTTAAATTTATAATTAG
*
59591893 TATTT-AATTTATAATTAT
1 TATTTAAATTTATAATTAG
59591911 TATTTAAA
1 TATTTAAA
59591919 AAAATTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 8 0.36
18 12 0.55
19 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TATTTAAATTTATAATTAG
Found at i:59606698 original size:367 final size:367
Alignment explanation
Indices: 59606025--59606757 Score: 1313
Period size: 367 Copynumber: 2.0 Consensus size: 367
59606015 CAAAGCACGC
59606025 ATTTTGGCTGACTTGAAGGATCAATAAAACTTTGTTCAATCAAAATGCAATGTGGTTTCATTAAT
1 ATTTTGGCTGACTTGAAGGATCAATAAAACTTTGTTCAATCAAAATGCAATGTGGTTTCATTAAT
* *
59606090 TTCAAATTGCAAGAGGTGTACCTACTAAGAGGGAGTGAACAAATCCAGTGGAGACGAGGTGGGGC
66 TTCAAATCGCAAGAGGTGTACCTACTAAGAGGGAGCGAACAAATCCAGTGGAGACGAGGTGGGGC
*
59606155 CTGTAGCTCAAAGGATTAGAGCATGTGGCTACGAACCACGATGTCAAGGGTTCGAATCCCTCCTC
131 CTGTAGCTCAAAGGATTAAAGCATGTGGCTACGAACCACGATGTCAAGGGTTCGAATCCCTCCTC
*
59606220 GCCCACAACCGGCCCAAAAGGGAAGGACCTTTCCCTCTGGGGGTAGGAAAATCATGATCAAGATA
196 GCCCACAACCGGCCCAAAAGGGAAGGACCTTTCCCTCTGGGGATAGGAAAATCATGATCAAGATA
59606285 GCGGACCCAAAGCTATGGAACTTGGGTGTGGGTCTTTTGCCGAAATGGAGTGGCCTTTTATTTAT
261 GCGGACCCAAAGCTATGGAACTTGGGTGTGGGTCTTTTGCCGAAATGGAGTGGCCTTTTATTTAT
59606350 TATTTGTCGTATATTTAATTTTCTATTTTCTATTTATATATT
326 TATTTGTCGTATATTTAATTTTCTATTTTCTATTTATATATT
* *
59606392 ATTTTGGCTGATTTGAAGGATCAATAAAACTTTTTTCAATCAAAATGCAATGTGGTTTCATTAAT
1 ATTTTGGCTGACTTGAAGGATCAATAAAACTTTGTTCAATCAAAATGCAATGTGGTTTCATTAAT
* *
59606457 TTCAAATCGCAAGAGGTGTACCTACTAAGGGGGAGCGAACATATCCAGTGGAGACGAGGTGGGGC
66 TTCAAATCGCAAGAGGTGTACCTACTAAGAGGGAGCGAACAAATCCAGTGGAGACGAGGTGGGGC
* * * * ** *
59606522 CTGTAGTTCAAAGGATTAAAGCATGTGGCTATGAACCATGGTGTCGGGGGTTCGAATCCCTTCTC
131 CTGTAGCTCAAAGGATTAAAGCATGTGGCTACGAACCACGATGTCAAGGGTTCGAATCCCTCCTC
* *
59606587 GCCCTCAACCGGCCCAAAAGGGAAGGACCTTTCCCTCTGGGGATAGGAAAATCATGATCGAGATA
196 GCCCACAACCGGCCCAAAAGGGAAGGACCTTTCCCTCTGGGGATAGGAAAATCATGATCAAGATA
59606652 GCGGACCCAAAGCTATGGAACTTGGGTGTGGGTCTTTTGCCGAAATGGAGTGGCCTTTTATTTAT
261 GCGGACCCAAAGCTATGGAACTTGGGTGTGGGTCTTTTGCCGAAATGGAGTGGCCTTTTATTTAT
59606717 TATTTGTCGTATATTTAATTTTCTATTTTCTATTTATATAT
326 TATTTGTCGTATATTTAATTTTCTATTTTCTATTTATATAT
59606758 AGTATTATCG
Statistics
Matches: 349, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
367 349 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (367 bp):
ATTTTGGCTGACTTGAAGGATCAATAAAACTTTGTTCAATCAAAATGCAATGTGGTTTCATTAAT
TTCAAATCGCAAGAGGTGTACCTACTAAGAGGGAGCGAACAAATCCAGTGGAGACGAGGTGGGGC
CTGTAGCTCAAAGGATTAAAGCATGTGGCTACGAACCACGATGTCAAGGGTTCGAATCCCTCCTC
GCCCACAACCGGCCCAAAAGGGAAGGACCTTTCCCTCTGGGGATAGGAAAATCATGATCAAGATA
GCGGACCCAAAGCTATGGAACTTGGGTGTGGGTCTTTTGCCGAAATGGAGTGGCCTTTTATTTAT
TATTTGTCGTATATTTAATTTTCTATTTTCTATTTATATATT
Found at i:59617029 original size:17 final size:17
Alignment explanation
Indices: 59617009--59617066 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
59616999 TTTAATAAGG
59617009 TTTAATATTTAATTTAA
1 TTTAATATTTAATTTAA
* *
59617026 TTTAATATTTATTTTGA
1 TTTAATATTTAATTTAA
*
59617043 -TAAATA-TT-ATATTAA
1 TTTAATATTTAAT-TTAA
59617058 TTTAATATT
1 TTTAATATT
59617067 ACCGTGATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
14 1 0.03
15 5 0.16
16 10 0.31
17 16 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTAATATTTAATTTAA
Found at i:59625607 original size:27 final size:27
Alignment explanation
Indices: 59625577--59625636 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
59625567 TTAAATTAAT
* *
59625577 ATAAATATAATAATTAGCTAAG-AAAAA
1 ATAAA-ATAATAATTAACAAAGTAAAAA
*
59625604 ATAAAATAATTATTAACAAAGTAAAAA
1 ATAAAATAATAATTAACAAAGTAAAAA
59625631 ATAAAA
1 ATAAAA
59625637 AAATTAACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 13 0.45
27 16 0.55
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (27 bp):
ATAAAATAATAATTAACAAAGTAAAAA
Found at i:59625652 original size:24 final size:26
Alignment explanation
