Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005491.1 Hibiscus syriacus cultivar Beakdansim tig00012635_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: 176880
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:861 original size:27 final size:28
Alignment explanation
Indices: 824--884 Score: 115
Period size: 27 Copynumber: 2.2 Consensus size: 28
814 TATTATACAT
824 TTTTATAATCTTAATATTATATAACTAC
1 TTTTATAATCTTAATATTATATAACTAC
852 TTTTAT-ATCTTAATATTATATAACTAC
1 TTTTATAATCTTAATATTATATAACTAC
879 TTTTAT
1 TTTTAT
885 TATCCTTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 27 0.82
28 6 0.18
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (28 bp):
TTTTATAATCTTAATATTATATAACTAC
Found at i:3329 original size:20 final size:20
Alignment explanation
Indices: 3277--3323 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
3267 ACCTATTTTT
3277 TCAAATTGAAACCAGATTTA
1 TCAAATTGAAACCAGATTTA
3297 TCAAATTGAAACCAGATTTA
1 TCAAATTGAAACCAGATTTA
3317 TCAAATT
1 TCAAATT
3324 TCAACCTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.32
Consensus pattern (20 bp):
TCAAATTGAAACCAGATTTA
Found at i:6659 original size:3 final size:3
Alignment explanation
Indices: 6646--6737 Score: 62
Period size: 3 Copynumber: 31.3 Consensus size: 3
6636 AAACATAAGC
* * * * ** *
6646 AAT ATT AAT AAT AAT ACT AAT AAT AAT TAT AAT TAT AAT TTT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
6694 AAT AAT TAT TAT TAT AAT -AT AAT ATT AAT AAT TAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6738 TTTATAACCC
Statistics
Matches: 69, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
2 4 0.06
3 65 0.94
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (3 bp):
AAT
Found at i:6717 original size:20 final size:20
Alignment explanation
Indices: 6653--6744 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
6643 AGCAATATTA
*
6653 ATAATAA-TACTAATAATAAT
1 ATAATAATTA-TAATTATAAT
* *
6673 -T-ATAATTATAATTTTTAT
1 ATAATAATTATAATTATAAT
*
6691 AATAATAATTATTATTATAAT
1 -ATAATAATTATAATTATAAT
6712 ATAAT-ATTAATAATTATAAT
1 ATAATAATT-ATAATTATAAT
*
6732 ATAATATTTATAA
1 ATAATAATTATAA
6745 CCCGGACAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
18 11 0.19
19 6 0.10
20 25 0.43
21 16 0.28
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAATAATTATAATTATAAT
Found at i:6733 original size:15 final size:15
Alignment explanation
Indices: 6646--6744 Score: 79
Period size: 15 Copynumber: 7.1 Consensus size: 15
6636 AAACATAAGC
*
6646 AATATTAATAATAAT
1 AATATTAATAATTAT
* *
6661 ACTAATAATAATTAT
1 AATATTAATAATTAT
*
6676 -A-ATT-ATAATTTT
1 AATATTAATAATTAT
* *
6688 TATAATAATAATTAT
1 AATATTAATAATTAT
6703 --TATT-ATAA-TAT
1 AATATTAATAATTAT
6714 AATATTAATAATTAT
1 AATATTAATAATTAT
*
6729 AATA-TAATATTTAT
1 AATATTAATAATTAT
6743 AA
1 AA
6745 CCCGGACAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
11 3 0.04
12 11 0.16
13 10 0.15
14 17 0.25
15 26 0.39
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTAATAATTAT
Found at i:6974 original size:53 final size:53
Alignment explanation
Indices: 6894--7131 Score: 327
Period size: 53 Copynumber: 4.5 Consensus size: 53
6884 CTCTTATTTG
* *
6894 AACAATCTTC-GACC-AGCGGGTTCGCTCCCTCTTGCTTCAGGCAGTAGAATTCA
1 AACAATCTTCTG-CCTA-CGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCA
* *
6947 AACAATCTTTTGCCTACGGGTTCGCTCCCTCTTGCTTTAGGGAGTAGAACTCA
1 AACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCA
* * * * *
7000 AACAATCTTCTGCCTACGGATTCGCTCTCTATTGTTTCAGGGAGTAGAACTCG
1 AACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCA
* * *
7053 AACAATCTTCTGCCTACAGGTTCGCTCCCTCTTGCTTCAGAGAGTAGAACTCG
1 AACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCA
*
7106 AACAATCTTCTGCTTACGGGTTCGCT
1 AACAATCTTCTGCCTACGGGTTCGCT
7132 TCACTATTCT
Statistics
Matches: 164, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
53 162 0.99
54 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (53 bp):
AACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCA
Found at i:7670 original size:20 final size:20
Alignment explanation
Indices: 7645--7704 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 20
7635 TCGTCATGCT
7645 CGAAAGACTTACTGATGGCC
1 CGAAAGACTTACTGATGGCC
* *
7665 CGAAAGACTTCATCATCAT-GCT
1 CGAAAGACTT-A-C-TGATGGCC
7687 CGAAAGACTTACTGATGG
1 CGAAAGACTTACTGATGG
7705 GTTTGCTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
19 3 0.09
20 12 0.36
21 2 0.06
22 13 0.39
23 3 0.09
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (20 bp):
CGAAAGACTTACTGATGGCC
Found at i:7693 original size:22 final size:19
Alignment explanation
Indices: 7638--7699 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
7628 GATTTAATCG
7638 TCATGCTCGAAAGACTTAC
1 TCATGCTCGAAAGACTTAC
* *
7657 TGATGGCCCGAAAGACTTCATC
1 TCAT-GCTCGAAAGACTT-A-C
7679 ATCATGCTCGAAAGACTTAC
1 -TCATGCTCGAAAGACTTAC
7699 T
1 T
7700 GATGGGTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 4 0.11
20 13 0.37
21 2 0.06
22 13 0.37
23 3 0.09
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (19 bp):
TCATGCTCGAAAGACTTAC
Found at i:7825 original size:122 final size:123
Alignment explanation
Indices: 7511--7825 Score: 472
Period size: 123 Copynumber: 2.6 Consensus size: 123
7501 CAAATGACTT
* ** *
7511 ATCATCTTGCTCGAAAGACTTACAAATGACCCGAAGGATTTCATCATCATGCTCGAAAGACTTAC
1 ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTAC
* * *
7576 TGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTACCAATAAACCCGAAGGATTTA
66 TGATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATAAACCCAAAGGATTTA
* * *
7634 ATCGTCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTCATCATCATGCTCGAAAGACTTAC
1 ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTAC
* *
7699 TGATGGGTTTGCTTCACTACTCTTCCGTGAAGGCTTACAAAT-TACCCAAAGGATTTA
66 TGATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATAAACCCAAAGGATTTA
* *
7756 ATCATCATGCTCGAAAGACTTACTGATGGCCCTAAGGATTTAAGT-ATCATGCTCGAAAGACTTA
1 ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGATTTCA-TCATCATGCTCGAAAGACTTA
*
7820 TTGATG
65 CTGATG
7826 ACCCGAAAGA
Statistics
Matches: 173, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
122 75 0.43
123 98 0.57
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (123 bp):
ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCTCGAAAGACTTAC
TGATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTACAAATAAACCCAAAGGATTTA
Found at i:14919 original size:47 final size:46
Alignment explanation
Indices: 14831--14920 Score: 110
Period size: 47 Copynumber: 1.9 Consensus size: 46
14821 TCGCAAAAAT
*
14831 CCTAACAGCATGATATCTAATTCACATGCTTGTTCGAGAAAAATAAA
1 CCTAACAGCATGATATCTAATTCACATGCTTATTC-AGAAAAATAAA
* * *
14878 CCTAACCGCATGATTTCTAGTTCACATGCATTTATTC-GAAAAA
1 CCTAACAGCATGATATCTAATTCACATGC--TTATTCAGAAAAA
14921 GTTAAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
47 32 0.86
49 5 0.14
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (46 bp):
CCTAACAGCATGATATCTAATTCACATGCTTATTCAGAAAAATAAA
Found at i:18204 original size:3 final size:3
Alignment explanation
Indices: 18191--18282 Score: 71
Period size: 3 Copynumber: 31.3 Consensus size: 3
18181 AAACATAAGC
* * * * ** *
18191 AAT ATT AAT AAT AAT ACT AAT AAT AAT TAT AAT TAT AAT TGT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
18239 AAT AAT AAT AGT TAT AAT -AT AAT ATT AAT AAT TAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
18283 TTTATAACCC
Statistics
Matches: 67, Mismatches: 20, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
2 4 0.06
3 63 0.94
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (3 bp):
AAT
Found at i:18283 original size:20 final size:20
Alignment explanation
Indices: 18237--18289 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
18227 AATTGTTATA
* *
18237 ATAATAATAATAGTTATAAT
1 ATAATATTAATAATTATAAT
18257 ATAATATTAATAATTATAAT
1 ATAATATTAATAATTATAAT
*
18277 ATAATATTTATAA
1 ATAATATTAATAA
18290 CCCAGACAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTAATAATTATAAT
Found at i:22534 original size:2 final size:2
Alignment explanation
Indices: 22527--22606 Score: 135
Period size: 2 Copynumber: 40.0 Consensus size: 2
22517 CAACTATAAG
22527 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
22569 AT AT AT AT AT AT AT AT AT AT AC AT ACT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
22607 GTATGATGAA
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
1 1 0.01
2 71 0.96
3 2 0.03
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22787 original size:8 final size:10
Alignment explanation
Indices: 22756--22782 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
22746 TGTTATAAAC
22756 ATAAGTATAT
1 ATAAGTATAT
22766 ATAAGTATAT
1 ATAAGTATAT
22776 ATAAGTA
1 ATAAGTA
22783 AATAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (10 bp):
ATAAGTATAT
Found at i:26418 original size:14 final size:14
Alignment explanation
Indices: 26399--26551 Score: 65
Period size: 14 Copynumber: 11.2 Consensus size: 14
26389 ATGTGATAAG
26399 GTTTAGGGTTTAGA
