Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 43 of 51
Found at i:8308947 original size:19 final size:19
Alignment explanation
Indices: 8308923--8309027 Score: 102
Period size: 19 Copynumber: 5.2 Consensus size: 19
8308913 GCGATTTTGA
8308923 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTT
*
8308942 AAAATGTGTTGTGATAGTT
1 AAAATGTGTTGCGATAGTT
*
8308961 AAAATGTGTTGCGAGAGTTT
1 AAAATGTGTTGCGATAG-TT
*
8308981 GAAAAACGTGTTGTTGCGATAGTG
1 --AAAA--TG-TGTTGCGATAGTT
* * *
8309005 AAAAAGTGTTGCAATAGTG
1 AAAATGTGTTGCGATAGTT
8309024 AAAA
1 AAAA
8309028 ATCCAAAATA
Statistics
Matches: 73, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
19 49 0.67
20 3 0.04
22 8 0.11
24 3 0.04
25 10 0.14
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTT
Found at i:8309275 original size:6 final size:6
Alignment explanation
Indices: 8309264--8309300 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
8309254 TCTCGTCTCG
8309264 GGTCGT GGTCGT GGTCGT -GTCGT GGTCG- GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
8309301 AATACGTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:8309287 original size:11 final size:11
Alignment explanation
Indices: 8309264--8309300 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
8309254 TCTCGTCTCG
8309264 GGTCGTGGTCGT
1 GGTCGT-GTCGT
8309276 GGTCGTGTCGT
1 GGTCGTGTCGT
*
8309287 GGTCGGGTCGT
1 GGTCGTGTCGT
8309298 GGT
1 GGT
8309301 AATACGTGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.32
Consensus pattern (11 bp):
GGTCGTGTCGT
Found at i:8309287 original size:17 final size:16
Alignment explanation
Indices: 8309265--8309298 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
8309255 CTCGTCTCGG
8309265 GTCGTGGTCGTGGTCGT
1 GTCGTGGTCG-GGTCGT
8309282 GTCGTGGTCGGGTCGT
1 GTCGTGGTCGGGTCGT
8309298 G
1 G
8309299 GTAATACGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.00, C:0.18, G:0.50, T:0.32
Consensus pattern (16 bp):
GTCGTGGTCGGGTCGT
Found at i:8309295 original size:22 final size:22
Alignment explanation
Indices: 8309256--8309300 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
8309246 CCGTCCCGTC
8309256 TCGTCTCGGGTCGTGGTCGTGG
1 TCGTCTCGGGTCGTGGTCGTGG
*
8309278 TCGTGTCGTGGTCG-GGTCGTGG
1 TCGTCTCG-GGTCGTGGTCGTGG
8309300 T
1 T
8309301 AATACGTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.00, C:0.20, G:0.47, T:0.33
Consensus pattern (22 bp):
TCGTCTCGGGTCGTGGTCGTGG
Found at i:8309440 original size:21 final size:21
Alignment explanation
Indices: 8309416--8309570 Score: 133
Period size: 21 Copynumber: 7.5 Consensus size: 21
8309406 AATTTGGAAA
*
8309416 ATCGCATTGCGATTTTGTATT
1 ATCGCGTTGCGATTTTGTATT
* **
8309437 ATCGCGTTGCGA--TAGTCAGA
1 ATCGCGTTGCGATTTTGT-ATT
*
8309457 ATCGCGTTGCAATTTTGTATT
1 ATCGCGTTGCGATTTTGTATT
* **
8309478 ATCGCGTTGCGA--TAGTCAGA
1 ATCGCGTTGCGATTTTGT-ATT
* **
8309498 ATCGCGTTGCGA--TAGTCAGC
1 ATCGCGTTGCGATTTTGT-ATT
8309518 ATCGCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATTTTGTATT
*
8309539 ATCGCATTGCGATTTTGTATT
1 ATCGCGTTGCGATTTTGTATT
8309560 ATCGCGTTGCG
1 ATCGCGTTGCG
8309571 GTTTACATAT
Statistics
Matches: 110, Mismatches: 18, Indels: 12
0.79 0.13 0.09
Matches are distributed among these distances:
19 6 0.05
20 44 0.40
21 54 0.49
22 6 0.05
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.37
Consensus pattern (21 bp):
ATCGCGTTGCGATTTTGTATT
Found at i:8309462 original size:20 final size:20
Alignment explanation
Indices: 8309437--8309530 Score: 118
Period size: 20 Copynumber: 4.7 Consensus size: 20
8309427 ATTTTGTATT
8309437 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
* * **
8309457 ATCGCGTTGCAATTTTGT-ATT
1 ATCGCGTTGCGA--TAGTCAGA
8309478 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
*
8309498 ATCGCGTTGCGATAGTCAGC
1 ATCGCGTTGCGATAGTCAGA
8309518 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
8309531 TTTGTATTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 12 0.19
22 3 0.05
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:8309504 original size:61 final size:61
Alignment explanation
Indices: 8309437--8309551 Score: 203
Period size: 61 Copynumber: 1.9 Consensus size: 61
8309427 ATTTTGTATT
*
8309437 ATCGCGTTGCGATAGTCAGAATCGCGTTGCAATTTTGTATTATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCAATTTTGTATTATCGCATTGCGATAGTCAGA
* *
8309498 ATCGCGTTGCGATAGTCAGCATCGCGTTGCGATTTTGTATTATCGCATTGCGAT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCAATTTTGTATTATCGCATTGCGAT
8309552 TTTGTATTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTCAGAATCGCGTTGCAATTTTGTATTATCGCATTGCGATAGTCAGA
Found at i:8309590 original size:82 final size:82
Alignment explanation
Indices: 8309457--8309607 Score: 205
Period size: 82 Copynumber: 1.8 Consensus size: 82
8309447 GATAGTCAGA
* * **
8309457 ATCGCGTTGCAATTTTGTATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGATAGTCAGCATCG
1 ATCGCATTGCAATTTTGTATTATCGCGTTGCGATAGTCAGAATCGCATTGCGATAGTCAAAATCG
8309522 CGTTGCGATTTTGTATT
66 CGTTGCGATTTTGTATT
* * * * *
8309539 ATCGCATTGCGATTTTGTATTATCGCGTTGCGGT-TTACATATTCGCATTGCGATAGTCAAAATC
1 ATCGCATTGCAATTTTGTATTATCGCGTTGCGATAGT-CAGAATCGCATTGCGATAGTCAAAATC
8309603 GCGTT
65 GCGTT
8309608 TTGAATCTAG
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 1 0.02
82 58 0.98
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.37
Consensus pattern (82 bp):
ATCGCATTGCAATTTTGTATTATCGCGTTGCGATAGTCAGAATCGCATTGCGATAGTCAAAATCG
CGTTGCGATTTTGTATT
Found at i:8309592 original size:41 final size:41
Alignment explanation
Indices: 8309415--8309570 Score: 183
Period size: 41 Copynumber: 3.8 Consensus size: 41
8309405 AAATTTGGAA
8309415 AATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
1 AATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
* *
8309456 AATCGCGTTGCAATTTTGTATTATCGCGTTGCGATAGTCAG
1 AATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
* * ** * *
8309497 AATCGCGTTGCGA--TAGTCAGCATCGCGTTGCGATTTTGT-AT
1 AATCGCATTGCGATTTTGT-ATTATCGCGTTGCGA--TAGTCAG
*
8309538 TATCGCATTGCGATTTTGTATTATCGCGTTGCG
1 AATCGCATTGCGATTTTGTATTATCGCGTTGCG
8309571 GTTTACATAT
Statistics
Matches: 97, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
39 3 0.03
40 13 0.13
41 63 0.65
42 15 0.15
43 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (41 bp):
AATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
Found at i:8309670 original size:40 final size:40
Alignment explanation
Indices: 8309626--8309752 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
8309616 AGAAACTTAT
8309626 TTGCGATACTGAAGATCGCGTTGCCATAGTCAGAATCGCA
1 TTGCGATACTGAAGATCGCGTTGCCATAGTCAGAATCGCA
** * * * * *
8309666 TTGCGATTTTCAAAATCGCGTTGCGA-A-TCTGAAAACTG-A
1 TTGCGATACTGAAGATCGCGTTGCCATAGTCAG-AATC-GCA
*
8309705 TTTGCGATACTGGAGATCGCGTTGCCATAGTCAGAATCGCA
1 -TTGCGATACTGAAGATCGCGTTGCCATAGTCAGAATCGCA
8309746 TTGCGAT
1 TTGCGAT
8309753 TTTATTGGTC
Statistics
Matches: 66, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
38 3 0.05
39 5 0.08
40 50 0.76
41 5 0.08
42 3 0.05
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (40 bp):
TTGCGATACTGAAGATCGCGTTGCCATAGTCAGAATCGCA
Found at i:8309690 original size:20 final size:20
Alignment explanation
Indices: 8309626--8309691 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
8309616 AGAAACTTAT
* * *
8309626 TTGCGATACTGAAGATCGCG
1 TTGCGATAGTCAAAATCGCG
* * *
8309646 TTGCCATAGTCAGAATCGCA
1 TTGCGATAGTCAAAATCGCG
**
8309666 TTGCGATTTTCAAAATCGCG
1 TTGCGATAGTCAAAATCGCG
8309686 TTGCGA
1 TTGCGA
8309692 ATCTGAAAAC
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (20 bp):
TTGCGATAGTCAAAATCGCG
Found at i:8309753 original size:80 final size:80
Alignment explanation
Indices: 8309581--8309755 Score: 280
Period size: 80 Copynumber: 2.2 Consensus size: 80
8309571 GTTTACATAT