Indices: 59625577--59625660 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 26
59625567 TTAAATTAAT
* *
59625577 ATAAATATAATAATTAGCTAAG-AAAAA
1 ATAAA-ATAAT-ATTAACAAAGTAAAAA
59625604 ATAAAATAATTATTAACAAAGTAAAAA
1 ATAAAATAA-TATTAACAAAGTAAAAA
59625631 ATAAAA-AA-ATTAACTAAA-T--AAA
1 ATAAAATAATATTAAC-AAAGTAAAAA
59625653 ATAAAATA
1 ATAAAATA
59625661 TCTAATTTAG
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
22 9 0.18
23 1 0.02
24 7 0.14
25 3 0.06
26 14 0.27
27 17 0.33
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (26 bp):
ATAAAATAATATTAACAAAGTAAAAA
Found at i:59625721 original size:69 final size:68
Alignment explanation
Indices: 59625633--59625766 Score: 214
Period size: 69 Copynumber: 2.0 Consensus size: 68
59625623 AGTAAAAAAT
* * *
59625633 AAAAAAATTAACTAAATAAAATAAAATATCTAATTTAGTAATTAAGTCTGCCATACAAAATAAGT
1 AAAAAAATTAACTAAATAAAATAAAATAACTAATTTAGTAATTAAGTCTGCAATACAAAAGAAGT
59625698 AAA
66 AAA
* *
59625701 AAAAACAATTAACTAAATAAAATAAAATAACTAATTTAGTAATTAAGTTTGCAATGCAAAAGAAG
1 AAAAA-AATTAACTAAATAAAATAAAATAACTAATTTAGTAATTAAGTCTGCAATACAAAAGAAG
59625766 T
65 T
59625767 CGTAGTGATG
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
68 5 0.08
69 55 0.92
ACGTcount: A:0.57, C:0.08, G:0.07, T:0.28
Consensus pattern (68 bp):
AAAAAAATTAACTAAATAAAATAAAATAACTAATTTAGTAATTAAGTCTGCAATACAAAAGAAGT
AAA
Found at i:59626705 original size:21 final size:21
Alignment explanation
Indices: 59626681--59626720 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
59626671 AATATCTATT
*
59626681 ACTTAAAATAACTAAAAATTA
1 ACTTAAAACAACTAAAAATTA
*
59626702 ACTTAAAACAAGTAAAAAT
1 ACTTAAAACAACTAAAAAT
59626721 AATATAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (21 bp):
ACTTAAAACAACTAAAAATTA
Found at i:59644911 original size:41 final size:39
Alignment explanation
Indices: 59644863--59645035 Score: 161
Period size: 41 Copynumber: 4.3 Consensus size: 39
59644853 TGGCGCTAAC
* **
59644863 AGAAAAACGCCATAATAGGTAAAGCGGTAGCGGCGTTTATG
1 AGAAAAACGCCA-AA-AGGTCAAGCATTAGCGGCGTTTATG
* * *
59644904 AGAAAAACGCTGCAAAAGGTCTAGCATTAACGACGTTTATG
1 AGAAAAACGC--CAAAAGGTCAAGCATTAGCGGCGTTTATG
* *
59644945 AGAAAAATGCCACAAAAGGTCAAGCATTAGCGGCG-CTATG
1 AGAAAAACG-C-CAAAAGGTCAAGCATTAGCGGCGTTTATG
* *
59644985 AGAAAAACGCCACAAAAGGTCAAGCATTAGCGACG-CTATG
1 AGAAAAACG-C-CAAAAGGTCAAGCATTAGCGGCGTTTATG
*
59645025 AGAAAAGCGCC
1 AGAAAAACGCC
59645036 GCAAAGTATC
Statistics
Matches: 114, Mismatches: 15, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 50 0.44
41 57 0.50
42 3 0.03
43 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.16
Consensus pattern (39 bp):
AGAAAAACGCCAAAAGGTCAAGCATTAGCGGCGTTTATG
Found at i:59644990 original size:81 final size:81
Alignment explanation
Indices: 59644863--59645040 Score: 214
Period size: 81 Copynumber: 2.2 Consensus size: 81
59644853 TGGCGCTAAC
* * * * ** *
59644863 AGAAAAACGCCATAATAGGTAAAGCGGTAGCGGCGTTTATGAGAAAAACGCTGCAAAAGGTCTAG
1 AGAAAAACGCCACAAAAGGTAAAGCAGTAGCGGCGTCTATGAGAAAAACGCCACAAAAGGTCAAG
*
59644928 CATTAACGACGTTTATG
66 CATTAACGACG-CTATG
* * *
59644945 AGAAAAATGCCACAAAAGGTCAAGCATTAGCGGCG-CTATGAGAAAAACGCCACAAAAGGTCAAG
1 AGAAAAACGCCACAAAAGGTAAAGCAGTAGCGGCGTCTATGAGAAAAACGCCACAAAAGGTCAAG
*
59645009 CATTAGCGACGCTATG
66 CATTAACGACGCTATG
* *
59645025 AGAAAAGCGCCGCAAA
1 AGAAAAACGCCACAAA
59645041 GTATCATTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 17 0.21
81 35 0.43
82 29 0.36
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.16
Consensus pattern (81 bp):
AGAAAAACGCCACAAAAGGTAAAGCAGTAGCGGCGTCTATGAGAAAAACGCCACAAAAGGTCAAG
CATTAACGACGCTATG
Found at i:59644997 original size:40 final size:40
Alignment explanation
Indices: 59644847--59645040 Score: 199
Period size: 40 Copynumber: 4.8 Consensus size: 40
59644837 AAATATTATA
* ** * * *
59644847 CATTAGTGGCGCTAACAGAAAAACGCCATAATAGGTAAAG
1 CATTAGCGGCGCTATGAGAAAAACGCCACAAAAGGTCAAG
** * ** *
59644887 CGGTAGCGGCGTTTATGAGAAAAACGCTGCAAAAGGTCTAG
1 CATTAGCGGCG-CTATGAGAAAAACGCCACAAAAGGTCAAG