1 GTTTAGGGTTTAGA
* *
26413 GTTTAGGCTTTATA
1 GTTTAGGGTTTAGA
26427 G-TTA--GTTTAG-
1 GTTTAGGGTTTAGA
26437 GATTTAGGGTTTAGA
1 G-TTTAGGGTTTAGA
* *
26452 GTTTA-TGTGATATGA
1 GTTTAGGGT-TTA-GA
* *
26467 -TTTAAGATTTAGA
1 GTTTAGGGTTTAGA
* *
26480 GTTTA-TGTGATATGA
1 GTTTAGGGT-TTA-GA
* *
26495 -TTTAAGGTTTAGG
1 GTTTAGGGTTTAGA
* *
26508 GTTTATGTGTTAAGA
1 GTTTA-GGGTTTAGA
*
26523 G-TTAGGGTTTAGG
1 GTTTAGGGTTTAGA
26536 GTTTAGGGTTTA-A
1 GTTTAGGGTTTAGA
26549 GTT
1 GTT
26552 ATATACATGA
Statistics
Matches: 101, Mismatches: 23, Indels: 31
0.65 0.15 0.20
Matches are distributed among these distances:
10 1 0.01
11 4 0.04
12 3 0.03
13 19 0.19
14 60 0.59
15 14 0.14
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (14 bp):
GTTTAGGGTTTAGA
Found at i:26442 original size:25 final size:25
Alignment explanation
Indices: 26406--26454 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
26396 AAGGTTTAGG
*
26406 GTTTAGAGTTTAGGCTTTATAGTTA
1 GTTTAGAGTTTAGGCTTTAGAGTTA
*
26431 GTTTAG-GATTTAGGGTTTAGAGTT
1 GTTTAGAG-TTTAGGCTTTAGAGTT
26455 TATGTGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (25 bp):
GTTTAGAGTTTAGGCTTTAGAGTTA
Found at i:26477 original size:28 final size:28
Alignment explanation
Indices: 26437--26540 Score: 136
Period size: 28 Copynumber: 3.7 Consensus size: 28
26427 GTTAGTTTAG
*
26437 GATTTAGGGTTTAGAGTTTATGTGATAT
1 GATTTAAGGTTTAGAGTTTATGTGATAT
*
26465 GATTTAAGATTTAGAGTTTATGTGATAT
1 GATTTAAGGTTTAGAGTTTATGTGATAT
* * *
26493 GATTTAAGGTTTAGGGTTTATGTGTTAA
1 GATTTAAGGTTTAGAGTTTATGTGATAT
* * *
26521 GAGTTAGGGTTTAGGGTTTA
1 GATTTAAGGTTTAGAGTTTA
26541 GGGTTTAAGT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (28 bp):
GATTTAAGGTTTAGAGTTTATGTGATAT
Found at i:26514 original size:21 final size:20
Alignment explanation
Indices: 26490--26547 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
26480 GTTTATGTGA
26490 TATGATTTAAGGTTTAGGGTT
1 TATG-TTTAAGGTTTAGGGTT
26511 TATGTGTTAAGAG-TTAGGGTT
1 TATGT-TTAAG-GTTTAGGGTT
* *
26532 TAGGGTTTAGGGTTTA
1 TA-TGTTTAAGGTTTA
26548 AGTTATATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
20 2 0.06
21 26 0.84
22 3 0.10
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (20 bp):
TATGTTTAAGGTTTAGGGTT
Found at i:29698 original size:11 final size:12
Alignment explanation
Indices: 29667--29699 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
29657 TGTAGGTTCA
*
29667 AATTCGAGTTTG
1 AATTCGAGCTTG
29679 AATTCGAGCTTG
1 AATTCGAGCTTG
29691 AA-TCGAGCT
1 AATTCGAGCT
29700 CAAAATCGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (12 bp):
AATTCGAGCTTG
Found at i:29706 original size:12 final size:12
Alignment explanation
Indices: 29691--29735 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
29681 TTCGAGCTTG
29691 AATCGAGCTCAA
1 AATCGAGCTCAA
29703 AATCGAGCTCAA
1 AATCGAGCTCAA
*
29715 AATTGAGCTTC--
1 AATCGAGC-TCAA
29726 AATCGAGCTC
1 AATCGAGCTC
29736 GAGTCTTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 2 0.07
11 7 0.23
12 19 0.63
13 2 0.07
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (12 bp):
AATCGAGCTCAA
Found at i:29729 original size:23 final size:24
Alignment explanation
Indices: 29703--29755 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
29693 TCGAGCTCAA
29703 AATCGAGCTC-AAAATTGAGCTTC
1 AATCGAGCTCGAAAATTGAGCTTC
***
29726 AATCGAGCTCGAGTCTTGAGCTTC
1 AATCGAGCTCGAAAATTGAGCTTC
29750 AATCGA
1 AATCGA
29756 TGTCTTGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
AATCGAGCTCGAAAATTGAGCTTC
Found at i:31519 original size:15 final size:15
Alignment explanation
Indices: 31489--31527 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
31479 ATAAAAATTC
31489 TTTCTTTTCTTCTAA
1 TTTCTTTTCTTCTAA
31504 TTTCATTTTCTT-TAA
1 TTTC-TTTTCTTCTAA
31519 TTTTCTTTT
1 -TTTCTTTT
31528 AAGCCAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTCTTTTCTTCTAA
Found at i:32512 original size:15 final size:13
Alignment explanation
Indices: 32485--32562 Score: 54
Period size: 13 Copynumber: 5.9 Consensus size: 13
32475 GATGTAACCC
*
32485 ATTTTTATCTTTT
1 ATTTTTATTTTTT
*
32498 GTTTGCTTATTTTTT
1 ATTT--TTATTTTTT
32513 ATTTTTA-TTTTT
1 ATTTTTATTTTTT
**
32525 ATTTCCATTTTATT
1 ATTTTTATTTT-TT
*
32539 -TATTTATGTTTTT
1 ATTTTTAT-TTTTT
32552 A-TTTTATTTTT
1 ATTTTTATTTTT
32563 CTTTAAATTT
Statistics
Matches: 50, Mismatches: 9, Indels: 13
0.69 0.12 0.18
Matches are distributed among these distances:
12 14 0.28
13 20 0.40
14 5 0.10
15 11 0.22
ACGTcount: A:0.15, C:0.05, G:0.04, T:0.76
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:40143 original size:7 final size:7
Alignment explanation
Indices: 40131--40177 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
40121 TTTGAGAGTT
40131 GGGAGAC
1 GGGAGAC
40138 GGGAGAC
1 GGGAGAC
40145 GGGAGAC
1 GGGAGAC
40152 GGGAGAC
1 GGGAGAC
40159 GGGAGAC
1 GGGAGAC
*
40166 GGGAGAT
1 GGGAGAC
40173 GGGAG
1 GGGAG
40178 TTGGAGAGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.28, C:0.11, G:0.60, T:0.02
Consensus pattern (7 bp):
GGGAGAC
Found at i:40964 original size:21 final size:21
Alignment explanation
Indices: 40916--40964 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
40906 TTAAAATAAA
40916 AATAAAAATAATATAATATAT
1 AATAAAAATAATATAATATAT
* *
40937 AATTAAAAATATTA-AATATGTT
1 AA-TAAAAATAATATAATAT-AT
40959 AATAAA
1 AATAAA
40965 TTTGCTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AATAAAAATAATATAATATAT
Found at i:41738 original size:29 final size:29
Alignment explanation
Indices: 41685--41741 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
41675 TCAAAGCATT
*
41685 TATTTAAAAAATAATAAAAATAAAATTTC
1 TATTTAAAAAATAATAAAAAAAAAATTTC
41714 TATTT-AAAAAT-ATCAAAATAAAAAATTT
1 TATTTAAAAAATAAT-AAAA-AAAAAATTT
41742 AATGACTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 2 0.08
28 10 0.40
29 13 0.52
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (29 bp):
TATTTAAAAAATAATAAAAAAAAAATTTC
Found at i:56711 original size:2 final size:2
Alignment explanation
Indices: 56704--56732 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
56694 CCAATTGAAG
56704 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
56733 TGTAATAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56924 original size:18 final size:18
Alignment explanation
Indices: 56903--56941 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
56893 CTTCATAAAT
56903 GAACCCAATTTCAACCCA
1 GAACCCAATTTCAACCCA
56921 GAACCCAATTTCAACCCA
1 GAACCCAATTTCAACCCA
56939 GAA
1 GAA
56942 ACCCTGCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.36, G:0.08, T:0.15
Consensus pattern (18 bp):
GAACCCAATTTCAACCCA
Found at i:59493 original size:21 final size:21
Alignment explanation
Indices: 59467--59506 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
59457 AATTTATAAA
59467 CAAATCACAATATTAAAATGT
1 CAAATCACAATATTAAAATGT
* *
59488 CAAATCTCAATATTCAAAT
1 CAAATCACAATATTAAAAT
59507 CACAATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.30
Consensus pattern (21 bp):
CAAATCACAATATTAAAATGT
Found at i:59589 original size:75 final size:75
Alignment explanation
Indices: 59414--59605 Score: 224
Period size: 75 Copynumber: 2.6 Consensus size: 75
59404 AAATAAAGTT
* * * *
59414 AAATATCAAGACTCAAATCACTATATTAAGTTTAGAACAATAAAATTTATAAACAAATCACAATA
1 AAATCTCAAGACTCAAAACACAATATTAAGTTTAGAACAATAAAATCTATAAACAAATCACAATA
59479 TTAAAATGTC
66 TTAAAATGTC
* * * * * *
59489 AAATCTCAATATTCAAATCACAATATTAA-TTCTAGAATAATAAAATCTATAATCAAATCATAAT
1 AAATCTCAAGACTCAAAACACAATATTAAGTT-TAGAACAATAAAATCTATAAACAAATCACAAT
*
59553 ATTAAAGTGTC
65 ATTAAAATGTC
* * * * *
59564 AAATCTTAAGACTGAAAACATAATATTAAGTATAGAAAAATA
1 AAATCTCAAGACTCAAAACACAATATTAAGTTTAGAACAATA
59606 TTAAACAACA
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
74 2 0.02
75 95 0.97
76 1 0.01
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (75 bp):
AAATCTCAAGACTCAAAACACAATATTAAGTTTAGAACAATAAAATCTATAAACAAATCACAATA
TTAAAATGTC
Found at i:61876 original size:15 final size:15
Alignment explanation
Indices: 61856--61909 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
61846 ACTATCGCAA
61856 CGCGAATTTCATTTT
1 CGCGAATTTCATTTT
*
61871 CGCGAATTTTGCA---A
1 CGCGAA-TTT-CATTTT
61885 CGCGAATTTCATTTT
1 CGCGAATTTCATTTT
61900 CGCGAATTTC
1 CGCGAATTTC
61910 GCAACGCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
12 2 0.06
13 3 0.09
14 6 0.19
15 16 0.50
16 3 0.09
17 2 0.06
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (15 bp):
CGCGAATTTCATTTT
Found at i:61894 original size:29 final size:29
Alignment explanation
Indices: 61850--61921 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
61840 AACACAACTA
61850 TCGCAACGCGAATTTCATTTTCGCGAATT
1 TCGCAACGCGAATTTCATTTTCGCGAATT
*
61879 TTGCAACGCGAATTTCATTTTCGCGAATT
1 TCGCAACGCGAATTTCATTTTCGCGAATT
*
61908 TCGCAACGCTAATT
1 TCGCAACGCGAATT
61922 ACCGATATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.35
Consensus pattern (29 bp):
TCGCAACGCGAATTTCATTTTCGCGAATT
Found at i:62454 original size:12 final size:13
Alignment explanation
Indices: 62431--62471 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
