Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009289.1 Hibiscus syriacus cultivar Beakdansim tig00112988_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1661737
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:922355 original size:31 final size:31
Alignment explanation
Indices: 922320--922386 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
922310 TGATGAACAC
*
922320 ATCTTAATTAAATAAAAACGAAAGTGATCAT
1 ATCTTAATTAAATAAAAACGAAAGTGACCAT
*
922351 ATCTTAATTAAATAAAAATGAAAGTGACCAT
1 ATCTTAATTAAATAAAAACGAAAGTGACCAT
922382 ATCTT
1 ATCTT
922387 TTTTTTTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.31
Consensus pattern (31 bp):
ATCTTAATTAAATAAAAACGAAAGTGACCAT
Found at i:930553 original size:6 final size:6
Alignment explanation
Indices: 930542--930575 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
930532 TTTTTAATCA
930542 TTCGGT TTCGGT TTCGGT TTCGGT TTCGGT TTCG
1 TTCGGT TTCGGT TTCGGT TTCGGT TTCGGT TTCG
930576 ATTTTTTTGG
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:0.00, C:0.18, G:0.32, T:0.50
Consensus pattern (6 bp):
TTCGGT
Found at i:930690 original size:21 final size:20
Alignment explanation
Indices: 930604--930761 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
930594 AAATGACCAA
**
930604 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
930623 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
930643 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
930663 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
930684 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
930705 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
930725 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
930746 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
930762 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 42 0.40
21 46 0.44
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:930790 original size:20 final size:20
Alignment explanation
Indices: 930729--930957 Score: 230
Period size: 20 Copynumber: 11.4 Consensus size: 20
930719 GATTTTCAAG
* ** *
930729 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
930749 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
930769 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
930789 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
930809 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
930829 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
930849 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
930869 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
930889 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
930909 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
930929 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
930949 AATCACAAC
1 AATCGCAAC
930958 ACTGAAATTT
Statistics
Matches: 175, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 171 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:931886 original size:12 final size:12
Alignment explanation
Indices: 931869--931893 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
931859 ATATAATCCT
931869 GAAGAAGAAAAA
1 GAAGAAGAAAAA
931881 GAAGAAGAAAAA
1 GAAGAAGAAAAA
931893 G
1 G
931894 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:934241 original size:53 final size:54
Alignment explanation
Indices: 934178--934458 Score: 439
Period size: 53 Copynumber: 5.2 Consensus size: 54
934168 GCAACGAGAG
* * *
934178 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAGATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAGAATCGCAATGCGGAAATGAA
934231 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAGAATCGCAATGCGGAAATGAA
934284 AATCGCAATGCGAAATGAAAATCGCAACGAT-AGAATCGCAATGC-GAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAGAATCGCAATGCGGAAATGAA
934336 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAGAATCGCAATGCGGAAATGAA
*
934389 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGG-AATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAGAATCGCAATGCGGAAATGAA
*
934446 AATCGCATTGCGA
1 AATCGCAATGCGA
934459 TTCTCTCGTT
Statistics
Matches: 214, Mismatches: 5, Indels: 14
0.92 0.02 0.06
Matches are distributed among these distances:
52 51 0.24
53 126 0.59
54 1 0.00
55 2 0.01
57 19 0.09
58 15 0.07
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (54 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAGAATCGCAATGCGGAAATGAA
Found at i:934250 original size:19 final size:19
Alignment explanation
Indices: 934178--934458 Score: 332
Period size: 19 Copynumber: 15.7 Consensus size: 19
934168 GCAACGAGAG
934178 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
934197 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
*
934211 AATCGCAATGCGGAGATGAA
1 AATCGCAATGC-GAAATGAA
934231 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
934250 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
934264 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
934284 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
934303 AATCGCAA--CG--AT-AG
1 AATCGCAATGCGAAATGAA
934317 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
934336 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
934355 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
934369 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
934389 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
934408 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
934427 AATCGCAATGCGGAATGAA
1 AATCGCAATGCGAAATGAA
*
934446 AATCGCATTGCGA
1 AATCGCAATGCGA
934459 TTCTCTCGTT
Statistics
Matches: 227, Mismatches: 12, Indels: 46
0.80 0.04 0.16
Matches are distributed among these distances:
14 41 0.18
15 4 0.02
16 5 0.02
17 9 0.04
18 2 0.01
19 124 0.55
20 42 0.19
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:934365 original size:105 final size:106
Alignment explanation
Indices: 934178--934458 Score: 458
Period size: 105 Copynumber: 2.6 Consensus size: 106
934168 GCAACGAGAG
* *
934178 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAGATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAAAATCGCAATGC-GAAATGAAAATCGCAATGC
934242 GAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
65 GAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
*
934284 AATCGCAATGCGAAATGAAAATCGCAACGAT-AGAATCGCAATGCGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAAAATCGCAATGCGAAATGAAAATCGCAATGCG
934348 AAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
66 AAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
* *
934389 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGGAATGAAAATCGCAT
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAAAATCGCAA
934454 TGCGA
62 TGCGA
934459 TTCTCTCGTT
Statistics
Matches: 163, Mismatches: 6, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
105 87 0.53
106 39 0.24
107 4 0.02
109 2 0.01
110 31 0.19
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (106 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAAAATCGCAATGCGAAATGAAAATCGCAATGCG
AAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
Found at i:934492 original size:20 final size:20
Alignment explanation
Indices: 934467--934514 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
934457 GATTCTCTCG
934467 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCCGCA
934487 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCCGCA
934507 TTGCGATT
1 TTGCGATT
934515 CTCTTGCGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.46
Consensus pattern (20 bp):
TTGCGATTTTCATTTCCGCA
Found at i:934550 original size:50 final size:54
Alignment explanation
Indices: 934449--934551 Score: 160
Period size: 50 Copynumber: 2.0 Consensus size: 54
934439 GAATGAAAAT
**
934449 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTTC
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATAGTCATTTC
934503 CGCATTGCGA-T-TCTC-TTGCGATTTTCATTT-CGCATTGCGATAGTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATAGTCATTT
934552 TTGCCTTCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
50 17 0.36
51 15 0.32
52 4 0.09
53 1 0.02
54 10 0.21
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (54 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATAGTCATTTC
Found at i:934669 original size:14 final size:14
Alignment explanation
Indices: 934650--934686 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
934640 CATCAATTAC
934650 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
934664 ACAAATCATCTTTT
1 ACAAATCAACTTTT
934678 ACAAATCAA
1 ACAAATCAA
934687 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:935660 original size:20 final size:20
Alignment explanation
Indices: 935629--935725 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
935619 TTTTGGTTGA
935629 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
935649 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
935669 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
935688 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
935703 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
935723 AAT
1 AAT
935726 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:935681 original size:21 final size:21
Alignment explanation
Indices: 935627--935691 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
935617 TCTTTTGGTT
935627 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
935648 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
935668 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
935689 GAA
1 GAA
935692 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:935695 original size:14 final size:14
Alignment explanation
Indices: 935676--935732 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
935666 GAGAAATGAA
935676 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
935690 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
935709 AATCGCAACGAGAG
1 AATCGCAACGAGAG
935723 AATCGCAACG
1 AATCGCAACG
935733 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:935708 original size:33 final size:33
Alignment explanation
Indices: 935627--935749 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
935617 TCTTTTGGTT
*
935627 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
935668 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
935701 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