* * * *
59644928 CATTAACGACGTTTATGAGAAAAATGCCACAAAAGGTCAAG
1 CATTAGCGGCG-CTATGAGAAAAACGCCACAAAAGGTCAAG
59644969 CATTAGCGGCGCTATGAGAAAAACGCCACAAAAGGTCAAG
1 CATTAGCGGCGCTATGAGAAAAACGCCACAAAAGGTCAAG
* * *
59645009 CATTAGCGACGCTATGAGAAAAGCGCCGCAAA
1 CATTAGCGGCGCTATGAGAAAAACGCCACAAA
59645041 GTATCATTTT
Statistics
Matches: 126, Mismatches: 27, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
40 64 0.51
41 62 0.49
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (40 bp):
CATTAGCGGCGCTATGAGAAAAACGCCACAAAAGGTCAAG
Found at i:59645459 original size:25 final size:25
Alignment explanation
Indices: 59645429--59645476 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
59645419 TATTAGCTCA
59645429 ATTTTTATTATTTCATTTAACAATT
1 ATTTTTATTATTTCATTTAACAATT
59645454 ATTTTTATTATTTCATTTAACAA
1 ATTTTTATTATTTCATTTAACAA
59645477 AATGTTGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTTATTATTTCATTTAACAATT
Found at i:59645810 original size:32 final size:32
Alignment explanation
Indices: 59645769--59645834 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
59645759 ACTTGTAGGC
59645769 CTAAGCTTAGCTTTGTGCTTGAAATTTTAATG
1 CTAAGCTTAGCTTTGTGCTTGAAATTTTAATG
59645801 CTAAGCTTAGCTTTGTGCTTGAAATTTTAATG
1 CTAAGCTTAGCTTTGTGCTTGAAATTTTAATG
59645833 CT
1 CT
59645835 TTATATGTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (32 bp):
CTAAGCTTAGCTTTGTGCTTGAAATTTTAATG
Found at i:59649169 original size:72 final size:72
Alignment explanation
Indices: 59649082--59649300 Score: 212
Period size: 72 Copynumber: 3.1 Consensus size: 72
59649072 ATTAATTATC
* **
59649082 AAGTAAAACTATTTATTTAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTT
1 AAGTAAAACTGTTTATTTAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTT
59649147 TGATATT
66 TGATATT
* * * * * ** *
59649154 AAGTGAAACTGTTTATTTAGTTAT-ACA-TTTTCAGAAGCTTAATTTAGTTTGATTTATTGAA-A
1 AAGTAAAACTGTTTATTTAATTATGA-ATTTTTAAAAAGGTTAATTTAGTTCAATTTATT-AAGT
59649216 TTTGATATT
64 TTTGATATT
* * * * * * *
59649225 AAGTAAAAAC-GTTTGTTCAATTATGAATTTTTAAAAATGTTAATTTGGATCAACTTATTGAGTT
1 AAGT-AAAACTGTTTATTTAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTT
*
59649289 TTAATATT
65 TTGATATT
59649297 AAGT
1 AAGT
59649301 GGAACCATTT
Statistics
Matches: 114, Mismatches: 27, Indels: 12
0.75 0.18 0.08
Matches are distributed among these distances:
71 52 0.46
72 62 0.54
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.47
Consensus pattern (72 bp):
AAGTAAAACTGTTTATTTAATTATGAATTTTTAAAAAGGTTAATTTAGTTCAATTTATTAAGTTT
TGATATT
Found at i:59650321 original size:36 final size:35
Alignment explanation
Indices: 59650281--59650366 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 35
59650271 AACTTTGGAT
59650281 CATAACTTACATAA-TACATAAATATATATATCATAC
1 CATAACTTACATAACTACAT-AA-ATATATATCATAC
*
59650317 CATAACTTACATAACTTACATAAATATATATCATAT
1 CATAACTTACATAAC-TACATAAATATATATCATAC
*
59650353 CATAACTTATATAA
1 CATAACTTACATAA
59650367 AACTTTGGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
36 39 0.85
37 2 0.04
38 5 0.11
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (35 bp):
CATAACTTACATAACTACATAAATATATATCATAC
Found at i:59650331 original size:9 final size:9
Alignment explanation
Indices: 59650281--59650339 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
59650271 AACTTTGGAT
59650281 CATAACTTA
1 CATAACTTA
59650290 CATAA--TA
1 CATAACTTA
*
59650297 CATAAATATA
1 CATAACT-TA
* * *
59650307 TATATCATA
1 CATAACTTA
59650316 CCATAACTTA
1 -CATAACTTA
59650326 CATAACTTA
1 CATAACTTA
59650335 CATAA
1 CATAA
59650340 ATATATATCA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
7 7 0.18
9 21 0.54
10 11 0.28
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (9 bp):
CATAACTTA
Found at i:59656448 original size:43 final size:43
Alignment explanation
Indices: 59656382--59656636 Score: 278
Period size: 43 Copynumber: 6.0 Consensus size: 43
59656372 CATTTAACGA