62421 CTATTTCGGT
62431 AATTGAGTTGCGA
1 AATTGAGTTGCGA
62444 AATTG-GTTGCGA
1 AATTGAGTTGCGA
*
62456 AATTCGCGTTGCGA
1 AATT-GAGTTGCGA
62470 AA
1 AA
62472 ACGAAATTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.42
13 6 0.23
14 9 0.35
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (13 bp):
AATTGAGTTGCGA
Found at i:62478 original size:20 final size:20
Alignment explanation
Indices: 62453--62509 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
62443 AAATTGGTTG
62453 CGAAATTCGCGTTGCGAAAA
1 CGAAATTCGCGTTGCGAAAA
62473 CGAAATTCGCGTTGCGAAAA
1 CGAAATTCGCGTTGCGAAAA
62493 CGAAATTCGCGTTGCGA
1 CGAAATTCGCGTTGCGA
62510 TAGTTGTGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (20 bp):
CGAAATTCGCGTTGCGAAAA
Found at i:63585 original size:41 final size:41
Alignment explanation
Indices: 63519--63600 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
63509 ACCAACGGTG
* * * *
63519 CTGAACATTGATACACGAATGTACCAAAGCTGAACTGATAA
1 CTGAACATTGATACACAAATATACCAAAGATGAAATGATAA
*
63560 CTGAACATTGATATACAAATATACCAAAGATGAAATGATAA
1 CTGAACATTGATACACAAATATACCAAAGATGAAATGATAA
63601 GTATTCACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.46, C:0.16, G:0.15, T:0.23
Consensus pattern (41 bp):
CTGAACATTGATACACAAATATACCAAAGATGAAATGATAA
Found at i:63742 original size:18 final size:18
Alignment explanation
Indices: 63716--63768 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
63706 TTTTGTAATT
63716 ATATGATAACTGTAAATC
1 ATATGATAACTGTAAATC
* *
63734 ATCTGATAACTGAAAATC
1 ATATGATAACTGTAAATC
63752 ATATGATAACTGTAAAT
1 ATATGATAACTGTAAAT
63769 ATTTAGAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (18 bp):
ATATGATAACTGTAAATC
Found at i:68574 original size:12 final size:13
Alignment explanation
Indices: 68538--68581 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
68528 GCCCCGATTA
68538 CCCGATTACCCGC
1 CCCGATTACCCGC
68551 CCCGATTACCCGC
1 CCCGATTACCCGC
*
68564 CCCGA-TACCCGA
1 CCCGATTACCCGC
68576 CCCGAT
1 CCCGAT
68582 AAATATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.18, C:0.52, G:0.16, T:0.14
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:68655 original size:19 final size:19
Alignment explanation
Indices: 68631--68670 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
68621 AATAAATTTA
68631 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
68650 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
68669 AT
1 AT
68671 ATATACCCGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:68721 original size:12 final size:12
Alignment explanation
Indices: 68673--68723 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
68663 ATATATATAT
*
68673 ATACCCGGCCCG
1 ATACCCGGCCCA
*
68685 ATTCCCGGCCCA
1 ATACCCGGCCCA
*
68697 ATA-CCGACCCA
1 ATACCCGGCCCA
68708 ATACCCGGCCCA
1 ATACCCGGCCCA
68720 ATAC
1 ATAC
68724 ATGTTTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
11 10 0.30
12 23 0.70
ACGTcount: A:0.25, C:0.47, G:0.16, T:0.12
Consensus pattern (12 bp):
ATACCCGGCCCA
Found at i:71857 original size:21 final size:21
Alignment explanation
Indices: 71833--71913 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
71823 GATATTGTAA
*
71833 TAGTACTTTGTGTACTTGGAG
1 TAGTACTTTGTGTACTTGAAG
**
71854 TAGTACTTTACGTACTATCGTAAG
1 TAGTACTTTGTGTACT-T-G-AAG
* *
71878 -AGTATTTTGTGTACTTGTAG
1 TAGTACTTTGTGTACTTGAAG
*
71898 TAATACTTTGTGTACT
1 TAGTACTTTGTGTACT
71914 ATGGCACTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
20 2 0.04
21 28 0.60
22 2 0.04
23 13 0.28
24 2 0.04
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.44
Consensus pattern (21 bp):
TAGTACTTTGTGTACTTGAAG
Found at i:71905 original size:44 final size:44
Alignment explanation
Indices: 71829--71915 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
71819 TTATGATATT
* *
71829 GTAATAGTACTTTGTGTACTTGGAGTAGTACTTTACGTACTATC
1 GTAAGAGTACTTTGTGTACTTGGAGTAATACTTTACGTACTATC
* * **
71873 GTAAGAGTATTTTGTGTACTTGTAGTAATACTTTGTGTACTAT
1 GTAAGAGTACTTTGTGTACTTGGAGTAATACTTTACGTACTAT
71916 GGCACTTTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.44
Consensus pattern (44 bp):
GTAAGAGTACTTTGTGTACTTGGAGTAATACTTTACGTACTATC
Found at i:72321 original size:33 final size:33
Alignment explanation
Indices: 72284--72352 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
72274 TATTGTTTAA
* *
72284 CAGGTTATTTGATGAAAATTTGACTTATCAAGT
1 CAGGTTATTTGATGAAAACTTGACTTATCAAAT
72317 CAGGTTATTTGATGAAAACTTGACTTATCAAAT
1 CAGGTTATTTGATGAAAACTTGACTTATCAAAT
72350 CAG
1 CAG
72353 AGCAAGTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
CAGGTTATTTGATGAAAACTTGACTTATCAAAT
Found at i:80379 original size:18 final size:19
Alignment explanation
Indices: 80356--80392 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
80346 ATAATAATTA
80356 TATTCT-CTGATAATCTTT
1 TATTCTACTGATAATCTTT
80374 TATTCTCACTGATAATCTT
1 TATTCT-ACTGATAATCTT
80393 ACATTCCGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.24, C:0.19, G:0.05, T:0.51
Consensus pattern (19 bp):
TATTCTACTGATAATCTTT
Found at i:81982 original size:3 final size:3
Alignment explanation
Indices: 81974--82060 Score: 95
Period size: 3 Copynumber: 28.7 Consensus size: 3
81964 TTCATTTAAA
* * *
81974 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT TAT AAT TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
82022 TACT AAT T-T TAT TAC TAA TAT TAT TAT TAAT TAT TAT TA
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TA
82061 CAAACGGGCC
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
2 2 0.03
3 63 0.90
4 5 0.07
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:83413 original size:19 final size:21
Alignment explanation
Indices: 83391--83431 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
83381 ATAGTTATAA
83391 ATATATA-TAAT-AATTATTT
1 ATATATATTAATAAATTATTT
83410 ATATATATTTAATAAATTATTT
1 ATATATA-TTAATAAATTATTT
83432 TGATATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
21 4 0.21
22 8 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATATATTAATAAATTATTT
Found at i:83417 original size:21 final size:22
Alignment explanation
Indices: 83391--83431 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
83381 ATAGTTATAA
83391 ATATATATAAT-AATTATTTAT
1 ATATATATAATAAATTATTTAT
*
83412 ATATATTTAATAAATTATTT
1 ATATATATAATAAATTATTT
83432 TGATATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATATATAATAAATTATTTAT
Found at i:84106 original size:18 final size:17
Alignment explanation
Indices: 84083--84133 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
84073 TTTCTTTCAA
84083 ATTTTTTATTTATTTAT
1 ATTTTTTATTTATTTAT
*
84100 -TATTTTTATAATATTTAT
1 AT-TTTTTAT-TTATTTAT
*
84118 ATGTTTTATTTTATTT
1 ATTTTTTA-TTTATTT
84134 GCAAGTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 17 0.63
19 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
ATTTTTTATTTATTTAT
Found at i:91081 original size:83 final size:83
Alignment explanation
Indices: 90857--91206 Score: 585
Period size: 83 Copynumber: 4.2 Consensus size: 83
90847 AATGGAACAA
90857 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
* * *
90922 GATCATTGAATATGGAACAA
66 AATCATTGAATTTGG-A-AG
90942 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
91007 AATCATTGAATTTGGAAG
66 AATCATTGAATTTGGAAG
91025 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
*
91090 AATCATTGAATTTAGAAG
66 AATCATTGAATTTGGAAG
* * * *
91108 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAAC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAAAAC
91172 CAATCATTGAATTTGGAAG
65 CAATCATTGAATTTGGAAG
*
91191 ATGAATTTGCTCATAG
1 ATGAATGTGCTCATAG
91207 TAGAAATAAG
Statistics
Matches: 254, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
82 4 0.02
83 171 0.67
84 1 0.00
85 78 0.31
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (83 bp):
ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
AATCATTGAATTTGGAAG
Found at i:92536 original size:74 final size:74
Alignment explanation
Indices: 92378--92545 Score: 187
Period size: 74 Copynumber: 2.3 Consensus size: 74
92368 AACAAGAAGC
* * * * *
92378 AAATATTGGGGCATGCTAAAAACCCTTTTCAAACAGAATCAGAAATGTTGAAATATTCTGAATAT
1 AAATGTTGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACATTCTGAACAT
92443 TTATCAGCA
66 TTATCAGCA
* * * ** *
92452 AAATGTTGGGGCATGCTGAAAACTCATTTCAATCAGAATCAGAACTGTTGATGCATTTTGAACAC
1 AAATGTTGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACATTCTGAACA-
*
92517 TTGTATTAGC-
65 TT-TATCAGCA
*
92527 CAATG-TGGGGCATGCTGAA
1 AAATGTTGGGGCATGCTGAA
92546 GGCCTATATC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
74 67 0.85
75 6 0.08
76 6 0.08
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (74 bp):
AAATGTTGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACATTCTGAACAT
TTATCAGCA
Found at i:93914 original size:22 final size:22
Alignment explanation
Indices: 93885--93939 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
93875 ATCTACACTC
** *
93885 TTCAAAGATGGTAGATTCTCTT
1 TTCAAAGATGACAAATTCTCTT
*
93907 TTTAAAGATGACAAATTCTCTT