** ** *
8309581 TCGCATTGCGATAGTCAAAATCGCGTTTTGAATCTAGAAACTTATTTGCGATACTGAAGATCGCG
1 TCGCATTGCGATTTTCAAAATCGCGTTGCGAATCTAGAAACTGATTTGCGATACTGAAGATCGCG
8309646 TTGCCATAGTCAGAA
66 TTGCCATAGTCAGAA
*
8309661 TCGCATTGCGATTTTCAAAATCGCGTTGCGAATCT-GAAAACTGATTTGCGATACTGGAGATCGC
1 TCGCATTGCGATTTTCAAAATCGCGTTGCGAATCTAG-AAACTGATTTGCGATACTGAAGATCGC
8309725 GTTGCCATAGTCAGAA
65 GTTGCCATAGTCAGAA
8309741 TCGCATTGCGATTTT
1 TCGCATTGCGATTTT
8309756 ATTGGTCATT
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
79 1 0.01
80 87 0.99
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (80 bp):
TCGCATTGCGATTTTCAAAATCGCGTTGCGAATCTAGAAACTGATTTGCGATACTGAAGATCGCG
TTGCCATAGTCAGAA
Found at i:8313892 original size:727 final size:726
Alignment explanation
Indices: 8312446--8313896 Score: 2485
Period size: 727 Copynumber: 2.0 Consensus size: 726
8312436 ATTGGTCAGG
* *
8312446 ACTGTTTCTGCTGTTGTATTTTCAGGCTCGGTGTAACCATCCTCGATGATACCCAACAATCTTAG
1 ACTGTTTCTGCTGCTGCATTTTCAGGCTCGGTGTAACCATCCTCGATGATACCCAACAATCTTAG
**
8312511 GAGCCTAGTAATACCTTCATTTAAATGCTCAAATTGCAATAATTCATCTTTGTCAATATCGTGAT
66 GAGCCTAGTAATACCTTCATTTAAATGCTCAAATTGCAATAATTCATCTTTGTCAATATCAAGAT
8312576 TTGTGGTTGAATCATGTTGGTCATCTTCTCCACCACGTTAAACTCGAACCAAGCTCTGATACCAC
131 TTGTGGTTGAATCATGTTGGTCATCTTCTCCACCACGTTAAACTCGAACCAAGCTCTGATACCAC
* *
8312641 TTGTTGAAAGCGTAGATGGGCTCACTATAATTTATAATTCAAACTTTTTATTGATACAAAATAAA
196 TTGTTGAAAGCGTAGATGAGCTCACTATAATTTATAATTCAAACTTTTTATTGATACAAAACAAA
* * *
8312706 ATACGTTACAACGATGTTGCCCCAATATTACAATATTACAACACAGCAATACTAGCTGCGGTTAG
261 ATACGTTACAACGACGTTACCCCAATATTACAATATTACAACACAGCAATACTAGCTGCGGCTAG
* * *
8312771 TTTACAAACACAAGCTCGTTATTCTACGCTTTGCTAAGCTTCACACTCTTTCTCTAATAGTTTTT
326 TTTACAAACACAACCTCGTTATTCTACGCTTTGCTAAGCTTCACACTCTTTCTCTAATAGCTTTG
*
8312836 CTAAGCTATTTTTCATTCTGGCTTTTCTAAGCTTTCATTTTTTTCTCACTTGTATTACTCTAAAA
391 CTAAACTATTTTTCATTCTGGCTTTTCTAAGCTTTCATTTTTTTCTCACTTGTATTACTCTAAAA
* * *
8312901 ACTAACAAGCACACATATATATAGTGTATTAAAACCGCTTAAGACTTGTCGTCTTATAATTCTTT
456 AATAACAAGCACACATATATATAGTGTATTAAAACCGCTTAAGACTTGTCGCCTTATAATTCCTT
* ** *
8312966 CATAATTAAGTATTATAGTTGTTGCCTTTTTAATCCTTCACATAGACATGTTTATATCCAAGCAA
521 CATAATTAAGTATTATAGCTACTGCCTTTTCAATCCTTCACATAGACATGTTTATATCCAAGCAA
* * *
8313031 ACTTTGCTTGCCTTGCCAAAACTCTTTTCTTTTACTGTCACGTTTCAAACAATTCCAAATACGTT
586 ACTTTGCTTCCCTTGCCAAAACTCTTTTCCTTTACTGCCACGTTTCAAACAATTCCAAATACGTT
8313096 TGCCGCCATACACTTTGCTTAATAATTAAACATATTCTTTTAGCCATCTTTTTTTGACTTTTCAA
651 TGCCGCCATACACTTTGCTTAATAATTAAACATATTCTTTTAGCCATCTTTTTTTGACTTTTCAA
8313161 ACTTCTAGAGA
716 ACTTCTAGAGA
*
8313172 ACTGATTT-TGCTGCTGCATTTTCAGGCTCGGTGTAATCATCCTCGATGATATCCCAACAATCTT
1 ACTG-TTTCTGCTGCTGCATTTTCAGGCTCGGTGTAACCATCCTCGATGATA-CCCAACAATCTT
* * *
8313236 AGGAGCCTAGTAATGCCTTCATTTAAATGCTCAAATTGTC-ATAATTCGTCTTTGTCAATCTCAA
64 AGGAGCCTAGTAATACCTTCATTTAAATGCTCAAATTG-CAATAATTCATCTTTGTCAATATCAA
*
8313300 GATTTGTGGTTGAATCATGTTGGTCATCTTCTCTACCACGTTAAACTCGAACCAAGCTCTGATAC
128 GATTTGTGGTTGAATCATGTTGGTCATCTTCTCCACCACGTTAAACTCGAACCAAGCTCTGATAC
*
8313365 CACTTGTTGGAAGCGTAGATGAGCTCACTATAATTTATAATTCAAACTTTTTATTGATACAAAAC
193 CACTTGTTGAAAGCGTAGATGAGCTCACTATAATTTATAATTCAAACTTTTTATTGATACAAAAC
* *
8313430 AAAATACGTTACAACGACGTTACCCCAATATTACAATATTACAACACTGCAATACTAGTTGCGGC
258 AAAATACGTTACAACGACGTTACCCCAATATTACAATATTACAACACAGCAATACTAGCTGCGGC
*
8313495 TAGTTTACAAACACAACCTCGTTATTCTACGCTTTGCTAAGCTTCACCCTCTTTCTCTAATAGCT
323 TAGTTTACAAACACAACCTCGTTATTCTACGCTTTGCTAAGCTTCACACTCTTTCTCTAATAGCT
8313560 TTGCTAAACTATTTTTCATTCTGGCTTTTCTAAGCTTTCATTTTTTTCTCACTTGTATTACTCTA
388 TTGCTAAACTATTTTTCATTCTGGCTTTTCTAAGCTTTCATTTTTTTCTCACTTGTATTACTCTA
*
8313625 AAAAATAACAAGCACACATATATATAGTGTATTAAAACCGCTTAAGCCTTGTCGCCTTATAATTC
453 AAAAATAACAAGCACACATATATATAGTGTATTAAAACCGCTTAAGACTTGTCGCCTTATAATTC
* *
8313690 CTTCATAATTAAGTATTATAGCTACTGTCTTTTCAATCCTTCACGT-GAACATGTTTATATCCAA
518 CTTCATAATTAAGTATTATAGCTACTGCCTTTTCAATCCTTCACATAG-ACATGTTTATATCCAA
*
8313754 GCAAACTTTGCTTCCCTTGCCAAAACTCTTTTCCTTTGCTGCCACGTTTCAAACAATTCCAAATA
582 GCAAACTTTGCTTCCCTTGCCAAAACTCTTTTCCTTTACTGCCACGTTTCAAACAATTCCAAATA
* * * *
8313819 TGTTTGCCGCCATACGCTTTGCTTAATAATTAAGCATATTCTTTTAGCCATCTTTTTTTTACTTT
647 CGTTTGCCGCCATACACTTTGCTTAATAATTAAACATATTCTTTTAGCCATCTTTTTTTGACTTT
8313884 TCAAACTTCTAGA
712 TCAAACTTCTAGA
8313897 ATTAAGTTTG
Statistics
Matches: 681, Mismatches: 40, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
726 45 0.07
727 635 0.93
728 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (726 bp):
ACTGTTTCTGCTGCTGCATTTTCAGGCTCGGTGTAACCATCCTCGATGATACCCAACAATCTTAG
GAGCCTAGTAATACCTTCATTTAAATGCTCAAATTGCAATAATTCATCTTTGTCAATATCAAGAT
TTGTGGTTGAATCATGTTGGTCATCTTCTCCACCACGTTAAACTCGAACCAAGCTCTGATACCAC
TTGTTGAAAGCGTAGATGAGCTCACTATAATTTATAATTCAAACTTTTTATTGATACAAAACAAA
ATACGTTACAACGACGTTACCCCAATATTACAATATTACAACACAGCAATACTAGCTGCGGCTAG
TTTACAAACACAACCTCGTTATTCTACGCTTTGCTAAGCTTCACACTCTTTCTCTAATAGCTTTG
CTAAACTATTTTTCATTCTGGCTTTTCTAAGCTTTCATTTTTTTCTCACTTGTATTACTCTAAAA
AATAACAAGCACACATATATATAGTGTATTAAAACCGCTTAAGACTTGTCGCCTTATAATTCCTT
CATAATTAAGTATTATAGCTACTGCCTTTTCAATCCTTCACATAGACATGTTTATATCCAAGCAA
ACTTTGCTTCCCTTGCCAAAACTCTTTTCCTTTACTGCCACGTTTCAAACAATTCCAAATACGTT
TGCCGCCATACACTTTGCTTAATAATTAAACATATTCTTTTAGCCATCTTTTTTTGACTTTTCAA
ACTTCTAGAGA
Found at i:8315630 original size:20 final size:18
Alignment explanation
Indices: 8315605--8315643 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8315595 AAATAATTAA
8315605 ATTAAAATAATATATATAAT
1 ATTAAAA-AAT-TATATAAT
*
8315625 ATTAAAAAGTTATATAAT
1 ATTAAAAAATTATATAAT
8315643 A
1 A
8315644 CATATACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTAAAAAATTATATAAT
Found at i:8316336 original size:3 final size:3
Alignment explanation
Indices: 8316330--8316418 Score: 169
Period size: 3 Copynumber: 29.7 Consensus size: 3
8316320 TTTTTATCCA
8316330 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
8316378 TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8316419 AATACATATT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:8316445 original size:12 final size:11
Alignment explanation
Indices: 8316414--8316449 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
8316404 TTATTATTAT
*
8316414 TATTAAATACA
1 TATTAAATAAA
8316425 TATTAAATAAA
1 TATTAAATAAA
8316436 TATATAAATAAA
1 TAT-TAAATAAA
8316448 TA
1 TA
8316450 ATTACAGACC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (11 bp):
TATTAAATAAA
Found at i:8317785 original size:18 final size:19
Alignment explanation
Indices: 8317745--8317786 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
8317735 TTTAGTCAGT
**
8317745 TATTTTATATGTTTTCATT
1 TATTTTATATGTTTTCAAA
*
8317764 TATTTTAT-TGTTTTTAAA
1 TATTTTATATGTTTTCAAA
8317782 TATTT
1 TATTT
8317787 GTTTAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (19 bp):
TATTTTATATGTTTTCAAA
Found at i:8317842 original size:19 final size:20
Alignment explanation
Indices: 8317804--8317843 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8317794 AGTATTTTTC
* *
8317804 TTTTATTATATTGATTAATA
1 TTTTATTATATTCATAAATA
8317824 TTTTA-TATATTCATAAATA
1 TTTTATTATATTCATAAATA
8317843 T
1 T
8317844 ATATATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTATTATATTCATAAATA
Found at i:8318557 original size:23 final size:23
Alignment explanation
Indices: 8318514--8318557 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
8318504 TCATATATTT
*
8318514 AATTTTTAATTTTTTTCTTTTCA
1 AATTTTTAATTTTTATCTTTTCA
*
8318537 AATTTTTTATTTATTAT-TTTT
1 AATTTTTAATTT-TTATCTTTT
8318558 ATAATATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (23 bp):
AATTTTTAATTTTTATCTTTTCA
Found at i:8318583 original size:18 final size:18
Alignment explanation
Indices: 8318541--8318584 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