935734 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
935750 TGCGATTTGG
Statistics
Matches: 81, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
33 50 0.62
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.27
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:935784 original size:14 final size:14
Alignment explanation
Indices: 935765--935821 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
935755 TTTGGTTTCG
935765 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
935779 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
935798 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
935812 CGTTGCGATT
1 CGTTGCGATT
935822 TTCATTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:935800 original size:33 final size:33
Alignment explanation
Indices: 935760--935828 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
935750 TGCGATTTGG
935760 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
935793 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
935826 TTT
1 TTT
935829 TTCTCGTTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.09, C:0.23, G:0.20, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
Found at i:935834 original size:21 final size:21
Alignment explanation
Indices: 935809--935882 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
935799 GTTGCGATTC
935809 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
935830 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
935851 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
935872 TCTCGTTGCGA
1 TCTCGTTGCGA
935883 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:936004 original size:33 final size:33
Alignment explanation
Indices: 935962--936032 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
935952 AATACTAACT
935962 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
935995 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
936028 TGAAA
1 TGAAA
936033 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:936436 original size:20 final size:20
Alignment explanation
Indices: 936411--936603 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
936401 CTTTAAAAAT
936411 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
936431 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
936451 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
936472 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
936492 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
936512 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
936532 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
936552 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
936572 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
936592 CGCGTTGCGATT
1 CGCGTTGCGATT
936604 CTGGAAAATC
Statistics
Matches: 152, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
20 134 0.88
21 18 0.12
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:936949 original size:29 final size:29
Alignment explanation
Indices: 936917--937002 Score: 136
Period size: 29 Copynumber: 3.0 Consensus size: 29
936907 ATCATAAATA
936917 TTTTAAAAATTATAAAATAATCATTAAAC
1 TTTTAAAAATTATAAAATAATCATTAAAC
* *
936946 TTTTAAGAATTATAAAACAATCATTAAAC
1 TTTTAAAAATTATAAAATAATCATTAAAC
* *
936975 TTTCAAAAATTATAAAATAATCGTTAAA
1 TTTTAAAAATTATAAAATAATCATTAAA
937003 TATTTTGAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.36
Consensus pattern (29 bp):
TTTTAAAAATTATAAAATAATCATTAAAC
Found at i:949786 original size:24 final size:21
Alignment explanation
Indices: 949743--949786 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
949733 TTTAAGTCTC
*
949743 AATGTTTCATTTTAGGTTAAA
1 AATGATTCATTTTAGGTTAAA
949764 AATGATTCTATTTTGAGCGTTAA
1 AATGATTC-ATTTT-AG-GTTAA
949787 TCATGTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 5 0.26
23 2 0.11
24 5 0.26
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (21 bp):
AATGATTCATTTTAGGTTAAA
Found at i:950489 original size:10 final size:10
Alignment explanation
Indices: 950474--950511 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
950464 GGATCGGCTG
950474 AAAATCAGAA
1 AAAATCAGAA
*
950484 AAAATCGGAA
1 AAAATCAGAA
950494 AAAATC-GAGA
1 AAAATCAGA-A
950504 AAAATCAG
1 AAAATCAG
950512 GATTTTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 2 0.08
10 22 0.88
11 1 0.04
ACGTcount: A:0.63, C:0.11, G:0.16, T:0.11
Consensus pattern (10 bp):
AAAATCAGAA
Found at i:950505 original size:11 final size:11
Alignment explanation
Indices: 950474--950507 Score: 54
Period size: 10 Copynumber: 3.3 Consensus size: 11
950464 GGATCGGCTG
950474 AAAATC-AGAA
1 AAAATCGAGAA
950484 AAAATCG-GAA
1 AAAATCGAGAA
950494 AAAATCGAGAA
1 AAAATCGAGAA
950505 AAA
1 AAA
950508 TCAGGATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 16 0.73
11 6 0.27
ACGTcount: A:0.68, C:0.09, G:0.15, T:0.09
Consensus pattern (11 bp):
AAAATCGAGAA
Found at i:952739 original size:21 final size:20
Alignment explanation
Indices: 952712--952810 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
952702 AATCAGTTTC
952712 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
952733 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
952754 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
952774 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
952795 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
952811 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 17 0.28
21 44 0.72
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:952839 original size:20 final size:20
Alignment explanation
Indices: 952778--953006 Score: 214
Period size: 20 Copynumber: 11.4 Consensus size: 20
952768 GATTTTCAAG
* ** *
952778 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
952798 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
952818 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
952838 AA-CTGCTACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
*
952858 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
952878 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
952898 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
952918 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
952938 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
952958 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
952978 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
952998 AATCACAAC
1 AATCGCAAC
953007 ACTGAAATTT
Statistics
Matches: 173, Mismatches: 28, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
19 3 0.02
20 168 0.97
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:953738 original size:24 final size:23
Alignment explanation
Indices: 953699--953744 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
953689 AAATTTGGTC
953699 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGA-TTTGATA
953723 TTGGTCAATA-CACGGATTTGAT
1 TTGGTCAATATC-CGGATTTGAT
953745 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (23 bp):
TTGGTCAATATCCGGATTTGATA
Found at i:953936 original size:12 final size:12
Alignment explanation
Indices: 953919--953943 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
953909 ATATAATCCT
953919 GAAGAAGAAAAA
1 GAAGAAGAAAAA
953931 GAAGAAGAAAAA
1 GAAGAAGAAAAA
953943 G
1 G
953944 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:956317 original size:72 final size:72
Alignment explanation
Indices: 956229--956462 Score: 286
Period size: 72 Copynumber: 3.3 Consensus size: 72
956219 GCAACGAGAG
956229 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
956294 AAATGAA
66 AAATGAA
* * * *
956301 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
956366 AAATGAA
66 AAATGAA
* * * * * *
956373 AATCGCAACGAGAGAATCG-CAATGCGAA-ATGAAAATCGCAATGC-GAAATGAAAATCGCAA--
1 AATCGCAATGCGA-AAT-GAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATG
*
956433 CG--A-GAG
64 CGAAATGAA
956439 AATCGCAATGCGGAAATGAAAATC
1 AATCGCAATGC-GAAATGAAAATC
956463 GCAATGCGAA
Statistics
Matches: 139, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
65 1 0.01
66 17 0.12
67 3 0.02
69 2 0.01
71 16 0.12
72 91 0.65
73 8 0.06
74 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:956350 original size:53 final size:52
Alignment explanation
Indices: 956215--956484 Score: 406
Period size: 53 Copynumber: 5.1 Consensus size: 52
956205 CGGAAATTAC
*
956215 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C--AA-GAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
956262 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
956320 AATCGCAACGAGAGAATCACAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
956373 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
956425 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
956478 AATCGCA
1 AATCGCA
956485 TTGCGATTCT
Statistics
Matches: 205, Mismatches: 5, Indels: 20
0.89 0.02 0.09
Matches are distributed among these distances:
47 8 0.04
49 1 0.00
50 1 0.00
52 65 0.32
53 114 0.56
55 2 0.01
56 1 0.00
57 2 0.01
58 11 0.05
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:956490 original size:72 final size:68
Alignment explanation
Indices: 956205--956489 Score: 267
Period size: 72 Copynumber: 4.0 Consensus size: 68
956195 TATCACAACA
* * *
956205 CGGAAATTACAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAAC-AAGAAAATCGCA
1 CGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAAGAAAATCGCA
956269 ATG
66 ATG
* *
956272 CGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACG-AGAGAA
1 CGGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAACGAAGAAAA
*
956336 TCACAATG
61 TCGCAATG
* * * * *
956344 CGGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 CGGAAATGAAAATCGCAACGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAA--CG-AA-GAA
956406 AATCGCAATG
59 AATCGCAATG
956416 C-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAA
1 CGGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAA--CG-AA-GAAAA
*
956480 TCGCATTG
61 TCGCAATG
956488 CG
1 CG
956490 ATTCTCTCGT
Statistics
Matches: 180, Mismatches: 19, Indels: 32
0.78 0.08 0.14
Matches are distributed among these distances:
65 7 0.04
66 7 0.04
67 26 0.14
69 4 0.02
70 1 0.01
71 21 0.12
72 106 0.59
73 3 0.02
74 5 0.03
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (68 bp):
CGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAAGAAAATCGCA
ATG
Found at i:956504 original size:105 final size:105
Alignment explanation
Indices: 956268--956466 Score: 83
Period size: 105 Copynumber: 1.9 Consensus size: 105
956258 AGAAAATCGC
* * * * *
956268 AATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGA-AATGAAAAT-CGCAACGA
1 AATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGGAA--A
* * * * *
956331 -GAGAATCACAATGCGGAAATGAAAATCGCAATGCGA-AAT-GAA
63 TGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCG-C
* * * * * * *
956373 AAT-CGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA-AATGAAAAT-CGCAACG
1 AATGCGAAATGA-A-AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGGAA--
*
956435 A-GAGAATCGCAATGCGGAAATGAAAATCGCAA
62 ATGAAAATCGCAATGC-GAAATGAAAATCGCAA
956467 TGCGAAATGA
Statistics
Matches: 89, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
103 5 0.06
104 2 0.02
105 82 0.92
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.14
Consensus pattern (105 bp):
AATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGGAAATGA
AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGC
Found at i:956524 original size:53 final size:52
Alignment explanation
Indices: 956461--956576 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
956451 GAAATGAAAA
*
956461 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
956513 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
956566 TCGCATTGCGA
1 TCGCATTGCGA
956577 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 11 0.20
53 45 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:956539 original size:19 final size:19
Alignment explanation
Indices: 956499--956586 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
956489 GATTCTCTCG
956499 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
956519 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
956538 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
956552 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
956571 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
956587 AACATAATGC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.10
16 7 0.11
17 7 0.11
19 26 0.43
20 15 0.25
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:956696 original size:14 final size:14
Alignment explanation
Indices: 956677--956713 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
956667 CATCAATTAC
956677 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
956691 ACAAATCATCTTTT
1 ACAAATCAACTTTT
956705 ACAAATCAA
1 ACAAATCAA
956714 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:958683 original size:19 final size:19
Alignment explanation
Indices: 958637--958809 Score: 150
Period size: 19 Copynumber: 9.6 Consensus size: 19
958627 TAGTTTACTT
* *
958637 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* *
958657 TCGTAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
958676 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
958695 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
958714 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
958733 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
958747 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
958766 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
958780 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
958799 TCGCAATGCGA
1 TCGCAACGCGA
958810 TTTTGGTTTC
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 18 0.14
15 1 0.01
16 7 0.06
17 7 0.06
18 1 0.01
19 81 0.64
20 11 0.09
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:958750 original size:14 final size:14
Alignment explanation
Indices: 958731--958787 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
958721 GCGAAATGAA
*
958731 AATCGCAACGACAG
1 AATCGCAACGAAAG
958745 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
958762 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
958778 AATCGCAACG
1 AATCGCAACG
958788 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:958758 original size:33 final size:33
Alignment explanation
Indices: 958712--958804 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
958702 GCGAAACCAA
958712 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
958745 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
958778 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
958805 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:958801 original size:52 final size:52
Alignment explanation
Indices: 958671--958809 Score: 147
Period size: 52 Copynumber: 2.7 Consensus size: 52
958661 AACGCGAAAT
* * * *
958671 GAGAATCGCAACGAGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGC
1 GAGAATCGCAACGCGAAACGAAAATCGCAATGCGAAACCAAAATCGCAACGA
* ** * **
958723 GA-AAT-GAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAACGA
1 GAGAATCGCAACGCGAAACGA-A-AATCGCAATGCGAAACCAAAATCGCAACGA
*
958775 GAGAATCGCAACGCGAAATGAAAATCGCAATGCGA
1 GAGAATCGCAACGCGAAACGAAAATCGCAATGCGA
958810 TTTTGGTTTC
Statistics
Matches: 68, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
50 8 0.12
51 4 0.06
52 43 0.63
53 4 0.06
54 9 0.13
ACGTcount: A:0.46, C:0.23, G:0.22, T:0.09
Consensus pattern (52 bp):
GAGAATCGCAACGCGAAACGAAAATCGCAATGCGAAACCAAAATCGCAACGA
Found at i:958840 original size:14 final size:14
Alignment explanation
Indices: 958821--958879 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
958811 TTTGGTTTCG
958821 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
958835 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
* *
958852 CGCGTTGCGATTCTCT
1 --CGTTGCGATTTTGT
958868 CGTTGCGATTTT
1 CGTTGCGATTTT
958880 CATTTCGCGT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 23 0.62
15 1 0.03
16 1 0.03
17 1 0.03
19 11 0.30
ACGTcount: A:0.07, C:0.19, G:0.27, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:958847 original size:33 final size:33
Alignment explanation
Indices: 958805--958928 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
958795 AAAATCGCAA
* *
958805 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
958838 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
**
958871 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
* *
958904 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
958929 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.09, C:0.19, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
Found at i:958859 original size:19 final size:19
Alignment explanation
Indices: 958805--958863 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 19
958795 AAAATCGCAA
958805 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
958824 TGCGATTTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
958838 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
958857 TGCGATT
1 TGCGATT
958864 CTCTCGTTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 12 0.34
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 19 0.54
ACGTcount: A:0.07, C:0.15, G:0.31, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:958892 original size:19 final size:18
Alignment explanation
Indices: 958805--958896 Score: 65
Period size: 19 Copynumber: 5.4 Consensus size: 18
958795 AAAATCGCAA
*
958805 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-CTTTCGCGT
*
958824 TGCGA-TTT-TGT--CGT
1 TGCGATTTTCTTTCGCGT
*
958838 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-CTTTCGCGT
*
958857 TGCGA--TTC--TCTCGT
1 TGCGATTTTCTTTCGCGT
958871 TGCGATTTTCATTTCGCGT
1 TGCGATTTTC-TTTCGCGT
958890 TGCGATT
1 TGCGATT
958897 CTCTCGTTGC
Statistics
Matches: 58, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 18 0.31
15 3 0.05
16 5 0.09
17 4 0.07
18 3 0.05
19 25 0.43
ACGTcount: A:0.08, C:0.18, G:0.27, T:0.47
Consensus pattern (18 bp):
TGCGATTTTCTTTCGCGT
Found at i:958906 original size:14 final size:14
Alignment explanation
Indices: 958854--958910 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
958844 TTTGGTTTCG
958854 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
958868 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
958887 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
958901 CGTTGCGATT
1 CGTTGCGATT
958911 TTAAGTTTCG
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:959185 original size:93 final size:93
Alignment explanation
Indices: 959026--959341 Score: 614
Period size: 93 Copynumber: 3.4 Consensus size: 93
959016 TCAGGGTATT
959026 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
959091 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
959119 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
959184 TACTATTTCACAATGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
959212 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
959277 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
959305 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
959342 AAGCAATCTA
Statistics
Matches: 220, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 220 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:961059 original size:20 final size:20
Alignment explanation
Indices: 961028--961124 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
961018 TTTTGGTTGA
961028 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
961048 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
961068 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
961087 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
961102 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
961122 AAT
1 AAT
961125 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:961080 original size:21 final size:21
Alignment explanation
Indices: 961026--961090 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
961016 TCTTTTGGTT
961026 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
961047 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
961067 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
961088 GAA
1 GAA
961091 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:961094 original size:14 final size:14
Alignment explanation
Indices: 961075--961131 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
961065 GAGAAATGAA
961075 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
961089 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
961108 AATCGCAACGAGAG
1 AATCGCAACGAGAG
961122 AATCGCAACG
1 AATCGCAACG