* * *
59656382 CGTTTGTGGG-GAAGCGCCGCTAAAGGTCATATCCTTTAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
* * **
59656424 CATTTGTGGGAAAAGCGCCACTAAAGGTCATGTTCTTTAGTAG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
* ** * *
59656467 CGTTTATGGTTAAAGCACCGCTAAAGGTCATGTTCTTTAGAGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
* *** * *
59656510 CGTTTGTGGGAAAAGCACCAAAAAAGGTCATATTCTATAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
* *
59656553 CGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
* * * * *
59656596 CATTTATGGGAAAAGTGCCGCTAAAGTTCATGTTCTATAGC
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
59656637 AGTGTTTTTT
Statistics
Matches: 173, Mismatches: 39, Indels: 1
0.81 0.18 0.00
Matches are distributed among these distances:
42 9 0.05
43 164 0.95
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (43 bp):
CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
Found at i:59656505 original size:86 final size:86
Alignment explanation
Indices: 59656382--59656643 Score: 319
Period size: 86 Copynumber: 3.1 Consensus size: 86
59656372 CATTTAACGA
* * * *
59656382 CGTTTGTGGGG-AAGCGCCGCTAAAGGTCATATCCTTTAGCGGCATTTGTGGGAAAAGCGCCACT
1 CGTTTATGGGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGAGGCATTTGTGGGAAAAGCGCCACT
* *
59656446 AAAGGTCATGTTCTTTAGTAG
66 AAAGGTCATGTTCTATAGCAG
** * * * **
59656467 CGTTTATGGTTAAAGCACCGCTAAAGGTCATGTTCTTTAGAGGCGTTTGTGGGAAAAGCACCAAA
1 CGTTTATGGGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGAGGCATTTGTGGGAAAAGCGCCACT
* *
59656532 AAAGGTCATATTCTATAGCGG
66 AAAGGTCATGTTCTATAGCAG
* * * * *
59656553 CGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCATTTATGGGAAAAGTGCCGCT
1 CGTTTATGGGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGAGGCATTTGTGGGAAAAGCGCCACT
*
59656618 AAAGTTCATGTTCTATAGCAG
66 AAAGGTCATGTTCTATAGCAG
*
59656639 TGTTT
1 CGTTT
59656644 TTTTGTGAGA
Statistics
Matches: 145, Mismatches: 31, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
85 8 0.06
86 137 0.94
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (86 bp):
CGTTTATGGGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGAGGCATTTGTGGGAAAAGCGCCACT
AAAGGTCATGTTCTATAGCAG
Found at i:59659783 original size:34 final size:34
Alignment explanation
Indices: 59659738--59659841 Score: 129
Period size: 34 Copynumber: 3.1 Consensus size: 34
59659728 ACATATATAA
* * *
59659738 ATATCATATCAACATGTCATATTAT-CATAAACAT
1 ATATCAGATCAAAATGTCATATT-TCCAAAAACAT
*
59659772 ATATTAGATCAAAATGTCATATTTCCAAAAACAT
1 ATATCAGATCAAAATGTCATATTTCCAAAAACAT
* * *
59659806 ATATCATATCAAAATGTCATATTTCCAGAAGCAT
1 ATATCAGATCAAAATGTCATATTTCCAAAAACAT
59659840 AT
1 AT
59659842 GTCAAATTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 1 0.02
34 60 0.98
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (34 bp):
ATATCAGATCAAAATGTCATATTTCCAAAAACAT
Found at i:59659860 original size:34 final size:34
Alignment explanation
Indices: 59659738--59659862 Score: 108
Period size: 34 Copynumber: 3.7 Consensus size: 34
59659728 ACATATATAA
* * * *
59659738 ATATCATATCAACATGTCATATTAT-CATAAACAT
1 ATATCAAATCAAAATATCATATT-TCCAAAAACAT
* * *
59659772 ATATTAGATCAAAATGTCATATTTCCAAAAACAT
1 ATATCAAATCAAAATATCATATTTCCAAAAACAT
* * * *
59659806 ATATCATATCAAAATGTCATATTTCCAGAAGCAT
1 ATATCAAATCAAAATATCATATTTCCAAAAACAT
* * *
59659840 ATGTCAAATTAGAATATCATATT
1 ATATCAAATCAAAATATCATATT
59659863 AGATCAGAAC
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
33 1 0.01
34 76 0.99
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.34
Consensus pattern (34 bp):
ATATCAAATCAAAATATCATATTTCCAAAAACAT
Found at i:59660762 original size:13 final size:13
Alignment explanation
Indices: 59660744--59660772 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
59660734 AATGAATTAA
59660744 TAAAATTTTAAAT
1 TAAAATTTTAAAT
59660757 TAAAATTTTAAAT
1 TAAAATTTTAAAT
59660770 TAA
1 TAA