8318531 TTTTCAAATT
8318541 TTTTATTTATTATTTTTA
1 TTTTATTTATTATTTTTA
**
8318559 TAATATTTA-TATGTTTTA
1 TTTTATTTATTAT-TTTTA
8318577 TTTTATTT
1 TTTTATTT
8318585 GCAAGTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTATTTATTATTTTTA
Found at i:8318606 original size:13 final size:15
Alignment explanation
Indices: 8318575--8318611 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
8318565 TTATATGTTT
8318575 TATTTTATTTGCAAG
1 TATTTTATTTGCAAG
8318590 TATTTTATTT-C-AG
1 TATTTTATTTGCAAG
8318603 TA-TTTATTT
1 TATTTTATTT
8318612 TTCTGTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 1 0.05
15 10 0.45
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (15 bp):
TATTTTATTTGCAAG
Found at i:8330523 original size:83 final size:83
Alignment explanation
Indices: 8330375--8330556 Score: 312
Period size: 83 Copynumber: 2.2 Consensus size: 83
8330365 AATGGAACAA
*
8330375 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
8330440 AATCATTGAATTTAGAAG
66 AATCATTGAATTTAGAAG
* *
8330458 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAAC
1 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAAAAC
*
8330522 CAATCATTGAATTTGGAAG
65 CAATCATTGAATTTAGAAG
8330541 ATGAATTTGCTCATAG
1 ATGAATTTGCTCATAG
8330557 TAGAAATAAG
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
82 4 0.04
83 89 0.96
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (83 bp):
ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
AATCATTGAATTTAGAAG
Found at i:8331562 original size:116 final size:114
Alignment explanation
Indices: 8331380--8331910 Score: 746
Period size: 113 Copynumber: 4.7 Consensus size: 114
8331370 TTTCCAGTTC
*
8331380 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* *
8331445 CAACCTTTTGTTTGAATTCATCATTTGAGGGATCAACATTGCCAG-GAA
66 CAACCTTTTGTCTGAATTCATCATTTGATGGATCAACATTGCCAGAGAA
*
8331493 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
1 GAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
** * * * *
8331558 GTTCAACCTTTTACCTGAATTCATCAATTGATGGATCAGCCTTTCCAGAGAA
63 GTTCAACCTTTTGTCTGAATTCATCATTTGATGGATCAACATTGCCAGAGAA
* *
8331610 -AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * *** *
8331674 CAACCTTTTATCTGAATTCATCACTGGATGGATTATTTTTTCCAGAGAA
66 CAACCTTTTGTCTGAATTCATCATTTGATGGATCAACATTGCCAGAGAA
*
8331723 -AGTTTATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
** * *
8331787 CAAATTTTTGGTTTGAATTCATCATTTGATAGATCAACATTGCCAGAG-A
66 CAACCTTTT-GTCTGAATTCATCATTTGATGGATCAACATTGCCAGAGAA
* *
8331836 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
8331901 CAACTTTTTG
66 CAACCTTTTG
8331911 CATAATTCTA
Statistics
Matches: 375, Mismatches: 37, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
113 175 0.47
114 98 0.26
115 1 0.00
116 98 0.26
117 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (114 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTTTGTCTGAATTCATCATTTGATGGATCAACATTGCCAGAGAA
Found at i:8331764 original size:229 final size:229
Alignment explanation
Indices: 8331381--8331909 Score: 760
Period size: 229 Copynumber: 2.3 Consensus size: 229
8331371 TTCCAGTTCG
* *
8331381 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
* * * *
8331446 AACCTTTTGTTTGAATTCATCATTTGAGGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGA
66 AACCTTTTATCTGAATTCATCACTGGAGGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGA
* *
8331511 ACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-ACCTG
131 AC-CGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAACTTTTGACCTG
* * * *
8331575 AATTCATCAATTGATGGATCAGCCTTTCCAGAGAA
195 AATTCATCAATTGATAGATCAACATTGCCAGAGAA
*
8331610 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
* * *** * *
8331675 AACCTTTTATCTGAATTCATCACTGGATGGATTATTTTTTCCAGAGAA-AGTTTATAATGAGAAG
66 AACCTTTTATCTGAATTCATCACTGGAGGGATCAACATTGCCAG-GAAGAGTTCATAATGAGAAG
* ***
8331739 AA-C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAATTTTTGGTTTG
130 AACCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAACTTTTGACCTG
* *
8331802 AATTCATCATTTGATAGATCAACATTGCCAGAGAG
195 AATTCATCAATTGATAGATCAACATTGCCAGAGAA
*
8331837 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
*
8331902 AACTTTTT
66 AACCTTTT
8331910 GCATAATTCT
Statistics
Matches: 269, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
226 51 0.19
227 102 0.38
229 113 0.42
230 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (229 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
AACCTTTTATCTGAATTCATCACTGGAGGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGA
ACCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAACTTTTGACCTGA
ATTCATCAATTGATAGATCAACATTGCCAGAGAA
Found at i:8332235 original size:3 final size:3
Alignment explanation
Indices: 8332229--8332356 Score: 229
Period size: 3 Copynumber: 42.7 Consensus size: 3
8332219 TTTTTATCCA
8332229 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
8332277 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
8332325 TAT TAT TAT CAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8332357 AATACATATT
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 119 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:8332383 original size:12 final size:11
Alignment explanation
Indices: 8332352--8332387 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
8332342 TTATTATTAT
*
8332352 TATTAAATACA
1 TATTAAATAAA
8332363 TATTAAATAAA
1 TATTAAATAAA
8332374 TATATAAATAAA
1 TAT-TAAATAAA
8332386 TA
1 TA
8332388 ATTACAGACC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (11 bp):
TATTAAATAAA
Found at i:8333725 original size:18 final size:19
Alignment explanation
Indices: 8333685--8333726 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
8333675 TTTAGTCAGT
**
8333685 TATTTTATATGTTTTCATT
1 TATTTTATATGTTTTCAAA
*
8333704 TATTTTAT-TGTTTTTAAA
1 TATTTTATATGTTTTCAAA
8333722 TATTT
1 TATTT
8333727 GTTTTAGTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (19 bp):
TATTTTATATGTTTTCAAA
Found at i:8333784 original size:20 final size:21
Alignment explanation
Indices: 8333745--8333785 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
8333735 AGTATTTTTC
* *
8333745 TTTTATTATATTGATTAATAT
1 TTTTATTATATTCATAAATAT
8333766 TTTTA-TATATTCATAAATAT
1 TTTTATTATATTCATAAATAT
8333786 ATATATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTATTATATTCATAAATAT
Found at i:8338322 original size:18 final size:18
Alignment explanation
Indices: 8338276--8338327 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
8338266 AAAGAGAAAA
* *
8338276 GGAGAAGGAGAAGCAGAG
1 GGAGAAAGAGAAGGAGAG
* * *
8338294 GCAGTATGAGAAGGAGAG
1 GGAGAAAGAGAAGGAGAG
*
8338312 GGAGAAAGAGAGGGAG
1 GGAGAAAGAGAAGGAG
8338328 CGCAAACGAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.50, T:0.04
Consensus pattern (18 bp):
GGAGAAAGAGAAGGAGAG
Found at i:8341033 original size:33 final size:33
Alignment explanation
Indices: 8340983--8341048 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
8340973 ACTAATTATG
* *
8340983 TGATAAGGTTTAGGGTTT-AGGATTTAGAGTTTA
1 TGATAAGGTTTAAGGTTTAAAG-TTTAGAGTTTA
8341016 TGAT-AGGATTTAAGGTTTAAAGTTTAGAGTTTA
1 TGATAAGG-TTTAAGGTTTAAAGTTTAGAGTTTA
8341049 GGGTTTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 3 0.10
33 24 0.83
34 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.42
Consensus pattern (33 bp):
TGATAAGGTTTAAGGTTTAAAGTTTAGAGTTTA
Found at i:8341054 original size:14 final size:13
Alignment explanation
Indices: 8340990--8341073 Score: 53
Period size: 14 Copynumber: 6.2 Consensus size: 13
8340980 ATGTGATAAG
*
8340990 GTTTAGGGTTTAG
1 GTTTAGGGTTTAA
* *
8341003 GATTTAGAGTTTAT
1 G-TTTAGGGTTTAA
* *
8341017 G-ATAGGATTTAA
1 GTTTAGGGTTTAA
**
8341029 GGTTTAAAGTTTAGA
1 -GTTTAGGGTTTA-A
*
8341044 GTTTAGGGTTTAT
1 GTTTAGGGTTTAA