961132 CGATTTTGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:961107 original size:33 final size:33
Alignment explanation
Indices: 961026--961134 Score: 137
Period size: 33 Copynumber: 3.1 Consensus size: 33
961016 TCTTTTGGTT
*
961026 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
961067 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
961100 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
961133 GA
1 GA
961135 TTTTGGTTTC
Statistics
Matches: 67, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
33 36 0.54
35 7 0.10
38 1 0.01
40 1 0.01
41 22 0.33
ACGTcount: A:0.45, C:0.19, G:0.26, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:961182 original size:21 final size:21
Alignment explanation
Indices: 961157--961230 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
961147 GTTGCGATTC
961157 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
961178 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
961199 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
961220 TCTCGTTGCGA
1 TCTCGTTGCGA
961231 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:961352 original size:33 final size:33
Alignment explanation
Indices: 961310--961380 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
961300 AATACTAACT
961310 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
961343 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
961376 TGAAA
1 TGAAA
961381 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:961784 original size:20 final size:20
Alignment explanation
Indices: 961759--961951 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
961749 CTTTAAAAAT
961759 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
961779 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
961799 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
961820 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
961840 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
961860 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
961880 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
961900 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
961920 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
961940 CGCGTTGCGATT
1 CGCGTTGCGATT
961952 CTGGAAAATC
Statistics
Matches: 152, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
20 134 0.88
21 18 0.12
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:965844 original size:35 final size:35
Alignment explanation
Indices: 965798--965873 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
965788 AAAACAATCC
* *
965798 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
965833 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
965868 TCAATT
1 TCAATT
965874 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:966416 original size:130 final size:130
Alignment explanation
Indices: 966270--966517 Score: 397
Period size: 130 Copynumber: 1.9 Consensus size: 130
966260 TATTTATATA
* ** *
966270 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACAAGTG
** * *
966335 TTAGTACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATATCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
966400 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACAAGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACAAGTG
* * *
966465 TTAACACATGATCATGATATATATTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATATCATTGGTGACACATGTCACCACCTAATTA
966518 GAAGAAAATT
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
130 107 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACAAGTG
TTAACACATGATCATGACACATATCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:966548 original size:130 final size:129
Alignment explanation
Indices: 966284--966548 Score: 282
Period size: 130 Copynumber: 2.0 Consensus size: 129
966274 ATTTGGTCCT
* ** * **
966284 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGTACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACAAGTGTTAACACATGATCA
* * *** * * **** *
966349 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATATCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
966414 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACAAGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACAAGTGTTAACACATGATCA
* * * *
966479 TGATATATATTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATATCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
966543 -A
128 CA
966544 AAATT
1 AAATT
966549 TGGGTCTTCA
Statistics
Matches: 110, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
130 97 0.88
132 8 0.07
133 5 0.05
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACAAGTGTTAACACATGATCA
TGACACATATCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:966872 original size:26 final size:26
Alignment explanation
Indices: 966841--966898 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
966831 AGTTGATAGA
*
966841 ATATTTAAAAGAATAAATTTAA-GATT
1 ATATTTAAAA-AATAAATTTAATAATT
** *
966867 ATATTTTTAAACTAAATTTAATAATT
1 ATATTTAAAAAATAAATTTAATAATT
966893 ATATTT
1 ATATTT
966899 TTCATATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (26 bp):
ATATTTAAAAAATAAATTTAATAATT
Found at i:993611 original size:66 final size:66
Alignment explanation
Indices: 993524--993663 Score: 237
Period size: 66 Copynumber: 2.1 Consensus size: 66
993514 TTGGACGGCT
993524 TATGC-ATTACTCAAATCTGATATTAACGTCTTGGTAACTCTCTTCCCTTCCCTTTATTCTAGGG
1 TATGCTATTACTCAAATCTGATATTAACGTCTTGGTAACTCTCTTCCCTTCCCTTTATTCTAGGG
993588 C
66 C
* *
993589 TATGCTATTACTCAAATTTGATATTAACGTCTTTGTAACTCTCTTCCCTTCCCTTTATTCTAGGG
1 TATGCTATTACTCAAATCTGATATTAACGTCTTGGTAACTCTCTTCCCTTCCCTTTATTCTAGGG
*
993654 T
66 C
*
993655 TATGTTATT
1 TATGCTATT
993664 TTCTCACATC
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
65 5 0.07
66 65 0.93
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.44
Consensus pattern (66 bp):
TATGCTATTACTCAAATCTGATATTAACGTCTTGGTAACTCTCTTCCCTTCCCTTTATTCTAGGG
C
Found at i:1001342 original size:11 final size:11
Alignment explanation
Indices: 1001323--1001356 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
1001313 TATGAATAAG
1001323 ATAATAATAATA
1 ATAA-AATAATA
1001335 ATAAAATAATA
1 ATAAAATAATA
*
1001346 ATGAAATAATA
1 ATAAAATAATA
1001357 TTTAAACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:1001370 original size:8 final size:7
Alignment explanation
Indices: 1001359--1001421 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 7
1001349 AAATAATATT
1001359 TAAACATA
1 TAAA-ATA
1001367 TAAAAT-
1 TAAAATA
1001373 TAAAATA
1 TAAAATA
1001380 T-AAATAA
1 TAAAAT-A
1001387 TAAAAT-
1 TAAAATA
1001393 TAAAAT-
1 TAAAATA
1001399 TAAAAT-
1 TAAAATA
1001405 TAAAAT-
1 TAAAATA
1001411 T-AAATA
1 TAAAATA
1001417 TAAAA
1 TAAAA
1001422 AGTAATAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
5 4 0.08
6 30 0.60
7 8 0.16
8 8 0.16
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (7 bp):
TAAAATA
Found at i:1001378 original size:6 final size:6
Alignment explanation
Indices: 1001367--1001447 Score: 72
Period size: 6 Copynumber: 12.3 Consensus size: 6
1001357 TTTAAACATA
*
1001367 TAAAAT TAAAAT ATAAATAA TAAAAT TAAAAT TAAAAT TAAAAT TAAATAT
1 TAAAAT TAAAAT -TAAA-AT TAAAAT TAAAAT TAAAAT TAAAAT TAAA-AT
* *
1001418 AAAAAGT AATAAAACT TATAAT TAAAAT TA
1 TAAAA-T --TAAAA-T TAAAAT TAAAAT TA
1001448 GTGACTAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
6 38 0.61
7 18 0.29
8 1 0.02
9 5 0.08
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (6 bp):
TAAAAT
Found at i:1001382 original size:13 final size:13
Alignment explanation
Indices: 1001358--1001421 Score: 80
Period size: 12 Copynumber: 5.0 Consensus size: 13
1001348 GAAATAATAT
1001358 TTAAACATATAAAA
1 TTAAA-ATATAAAA
1001372 TTAAAATATAAATA
1 TTAAAATATAAA-A
*
1001386 ATAAAAT-TAAAA
1 TTAAAATATAAAA
1001398 TTAAAAT-TAAAA
1 TTAAAATATAAAA
1001410 TT-AAATATAAAA
1 TTAAAATATAAAA
1001422 AGTAATAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
11 4 0.09
12 19 0.41
13 11 0.24
14 12 0.26
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAAATATAAAA
Found at i:1001387 original size:32 final size:30
Alignment explanation
Indices: 1001336--1001420 Score: 86
Period size: 32 Copynumber: 2.8 Consensus size: 30
1001326 ATAATAATAA
* *
1001336 TAAAA-TAATAATGAAATAAT-ATTTAAACAT
1 TAAAATTAA-AATTAAATAATAAATTAAA-AT
1001366 ATAAAATTAAAATATAAATAATAAAATTAAAAT
1 -TAAAATTAAAAT-TAAATAAT-AAATTAAAAT
1001399 TAAAATTAAAATTAAAT-ATAAA
1 TAAAATTAAAATTAAATAATAAA
1001421 AAGTAATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
29 3 0.06
30 2 0.04
31 13 0.27
32 22 0.46
33 2 0.04
34 6 0.12
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (30 bp):
TAAAATTAAAATTAAATAATAAATTAAAAT
Found at i:1001389 original size:20 final size:20
Alignment explanation
Indices: 1001366--1001431 Score: 82
Period size: 20 Copynumber: 3.3 Consensus size: 20
1001356 ATTTAAACAT
1001366 ATAAAATTAAAATATAAATA
1 ATAAAATTAAAATATAAATA
1001386 ATAAAATTAAAAT-TAAA-A
1 ATAAAATTAAAATATAAATA
* *
1001404 TTAAAATTAAATATAAAAAGTA
1 ATAAAATTAAA-ATATAAA-TA
1001426 ATAAAA
1 ATAAAA
1001432 CTTATAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
18 11 0.28
19 6 0.15
20 16 0.41
22 6 0.15
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAAAATTAAAATATAAATA
Found at i:1002739 original size:3 final size:3
Alignment explanation
Indices: 1002725--1002819 Score: 88
Period size: 3 Copynumber: 32.0 Consensus size: 3
1002715 GTTGTATCTG
* * * *
1002725 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAT TAT TAT TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
1002772 AAA TAA TAA TAA TAG TAA TAA AAA TAA -ATA TAA TAA -ATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA
1002817 TAA
1 TAA
1002820 AAAACCAAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
2 4 0.05
3 73 0.92
4 2 0.03
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1004384 original size:16 final size:15
Alignment explanation
Indices: 1004353--1004402 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
1004343 GAGAGAGTTG
1004353 GAATCTGTGAAGAAATT
1 GAATCTGT--AGAAATT
1004370 AGAATCTGTAGAAATT
1 -GAATCTGTAGAAATT
*
1004386 GAAATCTATAGAAATT
1 G-AATCTGTAGAAATT
1004402 G
1 G
1004403 GAATTTGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 1 0.03
16 21 0.70
18 8 0.27
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.30
Consensus pattern (15 bp):