59660773 TGAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAAATTTTAAAT
Found at i:59665864 original size:34 final size:35
Alignment explanation
Indices: 59665826--59665892 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
59665816 CAGTAAAATA
59665826 TTTTCCGTAAAATGATTT-CTGAAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
* *
59665860 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
59665893 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:59667598 original size:10 final size:10
Alignment explanation
Indices: 59667585--59667633 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
59667575 TAAATTTTTT
59667585 AAAATTATAA
1 AAAATTATAA
59667595 AAAATTATAA
1 AAAATTATAA
* *
59667605 AAACTATTTTTA
1 AAA--ATTATAA
59667617 AAAATTA-AA
1 AAAATTATAA
59667626 AAAATTAT
1 AAAATTAT
59667634 TATTTTCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
9 8 0.25
10 16 0.50
12 8 0.25
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTATAA
Found at i:59668656 original size:63 final size:63
Alignment explanation
Indices: 59668601--59668721 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 63
59668591 TTTAGGACTT
* * * *
59668601 GAGATTCAATGTTCCATGTTCTAAGTTTCAGGTTCATGGTTTATGGTTCAAGGTTTGAGGCTC
1 GAGATTCAAGGTTCCATGTTCTAAGGTTCAGGTTCATGATTTAGGGTTCAAGGTTTGAGGCTC
* * * * *
59668664 GATATTCAAGGTTCCATGTTTTGAGGTTCATGTTCATGATTTAGGGTTCGAGGTTTGA
1 GAGATTCAAGGTTCCATGTTCTAAGGTTCAGGTTCATGATTTAGGGTTCAAGGTTTGA
59668722 TATTCAAGGT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 49 1.00
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.40
Consensus pattern (63 bp):
GAGATTCAAGGTTCCATGTTCTAAGGTTCAGGTTCATGATTTAGGGTTCAAGGTTTGAGGCTC
Found at i:59669961 original size:15 final size:15
Alignment explanation
Indices: 59669901--59669961 Score: 68
Period size: 15 Copynumber: 4.1 Consensus size: 15
59669891 TGTTTGATCA
59669901 ATTGAAAAATTAAGT
1 ATTGAAAAATTAAGT
* *
59669916 ACTAAAAAATTAAGT
1 ATTGAAAAATTAAGT
* * *
59669931 GTTGAAAGATTGAGT
1 ATTGAAAAATTAAGT
*
59669946 ATTGAAATATTAAGT
1 ATTGAAAAATTAAGT
59669961 A
1 A
59669962 CAAAATTTAA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.49, C:0.02, G:0.16, T:0.33
Consensus pattern (15 bp):
ATTGAAAAATTAAGT
Found at i:59671346 original size:28 final size:29
Alignment explanation
Indices: 59671284--59671346 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
59671274 TAGCAAATGT
*
59671284 CTATTTTCATAATTAATATGTTTTTCATA
1 CTATTTTCATAATGAATATGTTTTTCATA
*
59671313 CCATTTTCATAATGAATTAT-TTTTT-ATA
1 CTATTTTCATAATGAA-TATGTTTTTCATA
*
59671341 TTATTT
1 CTATTT
59671347 GGGTAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 7 0.24
29 19 0.66
30 3 0.10
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (29 bp):
CTATTTTCATAATGAATATGTTTTTCATA
Found at i:59671572 original size:15 final size:15
Alignment explanation
Indices: 59671554--59671604 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
59671544 TCAACAAAAA
59671554 AAGTTGTTAAATATT
1 AAGTTGTTAAATATT
*
59671569 AAGTTGTTAGATATT
1 AAGTTGTTAAATATT
* **
59671584 AATTTGGAAAATATT
1 AAGTTGTTAAATATT
59671599 AAGTTG
1 AAGTTG
59671605 ATTTTATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (15 bp):
AAGTTGTTAAATATT
Found at i:59671821 original size:40 final size:40
Alignment explanation
Indices: 59671777--59671860 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
59671767 CATTATCAAA
59671777 CAAAATAATTATATTCAATGTTTAATTTTTATTAACATGT
1 CAAAATAATTATATTCAATGTTTAATTTTTATTAACATGT
*
59671817 CAAAATAATTATATTCAGTGTTTAATTTTTATTAACATGT
1 CAAAATAATTATATTCAATGTTTAATTTTTATTAACATGT
59671857 CAAA
1 CAAA
59671861 CAATTTTATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (40 bp):
CAAAATAATTATATTCAATGTTTAATTTTTATTAACATGT
Found at i:59676662 original size:21 final size:21
Alignment explanation
Indices: 59676636--59676676 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
59676626 AGACGAGCAA
* *
59676636 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