1 TTCAAAGATGACAAATTCTCTT
93929 TTCAAAGATGA
1 TTCAAAGATGA
93940 AAACTTTATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAAATTCTCTT
Found at i:94525 original size:113 final size:113
Alignment explanation
Indices: 94327--95113 Score: 1481
Period size: 113 Copynumber: 7.0 Consensus size: 113
94317 TTAGCAAAGA
* * *
94327 TTCAAATCCATCATCTGATGGATTAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TTCAAATCCATCATCTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
94392 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
94440 TTCAAATCCATCATCTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
1 TTCAAATCCATCATCTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
94505 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
94553 TTCAAATCCATCATCTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
1 TTCAAATCCATCATCTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
94618 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
94666 TTCAAATCCATCATCTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
1 TTCAAATCCATCATCTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
94731 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
94779 TTCAAATCCATCATCTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
1 TTCAAATCCATCATCTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
94844 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC-ACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
94891 TTCAAATCCATCATCTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
1 TTCAAATCCATCATCTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
94956 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* * *
95004 TTCAAATCCATCACCTGAGGGATCATCATTG-CAGAGAA-GTTCATAATGAGAAGAACTCATCTG
1 TTCAAATCCATCATCTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
* *
95067 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTT
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
95114 ACCTGAATTC
Statistics
Matches: 665, Mismatches: 8, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
111 70 0.11
112 119 0.18
113 476 0.72
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (113 bp):
TTCAAATCCATCATCTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTG
AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
Found at i:95897 original size:19 final size:21
Alignment explanation
Indices: 95875--95915 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
95865 ATAGTTATAA
95875 ATATATA-TAAT-AATTATTT
1 ATATATATTAATAAATTATTT
95894 ATATATATTTAATAAATTATTT
1 ATATATA-TTAATAAATTATTT
95916 TGATATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
21 4 0.21
22 8 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATATATTAATAAATTATTT
Found at i:95901 original size:21 final size:22
Alignment explanation
Indices: 95875--95915 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
95865 ATAGTTATAA
95875 ATATATATAAT-AATTATTTAT
1 ATATATATAATAAATTATTTAT
*
95896 ATATATTTAATAAATTATTT
1 ATATATATAATAAATTATTT
95916 TGATATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATATATAATAAATTATTTAT
Found at i:98982 original size:3 final size:3
Alignment explanation
Indices: 98974--99038 Score: 80
Period size: 3 Copynumber: 21.7 Consensus size: 3
98964 ATATAATTTA
*
98974 TAT TAT TA- TAT TAT TATT TAT TAT ATAT T-T TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT -TAT TAT TAT TAT TAT TAT TAT
*
99019 TAT TAA TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
99039 CAAACAGACC
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 4 0.07
3 44 0.81
4 6 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:99005 original size:12 final size:12
Alignment explanation
Indices: 98956--99036 Score: 64
Period size: 12 Copynumber: 6.8 Consensus size: 12
98946 TTTGTCCCGG
98956 TTTTATTTATATA
1 TTTTA-TTATATA
*
98969 ATTTA-TAT-TA
1 TTTTATTATATA
*
98979 TTATATTAT-TA
1 TTTTATTATATA
98990 -TTTATTATATA
1 TTTTATTATATA
99001 TTTTATTATTAATA
1 TTTTATTA-T-ATA
99015 TTATTATTA-ATA
1 TT-TTATTATATA
99027 TTATTATTAT
1 TT-TTATTAT
99037 TACAAACAGA
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
10 12 0.21
11 10 0.18
12 19 0.33
13 5 0.09
14 5 0.09
15 6 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTTATTATATA
Found at i:99031 original size:15 final size:15
Alignment explanation
Indices: 98962--99038 Score: 81
Period size: 15 Copynumber: 5.2 Consensus size: 15
98952 CCGGTTTTAT
98962 TTATATAAT-TTA-TA
1 TTAT-TAATATTATTA
98976 TTATT-ATATTATTA
1 TTATTAATATTATTA
98990 TTTATTATATATT-TTA
1 -TTATTA-ATATTATTA
99006 TTATTAATATTATTA
1 TTATTAATATTATTA
* *
99021 TTAATATTATTATTA
1 TTATTAATATTATTA
99036 TTA
1 TTA
99039 CAAACAGACC
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
12 2 0.04
13 4 0.07
14 11 0.20
15 30 0.55
16 3 0.05
17 5 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTAATATTATTA
Found at i:100436 original size:28 final size:28
Alignment explanation
Indices: 100382--100436 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
100372 TTATTAGTTT
** *
100382 TTATTATTTTTACTTTCATTTATTATAG
1 TTATTATTTAAACTTTCATATATTATAG
100410 TTATTATTTAAACTTT-ATATATATATA
1 TTATTATTTAAACTTTCATATAT-TATA
100437 TTTTAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (28 bp):
TTATTATTTAAACTTTCATATATTATAG
Found at i:100483 original size:37 final size:37
Alignment explanation
Indices: 100410--100494 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 37
100400 TTTATTATAG
* *
100410 TTATTATTTAAACTTTATATATATATATTTTAAAATA
1 TTATTATTTAAACTATATATATATATATTATAAAATA
100447 TTATTATTATAAA-TATATATATATATA-TATATAAATA
1 TTATTATT-TAAACTATATATATATATATTATA-AAATA
*
100484 ATATTTATTTA
1 TTA-TTATTTA
100495 TTTTATTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 3 0.07
37 30 0.71
38 9 0.21
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (37 bp):
TTATTATTTAAACTATATATATATATATTATAAAATA
Found at i:101283 original size:26 final size:26
Alignment explanation
Indices: 101247--101301 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
101237 TTTCGAAATT
*
101247 TATATATATATTTATTATTTTCA-TAA
1 TATATATATATATATTATTTT-ATTAA
101273 TATATATATATATATTATTTTATTAA
1 TATATATATATATATTATTTTATTAA
101299 TAT
1 TAT
101302 TTCATTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
TATATATATATATATTATTTTATTAA
Found at i:105850 original size:2 final size:2
Alignment explanation
Indices: 105843--105871 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
105833 ATTTATCCTT
105843 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
105872 CATTTGTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:106171 original size:7 final size:7
Alignment explanation
Indices: 106152--106375 Score: 327
Period size: 7 Copynumber: 32.6 Consensus size: 7
106142 ATACTCATAA
106152 AAAAAAGG
1 AAAAAA-G
106160 AAAAAAG
1 AAAAAAG
* *
106167 GAAAAGG
1 AAAAAAG
106174 AAAAAAGG
1 AAAAAA-G
106182 AAAAAAG
1 AAAAAAG
* *
106189 GAAAAGG
1 AAAAAAG
106196 AAAAAAG
1 AAAAAAG
*
106203 AAAAAAA
1 AAAAAAG
106210 AGAAAAAG
1 A-AAAAAG
106218 AAAAAAG
1 AAAAAAG
106225 AAAAAAG
1 AAAAAAG
106232 AAAAAAG
1 AAAAAAG
106239 AAAAAAG
1 AAAAAAG
106246 AAAAAAG
1 AAAAAAG
106253 AAAAAAG
1 AAAAAAG
106260 AAAAAAG
1 AAAAAAG
106267 AAAAAAG
1 AAAAAAG
106274 AAAAAAG
1 AAAAAAG
106281 AAAAAAG
1 AAAAAAG
106288 AAAAAAG
1 AAAAAAG
106295 AAAAAAG
1 AAAAAAG
106302 AAAAAAG
1 AAAAAAG
106309 AAAAAAG
1 AAAAAAG
106316 AAAAAAG
1 AAAAAAG
106323 -AAAAAG
1 AAAAAAG
106329 -AAAAA-
1 AAAAAAG
106334 AAAAAAG
1 AAAAAAG
106341 AAAAAAG
1 AAAAAAG
106348 AAAAAA-
1 AAAAAAG
106354 AAAAAA-
1 AAAAAAG
106360 AAAAAA-
1 AAAAAAG
106366 AAAAAA-
1 AAAAAAG
106372 AAAA
1 AAAA
106376 TTGAATCAAG
Statistics
Matches: 202, Mismatches: 10, Indels: 10
0.91 0.05 0.05
Matches are distributed among these distances:
6 38 0.19
7 145 0.72
8 19 0.09
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:106200 original size:1 final size:1
Alignment explanation
Indices: 106196--106375 Score: 171
Period size: 1 Copynumber: 180.0 Consensus size: 1
106186 AAGGAAAAGG
* * * * * * * * *
106196 AAAAAAGAAAAAAAAGAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * *
106261 AAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
106326 AAGAAAAAAAAAAAGAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
106376 TTGAATCAAG
Statistics
Matches: 137, Mismatches: 42, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 137 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:110902 original size:54 final size:54
Alignment explanation
Indices: 110820--110977 Score: 193
Period size: 54 Copynumber: 3.0 Consensus size: 54
110810 TGATTGAGAA
* *
110820 ATCTGATCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAAT-TCTTTACGAAC
1 ATCTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGT-TTTACGAAC
* *
110874 ATCTGAGCAGAATCCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTT----AC
1 ATCTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
* * *
110924 ATCTGAGCAGAAACCACATG-AGATGATGCATGTGTTGTCAAATGTTTTACGAAC