GAATCTGTAGAAATT
Found at i:1005020 original size:39 final size:39
Alignment explanation
Indices: 1004962--1005045 Score: 152
Period size: 39 Copynumber: 2.2 Consensus size: 39
1004952 TTCACCCTAA
1004962 ACCCGAACCCGAACCGAATATCACACTTAAAAAAACCCG
1 ACCCGAACCCGAACCGAATATCACACTTAAAAAAACCCG
1005001 ACCCGAACCCG-ACCTGAATATCACACTTAAAAAAACCCG
1 ACCCGAACCCGAACC-GAATATCACACTTAAAAAAACCCG
1005040 ACCCGA
1 ACCCGA
1005046 CTCGAATATC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
38 3 0.07
39 41 0.93
ACGTcount: A:0.42, C:0.37, G:0.11, T:0.11
Consensus pattern (39 bp):
ACCCGAACCCGAACCGAATATCACACTTAAAAAAACCCG
Found at i:1005085 original size:33 final size:34
Alignment explanation
Indices: 1004960--1005073 Score: 142
Period size: 33 Copynumber: 3.2 Consensus size: 34
1004950 TTTTCACCCT
1004960 AAACCCGAACCCGAA-CCGAATATCACACTTAAAA
1 AAACCCG-ACCCGAACCCGAATATCACACTTAAAA
1004994 AAACCCGACCCGAACCCGACCTGAATATCACACTTAAAA
1 AAACCCGACCCGAA--C--CC-GAATATCACACTTAAAA
* *
1005033 AAACCCGACCCG-ACTCGAATATCAAACTTAAAA
1 AAACCCGACCCGAACCCGAATATCACACTTAAAA
1005066 AAACCCGA
1 AAACCCGA
1005074 TTGAACCCGA
Statistics
Matches: 72, Mismatches: 2, Indels: 13
0.83 0.02 0.15
Matches are distributed among these distances:
33 31 0.43
34 8 0.11
36 1 0.01
38 3 0.04
39 29 0.40
ACGTcount: A:0.45, C:0.33, G:0.10, T:0.12
Consensus pattern (34 bp):
AAACCCGACCCGAACCCGAATATCACACTTAAAA
Found at i:1016092 original size:3 final size:3
Alignment explanation
Indices: 1016084--1016108 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1016074 TTATTGCTTG
1016084 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
1016109 TACTTTATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:1018289 original size:113 final size:113
Alignment explanation
Indices: 1018047--1018287 Score: 376
Period size: 113 Copynumber: 2.1 Consensus size: 113
1018037 CTAGGGTGTA
* *
1018047 TTCGGTTCGGTTTCTTATTAAAAACTGAACCAAACCGAAATAAATGAATTTTTAAAATTTAAATC
1 TTCGGTTCGGTTTTTTACTAAAAACTGAACCAAACCGAAATAAATGAATTTTTAAAATTTAAATC
* *
1018112 GAAACCGAATGATTAAAAAACCGAATTATGTGAAACCGATTTTTTCGG
66 GAAACCAAATGATTAAAAAACCGAATTATGTGAAACCGAATTTTTCGG
* * * ** *
1018160 TTCGGTTCGATTTTTTACTAAAAACTGAACCGAACCTAAATAAATGGGTTTTTAGAATTTAAATC
1 TTCGGTTCGGTTTTTTACTAAAAACTGAACCAAACCGAAATAAATGAATTTTTAAAATTTAAATC
*
1018225 GAAACTAAATGATT-AAAAACCGAATTATGTGAAACCGAATTTTTCGG
66 GAAACCAAATGATTAAAAAACCGAATTATGTGAAACCGAATTTTTCGG
1018272 TTCGGTTCGGTTTTTT
1 TTCGGTTCGGTTTTTT
1018288 TAACGGTTCG
Statistics
Matches: 116, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
112 47 0.41
113 69 0.59
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (113 bp):
TTCGGTTCGGTTTTTTACTAAAAACTGAACCAAACCGAAATAAATGAATTTTTAAAATTTAAATC
GAAACCAAATGATTAAAAAACCGAATTATGTGAAACCGAATTTTTCGG
Found at i:1019463 original size:21 final size:21
Alignment explanation
Indices: 1019418--1019466 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
1019408 TTATCCGGGA
* *
1019418 AAAAAATCCGGTATGGGGTTT
1 AAAAAATTCGGTATGGAGTTT
*
1019439 -AAAAATTCGGTTTGGAGTTT
1 AAAAAATTCGGTATGGAGTTT
1019459 AAAAAATT
1 AAAAAATT
1019467 GGATGATCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (21 bp):
AAAAAATTCGGTATGGAGTTT
Found at i:1019513 original size:18 final size:19
Alignment explanation
Indices: 1019490--1019525 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
1019480 TTTTACCGGA
1019490 TTAAAAACC-GTTTTTTTT
1 TTAAAAACCGGTTTTTTTT
1019508 TTAAAAACCGGTTTTTTT
1 TTAAAAACCGGTTTTTTT
1019526 CAAACCGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.53
Consensus pattern (19 bp):
TTAAAAACCGGTTTTTTTT
Found at i:1019749 original size:24 final size:25
Alignment explanation
Indices: 1019720--1019768 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1019710 TTTAGTCCTC
1019720 GATTA-TTAAAAGTTATAAAATAAT
1 GATTATTTAAAAGTTATAAAATAAT
* * *
1019744 GATTATTTATATGTTATAAACTAAT
1 GATTATTTAAAAGTTATAAAATAAT
1019769 CATTTATCGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (25 bp):
GATTATTTAAAAGTTATAAAATAAT
Found at i:1020175 original size:19 final size:18
Alignment explanation
Indices: 1020138--1020179 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
1020128 ATTATAAACT
* *
1020138 TAATAAAATAATATTTTA
1 TAATTAAATAATATCTTA
1020156 TAATTAAATAATTATCTTA
1 TAATTAAATAA-TATCTTA
1020175 TAATT
1 TAATT
1020180 TTTTATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATTAAATAATATCTTA
Found at i:1020188 original size:59 final size:59
Alignment explanation
Indices: 1020089--1020208 Score: 170
Period size: 59 Copynumber: 2.0 Consensus size: 59
1020079 TCAATAGAAC
* *
1020089 AATATCTTATAATAAAAAACTATTTTATAATTTTTAATAATTATAA-ACTTAATAAAAT
1 AATATCTTATAATAAAAAACTATCTTATAATTTTTAATAATTAAAAGACTTAATAAAAT
* * * *
1020147 AATATTTTATAATTAAATAATTATCTTATAATTTTTTATAATTAAAAGACTTAATAAAAT
1 AATATCTTATAA-TAAAAAACTATCTTATAATTTTTAATAATTAAAAGACTTAATAAAAT
1020207 AA
1 AA
1020209 CATCGAGATT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
58 11 0.20
59 29 0.54
60 14 0.26
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (59 bp):
AATATCTTATAATAAAAAACTATCTTATAATTTTTAATAATTAAAAGACTTAATAAAAT
Found at i:1022657 original size:24 final size:25
Alignment explanation
Indices: 1022603--1022651 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
1022593 TAAATTGTTA
*
1022603 ATAAAAATAATATTATTTTTAATTT
1 ATAAAAATAATATTATTTTAAATTT
1022628 CATAAAAATAATATTA-TTTAAATT
1 -ATAAAAATAATATTATTTTAAATT
1022652 GTTAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATAAAAATAATATTATTTTAAATTT
Found at i:1022786 original size:42 final size:42
Alignment explanation
Indices: 1022731--1022820 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
1022721 AGTTTAATAA
* ** *
1022731 TATTATTATTTTAATAAGTAATTAATATACTTAATAATATAT-
1 TATTTTTATTTTAATAAACAATTAATATAATT-ATAATATATG
* *
1022773 TATTTTTATTTTAATAAACATTTAATATAATTATAATATTTG
1 TATTTTTATTTTAATAAACAATTAATATAATTATAATATATG
1022815 TATTTT
1 TATTTT
1022821 AATAAAATAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 8 0.20
42 33 0.80
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (42 bp):
TATTTTTATTTTAATAAACAATTAATATAATTATAATATATG
Found at i:1022843 original size:33 final size:34
Alignment explanation
Indices: 1022763--1022852 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 34
1022753 TAATATACTT
*
1022763 AATAATA-TATTATTTTTATTTTAATAAACATTTA
1 AATAATATTAATATTTTTATTTTAATAAACA-TTA
*
1022797 ATATAAT-TATAATATTTGTATTTTAATAAA-A-TA
1 A-ATAATAT-TAATATTTTTATTTTAATAAACATTA
1022830 CAATAATATTAATATTTTTATTT
1 -AATAATATTAATATTTTTATTT
1022853 AAAATTGTAG
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
33 20 0.42
34 3 0.06
35 6 0.12
36 19 0.40
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (34 bp):
AATAATATTAATATTTTTATTTTAATAAACATTA
Found at i:1023946 original size:25 final size:25
Alignment explanation
Indices: 1023898--1023958 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 25
1023888 ATTATTACTG
* *
1023898 AAAAATAAAAAAAGAATGTTAAATTAA
1 AAAAAT-AAAAAAGAATATCAAA-TAA
1023925 AAAAATAAAAAA-AATATCAAATAA
1 AAAAATAAAAAAGAATATCAAATAA
*
1023949 AAGAA-AAAAA
1 AAAAATAAAAA
1023959 GGGTTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 5 0.16
24 7 0.23
25 7 0.23
26 6 0.19
27 6 0.19
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (25 bp):
AAAAATAAAAAAGAATATCAAATAA
Found at i:1024063 original size:18 final size:19
Alignment explanation
Indices: 1024040--1024075 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1024030 AAAAGAAGTA
1024040 ATATAAAAATAA-AAAATT
1 ATATAAAAATAATAAAATT
*
1024058 ATATAATAATAATAAAAT
1 ATATAAAAATAATAAAAT
1024076 AAATAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
ATATAAAAATAATAAAATT
Found at i:1024081 original size:18 final size:17
Alignment explanation
Indices: 1024045--1024174 Score: 60
Period size: 17 Copynumber: 7.7 Consensus size: 17
1024035 AAGTAATATA
*
1024045 AAAATAA-AAAATTATAT
1 AAAATAATAAAA-TAAAT
1024062 AATAATAATAAAATAAAT
1 AA-AATAATAAAATAAAT
1024080 AAAATAGAT-AAATAAAAT
1 AAAATA-ATAAAAT-AAAT
** *
1024098 TGAGTAA-AAAATAAAAT
1 AAAATAATAAAAT-AAAT
* *
1024115 AAAA-AACATAA-AAAT
1 AAAATAATAAAATAAAT
**
1024130 AAAAATAATAAAA-ATGT
1 -AAAATAATAAAATAAAT
*
1024147 AAAAT-ATTAAATAAAT
1 AAAATAATAAAATAAAT
1024163 CAAAATAA-AAAA
1 -AAAATAATAAAA
1024175 ACAATAACAA
Statistics
Matches: 86, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
15 9 0.10
16 13 0.15
17 39 0.45
18 21 0.24
19 4 0.05
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (17 bp):
AAAATAATAAAATAAAT
Found at i:1024143 original size:15 final size:15
Alignment explanation
Indices: 1024110--1024200 Score: 67
Period size: 15 Copynumber: 5.7 Consensus size: 15
1024100 AGTAAAAAAT
1024110 AAAATAAAAA-ACATA
1 AAAATAAAAATA-ATA
1024125 AAAATAAAAATAATA
1 AAAATAAAAATAATA
* *
1024140 AAAATGTAAAATATTAA
1 AAAAT-AAAAATAAT-A
* *
1024157 ATAAATCAAAATAAAAA
1 A-AAATAAAAAT-AATA
*
1024174 AACAATAACAAAAAATA
1 AA-AATAA-AAATAATA
1024191 AAAATAAAAA
1 AAAATAAAAA
1024201 ATGTTAAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
15 21 0.34
16 14 0.23
17 18 0.30
18 8 0.13
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.18
Consensus pattern (15 bp):
AAAATAAAAATAATA
Found at i:1024149 original size:44 final size:42
Alignment explanation
Indices: 1024100--1024199 Score: 105
Period size: 44 Copynumber: 2.3 Consensus size: 42
1024090 AATAAAATTG
*
1024100 AGTAAAAAATAAAATAAA-AAACATAAAAATAAAAATAATAAAA
1 AGTAAAAAATAAAATAAACAAA-ATAAAAA-AAAAATAACAAAA
* * *
1024143 ATGTAAAATATTAAATAAATCAAAATAAAAAAACAATAACAAAA
1 A-GTAAAAAATAAAATAAA-CAAAATAAAAAAAAAATAACAAAA
*
1024187 AAT-AAAAATAAAA
1 AGTAAAAAATAAAA
1024200 AATGTTAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
42 8 0.17
43 2 0.04
44 27 0.57
45 7 0.15
46 3 0.06
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (42 bp):
AGTAAAAAATAAAATAAACAAAATAAAAAAAAAATAACAAAA
Found at i:1025402 original size:29 final size:28
Alignment explanation
Indices: 1025378--1025434 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
1025368 ATTATATGTA
* *
1025378 TTTAAAAACGTTTTCAAAACCTATATAT
1 TTTAAAAACGTTTTAAAAAACTATATAT
* *
1025406 TTTTAAAATGTTTTAAAAAACTATATAT
1 TTTAAAAACGTTTTAAAAAACTATATAT
1025434 T
1 T
1025435 ATATAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (28 bp):
TTTAAAAACGTTTTAAAAAACTATATAT
Found at i:1025469 original size:36 final size:37