8341057 GTGTTAGGGTTTAA
1 GT-TTAGGGTTTAA
8341071 GTT
1 GTT
8341074 ATGCCATGAA
Statistics
Matches: 52, Mismatches: 14, Indels: 10
0.68 0.18 0.13
Matches are distributed among these distances:
12 7 0.13
13 5 0.10
14 39 0.75
15 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (13 bp):
GTTTAGGGTTTAA
Found at i:8342815 original size:26 final size:26
Alignment explanation
Indices: 8342747--8342832 Score: 120
Period size: 26 Copynumber: 3.3 Consensus size: 26
8342737 CCTAGTATTG
* * *
8342747 GTTTTGGTGTTTGGTTCTCTATCCCTT
1 GTTTT-GTGCTTGGTGCTCTGTCCCTT
*
8342774 GTTTT-TGCTTGGTGCTTTGTCCCTT
1 GTTTTGTGCTTGGTGCTCTGTCCCTT
8342799 GTTTTGTGCTTGGTGCTCTGTCCCTT
1 GTTTTGTGCTTGGTGCTCTGTCCCTT
8342825 GTTTTGTG
1 GTTTTGTG
8342833 TGTCTGCAGG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
25 21 0.40
26 27 0.51
27 5 0.09
ACGTcount: A:0.01, C:0.19, G:0.26, T:0.55
Consensus pattern (26 bp):
GTTTTGTGCTTGGTGCTCTGTCCCTT
Found at i:8343225 original size:17 final size:17
Alignment explanation
Indices: 8343203--8343239 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
8343193 ATTCGAGTTT
*
8343203 GAGTTCGAGCTTTAATC
1 GAGTTCGAGCTTGAATC
8343220 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
8343237 GAG
1 GAG
8343240 CTCAAAATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (17 bp):
GAGTTCGAGCTTGAATC
Found at i:8343238 original size:11 final size:11
Alignment explanation
Indices: 8343224--8343288 Score: 60
Period size: 11 Copynumber: 5.6 Consensus size: 11
8343214 TTAATCGAGT
*
8343224 TCGAGCTTGAA
1 TCGAGCTTCAA
8343235 TCGAGC-TCAAAA
1 TCGAGCTTC--AA
8343247 TCGAGCTTCAA
1 TCGAGCTTCAA
* *
8343258 TCGAGCTTGAGTC
1 TCGAGCTTCA--A
8343271 TCGAGCTTCAA
1 TCGAGCTTCAA
8343282 TCGAGCT
1 TCGAGCT
8343289 CTTGAATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
10 1 0.02
11 24 0.55
12 8 0.18
13 11 0.25
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (11 bp):
TCGAGCTTCAA
Found at i:8351207 original size:29 final size:30
Alignment explanation
Indices: 8351170--8351230 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
8351160 ATGCCTGTTT
8351170 TTTCAGTTTAGTGCCTAACG-TTTATTTTG
1 TTTCAGTTTAGTGCCTAACGTTTTATTTTG
* *
8351199 TTTCAGTTTGGTGTCTAACGTTTTATTTTG
1 TTTCAGTTTAGTGCCTAACGTTTTATTTTG
8351229 TT
1 TT
8351231 ACTAAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.15, C:0.11, G:0.18, T:0.56
Consensus pattern (30 bp):
TTTCAGTTTAGTGCCTAACGTTTTATTTTG
Found at i:8367096 original size:16 final size:19
Alignment explanation
Indices: 8367054--8367099 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
8367044 TTCACGGAAT
8367054 GTAAGATTACCAGTGAGAA
1 GTAAGATTACCAGTGAGAA
8367073 TGTAAGATTACCAG-G-GAA
1 -GTAAGATTACCAGTGAGAA
8367091 -TAAGATTAC
1 GTAAGATTAC
8367100 TGGGAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.35
18 3 0.12
19 1 0.04
20 13 0.50
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (19 bp):
GTAAGATTACCAGTGAGAA
Found at i:8374280 original size:27 final size:27
Alignment explanation
Indices: 8374242--8374305 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
8374232 CGCACCTCTG
8374242 AATGATTCAGCACAGAAGTACATTCTA
1 AATGATTCAGCACAGAAGTACATTCTA
*
8374269 AATGATTCAGCACAGAAGTACATTCTG
1 AATGATTCAGCACAGAAGTACATTCTA
8374296 AATGATTCAG
1 AATGATTCAG
8374306 AGCCATTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (27 bp):
AATGATTCAGCACAGAAGTACATTCTA
Found at i:8374382 original size:15 final size:15
Alignment explanation
Indices: 8374362--8374396 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
8374352 GCCTCTGAAT
8374362 CATTCAGCGCTTAAC
1 CATTCAGCGCTTAAC
*
8374377 CATTCAGCGCTTAAT
1 CATTCAGCGCTTAAC
8374392 CATTC
1 CATTC
8374397 TGAAGTAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.31
Consensus pattern (15 bp):
CATTCAGCGCTTAAC
Found at i:8380323 original size:16 final size:17
Alignment explanation
Indices: 8380291--8380333 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
8380281 GTAATCGAAG
8380291 TTATATATATTTCAAAT
1 TTATATATATTTCAAAT
8380308 TGTATAT-TATTT-AAAT
1 T-TATATATATTTCAAAT
*
8380324 TTATACATAT
1 TTATATATAT
8380334 ATTAATGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 6 0.26
18 5 0.22
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (17 bp):
TTATATATATTTCAAAT
Found at i:8382447 original size:60 final size:58
Alignment explanation
Indices: 8382374--8382517 Score: 146
Period size: 59 Copynumber: 2.4 Consensus size: 58
8382364 CATATGCCTC
* * * *
8382374 TAAATTATTACTCTCATTTTAAATTAGTCATTAAATTTTTTAATA-TTCTAATTTAATCCT
1 TAAATTATAACTCTC-TTTTAAATTAATCATTAAA-ATTTTAA-ACTTCTAATTTAATCCA
* * * *
8382434 TAAATTATAACTCTCGTTCTAAATTAATCCTTAAAATTTTAAACTTTTAATTTCATCCA
1 TAAATTATAACTCTC-TTTTAAATTAATCATTAAAATTTTAAACTTCTAATTTAATCCA
* *
8382493 TAAACTATGACTCTCTTTCTAAATT
1 TAAATTATAACTCTCTTT-TAAATT
8382518 GGTCCCCAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
58 3 0.04
59 37 0.53
60 30 0.43
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.47
Consensus pattern (58 bp):
TAAATTATAACTCTCTTTTAAATTAATCATTAAAATTTTAAACTTCTAATTTAATCCA
Found at i:8398569 original size:31 final size:31
Alignment explanation
Indices: 8398533--8398621 Score: 99
Period size: 31 Copynumber: 2.9 Consensus size: 31
8398523 ATTTGATTTC
* *
8398533 TAAATTTTAAATATAATATTAATTTGATCATA
1 TAAATTTTAAATAAAATATTAATTT-AACATA
* * *
8398565 -AAATTTTAGATAAAATATCAATTTAACTTA
1 TAAATTTTAAATAAAATATTAATTTAACATA
* *
8398595 TAAGTTTCAAATAAAATATTAATTTAA
1 TAAATTTTAAATAAAATATTAATTTAA
8398622 TCTTTAAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 4 0.09
31 43 0.91
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (31 bp):
TAAATTTTAAATAAAATATTAATTTAACATA
Found at i:8408133 original size:60 final size:60
Alignment explanation
Indices: 8408021--8408138 Score: 141
Period size: 60 Copynumber: 2.0 Consensus size: 60
8408011 TTACATATTT
* * **
8408021 GGATGAAATTAGAATATTCAAAAGTTTAAGAATTAATTTAGAAAGATTATCATAGTTTAA
1 GGATGAAATTAGAATATTCAAAAGTTTAAGAACTAATTTAGAAAAAAAATCATAGTTTAA
* * *
8408081 GGATGAAGTTATAATATTTAAAAGTTTAA-AGACTAATTTA-AAATAAAAATCATAGTTT
1 GGATGAAATTAGAATATTCAAAAGTTTAAGA-ACTAATTTAGAAA-AAAAATCATAGTTT
8408139 GGGAACATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
59 4 0.08
60 45 0.92
ACGTcount: A:0.47, C:0.03, G:0.14, T:0.36
Consensus pattern (60 bp):
GGATGAAATTAGAATATTCAAAAGTTTAAGAACTAATTTAGAAAAAAAATCATAGTTTAA
Found at i:8414490 original size:19 final size:19
Alignment explanation
Indices: 8414466--8414521 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
8414456 GAACGCTGGA
8414466 AACCGGTTTTGACCGGTTT
1 AACCGGTTTTGACCGGTTT
8414485 AACCGGTTTTGAACCGGTTTT
1 AACCGGTTTTG-ACCGG-TTT
*
8414506 GACCGG-TTTGACCGGT
1 AACCGGTTTTGACCGGT
8414522 CACGACCCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.03
19 16 0.47
20 9 0.26
21 8 0.24
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (19 bp):
AACCGGTTTTGACCGGTTT
Found at i:8414501 original size:11 final size:11
Alignment explanation
Indices: 8414466--8414514 Score: 70
Period size: 10 Copynumber: 4.8 Consensus size: 11
8414456 GAACGCTGGA
8414466 AACCGGTTTTG
1 AACCGGTTTTG
8414477 -ACCGG-TTT-
1 AACCGGTTTTG
8414485 AACCGGTTTTG
1 AACCGGTTTTG
8414496 AACCGGTTTTG
1 AACCGGTTTTG
8414507 -ACCGGTTT
1 AACCGGTTT
8414515 GACCGGTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.23
10 16 0.46
11 11 0.31
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:8414517 original size:9 final size:10
Alignment explanation
Indices: 8414467--8414521 Score: 78
Period size: 9 Copynumber: 5.6 Consensus size: 10
8414457 AACGCTGGAA
8414467 ACCGGTTTTG
1 ACCGGTTTTG
*
8414477 ACCGG-TTTA
1 ACCGGTTTTG
8414486 ACCGGTTTTG
1 ACCGGTTTTG
8414496 AACCGGTTTTG
1 -ACCGGTTTTG
8414507 ACCGG-TTTG
1 ACCGGTTTTG
8414516 ACCGGT
1 ACCGGT