1 ATCTGAGCAGAAACCACA-GAAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
110978 CAGTTATTCT
Statistics
Matches: 90, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
50 43 0.48
51 1 0.01
54 45 0.50
55 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (54 bp):
ATCTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
Found at i:110957 original size:50 final size:50
Alignment explanation
Indices: 110820--110973 Score: 177
Period size: 50 Copynumber: 3.0 Consensus size: 50
110810 TGATTGAGAA
* *
110820 ATCTGATCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAAT-TCTTTACGAAC
1 ATCTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGT-TTT----AC
* *
110874 ATCTGAGCAGAATCCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTAC
1 ATCTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTAC
* * *
110924 ATCTGAGCAGAAACCACATG-AGATGATGCATGTGTTGTCAAATGTTTTAC
1 ATCTGAGCAGAAACCACA-GAAAAGGATGAATGTGTTGTCAAATGTTTTAC
110974 GAACCAGTTA
Statistics
Matches: 90, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
50 45 0.50
51 1 0.01
54 43 0.48
55 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (50 bp):
ATCTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTAC
Found at i:111431 original size:22 final size:22
Alignment explanation
Indices: 111330--111428 Score: 153
Period size: 22 Copynumber: 4.5 Consensus size: 22
111320 ATCTACATTC
* *
111330 TTCAAAGATGATAGATTCTATC
1 TTCAAAGATGATAGATTCTCTT
111352 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
111374 TTTAAAGATGATAGACTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
111396 TTCAAAGATGAAAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
111418 TTCAAAGATGA
1 TTCAAAGATGA
111429 AAGCTTTATT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 70 1.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.37
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:112233 original size:76 final size:76
Alignment explanation
Indices: 112107--112338 Score: 421
Period size: 76 Copynumber: 3.1 Consensus size: 76
112097 CTATTTCTCA
112107 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
112172 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
112183 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTAATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
112248 AGCCTTAGGGT
66 AGCCTTAGGGT
112259 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
112324 AACCTTCA-GGT
66 AGCCTT-AGGGT
112335 CATC
1 CATC
112339 AGCATTTCCA
Statistics
Matches: 150, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
76 149 0.99
77 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:112549 original size:113 final size:113
Alignment explanation
Indices: 112336--112872 Score: 816
Period size: 113 Copynumber: 4.8 Consensus size: 113
112326 CCTTCAGGTC
* * *
112336 ATCAGCATTTCCA-GAAGAGTTCATAATGGGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
112400 AATGAGAAGAACTTGTTTAACCTCTT-GCTTGAATTCATCATTCGATGG
66 AATGAGAAGAACTTATTCAACCT-TTCGCTTGAATTCATCATTCGATGG
112448 ATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
*
112513 AATGAGAAGAACTTATTCAACCTTTCGCTTGAATTCATTATTCGATGG
66 AATGAGAAGAACTTATTCAACCTTTCGCTTGAATTCATCATTCGATGG
* * *
112561 ATCAACATTACCAGGTAGAGTTCATAATGATAAGAACTCATCTGAACAAGGAAGAAGAAGTTCAT
1 ATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
*
112626 AATGAGAAGAACTTATTCAACCTTTCGCTTGAATTCATCATTCGATTG
66 AATGAGAAGAACTTATTCAACCTTTCGCTTGAATTCATCATTCGATGG
*
112674 ATCAGCATTACCAGGTAGAGTTCATAATAAGAAGAACTCATCTGAAG-A-GAAGAAGAAGTTCAT
1 ATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * * *
112737 AATGAGAAGAATTTATTCAACTTTTTGCTTGATTTCATCATTCGATGG
66 AATGAGAAGAACTTATTCAACCTTTCGCTTGAATTCATCATTCGATGG
** * * *
112785 ATCAATATTGCCAGGAAGAGTTCATAATAAGAAGAACTCATCTGAAG-AGG-AGAAGAAGTTCAT
1 ATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * *
112848 AATGAGAAGAATTTGTTCAGCCTTT
66 AATGAGAAGAACTTATTCAACCTTT
112873 TTCATGACTC
Statistics
Matches: 395, Mismatches: 27, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
111 137 0.35
112 16 0.04
113 242 0.61
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (113 bp):
ATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTATTCAACCTTTCGCTTGAATTCATCATTCGATGG
Found at i:113212 original size:3 final size:3
Alignment explanation
Indices: 113204--113284 Score: 119
Period size: 3 Copynumber: 26.7 Consensus size: 3
113194 GTTTTATTTA
113204 TAT TAT TAT TAT TAT TA- TAT TAT TATT TAT TAT ATAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT -TAT TAT TAT TAT
* *
113250 TAT TAT TAA TAT TAT TAT TAA TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
113285 CAAACAGGCC
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
2 2 0.03
3 63 0.89
4 6 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:114226 original size:34 final size:34
Alignment explanation
Indices: 114188--114255 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
114178 CCTTGGGGCC
114188 GGCTTAAATGGGTATAAATACCCTCACCAAAACG
1 GGCTTAAATGGGTATAAATACCCTCACCAAAACG
*
114222 GGCTTAAATGGGTATAAATACCCTCATCAAAACG
1 GGCTTAAATGGGTATAAATACCCTCACCAAAACG
114256 ACGCCGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (34 bp):
GGCTTAAATGGGTATAAATACCCTCACCAAAACG
Found at i:114717 original size:28 final size:28
Alignment explanation
Indices: 114663--114717 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
114653 TTATTAGTTT
** *
114663 TTATTATTTTTACTTTCATTTATTATAG
1 TTATTATTTAAACTTTCATATATTATAG
114691 TTATTATTTAAACTTT-ATATATATATA
1 TTATTATTTAAACTTTCATATAT-TATA
114718 TTTAAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (28 bp):
TTATTATTTAAACTTTCATATATTATAG
Found at i:114754 original size:28 final size:29
Alignment explanation
Indices: 114705--114763 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
114695 TATTTAAACT
* *
114705 TTATATATATATATTTAAAAT-ATAATTA
1 TTATAAATATATATATAAAATAATAATTA
* *
114733 TTATAAATATATATATATAATAATATTTA
1 TTATAAATATATATATAAAATAATAATTA
114762 TT
1 TT
114764 TATTTTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TTATAAATATATATATAAAATAATAATTA
Found at i:117869 original size:3 final size:3
Alignment explanation
Indices: 117861--117917 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
117851 CCATATTGAT
*
117861 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
117909 TTA TTA TTA
1 TTA TTA TTA
117918 AATATATTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:119302 original size:16 final size:15
Alignment explanation
Indices: 119261--119302 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
119251 ATCGTTTTAG
119261 TTATATTTTTATTGT
1 TTATATTTTTATTGT
119276 TT-TAATTTTTACTTGT
1 TTAT-ATTTTTA-TTGT
*
119292 TTATATATTTA
1 TTATATTTTTA
119303 AATATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 1 0.04
15 9 0.39
16 12 0.52
17 1 0.04
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (15 bp):
TTATATTTTTATTGT
Found at i:130748 original size:7 final size:7
Alignment explanation
Indices: 130736--130761 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
130726 ATGCTTGAAA
130736 AAAAAAG
1 AAAAAAG
130743 AAAAAAG
1 AAAAAAG
130750 AAAAAAG
1 AAAAAAG
130757 AAAAA
1 AAAAA
130762 GGGGGTCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:132035 original size:83 final size:83
Alignment explanation
Indices: 131896--132407 Score: 879
Period size: 83 Copynumber: 6.2 Consensus size: 83
131886 ACATTAACTG
* *
131896 GAAGATGAATGTGCTC-ATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
1 GAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
131960 GAACCAATCATTGAATTTA
65 GAACCAATCATTGAATTTA
*
131979 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAA
1 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
132044 AACCAATCATTGAATTTA
66 AACCAATCATTGAATTTA
132062 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
132127 AACCAATCATTGAATTTA
66 AACCAATCATTGAATTTA
132145 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
*
132210 AACCAATCATTGAATTTG
66 AACCAATCATTGAATTTA
* *
132228 GAAGATGAATGTGCTC-ATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-C
1 GAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGAC
*
132291 AGAACCAATCATAGAATTTA
64 AGAACCAATCATTGAATTTA
*
132311 GAAGATGAATTTGCCAATAGCATCTTCTGGATGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CA
1 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACA
*
132375 GAACCAATCATTGAATTTG
65 GAACCAATCATTGAATTTA
132394 GAAGATGAATTTGC
1 GAAGATGAATTTGC
132408 TCATAGTAGA
Statistics
Matches: 411, Mismatches: 14, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
82 2 0.00
83 404 0.98
84 5 0.01
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.35
Consensus pattern (83 bp):
GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
AACCAATCATTGAATTTA
Found at i:133419 original size:113 final size:112
Alignment explanation
Indices: 133235--133788 Score: 806
Period size: 113 Copynumber: 4.9 Consensus size: 112
133225 TGGATTGACA
133235 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* *