Alignment explanation
Indices: 1025399--1025787 Score: 542
Period size: 38 Copynumber: 10.4 Consensus size: 37
1025389 TTTCAAAACC
*
1025399 TATATA-TTTTTAAAATGTTTTAAAAAACTATATATTA
1 TATATAGTTTTCAAAATGTTTT-AAAAACTATATATTA
*
1025436 TATA-AGTTTTCAAAATGTTTTAAAAACTCTATATTA
1 TATATAGTTTTCAAAATGTTTTAAAAACTATATATTA
* *
1025472 AATATAAGTTTTCAAAATGTTTTAAAAATTATATATTA
1 TATAT-AGTTTTCAAAATGTTTTAAAAACTATATATTA
*
1025510 TATATA-TTTTCAAAATGTTTTAAAAAATTATATATTA
1 TATATAGTTTTCAAAATGTTTT-AAAAACTATATATTA
1025547 TATA-AGTTTTCAAAATGTTTTAAAAACTATATATTA
1 TATATAGTTTTCAAAATGTTTTAAAAACTATATATTA
1025583 TATATAGGTTTTCAAAATGTTTTAAAAACTATATATTA
1 TATATA-GTTTTCAAAATGTTTTAAAAACTATATATTA
*
1025621 TATATATTTTTTCAAAATGTTTTTAAAAAACTATATATTA
1 TATATA-GTTTTCAAAATG-TTTT-AAAAACTATATATTA
1025661 TATA-AGTTTTCAAAATG-TTT-AAAACTATATATTA
1 TATATAGTTTTCAAAATGTTTTAAAAACTATATATTA
* *
1025695 TATATATTTTTTCAAAATGTTTTAAAAACTCTATATTA
1 TATATA-GTTTTCAAAATGTTTTAAAAACTATATATTA
*
1025733 TATATATTTTTTCAAAATGTTTTAAAAACTATATTATATA
1 TATATA-GTTTTCAAAATGTTTTAAAAACTATA-TAT-TA
1025773 TATATA-TTTTCAAAA
1 TATATAGTTTTCAAAA
1025788 ACGATTTTTA
Statistics
Matches: 324, Mismatches: 13, Indels: 29
0.89 0.04 0.08
Matches are distributed among these distances:
34 18 0.06
35 1 0.00
36 66 0.20
37 57 0.18
38 147 0.45
39 8 0.02
40 27 0.08
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (37 bp):
TATATAGTTTTCAAAATGTTTTAAAAACTATATATTA
Found at i:1025510 original size:74 final size:75
Alignment explanation
Indices: 1025405--1025787 Score: 532
Period size: 74 Copynumber: 5.1 Consensus size: 75
1025395 AACCTATATA
* *
1025405 TTTTTAAAATGTTTTAAAAAACTATATATTATATA-AGTTTTCAAAATGTTTTAAAAACTCTATA
1 TTTTCAAAATGTTTT-AAAAACTATATATTATATATAGTTTTCAAAATGTTTTAAAAACTATATA
*
1025469 TTAAATATAAG
65 TTATATATAAG
* *
1025480 TTTTCAAAATGTTTTAAAAATTATATATTATATATA-TTTTCAAAATGTTTTAAAAAAT-TATA-
1 TTTTCAAAATGTTTTAAAAACTATATATTATATATAGTTTTCAAAATGTTTTAAAAACTATATAT
1025542 TATTATATAAG
66 TA-TATATAAG
1025553 TTTTCAAAATGTTTTAAAAACTATATATTATATATAGGTTTTCAAAATGTTTTAAAAACTATATA
1 TTTTCAAAATGTTTTAAAAACTATATATTATATATA-GTTTTCAAAATGTTTTAAAAACTATATA
**
1025618 TTATATATATT
65 TTATATATAAG
1025629 TTTTCAAAATGTTTTTAAAAAACTATATATTATATA-AGTTTTCAAAATG-TTT-AAAACTATAT
1 TTTTCAAAATG-TTTT-AAAAACTATATATTATATATAGTTTTCAAAATGTTTTAAAAACTATAT
**
1025691 ATTATATATATT
64 ATTATATATAAG
* *
1025703 TTTTCAAAATGTTTTAAAAACTCTATATTATATATATTTTTTCAAAATGTTTTAAAAACTATAT-
1 TTTTCAAAATGTTTTAAAAACTATATATTATATATA-GTTTTCAAAATGTTTTAAAAACTATATA
1025767 TATATATATATA-
65 T-TATATATA-AG
1025779 TTTTCAAAA
1 TTTTCAAAA
1025788 ACGATTTTTA
Statistics
Matches: 283, Mismatches: 11, Indels: 27
0.88 0.03 0.08
Matches are distributed among these distances:
72 20 0.07
73 51 0.18
74 83 0.29
75 43 0.15
76 60 0.21
77 7 0.02
78 19 0.07
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (75 bp):
TTTTCAAAATGTTTTAAAAACTATATATTATATATAGTTTTCAAAATGTTTTAAAAACTATATAT
TATATATAAG
Found at i:1034394 original size:21 final size:20
Alignment explanation
Indices: 1034370--1034411 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
1034360 AAGAAAATTA
1034370 CATTT-TACGTTAGTTTATGTT
1 CATTTGTAC-TTA-TTTATGTT
*
1034391 CATTTGTGCTTATTTATGTT
1 CATTTGTACTTATTTATGTT
1034411 C
1 C
1034412 GTTTATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 8 0.42
22 2 0.11
ACGTcount: A:0.17, C:0.12, G:0.14, T:0.57
Consensus pattern (20 bp):
CATTTGTACTTATTTATGTT
Found at i:1037678 original size:63 final size:63
Alignment explanation
Indices: 1037606--1037732 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
1037596 AATTTATCCA
1037606 TAAAAATGCAATGTCGTTAAGTTTCTTAACAGAGAGATATTAAAATGAAACAAAAACTAAACG
1 TAAAAATGCAATGTCGTTAAGTTTCTTAACAGAGAGATATTAAAATGAAACAAAAACTAAACG
*
1037669 TAAAAATGCACTGTCGTTAAGTTTCTTAACAGAGAGATATTAAAATGAAACAAAAACTAAACG
1 TAAAAATGCAATGTCGTTAAGTTTCTTAACAGAGAGATATTAAAATGAAACAAAAACTAAACG
1037732 T
1 T
1037733 TAAGTATAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.26
Consensus pattern (63 bp):
TAAAAATGCAATGTCGTTAAGTTTCTTAACAGAGAGATATTAAAATGAAACAAAAACTAAACG
Found at i:1038612 original size:21 final size:21
Alignment explanation
Indices: 1038588--1038632 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1038578 AAATCCTTAT
1038588 TTTTATTAAATAAAGATAATA
1 TTTTATTAAATAAAGATAATA
* * *
1038609 TTTTTTTAAATAAATATATTA
1 TTTTATTAAATAAAGATAATA
1038630 TTT
1 TTT
1038633 CGTGTTGGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTTATTAAATAAAGATAATA
Found at i:1040745 original size:30 final size:30
Alignment explanation
Indices: 1040596--1040745 Score: 183
Period size: 30 Copynumber: 5.0 Consensus size: 30
1040586 GACGGAGATA
* *
1040596 TAATCTCATGCAGATGTCAGAACAGGGAAC
1 TAATCTCATGCAGATGTCAGAACGGGGAAT
* * * * *
1040626 TAATCCCATACAGATGTTAAAACGGGGAAC
1 TAATCTCATGCAGATGTCAGAACGGGGAAT
* *
1040656 TAATCTCATGCAGAGGTTAGAACGGGGAAT
1 TAATCTCATGCAGATGTCAGAACGGGGAAT
*
1040686 TAATCTCATGCAAATGTCAGAACGGGGAAT
1 TAATCTCATGCAGATGTCAGAACGGGGAAT
* * *
1040716 TAATCCCATGCAAATGTCAGAACAGGGAAT
1 TAATCTCATGCAGATGTCAGAACGGGGAAT
1040746 GAGGTCCCAT
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 105 1.00
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.21
Consensus pattern (30 bp):
TAATCTCATGCAGATGTCAGAACGGGGAAT
Found at i:1040771 original size:90 final size:90
Alignment explanation
Indices: 1040596--1040773 Score: 200
Period size: 90 Copynumber: 2.0 Consensus size: 90
1040586 GACGGAGATA
* * * *
1040596 TAATCTCATGCAGATGTCAGAACAGGGAACTAATCCCATACAGATGTTAAAACGGGGAACTAATC
1 TAATCTCATGCAAATGTCAGAACAGGGAACTAATCCCATACAAATGTCAAAACAGGGAACTAATC
* * *
1040661 TCATGCAGAGGTTAGAACGGGGAAT
66 CCATGCAGAGATAAGAACGGGGAAT
* * * * *
1040686 TAATCTCATGCAAATGTCAGAACGGGGAATTAATCCCATGCAAATGTCAGAACAGGGAA-TGAGG
1 TAATCTCATGCAAATGTCAGAACAGGGAACTAATCCCATACAAATGTCAAAACAGGGAACT-A-A
1040750 TCCCATGCAGA-ATCAAG-ACGGGGA
64 TCCCATGCAGAGAT-AAGAACGGGGA
1040774 TTATTCCCTC
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
89 1 0.01
90 60 0.82
91 12 0.16
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.20
Consensus pattern (90 bp):
TAATCTCATGCAAATGTCAGAACAGGGAACTAATCCCATACAAATGTCAAAACAGGGAACTAATC
CCATGCAGAGATAAGAACGGGGAAT
Found at i:1048263 original size:2 final size:2
Alignment explanation
Indices: 1048256--1048296 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
1048246 GGCTCACAAC
1048256 TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1048296 T
1 T
1048297 TAAACTATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1048413 original size:23 final size:24
Alignment explanation
Indices: 1048368--1048432 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
1048358 ATAAAATACT
* *
1048368 TAAAAATCTTATGGCATGA-TTTTC
1 TAAAAATCTTTTTGCAT-ACTTTTC
1048392 -AAAAATCATTTTT-CATACTTTTC
1 TAAAAATC-TTTTTGCATACTTTTC
*
1048415 TACAAATCTTTTTGCATA
1 TAAAAATCTTTTTGCATA
1048433 TTTGTTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
22 1 0.03
23 20 0.59
24 13 0.38
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (24 bp):
TAAAAATCTTTTTGCATACTTTTC
Found at i:1049094 original size:30 final size:30
Alignment explanation
Indices: 1049060--1049206 Score: 168
Period size: 30 Copynumber: 4.9 Consensus size: 30
1049050 GACAGAGATA
* *
1049060 TAATCTCATACAAATGTCAGAACGGGGAAC
1 TAATCCCATGCAAATGTCAGAACGGGGAAC
* *
1049090 TAATCCCATGCATATGTCAGAACGGGAAAC
1 TAATCCCATGCAAATGTCAGAACGGGGAAC
* * * *
1049120 TAATCCCATGTAGAGGTCAGAACGGGGAAT
1 TAATCCCATGCAAATGTCAGAACGGGGAAC
* * *
1049150 TAATCCCATGTAAATGTCAAAACGGGGAAT
1 TAATCCCATGCAAATGTCAGAACGGGGAAC
* * *
1049180 TAATCTCATGCAGATATCAGAACGGGG
1 TAATCCCATGCAAATGTCAGAACGGGG
1049207 GTTTACACAT
Statistics
Matches: 100, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 100 1.00
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (30 bp):
TAATCCCATGCAAATGTCAGAACGGGGAAC
Found at i:1053582 original size:23 final size:23
Alignment explanation
Indices: 1053551--1053603 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
1053541 GAAAAAGTGT
* *
1053551 CTTTATGACATGTTTAT-TTATGC
1 CTTTGTGACACGTTTATCTT-TGC
1053574 CTTTGTGACACGTTTATCTTTGC
1 CTTTGTGACACGTTTATCTTTGC
1053597 CTTTGTG
1 CTTTGTG
1053604 GTATGCTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 25 0.93
24 2 0.07
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.51
Consensus pattern (23 bp):
CTTTGTGACACGTTTATCTTTGC
Found at i:1055740 original size:163 final size:163
Alignment explanation
Indices: 1055470--1055796 Score: 627
Period size: 163 Copynumber: 2.0 Consensus size: 163
1055460 GAAAACAATG
1055470 AGGGCAAAGACAACTTTGGGTGTAATCATCGACAACGACGATCACTGGTGATTGGTGACGGAAAC
1 AGGGCAAAGACAACTTTGGGTGTAATCATCGACAACGACGATCACTGGTGATTGGTGACGGAAAC
*
1055535 TAAAGATGACTAGCGAGTGTGATAAGTGACGGTCGATGATAGGAATTTTAACTGAATTCATGGAT
66 TAAAGATGACTAGCGAGTGTGATAAGTGACGGTCGATGATAGGAATTTTAACTGAATTCAGGGAT
*
1055600 TAAATTGATATTTTATCTAAAATTTAAGGGTTA
131 TAAATTGATATTTTATCTAAAATTTAAGAGTTA
1055633 AGGGCAAAGACAACTTTGGGTGTAATCATCGACAACGACGATCACTGGTGATTGGTGACGGAAAC
1 AGGGCAAAGACAACTTTGGGTGTAATCATCGACAACGACGATCACTGGTGATTGGTGACGGAAAC
*
1055698 TAAAGATGACTAGTGAGTGTGATAAGTGACGGTCGATGATAGGAATTTTAACTGAATTCAGGGAT
66 TAAAGATGACTAGCGAGTGTGATAAGTGACGGTCGATGATAGGAATTTTAACTGAATTCAGGGAT
1055763 TAAATTGATATTTTATCTAAAATTTAAGAGTTA
131 TAAATTGATATTTTATCTAAAATTTAAGAGTTA
1055796 A
1 A
1055797 ATTAATATTT
Statistics
Matches: 161, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
163 161 1.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (163 bp):
AGGGCAAAGACAACTTTGGGTGTAATCATCGACAACGACGATCACTGGTGATTGGTGACGGAAAC
TAAAGATGACTAGCGAGTGTGATAAGTGACGGTCGATGATAGGAATTTTAACTGAATTCAGGGAT
TAAATTGATATTTTATCTAAAATTTAAGAGTTA
Found at i:1056758 original size:15 final size:15
Alignment explanation
Indices: 1056738--1056771 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1056728 AGAGACAAGG
1056738 AGATTGAAAGGCTTA
1 AGATTGAAAGGCTTA
**
1056753 AGATTGATCGGCTTA
1 AGATTGAAAGGCTTA
1056768 AGAT
1 AGAT
1056772 GGCTCTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.29
Consensus pattern (15 bp):
AGATTGAAAGGCTTA
Found at i:1058459 original size:15 final size:15
Alignment explanation
Indices: 1058439--1058476 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1058429 TAATTTTCAG
1058439 TTAAATTTAAC-AATT
1 TTAAATTT-ACGAATT
1058454 TTAAATTTACGAATT
1 TTAAATTTACGAATT
1058469 TTCAAATT
1 TT-AAATT