8414522 CACGACCCGT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
9 17 0.43
10 13 0.32
11 10 0.25
ACGTcount: A:0.15, C:0.22, G:0.29, T:0.35
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:8414552 original size:13 final size:13
Alignment explanation
Indices: 8414534--8414570 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
8414524 CGACCCGTTT
*
8414534 ACCCGTTTACCCG
1 ACCCGTTGACCCG
8414547 ACCCGTTGACCCG
1 ACCCGTTGACCCG
8414560 ACCCGTTGACC
1 ACCCGTTGACC
8414571 GTTGACCGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.16, C:0.46, G:0.19, T:0.19
Consensus pattern (13 bp):
ACCCGTTGACCCG
Found at i:8414639 original size:29 final size:29
Alignment explanation
Indices: 8414578--8414653 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
8414568 ACCGTTGACC
*** *
8414578 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTCTGGGAATTAATTCGAAATG
8414607 GGTGCTATTCTGGGAATTAATTCGAAATG
1 GGTGCTATTCTGGGAATTAATTCGAAATG
* *
8414636 GGTGCTATTTTGGTAATT
1 GGTGCTATTCTGGGAATT
8414654 TTTTTAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.21, C:0.09, G:0.28, T:0.42
Consensus pattern (29 bp):
GGTGCTATTCTGGGAATTAATTCGAAATG
Found at i:8416031 original size:18 final size:18
Alignment explanation
Indices: 8415995--8416032 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8415985 ATATTTGTAT
*
8415995 TATTAATATTATGTTCTA
1 TATTAATATTATGTCCTA
8416013 TATT-ATATTATCGTCCTA
1 TATTAATATTAT-GTCCTA
8416031 TA
1 TA
8416033 AGTGGGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.53
Consensus pattern (18 bp):
TATTAATATTATGTCCTA
Found at i:8421351 original size:19 final size:19
Alignment explanation
Indices: 8421327--8421391 Score: 87
Period size: 19 Copynumber: 3.4 Consensus size: 19
8421317 GAACGCTGGA
8421327 AACCGGTTTTGACCGGTTT
1 AACCGGTTTTGACCGGTTT
8421346 AACCGGTTTTGAACCGGTTTT
1 AACCGGTTTTG-ACCGG-TTT
*
8421367 GACCGG-TTTGACCGGTTT
1 AACCGGTTTTGACCGGTTT
*
8421385 GACCGGT
1 AACCGGT
8421392 CACGACCCGT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
18 9 0.21
19 16 0.38
20 9 0.21
21 8 0.19
ACGTcount: A:0.15, C:0.22, G:0.29, T:0.34
Consensus pattern (19 bp):
AACCGGTTTTGACCGGTTT
Found at i:8421352 original size:9 final size:9
Alignment explanation
Indices: 8421328--8421391 Score: 83
Period size: 9 Copynumber: 6.7 Consensus size: 9
8421318 AACGCTGGAA
8421328 ACCGGTTTTG
1 ACCGG-TTTG
*
8421338 ACCGGTTTA
1 ACCGGTTTG
8421347 ACCGGTTTTG
1 ACCGG-TTTG
8421357 AACCGGTTTTG
1 -ACCGG-TTTG
8421368 ACCGGTTTG
1 ACCGGTTTG
8421377 ACCGGTTTG
1 ACCGGTTTG
8421386 ACCGGT
1 ACCGGT
8421392 CACGACCCGT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
9 27 0.54
10 13 0.26
11 10 0.20
ACGTcount: A:0.14, C:0.22, G:0.30, T:0.34
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:8421363 original size:30 final size:29
Alignment explanation
Indices: 8421327--8421391 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 29
8421317 GAACGCTGGA
8421327 AACCGGTTTTGACCGGTTTAACCGGTTTTG
1 AACCGGTTTTGACCGGTTTAACCGG-TTTG
*
8421357 AACCGGTTTTGACCGGTTTGACCGGTTTG
1 AACCGGTTTTGACCGGTTTAACCGGTTTG
8421386 -ACCGGT
1 AACCGGT
8421392 CACGACCCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 6 0.18
29 4 0.12
30 24 0.71
ACGTcount: A:0.15, C:0.22, G:0.29, T:0.34
Consensus pattern (29 bp):
AACCGGTTTTGACCGGTTTAACCGGTTTG
Found at i:8421429 original size:13 final size:13
Alignment explanation
Indices: 8421404--8421439 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
8421394 CGACCCGTTT
8421404 ACCCGTT-ACCCG
1 ACCCGTTGACCCG
8421416 ACCCGTTGACCCG
1 ACCCGTTGACCCG
8421429 ACCCGTTGACC
1 ACCCGTTGACC
8421440 GTTGACCGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.17, C:0.47, G:0.19, T:0.17
Consensus pattern (13 bp):
ACCCGTTGACCCG
Found at i:8421508 original size:29 final size:29
Alignment explanation
Indices: 8421447--8421522 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
8421437 ACCGTTGACC
*** *
8421447 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTCTGGGAATTAATTCGAAATG
8421476 GGTGCTATTCTGGGAATTAATTCGAAATG
1 GGTGCTATTCTGGGAATTAATTCGAAATG
* *
8421505 GGTGCTATTTTGGTAATT
1 GGTGCTATTCTGGGAATT
8421523 TTTTAAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.21, C:0.09, G:0.28, T:0.42
Consensus pattern (29 bp):
GGTGCTATTCTGGGAATTAATTCGAAATG
Found at i:8423359 original size:2 final size:2
Alignment explanation
Indices: 8423342--8423380 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
8423332 GCTAGTGATA
* *
8423342 AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8423381 GTATTTTAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:8426293 original size:75 final size:75
Alignment explanation
Indices: 8426133--8426293 Score: 241
Period size: 75 Copynumber: 2.1 Consensus size: 75
8426123 CGGTGGCATT
* *
8426133 GACGGTGGAGGTGCAAATTTTGATTGAACTGGAGCTTCTATTTTCTCAACAGCTTTTAAAACAAT
1 GACGGTGGAGGGGCAAATTTTGATTGAACCGGAGCTTCTATTTTCTCAACAGCTTTTAAAACAAT
* *
8426198 CCCTTGAGAT
66 CCCATGAGAC
* * *
8426208 GACGATGGAGGGGCAAATTTTGATTGAACCGGAGCTTCTCTTTTCTCAACAGCTTTTAAAGCAAT
1 GACGGTGGAGGGGCAAATTTTGATTGAACCGGAGCTTCTATTTTCTCAACAGCTTTTAAAACAAT
*
8426273 TCCATGAGAC
66 CCCATGAGAC
*
8426283 GACGGCGGAGG
1 GACGGTGGAGG
8426294 AGTTAAAGGA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (75 bp):
GACGGTGGAGGGGCAAATTTTGATTGAACCGGAGCTTCTATTTTCTCAACAGCTTTTAAAACAAT
CCCATGAGAC
Found at i:8430628 original size:59 final size:59
Alignment explanation
Indices: 8430556--8430675 Score: 231
Period size: 59 Copynumber: 2.0 Consensus size: 59
8430546 CTAGCTGATG
8430556 GTATACTCAAACATAAGATAATTATAACTGCTCGTAGATCAACAAGCTAAATAGATCTA
1 GTATACTCAAACATAAGATAATTATAACTGCTCGTAGATCAACAAGCTAAATAGATCTA
*
8430615 GTATACTCAAACATAAGATAATTATAACTGTTCGTAGATCAACAAGCTAAATAGATCTA
1 GTATACTCAAACATAAGATAATTATAACTGCTCGTAGATCAACAAGCTAAATAGATCTA
8430674 GT
1 GT
8430676 GATCAGATCT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.28
Consensus pattern (59 bp):
GTATACTCAAACATAAGATAATTATAACTGCTCGTAGATCAACAAGCTAAATAGATCTA
Found at i:8431041 original size:23 final size:23
Alignment explanation
Indices: 8431015--8431058 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
8431005 AATTTAAAAA
* *
8431015 TTAAATTTATTTAATCGAATAAT
1 TTAAATTTATATAATCAAATAAT
8431038 TTAAATTTATATAATCAAATA
1 TTAAATTTATATAATCAAATA
8431059 TTACGTACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (23 bp):
TTAAATTTATATAATCAAATAAT
Found at i:8433874 original size:16 final size:16
Alignment explanation
Indices: 8433853--8433923 Score: 115
Period size: 16 Copynumber: 4.4 Consensus size: 16
8433843 TCATTGAATC
8433853 TAAATGCAAATTTGAA
1 TAAATGCAAATTTGAA
8433869 TAAATGCAAATTTGAA
1 TAAATGCAAATTTGAA
*
8433885 GAAATGCAAATTTGAA
1 TAAATGCAAATTTGAA
* *
8433901 GAAATGCAAATTTGAG
1 TAAATGCAAATTTGAA
8433917 TAAATGC
1 TAAATGC
8433924 TATATCTTGT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (16 bp):
TAAATGCAAATTTGAA
Found at i:8435409 original size:14 final size:15
Alignment explanation
Indices: 8435358--8435409 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
8435348 TAATTTATTT
8435358 ATATTATTTATGCTATA
1 ATATTA-TTAT-CTATA
*
8435375 ATATTATTAT-TAAA
1 ATATTATTATCTATA
8435389 ATATTATT-TCTATA
1 ATATTATTATCTATA
*
8435403 ATTTTAT
1 ATATTAT
8435410 AAATAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 1 0.03
14 20 0.65
16 4 0.13
17 6 0.19
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (15 bp):
ATATTATTATCTATA
Found at i:8435470 original size:27 final size:27
Alignment explanation
Indices: 8435386--8435473 Score: 68
Period size: 29 Copynumber: 3.0 Consensus size: 27
8435376 TATTATTATT
* *
8435386 AAAATATTATTTCTATAATTTTATAAATA
1 AAAATATTATAT-TATATTTTTA-AAATA
* *
8435415 AAAATATTAAGACTAGTATACTCTATTAAAATA
1 AAAATATT---A-TATTATA-T-TTTTAAAATA