133300 AGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTGATGGATTATCT
66 AGAATTTGTTCAACCTTTTG-CTGAATTCATCACTTGATGGATCAGCT
* *
133348 TTTCCAGAGAAAGTTCATAATAAGAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * *
133413 AGAATTTGTTCAACCTTTTGCTCAAATCTATTACTTGATGGATCAGCT
66 AGAATTTGTTCAACCTTTTGCTGAATTC-ATCACTTGATGGATCAGCT
133461 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * * * * * *
133526 AGAACTTGTTCAACTTTTTGTTTGAATTTATCATTTGATGGATCGGCA
66 AGAATTTGTTCAACCTTTTG-CTGAATTCATCACTTGATGGATCAGCT
*
133574 TTTCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 TTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * *
133638 GAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGAGCAGCT
62 GAGAAGAATTTGTTCAACCTTTTGCT-GAATTCATCACTTGATGGATCAGCT
*
133690 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * *
133755 AGAACTTGTTTAACTTTTTGCAT-AATTCTATCAC
66 AGAATTTGTTCAACCTTTTGC-TGAATTC-ATCAC
133789 AGAAGGAGAT
Statistics
Matches: 395, Mismatches: 36, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
112 11 0.03
113 278 0.70
114 6 0.02
115 2 0.01
116 97 0.25
117 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (112 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAATTTGTTCAACCTTTTGCTGAATTCATCACTTGATGGATCAGCT
Found at i:133602 original size:226 final size:228
Alignment explanation
Indices: 133208--133788 Score: 893
Period size: 229 Copynumber: 2.6 Consensus size: 228
133198 TAGCAAAGAT
* * *
133208 TCAAATCTATCATTTGATGGAT-TGACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCTATCACTTGATGGATCAG-CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* *
133272 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCACTTG
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCCTGAATTCATCACTTG
* * * *
133337 ATGGATTATCTTTTCCAGAGAAAGTTCATAATAAGAAGAA-C-TCATTTGAAGAAGGAAGAAGAA
130 ATGGATCAGCATTTCCAGAGAAAGTTCATAATAAGAAGAACCGTCATCTGAAGAAGGAAGAAGAA
133400 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
195 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
133434 TCAAATCTATTACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCTATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
** * *
133499 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTTATCATTTGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCCTGAATTCATCACTTGA
* * *
133564 TGGATCGGCATTTCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGA
131 TGGATCAGCATTTCCAGAG-AAAGTTCATAATAAGAAGAAC-CGTCATCTGAAGAAGGAAGAAGA
133628 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
194 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
133663 TCAAATCCATCACTTGATGGAGCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCTATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
133728 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTTAACTTTTTGCAT-AATTCTATCAC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCCTGAATTC-ATCAC
133789 AGAAGGAGAT
Statistics
Matches: 323, Mismatches: 26, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
225 1 0.00
226 149 0.46
227 1 0.00
228 5 0.02
229 167 0.52
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (228 bp):
TCAAATCTATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCCTGAATTCATCACTTGA
TGGATCAGCATTTCCAGAGAAAGTTCATAATAAGAAGAACCGTCATCTGAAGAAGGAAGAAGAAG
TTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:134108 original size:3 final size:3
Alignment explanation
Indices: 134100--134216 Score: 180
Period size: 3 Copynumber: 39.0 Consensus size: 3
134090 CCATATTGAT
* * * *
134100 TTA TTA TTA TTA TTT TTA TTA TTT TTA TTA TTT TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
134148 TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
134196 TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
134217 AATATATTAA
Statistics
Matches: 102, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 102 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:134631 original size:6 final size:6
Alignment explanation
Indices: 134620--134644 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
134610 CCATCTGCGA
134620 ACAGAG ACAGAG ACAGAG ACAGAG A
1 ACAGAG ACAGAG ACAGAG ACAGAG A
134645 AAACGGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.32, T:0.00
Consensus pattern (6 bp):
ACAGAG
Found at i:134701 original size:29 final size:29
Alignment explanation
Indices: 134624--134702 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
134614 CTGCGAACAG
*
134624 AGACAGAGACAGAGACAGAGAAAACGGAA
1 AGACAGAAACAGAGACAGAGAAAACGGAA
* **
134653 AGACAGAGAACATA-ACAGAGACGA-GGAA
1 AGACAGA-AACAGAGACAGAGAAAACGGAA
*
134681 ACGACAGAAACAGAGAGAGAGA
1 A-GACAGAAACAGAGACAGAGA
134703 TACAAAAACT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
28 10 0.24
29 27 0.66
30 4 0.10
ACGTcount: A:0.54, C:0.14, G:0.30, T:0.01
Consensus pattern (29 bp):
AGACAGAAACAGAGACAGAGAAAACGGAA
Found at i:135607 original size:16 final size:15
Alignment explanation
Indices: 135566--135607 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
135556 ATCGTTTTAG
135566 TTATATTTTTATTGT
1 TTATATTTTTATTGT
135581 TT-TAATTTTTACTTGT
1 TTAT-ATTTTTA-TTGT
*
135597 TTATATATTTA
1 TTATATTTTTA
135608 AATATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 1 0.04
15 9 0.39
16 12 0.52
17 1 0.04
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (15 bp):
TTATATTTTTATTGT
Found at i:137149 original size:37 final size:36
Alignment explanation
Indices: 137090--137209 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
137080 ATCCCATTAT
* *
137090 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAA
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
*
137125 CTATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 C-ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
*
137162 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAT
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
137197 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
137210 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
35 35 0.45
36 8 0.10
37 34 0.44
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
Found at i:137165 original size:21 final size:20
Alignment explanation
Indices: 137138--137201 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
137128 TTTTTCAAAG
137138 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
*
137158 AAACCATTT-TCAAA----G-
1 AAA-CATTTACCAAACTTTGA
137173 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
137193 AAATCATTT
1 AAA-CATTT
137202 TTTCAAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 1 0.03
19 1 0.03
20 10 0.29
21 10 0.29
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (20 bp):
AAACATTTACCAAACTTTGA
Found at i:140554 original size:18 final size:18
Alignment explanation
Indices: 140533--140605 Score: 128
Period size: 18 Copynumber: 4.1 Consensus size: 18
140523 AATGCATTTT
140533 ATGCATCGATGCACTACC
1 ATGCATCGATGCACTACC
140551 ATGCATCGATGCACTACC
1 ATGCATCGATGCACTACC
140569 ATGCATCGATGCACTACC
1 ATGCATCGATGCACTACC
* *
140587 ATGCAACGATGTACTACC
1 ATGCATCGATGCACTACC
140605 A
1 A
140606 GGTTTCATGA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (18 bp):
ATGCATCGATGCACTACC
Found at i:140572 original size:10 final size:10
Alignment explanation
Indices: 140541--140591 Score: 56
Period size: 10 Copynumber: 5.5 Consensus size: 10
140531 TTATGCATCG
140541 ATGCACTACC
1 ATGCACTACC
*
140551 ATGCA-T-CG
1 ATGCACTACC
140559 ATGCACTACC
1 ATGCACTACC
*
140569 ATGCA-T-CG
1 ATGCACTACC
140577 ATGCACTACC
1 ATGCACTACC
140587 ATGCA
1 ATGCA
140592 ACGATGTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
8 12 0.36
9 4 0.12
10 17 0.52
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.22
Consensus pattern (10 bp):
ATGCACTACC
Found at i:141830 original size:21 final size:21
Alignment explanation
Indices: 141800--141846 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
141790 AAATGCCAAA
*
141800 GAGATATGGGTTAAGCTTTAG
1 GAGATATGGGTTAAGCTTGAG
*
141821 GAGATGTGGGTTAAGCTTGAG
1 GAGATATGGGTTAAGCTTGAG
141842 GAGAT
1 GAGAT
141847 CTATAGAGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.38, T:0.30
Consensus pattern (21 bp):
GAGATATGGGTTAAGCTTGAG
Found at i:146120 original size:24 final size:23
Alignment explanation
Indices: 146088--146173 Score: 90
Period size: 24 Copynumber: 3.8 Consensus size: 23
146078 CAATACACTA
*
146088 TGAAAGTGCATCGATGCATCCCTT
1 TGAATGTGCATCGATGCATCCC-T
*
146112 TGAATGTGCATCGATGCAT--CA
1 TGAATGTGCATCGATGCATCCCT
*
146133 TGAA-GATGCACCGATGCA-CTCCT
1 TGAATG-TGCATCGATGCATC-CCT
146156 TGAATGTGCATCGATGCA
1 TGAATGTGCATCGATGCA
146174 CAAGGCCATG
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
20 1 0.02
21 15 0.29
22 1 0.02
23 16 0.31
24 19 0.37
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (23 bp):
TGAATGTGCATCGATGCATCCCT
Found at i:146699 original size:13 final size:14
Alignment explanation
Indices: 146672--146700 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
146662 CTATATATAT
146672 TATTATTTCTCAAA
1 TATTATTTCTCAAA