59676657 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
59676677 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:59679284 original size:6 final size:6
Alignment explanation
Indices: 59679273--59679306 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
59679263 ATCCCAGAAT
59679273 CATAGC CATAGC CATAGC CATAGC CATAGC CATA
1 CATAGC CATAGC CATAGC CATAGC CATAGC CATA
59679307 ATAGTGTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.15, T:0.18
Consensus pattern (6 bp):
CATAGC
Found at i:59681121 original size:31 final size:31
Alignment explanation
Indices: 59681063--59681124 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
59681053 AATTATCAAC
* *
59681063 TAGTAACTTGAATAATAACTTTTAAATAGTT
1 TAGTAACTTAAATAATAAATTTTAAATAGTT
*
59681094 TAGTGACTTAAATAA-AAATTTTCAAATAGTT
1 TAGTAACTTAAATAATAAATTTT-AAATAGTT
59681125 CAATAATCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (31 bp):
TAGTAACTTAAATAATAAATTTTAAATAGTT
Found at i:59682026 original size:43 final size:43
Alignment explanation
Indices: 59681886--59682028 Score: 173
Period size: 43 Copynumber: 3.3 Consensus size: 43
59681876 TTATGTGAAA
* *
59681886 AAACGCCGCTATAA-AACATGACCTTTAGTGGCGC-TTTCCAAAC
1 AAACGCCGCTA-AAGAACATGACCTTTAGTGGCGCTTTTCC-CAT
* * * * *
59681929 AAACGCCACTATAGAACATGACCTTTAGTAGCACTTTTTCCAT
1 AAACGCCGCTAAAGAACATGACCTTTAGTGGCGCTTTTCCCAT
* *
59681972 AAACGCCGCTAAAGAATATGACCTTTAGCGGCGCTTTTCCCAT
1 AAACGCCGCTAAAGAACATGACCTTTAGTGGCGCTTTTCCCAT
59682015 AAACGCCGCTAAAG
1 AAACGCCGCTAAAG
59682029 GTCATGTTCT
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 79 0.94
44 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGTGGCGCTTTTCCCAT
Found at i:59682587 original size:19 final size:19
Alignment explanation
Indices: 59682513--59682584 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
59682503 AATCTTTAAG
59682513 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
59682532 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
59682551 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
59682572 GATATGCAATCTT
1 GATATGCAATCTT
59682585 GGAAGATATG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:59691447 original size:15 final size:16
Alignment explanation
Indices: 59691427--59691456 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59691417 CCTTAATTTT
59691427 TTTAAAAA-AAAAAAC
1 TTTAAAAATAAAAAAC
59691442 TTTAAAAATAAAAAA
1 TTTAAAAATAAAAAA
59691457 TAAATCCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
TTTAAAAATAAAAAAC
Found at i:59694116 original size:2 final size:2
Alignment explanation
Indices: 59694111--59694150 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
59694101 TATATATATT
* *
59694111 TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TA TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
59694151 ATCTCATTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.05, C:0.00, G:0.45, T:0.50
Consensus pattern (2 bp):
TG
Found at i:59696082 original size:144 final size:142
Alignment explanation
Indices: 59695921--59696260 Score: 416
Period size: 149 Copynumber: 2.3 Consensus size: 142
59695911 AATTTACTAA
* *
59695921 ATTATTTTAGTAAATTATGCTTGAAATGTATTAATTTACTGTTTTTTAAATAAATTTTAAAAAA-
1 ATTATTTTAGT-AATTATGCTTGAAATGTATTCATTTAGTGTTTTTTAAATAAA-TTTAAAAAAC
* * *
59695985 AAAACTCTT-ATTTCATC-CCTTTTTTCCCCGAATTTTATTACTTTTAAAAAATATACTATTTTC
64 AAAA-TCTTCATTTCATCGCATTTTTTCCCAG-ATTTTATTAC-TTTAAAAAATATAATATTTTC
59696048 TAATTTTATTATTTTAC
126 TAATTTTATTATTTTAC
*
59696065 ATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTAAAAAA
1 ATTATTTTAGTA-ATTATGCTTGAAATGTATTCATTTA--GTGTTTTTTAAATAAATTTAAAAAA
*** * * ** *
59696130 TCCTTATTTTGGCCCTTTGTTCGTATTTTTTCCCAGATTTTATTACTTTAAAAAATATAATATTT
63 -CAAAATCTT---CATTTCATCGCATTTTTTCCCAGATTTTATTACTTTAAAAAATATAATATTT
59696195 TCTAATTTTATTATTTTAC
124 TCTAATTTTATTATTTTAC
59696214 ATTATTTTAGTAATTATGCTTGAAATGTATTCATTTAGTGTGTTTTT