8435448 AAAATATTATATTATATTTTTAAAAT
1 AAAATATTATATTATATTTTTAAAAT
8435474 TATTAATAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
27 8 0.17
28 1 0.02
29 14 0.30
30 1 0.02
32 5 0.11
33 14 0.30
34 4 0.09
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (27 bp):
AAAATATTATATTATATTTTTAAAATA
Found at i:8435673 original size:23 final size:21
Alignment explanation
Indices: 8435645--8435711 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 21
8435635 TTAAAATAAG
8435645 AATATAATAGTATCATATATTAT
1 AATATAATAGTAT-AT-TATTAT
*
8435668 AATATAATTGAGTATATTATTGT
1 AATATAA-T-AGTATATTATTAT
*
8435691 AATAATAATATTATATTATTA
1 AAT-ATAATAGTATATTATTA
8435712 AAAATATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 10 0.26
23 16 0.42
24 7 0.18
25 5 0.13
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.46
Consensus pattern (21 bp):
AATATAATAGTATATTATTAT
Found at i:8435722 original size:23 final size:23
Alignment explanation
Indices: 8435691--8435757 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
8435681 ATATTATTGT
*
8435691 AATAATAAT-ATTATATTATTAAA
1 AATATTAATAATTATATT-TTAAA
*
8435714 AATATTAATAAATATATTTTAAA
1 AATATTAATAATTATATTTTAAA
* *
8435737 TATGTTAATAATTAATATTTT
1 AATATTAATAATT-ATATTTT
8435758 TATCGAAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 23 0.62
24 14 0.38
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (23 bp):
AATATTAATAATTATATTTTAAA
Found at i:8437984 original size:188 final size:189
Alignment explanation
Indices: 8437650--8438027 Score: 659
Period size: 188 Copynumber: 2.0 Consensus size: 189
8437640 AAGATAGTTG
*
8437650 AGTGATGAAAAAGGTGCAATTTACCCATATTTCAAAGTTAATAATGGAGGGCGTAGTTTACCCAG
1 AGTGATGAAAAAGGTGCAATTTACCCATATTTCAAAGCTAATAATGGAGGGCGTAGTTTACCCAG
*
8437715 AATTAAAACAAAGAAAGGGCGTCGACCTTGTCGGGAGTCCAGCATTTATTCAGGAATAATAAAGC
66 AATTAAAACAAAGAAAGGGCGTCGACCTTGTCAGGAGTCCAGCATTTATTCAGGAATAATAAAGC
8437780 TGAGAATGAGAATTGTTGGTAAAGAAGAAGAGCACATTTCACCGTCCCAAATATCCTCA
131 TGAGAATGAGAATTGTTGGTAAAGAAGAAGAGCACATTTCACCGTCCCAAATATCCTCA
* * *
8437839 AGTGATG-AAAGGGTGTAATTTACCCATATTTCAAAGCTAATAATGGAGGGCGTAGTTTACCCAT
1 AGTGATGAAAAAGGTGCAATTTACCCATATTTCAAAGCTAATAATGGAGGGCGTAGTTTACCCAG
* * *
8437903 AATTAAAACAAAGAAAGGGCGTCGACCTTGTCAGGAGTCGAGCATTTATTTAGGAATAATGAAGC
66 AATTAAAACAAAGAAAGGGCGTCGACCTTGTCAGGAGTCCAGCATTTATTCAGGAATAATAAAGC
* *
8437968 TGAGAATGAGAATTGTTGGTGAAGAAGAAGATCACATTTCACCGTCCCAAATATCCTCA
131 TGAGAATGAGAATTGTTGGTAAAGAAGAAGAGCACATTTCACCGTCCCAAATATCCTCA
8438027 A
1 A
8438028 CAGTTGTAAA
Statistics
Matches: 179, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
188 172 0.96
189 7 0.04
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (189 bp):
AGTGATGAAAAAGGTGCAATTTACCCATATTTCAAAGCTAATAATGGAGGGCGTAGTTTACCCAG
AATTAAAACAAAGAAAGGGCGTCGACCTTGTCAGGAGTCCAGCATTTATTCAGGAATAATAAAGC
TGAGAATGAGAATTGTTGGTAAAGAAGAAGAGCACATTTCACCGTCCCAAATATCCTCA
Found at i:8441120 original size:2 final size:2
Alignment explanation
Indices: 8441113--8441146 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8441103 ATTCTGTATG
*
8441113 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8441147 TGTGTATGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8449610 original size:2 final size:2
Alignment explanation
Indices: 8449603--8449635 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
8449593 TCTTAAAAAT
*
8449603 TA TA TA TA TA TA TA TA TA TA TA TT TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8449636 CATCTATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:8450930 original size:44 final size:44
Alignment explanation
Indices: 8450880--8450966 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
8450870 CAGCTCGTAA
* * *
8450880 TTTGCACCGAAGTGCCACATAATTGTCCCGAAGGATCACATAGG
1 TTTGCACCAAAGTGCCACATAATTATCCCGAAGGACCACATAGG
* *
8450924 TTTGCACCAAAGTGCCACATAATTATCCTGAATGACCACATAG
1 TTTGCACCAAAGTGCCACATAATTATCCCGAAGGACCACATAG
8450967 AACCCTCGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (44 bp):
TTTGCACCAAAGTGCCACATAATTATCCCGAAGGACCACATAGG
Found at i:8451557 original size:20 final size:19
Alignment explanation
Indices: 8451532--8451571 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8451522 ACTGATACTT
* *
8451532 CCCCTTTATGGTATCGATA
1 CCCCCTTATGGTACCGATA
*
8451551 CCCCCTTCTGGTACCGATA
1 CCCCCTTATGGTACCGATA
8451570 CC
1 CC
8451572 ATTTTGACAT
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:0.17, C:0.38, G:0.15, T:0.30
Consensus pattern (19 bp):
CCCCCTTATGGTACCGATA
Found at i:8454897 original size:22 final size:21
Alignment explanation
Indices: 8454851--8454902 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
8454841 ATAATTATTT
8454851 AAAAAATTAAATAAAAATACCA
1 AAAAAATTAAATAAAAATA-CA
* *
8454873 AAAACATTTAATAAAAAATA-A
1 AAAAAATTAAAT-AAAAATACA
8454894 AAAAAATTA
1 AAAAAATTA
8454903 GGTTGAACCG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 8 0.32
22 10 0.40
23 7 0.28
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATACA
Found at i:8454947 original size:20 final size:21
Alignment explanation
Indices: 8454903--8454956 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
8454893 AAAAAAATTA
8454903 GGTT-GAACCGGTTCACGGTCC
1 GGTTCGAA-CGGTTCACGGTCC
*
8454924 GGTTCGAGCGGTTCACGG-CC
1 GGTTCGAACGGTTCACGGTCC
8454944 GGTTCGAACGGTT
1 GGTTCGAACGGTT
8454957 TCTTGCGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 14 0.47
21 14 0.47
22 2 0.07
ACGTcount: A:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (21 bp):
GGTTCGAACGGTTCACGGTCC
Found at i:8460968 original size:22 final size:20
Alignment explanation
Indices: 8460917--8460974 Score: 53
Period size: 23 Copynumber: 2.6 Consensus size: 20
8460907 GATCAAATAA
* *
8460917 CAAAAAAACGTGCTAAAAGG
1 CAAAAAAACGTGTTAAAAAG
8460937 CAGAAGAAAACGTGTTATAAAAG
1 CA-AA-AAAACGTGTTA-AAAAG
8460960 CAAATAAAAACGTGT
1 C-AA-AAAAACGTGT
8460975 CATACAGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 2 0.06
21 2 0.06
22 10 0.32
23 15 0.48
24 2 0.06
ACGTcount: A:0.53, C:0.12, G:0.19, T:0.16
Consensus pattern (20 bp):
CAAAAAAACGTGTTAAAAAG
Found at i:8463890 original size:20 final size:21
Alignment explanation
Indices: 8463865--8463916 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
8463855 TTTTCCCAAT
*
8463865 TCGCAATGCGAATAAG-TAAA
1 TCGCAATGCGAATAAGAAAAA
* **
8463885 TCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATAAGAAAAA
8463906 TCGCAATGCGA
1 TCGCAATGCGA
8463917 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATAAGAAAAA
Found at i:8463930 original size:20 final size:20
Alignment explanation
Indices: 8463905--8464018 Score: 140
Period size: 20 Copynumber: 5.7 Consensus size: 20
8463895 AATTGGAAAA
8463905 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
8463925 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
8463945 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
8463965 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
8463986 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
8464006 TTCGCAACGCGAT
1 ATCGCAATGCGAT
8464019 TTACATAGCG
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 2 0.02
20 65 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:8464598 original size:19 final size:19
Alignment explanation
Indices: 8464576--8464668 Score: 88
Period size: 19 Copynumber: 5.1 Consensus size: 19
8464566 GAAACCAAAA
*
8464576 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
8464595 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
8464609 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
8464628 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
8464647 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
8464667 TC
1 TC
8464669 AACCAAAAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