1058477 GAATTTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.10
15 14 0.67
16 5 0.24
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (15 bp):
TTAAATTTACGAATT
Found at i:1068229 original size:18 final size:19
Alignment explanation
Indices: 1068208--1068243 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1068198 AAATAATTAT
1068208 TATTTTATTT-TTCAAACA
1 TATTTTATTTGTTCAAACA
*
1068226 TATTTTTTTTGTTCAAAC
1 TATTTTATTTGTTCAAAC
1068244 GACCATACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.28, C:0.11, G:0.03, T:0.58
Consensus pattern (19 bp):
TATTTTATTTGTTCAAACA
Found at i:1073717 original size:21 final size:21
Alignment explanation
Indices: 1073636--1073754 Score: 71
Period size: 21 Copynumber: 5.8 Consensus size: 21
1073626 ATATTACACC
* * *
1073636 ATAAACCCTAAATCTTAAACC
1 ATAAACCCTAAACCCTAAACT
* ** *
1073657 ATAAACTCTAAACGATAAAAT
1 ATAAACCCTAAACCCTAAACT
* **
1073678 ATAAACACTAAACATTAAACT
1 ATAAACCCTAAACCCTAAACT
*
1073699 TTAAACCCTAAACCCTAAACT
1 ATAAACCCTAAACCCTAAACT
* * **
1073720 -TAAATCTTAAATACT-AACT
1 ATAAACCCTAAACCCTAAACT
* *
1073739 CTAAGCCCTAAACCCT
1 ATAAACCCTAAACCCT
1073755 GAGCCCTTAA
Statistics
Matches: 74, Mismatches: 23, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
19 4 0.05
20 21 0.28
21 49 0.66
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (21 bp):
ATAAACCCTAAACCCTAAACT
Found at i:1077836 original size:130 final size:137
Alignment explanation
Indices: 1077595--1077848 Score: 353
Period size: 130 Copynumber: 1.9 Consensus size: 137
1077585 ATACAATTAT
* *
1077595 ATCTAAAATTTTCTTTACAATACAAATATATCTAATTTCAAAAATTAATCGGAGATGATTCTATT
1 ATCTAAAATTTTCTTTACAATACAAATATATCTAATTCCAAAAATT-ATCAGAGATGATTCTATT
* * * *
1077660 GAGTGACCTTAGTAGCTAAAAAGGGTGTTGTTCTCTCTTAAAGTCTTGGGTTCGAGCAGATAAAG
65 GAGTGACCGTAGTAGCTAAAAAGGGAGTTGTTATCTCTTAAAGTCTTGAGTTCGAGCAGATAAAG
1077725 CTGATAGA
130 CTGATAGA
*
1077733 ATCTAAAA-TTTCTTTACAATAC-AATATATCT-ATTCCAAAAA-T-TCAGAGAT-ATTTTATTG
1 ATCTAAAATTTTCTTTACAATACAAATATATCTAATTCCAAAAATTATCAGAGATGATTCTATTG
* *
1077792 AGTGA-CGTAGTAGTTTAAAAA-GGAGTTGTTATCTCTTAAAGTCTTGAGTTCTAGCAG
66 AGTGACCGTAGTAG-CTAAAAAGGGAGTTGTTATCTCTTAAAGTCTTGAGTTCGAGCAG
1077849 CTGCGTCTGC
Statistics
Matches: 106, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
130 39 0.37
131 19 0.18
132 7 0.07
134 1 0.01
135 9 0.08
136 9 0.08
137 14 0.13
138 8 0.08
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (137 bp):
ATCTAAAATTTTCTTTACAATACAAATATATCTAATTCCAAAAATTATCAGAGATGATTCTATTG
AGTGACCGTAGTAGCTAAAAAGGGAGTTGTTATCTCTTAAAGTCTTGAGTTCGAGCAGATAAAGC
TGATAGA
Found at i:1081922 original size:21 final size:20
Alignment explanation
Indices: 1081897--1081955 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
1081887 TAATCAGAAT
1081897 AAAAAGGGC-AAAAAAAAAG
1 AAAAAGGGCAAAAAAAAAAG
**
1081916 CAAAAAAGAACAAAAGAAAAAAG
1 --AAAAAGGGCAAAA-AAAAAAG
1081939 AAAAAGGGACAAAAAAA
1 AAAAAGGG-CAAAAAAA
1081956 CACATGCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 16 0.52
22 8 0.26
23 7 0.23
ACGTcount: A:0.76, C:0.07, G:0.17, T:0.00
Consensus pattern (20 bp):
AAAAAGGGCAAAAAAAAAAG
Found at i:1081937 original size:15 final size:16
Alignment explanation
Indices: 1081911--1081940 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1081901 AGGGCAAAAA
1081911 AAAAGCAAAAAAGAAC
1 AAAAGCAAAAAAGAAC
1081927 AAAAG-AAAAAAGAA
1 AAAAGCAAAAAAGAA
1081941 AAAGGGACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.80, C:0.07, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAGCAAAAAAGAAC
Found at i:1081942 original size:22 final size:23
Alignment explanation
Indices: 1081909--1081952 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1081899 AAAGGGCAAA
1081909 AAAAAAGCAAAAAAGAACAAAAG
1 AAAAAAGCAAAAAAGAACAAAAG
* *
1081932 AAAAAAG-AAAAAGGGACAAAA
1 AAAAAAGCAAAAAAGAACAAAA
1081953 AAACACATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.77, C:0.07, G:0.16, T:0.00
Consensus pattern (23 bp):
AAAAAAGCAAAAAAGAACAAAAG
Found at i:1081944 original size:6 final size:7
Alignment explanation
Indices: 1081909--1081943 Score: 52
Period size: 8 Copynumber: 4.7 Consensus size: 7
1081899 AAAGGGCAAA
1081909 AAAAAAG
1 AAAAAAG
1081916 CAAAAAAG
1 -AAAAAAG
1081924 AACAAAAG
1 AA-AAAAG
1081932 AAAAAAG
1 AAAAAAG
1081939 AAAAA
1 AAAAA
1081944 GGGACAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 12 0.46
8 14 0.54
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:1082566 original size:22 final size:22
Alignment explanation
Indices: 1082538--1082581 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1082528 AGCTACCCCA
1082538 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
1082560 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
1082582 AACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:1083586 original size:36 final size:36
Alignment explanation
Indices: 1083531--1083797 Score: 254
Period size: 36 Copynumber: 7.7 Consensus size: 36
1083521 AACATAAACA
* *
1083531 TTGAAACA-TTTCCCTTGAAATAAATTTCGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTC
*
1083566 TTGAGATAGTTTCCCTTGAAACAAAATTT--TCTCTC
1 TTGAGACAGTTTCCCTTGAAAC-AAATTTCGTCTCTC
* * *
1083601 TTGAGACAGTTTCTCTTGAAATAAATTTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTC
* *
1083637 TTGAGACAGTTTCCC-TGAAACAAA------ATAT-
1 TTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTC
* * *
1083665 TTGA-ATATGTTT-CTTTGAAACAAATTTCGTCTCCC
1 TTGAGACA-GTTTCCCTTGAAACAAATTTCGTCTCTC
** * * *
1083700 TTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAAC-AAATTTCGTCTCTC
* *
1083737 TTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATC
1 TTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTC
1083773 TTGAGACAGTTTCCCTTGAAACAAA
1 TTGAGACAGTTTCCCTTGAAACAAA
1083798 ATCTTTGAAT
Statistics
Matches: 189, Mismatches: 27, Indels: 31
0.77 0.11 0.13
Matches are distributed among these distances:
27 3 0.02
28 17 0.09
29 2 0.01
34 7 0.04
35 47 0.25
36 76 0.40
37 37 0.20
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.39
Consensus pattern (36 bp):
TTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTC
Found at i:1083735 original size:134 final size:134
Alignment explanation
Indices: 1083474--1083860 Score: 438
Period size: 134 Copynumber: 2.8 Consensus size: 134
1083464 ACTCATGATT
* * * *
1083474 GTTTTTCTTAAAACAAGA-TTTGTCTCTCTTGAGACAGTTTCTCTCGAAACATAAACA-TTGAAA
1 GTTTCTCTTGAAACAA-ATTTTGTCTCTCTTGAGACAGTTTCCCT-GAAACA-AAATATTTG-AA
* * * * *
1083537 CATTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTT-CTCTC
62 TATTTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTCCTCTC
1083601 TTGAGACA
127 TTGAGACA
*
1083609 GTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTGAAACAAAATATTTGAATATG
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTGAAACAAAATATTTGAATAT-
* ** * * * *
1083674 TTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTT
65 TTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTT-CCTCTCTT
1083739 GAGACA
129 GAGACA
* * *
1083745 GTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC-TGAAACAAAATATTTGAA--T
* * * * * *
1083810 ATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACA
63 ATTTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACA
1083861 CAAAATCTTC
Statistics
Matches: 215, Mismatches: 29, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
133 8 0.04
134 56 0.26
135 38 0.18
136 53 0.25
137 17 0.08
138 40 0.19
139 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (134 bp):
GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTGAAACAAAATATTTGAATATT
TTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTCCTCTCTTGA
GACA
Found at i:1083746 original size:100 final size:99
Alignment explanation
Indices: 1083581--1083761 Score: 276
Period size: 100 Copynumber: 1.8 Consensus size: 99
1083571 ATAGTTTCCC
*
1083581 TTGAAACAAAATTTTCTCTCTTGAGACAGTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTGAAACAAAATTTTCTCCCTTGAGACAGTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1083646 TTTC-CCTGAAACAAAATATTTGAATATGTTTCT
66 TTTCTCCTGAAACAAAATATTTGAATATGTTTCT
* * *
1083679 TTGAAAC-AAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGA
1 TTGAAACAAAATTT--TCTCCCTTGAGACAGTTTCTCTT-GAAATAAATTTTGTCTCTCTTGAGA
*
1083743 CAGTTTCTCTTGAAACAAA
63 CAGTTTCTCCTGAAACAAA
1083762 TTTCGTCTAT
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
97 6 0.08
98 7 0.09
99 21 0.28
100 30 0.41
101 10 0.14
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.40
Consensus pattern (99 bp):
TTGAAACAAAATTTTCTCCCTTGAGACAGTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAG
TTTCTCCTGAAACAAAATATTTGAATATGTTTCT
Found at i:1083859 original size:65 final size:65
Alignment explanation
Indices: 1083755--1083929 Score: 224
Period size: 65 Copynumber: 2.6 Consensus size: 65
1083745 GTTTCTCTTG
* ** * **
1083755 AAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCTA
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
* *
1083820 AAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTCAAATTTATTTCCCC
1083885 TA
64 TA
* * *
1083887 AAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 AAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
1083930 CATATATTTT
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
65 31 0.33
66 6 0.06
67 31 0.33
68 27 0.28
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
Found at i:1084690 original size:105 final size:105
Alignment explanation
Indices: 1084529--1084978 Score: 694
Period size: 105 Copynumber: 4.3 Consensus size: 105
1084519 GCCATCCGCG
* * * *
1084529 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACGCAAGTTCAACTTCACGACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
1084594 GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTTAGAGCCA
63 GGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
1084637 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
1084702 ACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
1084742 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1084807 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
1084847 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * **
1084912 ACCGTTGCTTGTCAACAA-AA-TT-TC-AT-TCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* *
1084947 ATTTCAACTTCACGACGGAGGATATTGGACTC
1 ATTTCAACTTCACAACGAAGGATATTGGACTC
1084979 TGAACAATGC
Statistics