1 ATTATTTTAGTAATTATGCTTGAAATGTATTCATTTAGTGT-TTTTT
59696261 TATTGAAAGT
Statistics
Matches: 170, Mismatches: 15, Indels: 19
0.83 0.07 0.09
Matches are distributed among these distances:
143 1 0.01
144 34 0.20
145 9 0.05
146 22 0.13
147 6 0.04
148 24 0.14
149 49 0.29
150 15 0.09
151 10 0.06
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (142 bp):
ATTATTTTAGTAATTATGCTTGAAATGTATTCATTTAGTGTTTTTTAAATAAATTTAAAAAACAA
AATCTTCATTTCATCGCATTTTTTCCCAGATTTTATTACTTTAAAAAATATAATATTTTCTAATT
TTATTATTTTAC
Found at i:59696707 original size:158 final size:152
Alignment explanation
Indices: 59696257--59697219 Score: 1320
Period size: 151 Copynumber: 6.4 Consensus size: 152
59696247 TTTAGTGTGT
*
59696257 TTTTTATTGAAAGTAATAAAATC-CGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTT
1 TTTTTATT-AAAGTAATAAAATCTAGGGAAAAAAATACGAACAAAGGGCCGAAATAA-GGTTTTT
59696321 TTAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
64 TT--AATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
*
59696386 AAATAATAAAATTAGAAAATATTATA
127 AAATAATAAAATTAGAAAATAGTATA
*
59696412 TTTTT-TAAAAGTAATAAAATCT-GGGAAAAAAATACGAACAAAGGGCCGAAATAAAGGTTTTTT
1 TTTTTATTAAAGTAATAAAATCTAGGGAAAAAAATACGAACAAAGGGCCGAAAT-AAGGTTTTTT
* *
59696475 TAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
65 TAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
*
59696540 TAATAAAATTAGAAAATATTATA
130 TAATAAAATTAGAAAATAGTATA
*
59696563 TTTTTATTGAAAGTAATAAAATCTAGGAAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTT
1 TTTTTATT-AAAGTAATAAAATCTAGGGAAAAAAATACGAACAAAGGGCCGAAATAAGG--TTTT
*
59696628 TTTAAAAATTTATTTTAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATG
63 TTT---AATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATG
*
59696693 TAAAATAATAAAATTAGAAAATATTATA
125 TAAAATAATAAAATTAGAAAATAGTATA
* *
59696721 TTTTTATTGAAAGTAATAAAATCT-GGGAAAAAAATACGAACAAAGGACCGAAATAATGATTTTT
1 TTTTTATT-AAAGTAATAAAATCTAGGGAAAAAAATACGAACAAAGGGCCGAAATAA-GGTTTTT
*
59696785 TTAAATTTATTTAAAAAACACACTAAATGAATGCATTT---A-A-AATGTACTAAAATAATGTAA
64 TT-AATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
* * *
59696845 AATTAGAAAATTAGAAAATAGCAT-
128 AATAATAAAATTAGAAAATAGTATA
* * *
59696869 TTTTT-TTAAAGTAATAAAAT-TCAGAG-AAAAAATACGAACAAATGGCCAAAATAAGG-TTTTT
1 TTTTTATTAAAGTAATAAAATCT-AGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTT
* * * *
59696930 TAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAGCATAATATACTAAAATAATGTAAAA
65 TAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
* *
59696995 TAAAAAAAATTATAAAATAGTATA
130 T-AATAAAATTAGAAAATAGTATA
* * *
59697019 TTTTT-TTAAAGTAATAAAAT-TCGGGAAAAAAATACGAACGAATGGCCGAAATAAGGGTTTTTT
1 TTTTTATTAAAGTAATAAAATCTAGGGAAAAAAATACGAACAAAGGGCCGAAATAA-GGTTTTTT
** *
59697082 TAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATCTACTAAAATAATGTAAAA
65 TAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
59697147 TAATAAAATTAGAAAATAGTAT-
130 TAATAAAATTAGAAAATAGTATA
* * * *
59697169 TTTTTA--AAAGTAATAAAATC-A-AGAAAAAAATATGAACAAAAGGCTGAAATA
1 TTTTTATTAAAGTAATAAAATCTAGGGAAAAAAATACGAACAAAGGGCCGAAATA
59697220 CGAACATGTT
Statistics
Matches: 734, Mismatches: 49, Indels: 57
0.87 0.06 0.07
Matches are distributed among these distances:
143 32 0.04
144 6 0.01
145 2 0.00
146 38 0.05
147 5 0.01
148 52 0.07
149 72 0.10
150 53 0.07
151 112 0.15
152 66 0.09
153 72 0.10
154 66 0.09
155 12 0.02
156 7 0.01
157 30 0.04
158 109 0.15
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (152 bp):
TTTTTATTAAAGTAATAAAATCTAGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTT
AATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAAT
AATAAAATTAGAAAATAGTATA
Found at i:59697326 original size:13 final size:12
Alignment explanation
Indices: 59697307--59697336 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
59697297 GTAAATAAAC
59697307 TTTTTTGTATAT
1 TTTTTTGTATAT
59697319 TATTTTTGTATAT
1 T-TTTTTGTATAT