14 10 0.17
16 2 0.03
17 3 0.05
19 28 0.47
20 17 0.28
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:8464668 original size:39 final size:33
Alignment explanation
Indices: 8464581--8464643 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
8464571 CAAAATCGCA
8464581 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
8464614 TTGCGATAGTCATTTCGCGTTGCGATTCTC
1 TTGCGATTTTCATTTCGCGTTGCGATTCTC
8464644 ATTATCTCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:8466220 original size:63 final size:63
Alignment explanation
Indices: 8466121--8466251 Score: 262
Period size: 63 Copynumber: 2.1 Consensus size: 63
8466111 GTTACGTGAT
8466121 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
8466184 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
8466247 GAGGT
1 GAGGT
8466252 GTCTACTTTA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.24
Consensus pattern (63 bp):
GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
Found at i:8468228 original size:14 final size:14
Alignment explanation
Indices: 8468209--8468244 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
8468199 ATTGTTTAAT
8468209 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
8468223 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
8468237 TGATTTGT
1 TGATTTGT
8468245 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:8468375 original size:19 final size:19
Alignment explanation
Indices: 8468351--8468397 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
8468341 AAAAAGTACT
*
8468351 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
8468370 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
8468389 ATCGCAACG
1 ATCGCAACG
8468398 AGAGAAACGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:8468471 original size:33 final size:33
Alignment explanation
Indices: 8468426--8468519 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
8468416 ATTAAATTCG
* *
8468426 CGTTGCGTTTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCAT
*
8468459 CGTTGCGATTTTCATTTCGCATTGCGATTCTAT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCAT
8468492 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
8468520 AGTAATTTCC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCAT
Found at i:8468485 original size:19 final size:19
Alignment explanation
Indices: 8468422--8468519 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
8468412 CGAAATTAAA
* *
8468422 TTCGCGTTGCGTTTTTCAT
1 TTCGCATTGCGATTTTCAT
*
8468441 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
8468457 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
8468474 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
8468490 ATCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
8468507 TTCGCATTGCGAT
1 TTCGCATTGCGAT
8468520 AGTAATTTCC
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 12 0.20
16 13 0.21
17 13 0.21
19 23 0.38
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:8470828 original size:12 final size:12
Alignment explanation
Indices: 8470811--8470835 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8470801 TCTTCGGGGA
8470811 CTTTTTCTTCTT
1 CTTTTTCTTCTT
8470823 CTTTTTCTTCTT
1 CTTTTTCTTCTT
8470835 C
1 C
8470836 AAGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:8472155 original size:20 final size:20
Alignment explanation
Indices: 8472120--8472157 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8472110 ATTCATTTGA
*
8472120 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
*
8472140 CTATCGCAATGAGAAAAT
1 CTATCGCAACGAGAAAAT
8472158 CGCAATGCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:8472200 original size:14 final size:16
Alignment explanation
Indices: 8472180--8472253 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
8472170 TGAAAATCGC
8472180 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
8472195 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
8472212 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
8472231 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
8472247 -TTGCGAT
1 ATTGCGAT
8472254 AGCCATTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:8472217 original size:19 final size:19
Alignment explanation
Indices: 8472176--8472243 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
8472166 GAAATGAAAA
8472176 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
8472192 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
8472209 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
8472228 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
8472244 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:8472219 original size:52 final size:52
Alignment explanation
Indices: 8472157--8472271 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 52
8472147 AATGAGAAAA
* ***
8472157 TCGCAATGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
** ** **
8472209 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
8472261 TCGCGTTGCGA
1 TCGCATTGCGA
8472272 TAGTCTGTTT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:8474286 original size:20 final size:19
Alignment explanation
Indices: 8474251--8474316 Score: 89
Period size: 20 Copynumber: 3.5 Consensus size: 19
8474241 GAAACTTAAA
8474251 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
8474270 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* *
8474290 ATCGCAATGCGAAATGA-A
1 ATCGCAACGCGAAATGACT
8474308 ATCGCAACG
1 ATCGCAACG
8474317 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
18 8 0.20
19 16 0.39
20 17 0.41
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:8474325 original size:14 final size:14
Alignment explanation
Indices: 8474306--8474343 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
8474296 ATGCGAAATG
8474306 AAATCGCAACGACA
1 AAATCGCAACGACA
*
8474320 AAATCGCAACGATA
1 AAATCGCAACGACA
8474334 AAATCGCAAC
1 AAATCGCAAC
8474344 ACGAAACACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.26, G:0.13, T:0.11
Consensus pattern (14 bp):
AAATCGCAACGACA
Found at i:8474378 original size:19 final size:19
Alignment explanation
Indices: 8474356--8474419 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
8474346 GAAACACAAA
8474356 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
8474375 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
8474391 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
8474408 TCGCATTGCGAT
1 TCGCATTGCGAT
8474420 AGCCATTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 6 0.16
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 17 0.46
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:8474458 original size:20 final size:20
Alignment explanation
Indices: 8474404--8474447 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
8474394 TTGCGATTTT
*
8474404 CATTTC-GCATTGCGATAGC
1 CATTTCTGCGTTGCGATAGC
*
8474423 CATTTCTGCGTTGCGATAGT
1 CATTTCTGCGTTGCGATAGC
8474443 CATTT
1 CATTT
8474448 TCGTGTTGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (20 bp):
CATTTCTGCGTTGCGATAGC
Found at i:8474960 original size:18 final size:18
Alignment explanation
Indices: 8474934--8474978 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
8474924 GTCGATCAGA
*
8474934 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
8474952 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
8474970 TGATGGCTC
1 TGATGGCTC
8474979 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:8476339 original size:20 final size:20
Alignment explanation
Indices: 8476316--8476353 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8476306 AATCGTAACA
8476316 CGAAAATGACTATCGCAATT
1 CGAAAATGACTATCGCAATT
**
8476336 CGAATTTGACTATCGCAA
1 CGAAAATGACTATCGCAA
8476354 CGCGAAACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (20 bp):