Matches: 323, Mismatches: 19, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
100 37 0.11
101 2 0.01
102 1 0.00
103 2 0.01
104 2 0.01
105 254 0.79
106 3 0.01
108 22 0.07
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
Found at i:1086133 original size:16 final size:17
Alignment explanation
Indices: 1086110--1086147 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
1086100 ATTATATGGA
*
1086110 TATT-TTATTCATTTAT
1 TATTATTATTCATGTAT
1086126 T-TTATTATTCATGTAT
1 TATTATTATTCATGTAT
1086142 TATTAT
1 TATTAT
1086148 ATATATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 2 0.11
16 13 0.68
17 4 0.21
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (17 bp):
TATTATTATTCATGTAT
Found at i:1086218 original size:21 final size:21
Alignment explanation
Indices: 1086173--1086220 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
1086163 TCATTTGATT
*
1086173 TTTTACTATATTTTATTATTA
1 TTTTACTATATTTTATTAATA
*
1086194 -TTTA-TATATATTTCTTAATA
1 TTTTACTATAT-TTTATTAATA
1086214 TTTTACT
1 TTTTACT
1086221 TATAAGTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
19 5 0.23
20 12 0.55
21 4 0.18
22 1 0.05
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTACTATATTTTATTAATA
Found at i:1086405 original size:9 final size:9
Alignment explanation
Indices: 1086375--1086440 Score: 64
Period size: 9 Copynumber: 7.3 Consensus size: 9
1086365 TATCTTATAA
1086375 TTTTATATAT
1 TTTTAT-TAT
*
1086385 TTATATTAT
1 TTTTATTAT
1086394 TTTTATTAT
1 TTTTATTAT
*
1086403 TTTCATT-T
1 TTTTATTAT
1086411 TTTTATTCAT
1 TTTTATT-AT
*
1086421 TATTATTAT
1 TTTTATTAT
*
1086430 TATTATT-T
1 TTTTATTAT
1086438 TTT
1 TTT
1086441 AAAAACCTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
8 10 0.21
9 26 0.54
10 12 0.25
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTATTAT
Found at i:1086405 original size:27 final size:30
Alignment explanation
Indices: 1086369--1086433 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
1086359 GTAATATATC
* *
1086369 TTATAATTTT-ATATATTTA-T-ATTATTT
1 TTATTATTTTCATATATTTATTCATTATTA
* *
1086396 TTATTATTTTCATTTTTTTATTCATTATTA
1 TTATTATTTTCATATATTTATTCATTATTA
1086426 TTATTATT
1 TTATTATT
1086434 ATTTTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 9 0.29
28 7 0.23
29 1 0.03
30 14 0.45
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (30 bp):
TTATTATTTTCATATATTTATTCATTATTA
Found at i:1086411 original size:33 final size:33
Alignment explanation
Indices: 1086374--1086438 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
1086364 ATATCTTATA
* *
1086374 ATTTTATATATTTA-TATTATTTTTATTATTTTC
1 ATTTT-TATATTCATTATTATTATTATTATTTTC
*
1086407 ATTTTTTTATTCATTATTATTATTATTATTTT
1 ATTTTTATATTCATTATTATTATTATTATTTT
1086439 TTAAAAACCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 6 0.21
33 22 0.79
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (33 bp):
ATTTTTATATTCATTATTATTATTATTATTTTC
Found at i:1087436 original size:44 final size:42
Alignment explanation
Indices: 1087370--1087801 Score: 360
Period size: 43 Copynumber: 10.1 Consensus size: 42
1087360 TTTATATTTA
* *
1087370 TATAATTGAGATCCCTAATTTTTTCAATCTCACTATT-TACCTC
1 TATAATTGA-AGCCCTAATTTTTTCAATCTCACT-TTATACCTT
* * *
1087413 TATAACTGAGGACCCTAATTTTTTCAATCTCACTTTATAGCTT
1 TATAATTGAAG-CCCTAATTTTTTCAATCTCACTTTATACCTT
*
1087456 TATAATTGAAGCTCCTAATTTTTTCAATCTCACTTTAATAGCTT
1 TATAATTGAAGC-CCTAATTTTTTCAATCTCACTTT-ATACCTT
* * * **
1087500 TATAATTGAAACTTCTGATTTTTT-AATCTCACTTTATATTTT
1 TATAATTGAAGC-CCTAATTTTTTCAATCTCACTTTATACCTT
* *
1087542 TATAATTGAAGCCCCTATTTTTTTTCAATCTCACCTTT-TACATT
1 TATAATTGAAG-CCCTA-ATTTTTTCAATCTCA-CTTTATACCTT
* * * *
1087586 TATAATTGAGGCCCTAATTTTTTTAATCTCACTTTTTAACTT
1 TATAATTGAAGCCCTAATTTTTTCAATCTCACTTTATACCTT
* ** * *
1087628 TACAATTG-AGACATTTAATTTTTTCAATCCCACCTTT-TACATT
1 TATAATTGAAG-C-CCTAATTTTTTCAATCTCA-CTTTATACCTT
* * *
1087671 TATAATTAAAGCCCCTGAATTTTTT-AATCTAACTTCT-TACATT
1 TATAATTGAAG-CCCT-AATTTTTTCAATCTCACTT-TATACCTT
* * *
1087714 TATAATTGAAGCCCTTGATTTTTTTCAATCTCACTTTTTACTTT
1 TATAATTGAAGCCC-T-AATTTTTTCAATCTCACTTTATACCTT
* * *
1087758 TATAATTGAGGTGCCTAA-TTTTT-AATCTCACTTTTTACCTT
1 TATAATTGAAG-CCCTAATTTTTTCAATCTCACTTTATACCTT
1087799 TAT
1 TAT
1087802 GAATGAGACT
Statistics
Matches: 324, Mismatches: 46, Indels: 40
0.79 0.11 0.10
Matches are distributed among these distances:
41 25 0.08
42 56 0.17
43 148 0.46
44 89 0.27
45 6 0.02
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (42 bp):
TATAATTGAAGCCCTAATTTTTTCAATCTCACTTTATACCTT
Found at i:1087478 original size:86 final size:83
Alignment explanation
Indices: 1087341--1087854 Score: 393
Period size: 86 Copynumber: 6.0 Consensus size: 83
1087331 TTGATGCTTT
* * * *
1087341 TAATTTTTTTATCCCACTTTTTATATTTATATAATTG-AGATCCCTAATTTTTTCAATCTCACTA
1 TAATTTTTTAATCTCAC--TTTATACTT-TATAATTGAAGCT-CCTAATTTTTTCAATCTCACT-
* * *
1087405 TTTACCTCTATAACTGAGGACCC
61 TTTACATTTATAATTGAGGACCC
1087428 TAATTTTTTCAATCTCACTTTATAGCTTTATAATTGAAGCTCCTAATTTTTTCAATCTCACTTTA
1 TAATTTTTT-AATCTCACTTTATA-CTTTATAATTGAAGCTCCTAATTTTTTCAATCTCACTTT-
* *
1087493 ATAGC-TTTATAATTGA-AACTTC
63 -TA-CATTTATAATTGAGGAC-CC
* * * *
1087515 TGATTTTTTAATCTCACTTTATATTTTTATAATTGAAGCCCCTATTTTTTTTCAATCTCACCTTT
1 TAATTTTTTAATCTCACTTTATA-CTTTATAATTGAAGCTCCTA-ATTTTTTCAATCTCA-CTTT
1087580 TACATTTATAATTGAGG-CCC
63 TACATTTATAATTGAGGACCC
* * * *
1087600 TAATTTTTTTAATCTCACTTTTTAACTTTACAATTG-AGACAT-TTAATTTTTTCAATCCCACCT
1 TAA-TTTTTTAATCTCACTTTAT-ACTTTATAATTGAAG-C-TCCTAATTTTTTCAATCTCA-CT
* * *
1087663 TTTACATTTATAATTAAAGCCCC
61 TTTACATTTATAATTGAGGACCC
* *
1087686 TGAATTTTTTAATCTAACTTCT-TACATTTATAATTGAAGC-CCTTGATTTTTTTCAATCTCACT
1 T-AATTTTTTAATCTCACTT-TATAC-TTTATAATTGAAGCTCC-T-AATTTTTTCAATCTCAC-
* **
1087749 TTTTACTTTTATAATTGAGGTGCC
60 TTTTACATTTATAATTGAGGACCC
* ** * * *
1087773 TAA-TTTTTAATCTCACTTTTTACCTTTATGAA-TG-AGACTTTTAATTTTTCCAATTTAACTTT
1 TAATTTTTTAATCTCACTTTATA-CTTTAT-AATTGAAG-CTCCTAATTTTTTCAATCTCAC-TT
* *
1087835 TTACTTTTATAATTTAGGAC
62 TTACATTTATAATTGAGGAC
1087855 TATAATTTAA
Statistics
Matches: 353, Mismatches: 45, Indels: 61
0.77 0.10 0.13
Matches are distributed among these distances:
84 36 0.10
85 68 0.19
86 150 0.42
87 88 0.25
88 11 0.03
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.48
Consensus pattern (83 bp):
TAATTTTTTAATCTCACTTTATACTTTATAATTGAAGCTCCTAATTTTTTCAATCTCACTTTTAC
ATTTATAATTGAGGACCC
Found at i:1087620 original size:172 final size:172
Alignment explanation
Indices: 1087360--1087826 Score: 501
Period size: 172 Copynumber: 2.7 Consensus size: 172
1087350 TATCCCACTT
* * * * * *
1087360 TTTATATTTATATAATTG-AGATCCCTAATTTTTTCAATCTCA-CTATTTACCTCTATAACTGAG
1 TTTATATTTTTATAATTGAAG-CCCCTATTTTTTTCAATCTCACCT-TTTACATTTATAATTGAG
* * * *
1087423 GACCCTAATTTTTTCAATCTCACTTTATAGCTTTATAATTGA-AGC-TCCTAATTTTTTCAATCT
64 GACCCTAATTTTTTTAATCTCACTTTTTAACTTTATAATTGAGA-CAT-CTAATTTTTTCAATCC
** *
1087486 CA-CTTTAATAGC-TTTATAATTGAAA-CTTCTG-ATTTTTTAATCTCAC
127 CACCTTT--TA-CATTTATAATT-AAAGCCCCTGAATTTTTTAATCTAAC
1087532 TTTATATTTTTATAATTGAAGCCCCTATTTTTTTTCAATCTCACCTTTTACATTTATAATTGAGG
1 TTTATATTTTTATAATTGAAGCCCCTA-TTTTTTTCAATCTCACCTTTTACATTTATAATTGAGG
* *
1087597 -CCCTAATTTTTTTAATCTCACTTTTTAACTTTACAATTGAGACATTTAATTTTTTCAATCCCAC
65 ACCCTAATTTTTTTAATCTCACTTTTTAACTTTATAATTGAGACATCTAATTTTTTCAATCCCAC
1087661 CTTTTACATTTATAATTAAAGCCCCTGAATTTTTTAATCTAAC
130 CTTTTACATTTATAATTAAAGCCCCTGAATTTTTTAATCTAAC
** * * *
1087704 TTCT-TACATTTATAATTGAAGCCCTTGATTTTTTTCAATCTCACTTTTTACTTTTATAATTGAG
1 TT-TATATTTTTATAATTGAAGCCCCT-ATTTTTTTCAATCTCACCTTTTACATTTATAATTGAG
** * * * *
1087768 GTGCCTAA--TTTTTAATCTCACTTTTTACCTTTATGAA-TGAGACTTTTAATTTTTCCAAT
64 GACCCTAATTTTTTTAATCTCACTTTTTAACTTTAT-AATTGAGACATCTAATTTTTTCAAT
1087827 TTAACTTTTT
Statistics
Matches: 257, Mismatches: 25, Indels: 27
0.83 0.08 0.09
Matches are distributed among these distances:
170 4 0.02
171 59 0.23
172 147 0.57
173 45 0.18
174 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.48
Consensus pattern (172 bp):
TTTATATTTTTATAATTGAAGCCCCTATTTTTTTCAATCTCACCTTTTACATTTATAATTGAGGA
CCCTAATTTTTTTAATCTCACTTTTTAACTTTATAATTGAGACATCTAATTTTTTCAATCCCACC
TTTTACATTTATAATTAAAGCCCCTGAATTTTTTAATCTAAC
Found at i:1087818 original size:41 final size:42
Alignment explanation
Indices: 1087341--1087848 Score: 256
Period size: 43 Copynumber: 11.8 Consensus size: 42
1087331 TTGATGCTTT
** * * * *
1087341 TAATTTTTTTATCCCACTTTTTATATTTATATAATTGAGATCCC
1 TAATTTTTCAATCTCACTTTTTA-CTTT-TATAATTGAGCTGCC
* * * * ***
1087385 TAATTTTTTCAATCTCACTATTTACCTCTATAACTGAGGACCC
1 TAA-TTTTTCAATCTCACTTTTTACTTTTATAATTGAGCTGCC
*
1087428 TAATTTTTTCAATCTCACTTTATAGC-TTTATAATTGAAGCT-CC
1 TAA-TTTTTCAATCTCACTTTTTA-CTTTTATAATTG-AGCTGCC
* * *
1087471 TAATTTTTTCAATCTCACTTTAATAGC-TTTATAATTGAAACT-TC
1 TAA-TTTTTCAATCTCACTTT-TTA-CTTTTATAATTG-AGCTGCC
* * * * *
1087515 TGATTTTTTAATCTCACTTTATATTTTTATAATTGAAGC-CCC
1 TAATTTTTCAATCTCACTTTTTACTTTTATAATTG-AGCTGCC
* * *
1087557 TATTTTTTTTCAATCTCACCTTTTACATTTATAATTGAG--GCCC
1 TA--ATTTTTCAATCTCACTTTTTACTTTTATAATTGAGCTG-CC
* * *
1087600 TAATTTTTTTAATCTCACTTTTTAAC-TTTACAATTGAGACAT--T
1 TAA-TTTTTCAATCTCACTTTTT-ACTTTTATAATTGAG-C-TGCC
* * * * *
1087643 TAATTTTTTCAATCCCACCTTTTACATTTATAATTAAAGC-CCC
1 TAA-TTTTTCAATCTCACTTTTTACTTTTATAATT-GAGCTGCC
* * * *
1087686 TGAATTTTTTAATCTAACTTCTTACATTTATAATTGAAGC--CC
1 T-AATTTTTCAATCTCACTTTTTACTTTTATAATTG-AGCTGCC
* *
1087728 TTGATTTTTTTCAATCTCACTTTTTACTTTTATAATTGAGGTGCC
1 -T-A-ATTTTTCAATCTCACTTTTTACTTTTATAATTGAGCTGCC
* **
1087773 TAATTTTT-AATCTCACTTTTTACCTTTATGAA-TGAGACT-TT
1 TAATTTTTCAATCTCACTTTTTACTTTTAT-AATTGAG-CTGCC
* *
1087814 TAATTTTTCCAATTTAACTTTTTACTTTTATAATT
1 TAATTTTT-CAATCTCACTTTTTACTTTTATAATT
1087849 TAGGACTATA
Statistics
Matches: 372, Mismatches: 62, Indels: 61
0.75 0.13 0.12
Matches are distributed among these distances:
41 32 0.09
42 60 0.16
43 173 0.47
44 89 0.24
45 18 0.05
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.49
Consensus pattern (42 bp):
TAATTTTTCAATCTCACTTTTTACTTTTATAATTGAGCTGCC
Found at i:1096350 original size:8 final size:8
Alignment explanation
Indices: 1096337--1096375 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
1096327 GAACATTTCA
*
1096337 TGCATTCT
1 TGCATTTT
1096345 TGCA-TTT
1 TGCATTTT
1096352 TGCATTTT
1 TGCATTTT
*
1096360 TGCCTTTT
1 TGCATTTT
1096368 TGCATTTT
1 TGCATTTT
1096376 CATCTACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Done.