59697332 TTTTT
1 TTTTT
59697337 ATTTTTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (12 bp):
TTTTTTGTATAT
Found at i:59697354 original size:17 final size:18
Alignment explanation
Indices: 59697321--59697354 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59697311 TTGTATATTA
*
59697321 TTTTTGTATATTTTTTAT
1 TTTTTGTATATATTTTAT
59697339 TTTTTGTA-ATATTTTA
1 TTTTTGTATATATTTTA
59697355 ATAAAAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTTTGTATATATTTTAT
Found at i:59697765 original size:19 final size:19
Alignment explanation
Indices: 59697743--59697796 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
59697733 ATTACAAAAT
*
59697743 AATTCAAAATAATTT-TTAA
1 AATTCAAAAT-ATTTATAAA
*
59697762 AATTAAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
*
59697781 AATTCTAAA-ATTTATA
1 AATTCAAAATATTTATA
59697797 TATATTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:59697775 original size:18 final size:19
Alignment explanation
Indices: 59697743--59697781 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
59697733 ATTACAAAAT
* *
59697743 AATTCAAAATAATTTTTAA
1 AATTAAAAATAATTTATAA
59697762 AATTAAAAAT-ATTTATAA
1 AATTAAAAATAATTTATAA
59697780 AA
1 AA
59697782 ATTCTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTAAAAATAATTTATAA
Found at i:59697784 original size:28 final size:28
Alignment explanation
Indices: 59697730--59697812 Score: 71
Period size: 28 Copynumber: 2.9 Consensus size: 28
59697720 TCTCTCAACA
* *
59697730 AAAATTACAAAATAATTCA-AAATAATTTTT
1 AAAATTA-AAAAT-ATTTATAAA-AATTTCT
59697760 AAAATTAAAAATATTTATAAAAA-TTCT
1 AAAATTAAAAATATTTATAAAAATTTCT
* * *
59697787 AAAATTTATATATATTTTTAAAAATT
1 AAAA-TTAAAAATATTTATAAAAATT
59697813 ATAAAAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
27 7 0.16
28 22 0.49
29 9 0.20
30 7 0.16
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (28 bp):
AAAATTAAAAATATTTATAAAAATTTCT
Found at i:59706051 original size:32 final size:32
Alignment explanation
Indices: 59705977--59706051 Score: 75
Period size: 32 Copynumber: 2.3 Consensus size: 32
59705967 TTTGTTACAT
59705977 GCTCGAGCTTTATCAAGCTCAAATTTTCTCAG
1 GCTCGAGCTTTATCAAGCTCAAATTTTCTCAG
* * *
59706009 GATC-AGGCTTT-TCCTAGCTCGAATTTTCTC-G
1 GCTCGA-GCTTTAT-CAAGCTCAAATTTTCTCAG
59706040 AGCTCGAGCTTT
1 -GCTCGAGCTTT
59706052 CTTGAACTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
31 3 0.09
32 31 0.89
33 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (32 bp):
GCTCGAGCTTTATCAAGCTCAAATTTTCTCAG
Found at i:59718656 original size:23 final size:23
Alignment explanation
Indices: 59718628--59718673 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
59718618 TATATGAAAT
* *
59718628 ATAAATTTTAAATATTTTTAAAA
1 ATAAATATTAAATATTTATAAAA
*
59718651 ATAAATATTAATTATTTATAAAA
1 ATAAATATTAAATATTTATAAAA
59718674 TTTAATTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAAATATTAAATATTTATAAAA
Found at i:59719951 original size:22 final size:23
Alignment explanation
Indices: 59719926--59719975 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 23
59719916 ACTCTTTCAA
59719926 AAAAAATTTCAAAA-TA-ATTTTT
1 AAAAAATTT-AAAATTATATTTTT
59719948 --AAAATTTAAAATTTATATTTTT
1 AAAAAATTTAAAA-TTATATTTTT
59719970 AAAAAA
1 AAAAAA
59719976 ATTCTAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
19 4 0.17
20 7 0.30
21 2 0.09
22 6 0.26
24 4 0.17
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAAAATTTAAAATTATATTTTT
Found at i:59719953 original size:20 final size:21
Alignment explanation
Indices: 59719928--59719973 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
59719918 TCTTTCAAAA
59719928 AAAATTTCAAAA-TA-ATTTTT
1 AAAATTT-AAAATTATATTTTT
59719948 AAAATTTAAAATTTATATTTTT
1 AAAATTTAAAA-TTATATTTTT
59719970 AAAA
1 AAAA
59719974 AAATTCTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.17
20 7 0.30
21 2 0.09
22 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAATTTAAAATTATATTTTT
Done.