146686 TATTATTT-TCAAA
1 TATTATTTCTCAAA
146699 TA
1 TA
146701 GTTTTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTATTTCTCAAA
Found at i:151399 original size:21 final size:22
Alignment explanation
Indices: 151373--151429 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
151363 TTGTGCATAA
151373 TGCATCGATACA-CTATGAAAG
1 TGCATCGATACACCTATGAAAG
* *
151394 TGCATCGATACATCCCTTTGAATG
1 TGCATCGATACA--CCTATGAAAG
151418 TGCATCGATACA
1 TGCATCGATACA
151430 TCATTAAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 12 0.39
24 19 0.61
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (22 bp):
TGCATCGATACACCTATGAAAG
Found at i:151443 original size:45 final size:44
Alignment explanation
Indices: 151373--151470 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 44
151363 TTGTGCATAA
151373 TGCATCGATACACTATGAAAGTGCATCGATACA-TCCCTTTGAATG
1 TGCATCGATACACTATGAAAGTGCATCGATACACT-CC-TTGAATG
* *
151418 TGCATCGATACA-TCAT-TAAGATGCATCGATGCACTCCTTGAATG
1 TGCATCGATACACT-ATGAAAG-TGCATCGATACACTCCTTGAATG
151462 TGCATCGAT
1 TGCATCGAT
151471 GCACAAGGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
44 20 0.42
45 27 0.56
46 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (44 bp):
TGCATCGATACACTATGAAAGTGCATCGATACACTCCTTGAATG
Found at i:151474 original size:23 final size:22
Alignment explanation
Indices: 151373--151470 Score: 96
Period size: 21 Copynumber: 4.4 Consensus size: 22
151363 TTGTGCATAA
*
151373 TGCATCGATACA--CTATGAAAG
1 TGCATCGATACATCCT-TGAATG
151394 TGCATCGATACATCCCTTTGAATG
1 TGCATCGATACAT-CC-TTGAATG
*
151418 TGCATCGATACATCATT-AA-G
1 TGCATCGATACATCCTTGAATG
*
151438 ATGCATCGATGCACTCCTTGAATG
1 -TGCATCGATACA-TCCTTGAATG
151462 TGCATCGAT
1 TGCATCGAT
151471 GCACAAGGCC
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
20 1 0.02
21 25 0.38
22 6 0.09
23 12 0.18
24 20 0.31
25 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (22 bp):
TGCATCGATACATCCTTGAATG
Found at i:154193 original size:18 final size:18
Alignment explanation
Indices: 154137--154204 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
154127 GCACTCATTG
154137 ATGCATCGATGCACTCACC
1 ATGCATCGATGCACT-ACC
***
154156 AT--ATCGAATGCA-TTTT
1 ATGCATCG-ATGCACTACC
154172 ATGCATCGATGCACTACC
1 ATGCATCGATGCACTACC
154190 ATGCATCGATGCACT
1 ATGCATCGATGCACT
154205 CAGGTTTCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
16 2 0.05
17 10 0.26
18 25 0.64
19 2 0.05
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (18 bp):
ATGCATCGATGCACTACC
Found at i:154288 original size:64 final size:63
Alignment explanation
Indices: 154158--154312 Score: 233
Period size: 64 Copynumber: 2.4 Consensus size: 63
154148 CACTCACCAT
* *
154158 ATCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTCAGGTTTCATGAAAAC
1 ATCGAATGCATTTTATGCATCGATGCACGACCATGCATCGAGGCACTCAGGTTTCATGAAAAC
* *
154221 ATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGAGGCACTCAGGCTTGT-TTG-AAG
1 ATCGAATGCATTTTATGCATCGATGCAC-GACCATGCATCGAGGCACTCAGG-TT-TCATGAAAA
154284 C
63 C
154285 ATCGAATGCATTTTATGCATCGATGCAC
1 ATCGAATGCATTTTATGCATCGATGCAC
154313 TCTTAGTGCA
Statistics
Matches: 85, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
63 28 0.33
64 52 0.61
65 4 0.05
66 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (63 bp):
ATCGAATGCATTTTATGCATCGATGCACGACCATGCATCGAGGCACTCAGGTTTCATGAAAAC
Found at i:154332 original size:64 final size:62
Alignment explanation
Indices: 154158--154332 Score: 219
Period size: 64 Copynumber: 2.7 Consensus size: 62
154148 CACTCACCAT
154158 ATCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTCAGGTTTCATGAAAAC
1 ATCGAATGCATTTTATGCATCGATGCACT-CCATGCATCGATGCACTCAGGTTTCATGAAAAC
* * * *
154221 ATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGAGGCACTCAGGCTTGT-TTG-AAG
1 ATCGAATGCATTTTATGCATCGATGCAC--TCCATGCATCGATGCACTCAGG-TT-TCATGAAAA
154284 C
62 C
* *
154285 ATCGAATGCATTTTATGCATCGATGCACTCTTAGTGCACCGATGCACT
1 ATCGAATGCATTTTATGCATCGATGCACTC-CA-TGCATCGATGCACT
154333 AAGGGTCCAA
Statistics
Matches: 98, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
62 1 0.01
63 29 0.30
64 63 0.64
65 4 0.04
66 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (62 bp):
ATCGAATGCATTTTATGCATCGATGCACTCCATGCATCGATGCACTCAGGTTTCATGAAAAC
Found at i:158397 original size:15 final size:17
Alignment explanation
Indices: 158377--158411 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
158367 TAGTCCTCTT
158377 TTCTTCTTT-TTA-TTC
1 TTCTTCTTTGTTAGTTC
158392 TTCTTCTTTGTTAGTTC
1 TTCTTCTTTGTTAGTTC
158409 TTC
1 TTC
158412 ACAAAATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 3 0.17
17 6 0.33
ACGTcount: A:0.06, C:0.20, G:0.06, T:0.69
Consensus pattern (17 bp):
TTCTTCTTTGTTAGTTC
Found at i:159813 original size:21 final size:22
Alignment explanation
Indices: 159789--159829 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
159779 ACATATGATG
159789 TAAAATAAAAT-ATTTACAACA
1 TAAAATAAAATCATTTACAACA
*
159810 TAAAATAACATCATTTACAA
1 TAAAATAAAATCATTTACAA
159830 TATATGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAATAAAATCATTTACAACA
Found at i:160133 original size:28 final size:28
Alignment explanation
Indices: 159984--160134 Score: 74
Period size: 29 Copynumber: 5.3 Consensus size: 28
159974 TAAACCTAAA
* *
159984 GACTAAAATAGCAAAATCAGGAAT-TTAGT
1 GACTAAAATAGCAAAAT-A-GAATCTTGGG
* ** ***
160013 GACTAAAACAATAAAAATAGAATACTAAAG
1 GACTAAAA-TAGCAAAATAGAAT-CTTGGG
* * *
160043 GACCAAAATA-AAAAAT-GAATCTTAGG
1 GACTAAAATAGCAAAATAGAATCTTGGG
* *
160069 GACTAAAATAGCATAAATAGAAGCTTAGAG
1 GACTAAAATAGCA-AAATAGAATCTT-GGG
* * * *
160099 GAATAAACTGGTAAAATAGAATCTTGGG
1 GACTAAAATAGCAAAATAGAATCTTGGG
160127 GACTAAAA
1 GACTAAAA
160135 CAGAAGAAAT
Statistics
Matches: 92, Mismatches: 23, Indels: 15
0.71 0.18 0.12
Matches are distributed among these distances:
26 13 0.14
27 5 0.05
28 22 0.24
29 27 0.29
30 25 0.27
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (28 bp):
GACTAAAATAGCAAAATAGAATCTTGGG
Found at i:161722 original size:3 final size:3
Alignment explanation
Indices: 161714--161761 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
161704 ACAAAATTTG
*
161714 TAA TAA TAA TAT TAA TAA -AA TAA TAA TAA TAA TAA TAA -AA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
161759 TAA
1 TAA
161762 AATTATATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 6 0.15
3 34 0.85
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:161737 original size:17 final size:17
Alignment explanation
Indices: 161715--161764 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
161705 CAAAATTTGT
*
161715 AATAATAATATTAATAA
1 AATAATAATAATAATAA
161732 AATAATAATAATAAT--
1 AATAATAATAATAATAA
161747 AATAA-AATAA-AATAA
1 AATAATAATAATAATAA
161762 AAT
1 AAT
161765 TATATAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 3 0.10
14 5 0.17
15 8 0.27
17 14 0.47
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AATAATAATAATAATAA
Found at i:161739 original size:20 final size:20
Alignment explanation
Indices: 161714--161766 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
161704 ACAAAATTTG
161714 TAATAATAATATTAATAAAA
1 TAATAATAATATTAATAAAA
*
161734 TAATAATAATAATAATAAAA
1 TAATAATAATATTAATAAAA
*
161754 TAA-AATAAAATTA
1 TAATAATAATATTA
161767 TATAGAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TAATAATAATATTAATAAAA
Found at i:162496 original size:64 final size:64
Alignment explanation
Indices: 162385--162524 Score: 183
Period size: 64 Copynumber: 2.2 Consensus size: 64
162375 CAAAGATGGT
162385 AAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCTTAAAAGAAACTATCTCAAAAGAGACA
1 AAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTC-TAAAAGAAACTATCTCAAAAGAGACA
* * * * * * *
162450 AAATTTTGTTTCCCAAAGAAACATATTCAATGATTTTTC-AAAAGAAATTGTCTCAAGATAGACA
1 AAATTTTGTTT-CCAAAGAAACAAACTCAAAGATTTTTCTAAAAGAAACTATCTCAAAAGAGACA
*
162514 AAACTTTGTTT
1 AAATTTTGTTT
162525 TTCAGAAAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
64 31 0.47
65 11 0.17
66 24 0.36
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (64 bp):
AAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCTAAAAGAAACTATCTCAAAAGAGACA
Found at i:163109 original size:39 final size:39
Alignment explanation
Indices: 163031--163111 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
163021 CGAGACAAAT
* *
163031 TTTTTTTTAAGAAAACTATCTCAAGTGAGAAAAAGTTTG
1 TTTTTTTTAAGAAAACGATCTCAAGTGAGAAAAACTTTG
* **
163070 TTTTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTG
1 TTTTTTTTAAGAAAACGATCTCAAGTGAGAAAAACTTTG
163109 TTT
1 TTT
163112 AATGTGAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (39 bp):
TTTTTTTTAAGAAAACGATCTCAAGTGAGAAAAACTTTG
Found at i:163384 original size:101 final size:101
Alignment explanation
Indices: 163073--163384 Score: 305
Period size: 101 Copynumber: 3.0 Consensus size: 101
163063 AAGTTTGTTT
* *
163073 TTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAATGTGAAATAAATTTAAAATTTGTA
1 TTTTT-AGAAAACGATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTTAAATTTTGTA
* *
163138 TTCTCAAAGGAAAAATGTCTCAAACGAGACATAA-TTG
65 -TCTCAAAGGAAAAATGTCTCAAGCGAGACAAAATTTG
* * * *
163175 TTTTGAAAGAAATAACAATCTCAAGTGATAT-AATTTTGTTTCAA-GT-ACAACAAATTTAAATT
1 TTTT--TAG-AA-AACGATCTCAAGTGAGATCAACTTTGTTT-AATGTGA-AACAAATTTAAATT
* * ** *
163237 TT-TATTTCATA-GAAAAATGTCTCAAGCGAGACGAAGTTTTTT
60 TTGTATCTCAAAGGAAAAATGTCTCAAGCGAGAC-AA-AATTTG
* ** *
163279 TTTTTAGAAAGCGATCTCGAA-TGAGATCAACTTTGTTTAATGTGAAACAAATTCGAATTTTGCA
1 TTTTTAGAAAACGATCTC-AAGTGAGATCAACTTTGTTTAATGTGAAACAAATTTAAATTTTGTA
* *
163343 TCTCAAAGGAAACATGTCTCAAGTGAGACAAAATTTG
65 TCTCAAAGGAAAAATGTCTCAAGCGAGACAAAATTTG
163380 TTTTT
1 TTTTT
163385 CAAAAGAAGT
Statistics
Matches: 167, Mismatches: 28, Indels: 31
0.74 0.12 0.14
Matches are distributed among these distances:
100 14 0.08
101 57 0.34
102 21 0.13
103 24 0.14
104 33 0.20
105 18 0.11
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (101 bp):
TTTTTAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTTAAATTTTGTAT
CTCAAAGGAAAAATGTCTCAAGCGAGACAAAATTTG
Found at i:163726 original size:4 final size:4
Alignment explanation
Indices: 163719--163771 Score: 58
Period size: 4 Copynumber: 13.8 Consensus size: 4
163709 TTTATATATA
* *
163719 ATGT ATGT ATG- -TGT ATAT ATGT TTGT ATGT ATGT ATGT ATGT AT-T
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
163764 GATGT ATG
1 -ATGT ATG
163772 CTTTTCTCGA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 2 0.05
3 1 0.02
4 37 0.90
5 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
ATGT
Found at i:163745 original size:18 final size:19
Alignment explanation
Indices: 163713--163748 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
163703 ACAACTTTTA
163713 TATATAATGTATGTATGTG
1 TATATAATGTATGTATGTG
*
163732 TATAT-ATGTTTGTATGT
1 TATATAATGTATGTATGT
163749 ATGTATGTAT
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:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (19 bp):
TATATAATGTATGTATGTG
Found at i:164964 original size:23 final size:23
Alignment explanation
Indices: 164938--164984 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
164928 GTCAAGGGAC
164938 TCTTTGTCTTTATGCT-TTTGTCT
1 TCTTTGTCTTT-TGCTATTTGTCT
* *
164961 TCTTTTTCTTTTGCTATTTTTCT
1 TCTTTGTCTTTTGCTATTTGTCT
164984 T
1 T
164985 TGATTTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.04, C:0.17, G:0.09, T:0.70
Consensus pattern (23 bp):
TCTTTGTCTTTTGCTATTTGTCT
Found at i:168729 original size:21 final size:22
Alignment explanation
Indices: 168705--168745 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
168695 ACATATGATG
168705 TAAAATAA-AATATTTACAACA
1 TAAAATAACAATATTTACAACA
*
168726 TAAAATAACATTATTTACAA
1 TAAAATAACAATATTTACAA
168746 TATATGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAATAACAATATTTACAACA
Found at i:170635 original size:3 final size:3
Alignment explanation
Indices: 170627--170661 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
170617 ACAAAATTTG
*
170627 TAA TAA TAA TAT TAA TAA -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
170662 ATTAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:170650 original size:17 final size:17
Alignment explanation
Indices: 170628--170662 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
170618 CAAAATTTGT
*
170628 AATAATAATATTAATAA
1 AATAATAATAATAATAA
170645 AATAATAATAATAATAA
1 AATAATAATAATAATAA
170662 A
1 A
170663 TTAAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AATAATAATAATAATAA
Found at i:174889 original size:133 final size:133
Alignment explanation
Indices: 174632--174986 Score: 491
Period size: 133 Copynumber: 2.6 Consensus size: 133
174622 AGTTCGGGTC
* * *
174632 ATCTAAGGGTGACACGGTTCCTACGTGATGAGGAA-ATCTGGTCGAGGGATGACACTGCTCATAC
1 ATCTAGGGGTGACACGGCTCCTACGTGATGA-GAAGATCTGGTC-AGGGATGACACGGCTCATAC
* * * *
174696 GTGATGAAGCA-TTCTTGGCCATCTTTAGGAAGTGTGATAACTCAGTTCCTACGCGATGAGGACG
64 GTGATGAAG-AGTTC-TGGCCATCTTTAAGAAGGGCGATAACACAGTTCCTACGCGATGAGGACG
174760 GCTGGTT
127 GCTGGTT
* *
174767 ATCTAGGGGTGACAAGGCTCCTACGCGATGAGAAGATCTGGTCAGGGATGACACGGCTCATACGT
1 ATCTAGGGGTGACACGGCTCCTACGTGATGAGAAGATCTGGTCAGGGATGACACGGCTCATACGT
* * *
174832 GATGAAGAGTTCTGGCCATCTTTAAGAAGGGCGATAACACGGTTCCTACGTGATGAGGACGTCTG
66 GATGAAGAGTTCTGGCCATCTTTAAGAAGGGCGATAACACAGTTCCTACGCGATGAGGACGGCTG
174897 GTT
131 GTT
* * *
174900 ATCTAGGGGTGACGCGGCTCCTACGTGATGA-AGAGATATGGTCATGAGATGACACGGCTCATAC
1 ATCTAGGGGTGACACGGCTCCTACGTGATGAGA-AGATCTGGTCA-GGGATGACACGGCTCATAC
*
174964 GTGATGAAGAGTTTTGGCCATCT
64 GTGATGAAGAGTTCTGGCCATCT
174987 CTAGGGATAA
Statistics
Matches: 198, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
132 1 0.01
133 88 0.44
134 74 0.37
135 35 0.18
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (133 bp):
ATCTAGGGGTGACACGGCTCCTACGTGATGAGAAGATCTGGTCAGGGATGACACGGCTCATACGT
GATGAAGAGTTCTGGCCATCTTTAAGAAGGGCGATAACACAGTTCCTACGCGATGAGGACGGCTG
GTT
Found at i:175294 original size:88 final size:86
Alignment explanation
Indices: 175202--175415 Score: 227
Period size: 87 Copynumber: 2.4 Consensus size: 86
175192 GAGACATAAT
* *
175202 CTCAAATTTTTTTCAAAAGGAACAGACTCAAAGATTTTCTCAAAAAAACTGTCTCAAGAGAGACA
1 CTCAAATTTTTTTCAAAAGAAACA-ACTCAAAGATTTT-TC-AAAAAACTGTCTCAAGAGAAACA
*
175267 AAACTTTGTTTC-AAAGAAACAAA
63 AAACTTTGGTTCAAAAGAAACAAA
* ** * *
175290 CTCAAAGATTTTGGTTTCAAAAGAAATAACTC-AA-ATTTTTCACGAAATTGTCTTAAGAGAAAC
1 CTC-AA-ATTTT--TTTCAAAAGAAACAACTCAAAGATTTTTCAAAAAACTGTCTCAAGAGAAAC
*
175353 AAAACTTTGGTTCAAAAGAAACAGA
62 AAAACTTTGGTTCAAAAGAAACAAA
****
175378 CTCAAAGAAATTTCAAAAGAAACAACTCAAAGATTTTT
1 CTCAAATTTTTTTCAAAAGAAACAACTCAAAGATTTTT
175416 ATTTCAAAAG
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
84 17 0.16
85 2 0.02
86 7 0.07
87 31 0.30
88 18 0.17
89 7 0.07
90 7 0.07
91 4 0.04
92 12 0.11
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (86 bp):
CTCAAATTTTTTTCAAAAGAAACAACTCAAAGATTTTTCAAAAAACTGTCTCAAGAGAAACAAAA
CTTTGGTTCAAAAGAAACAAA
Found at i:175429 original size:29 final size:29
Alignment explanation
Indices: 175363--175498 Score: 163
Period size: 29 Copynumber: 4.8 Consensus size: 29
175353 AAAACTTTGG
*
175363 TTCAAAAGAAACAGACTCAAAGA----AAT
1 TTCAAAAGAAACA-ACTCAAAGACTTTTAT
*
175389 TTCAAAAGAAACAACTCAAAGATTTTTAT
1 TTCAAAAGAAACAACTCAAAGACTTTTAT
* *
175418 TTCAAAAGAAACAACTCACATACTTTTAT
1 TTCAAAAGAAACAACTCAAAGACTTTTAT
* *
175447 TTCAAAAGAAACAACTCACAGACTTTTGT
1 TTCAAAAGAAACAACTCAAAGACTTTTAT
*
175476 TTCAAGAGAAACAAACTCAAAGA
1 TTCAAAAGAAAC-AACTCAAAGA
175499 TAGGTTTTGT
Statistics
Matches: 97, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
25 9 0.09
26 13 0.13
29 66 0.68
30 9 0.09
ACGTcount: A:0.49, C:0.18, G:0.09, T:0.24
Consensus pattern (29 bp):
TTCAAAAGAAACAACTCAAAGACTTTTAT
Found at i:175536 original size:29 final size:32
Alignment explanation
Indices: 175388--175547 Score: 112
Period size: 29 Copynumber: 5.4 Consensus size: 32
175378 CTCAAAGAAA
* *
175388 TTTCAAAAGAAAC-AACTCAAAGAT--TTTTA
1 TTTCAAGAGAAACAAACTCAAAGATAGTTTTG
* * * *
175417 TTTCAAAAGAAAC-AACTC--ACATACTTTTA
1 TTTCAAGAGAAACAAACTCAAAGATAGTTTTG
* * *
175446 TTTCAAAAGAAAC-AACTCACAG--ACTTTTG
1 TTTCAAGAGAAACAAACTCAAAGATAGTTTTG
175475 TTTCAAGAGAAACAAACTCAAAGATAGGTTTTG
1 TTTCAAGAGAAACAAACTCAAAGATA-GTTTTG
* * *
175508 TTTCAAGGGAAACAATCT-TAAGAT-G-TTTG
1 TTTCAAGAGAAACAAACTCAAAGATAGTTTTG
175537 TTT-AAGAGAAA
1 TTTCAAGAGAAA
175548 TTGTCTTAAA
Statistics
Matches: 113, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
27 3 0.03
28 7 0.06
29 66 0.58
30 9 0.08
31 1 0.01
32 6 0.05
33 21 0.19
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.30
Consensus pattern (32 bp):
TTTCAAGAGAAACAAACTCAAAGATAGTTTTG
Found at i:175691 original size:62 final size:62
Alignment explanation
Indices: 175605--175724 Score: 188
Period size: 62 Copynumber: 1.9 Consensus size: 62
175595 TTTTTTTTCA
* *
175605 AAAGGAACTGTCTCAAAAGTGACAAAATTTTGTT-TCCAAAGAAACATACTCAAAGATTCTTC
1 AAAGAAACTGTCTCAAAAGAGACAAAATTTTGTTAT-CAAAGAAACATACTCAAAGATTCTTC
* *
175667 AAAGAAACTTTCTCAAAAGAGACAAAATTTTGTTATCAAATAAACATACTCAAAGATT
1 AAAGAAACTGTCTCAAAAGAGACAAAATTTTGTTATCAAAGAAACATACTCAAAGATT
175725 TTTTTCATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
62 52 0.98
63 1 0.02
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.28
Consensus pattern (62 bp):
AAAGAAACTGTCTCAAAAGAGACAAAATTTTGTTATCAAAGAAACATACTCAAAGATTCTTC
Found at i:176005 original size:36 final size:35
Alignment explanation
Indices: 175887--176024 Score: 152
Period size: 37 Copynumber: 3.8 Consensus size: 35
175877 ATAATTTGGA
*
175887 AAATTGTCTCAAGTGAGACAACATTGTTTTTAGAG
1 AAATTGTCTCAAGCGAGACAACATTGTTTTTAGAG
* *
175922 AAATTGTCTCAAACGAGACAAAAATTGTTTTTTAGAG
1 AAATTGTCTCAAGCGAGAC-AACATTG-TTTTTAGAG
*
175959 AAATTGTCTCAAGCGAGACAACGTTTGTTTTT-GAG
1 AAATTGTCTCAAGCGAGACAAC-ATTGTTTTTAGAG
** * *
175994 AAAACGATCTCAAGTGAGATCAACTTTGTTT
1 AAATTG-TCTCAAGCGAGA-CAACATTGTTT
176025 AATGTGAAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
35 24 0.27
36 31 0.35
37 34 0.38
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (35 bp):
AAATTGTCTCAAGCGAGACAACATTGTTTTTAGAG
Done.