CGAAAATGACTATCGCAATT
Found at i:8476359 original size:20 final size:20
Alignment explanation
Indices: 8476322--8476359 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8476312 AACACGAAAA
**
8476322 TGACTATCGCAATTCGAATT
1 TGACTATCGCAACGCGAATT
8476342 TGACTATCGCAACGCGAA
1 TGACTATCGCAACGCGAA
8476360 ACTAAAACCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATT
Found at i:8476631 original size:22 final size:22
Alignment explanation
Indices: 8476604--8476647 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8476594 GATGGAGATA
8476604 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
8476626 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
8476648 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:8476896 original size:20 final size:20
Alignment explanation
Indices: 8476835--8476948 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
8476825 GATTATGTAT
8476835 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* **
8476855 AATCGTATTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
8476875 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
8476895 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
8476916 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
8476936 TATCGCATTGCGA
1 TATCGCGTTGCGA
8476949 TTTTCCCAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
19 3 0.04
20 59 0.78
21 12 0.16
22 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:8476938 original size:41 final size:41
Alignment explanation
Indices: 8476815--8476952 Score: 136
Period size: 41 Copynumber: 3.4 Consensus size: 41
8476805 CGCTTTGAAA
* * * *
8476815 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
* ** * *
8476856 ATCGTATTGCGA--AAGTCAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTTTGT-ATTATCGCATTGCGAAAGTAAGT
* * * *
8476896 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
8476937 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
8476953 CCCAATTCGC
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
39 3 0.04
40 29 0.37
41 44 0.56
42 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
Found at i:8476949 original size:20 final size:20
Alignment explanation
Indices: 8476815--8476949 Score: 103
Period size: 20 Copynumber: 6.7 Consensus size: 20
8476805 CGCTTTGAAA
*
8476815 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
8476836 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
8476856 ATCGTATTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
8476876 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
8476896 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
8476917 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
8476937 ATCGCATTGCGAT
1 ATCGCATTGCGAT
8476950 TTTCCCAATT
Statistics
Matches: 92, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
19 5 0.05
20 62 0.67
21 23 0.25
22 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:8476967 original size:21 final size:21
Alignment explanation
Indices: 8476938--8477030 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
8476928 ATAGTCAGTA
8476938 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
8476959 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
8476979 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
8477000 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
8477020 TCGCATTGCGA
1 TCGCATTGCGA
8477031 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:8476968 original size:41 final size:41
Alignment explanation
Indices: 8476877--8477011 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
8476867 AAAGTCAGTA
* * * ** *
8476877 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
8476917 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
8476959 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
8477000 TCGCGTTGCGAT
1 TCGCGTTGCGAT
8477012 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:8477012 original size:41 final size:41
Alignment explanation
Indices: 8476938--8477030 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
8476928 ATAGTCAGTA
8476938 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
8476979 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
8477020 TCGCATTGCGA
1 TCGCATTGCGA
8477031 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:8480542 original size:4 final size:4
Alignment explanation
Indices: 8480527--8480566 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
8480517 CCATGTTTTT
*
8480527 TTAA TTAA -TAA TTAA -TAA TTAA TTTA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
8480567 TATATCGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 6 0.19
4 26 0.81
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TTAA
Found at i:8483838 original size:19 final size:20
Alignment explanation
Indices: 8483809--8483847 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
8483799 ATCGAGATTT
8483809 TACTCCTTGATTACTCCCTC
1 TACTCCTTGATTACTCCCTC
*
8483829 TACT-CTTGATTACTTCCTC
1 TACTCCTTGATTACTCCCTC
8483848 GTTTGAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.15, C:0.36, G:0.05, T:0.44
Consensus pattern (20 bp):
TACTCCTTGATTACTCCCTC
Found at i:8484087 original size:67 final size:67
Alignment explanation
Indices: 8484001--8484128 Score: 220
Period size: 67 Copynumber: 1.9 Consensus size: 67
8483991 AGGGCTCAAT
* *
8484001 AAAGTAATACCTCAGAGTCGGTGATCATTTTATAATTTTGAATAGTCATTAACTCAACAAAGCAA
1 AAAGTAATACCTCAGAGTCGGTGATCATTTTATAAATTTCAATAGTCATTAACTCAACAAAGCAA
8484066 AC
66 AC
* *
8484068 AAAGTAATACCTCATAGTCGGTGATCATTTTATAAATTTCAATAGTTATTAACTCAACAAA
1 AAAGTAATACCTCAGAGTCGGTGATCATTTTATAAATTTCAATAGTCATTAACTCAACAAA
8484129 ACAACGCCTT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (67 bp):
AAAGTAATACCTCAGAGTCGGTGATCATTTTATAAATTTCAATAGTCATTAACTCAACAAAGCAA
AC
Found at i:8490466 original size:5 final size:5
Alignment explanation
Indices: 8490456--8490485 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
8490446 TCTTTCTCTT
8490456 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC
8490486 AATGCCCCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
TTCTC
Found at i:8494180 original size:25 final size:25
Alignment explanation
Indices: 8494146--8494204 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
8494136 TGAGATTCTA
8494146 TTGAAACGGGTGGAATTGTCAAAGT
1 TTGAAACGGGTGGAATTGTCAAAGT
8494171 TTGAAACGGGTGGAATTGTCAAAGT
1 TTGAAACGGGTGGAATTGTCAAAGT
8494196 TTGAAACGG
1 TTGAAACGG
8494205 AATACAGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.27
Consensus pattern (25 bp):
TTGAAACGGGTGGAATTGTCAAAGT
Found at i:8495976 original size:3 final size:3
Alignment explanation
Indices: 8495970--8496000 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8495960 AGGTAAAAAA
8495970 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8496001 AACTTTGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8498367 original size:12 final size:12
Alignment explanation
Indices: 8498352--8498381 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8498342 TGTGCGCGGT
8498352 TGTGCGTGTATG
1 TGTGCGTGTATG
*
8498364 TGTGCGTGTGTG
1 TGTGCGTGTATG
8498376 TGTGCG
1 TGTGCG
8498382 CGGTTGTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.03, C:0.10, G:0.47, T:0.40
Consensus pattern (12 bp):
TGTGCGTGTATG
Found at i:8498379 original size:34 final size:35
Alignment explanation
Indices: 8498338--8498411 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 35
8498328 ATACAATACA
8498338 TGTGTGTGCGCGGTTGTGCGTGTATGTGTGCG-TG
1 TGTGTGTGCGCGGTTGTGCGTGTATGTGTGCGCTG
* *
8498372 TGTGTGTGCGCGGTTGTGTGTGTGTGTGTGCGCTG
1 TGTGTGTGCGCGGTTGTGCGTGTATGTGTGCGCTG
8498407 T-TGTG
1 TGTGTG
8498412 CTTGTGTGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 34 0.92
35 3 0.08
ACGTcount: A:0.01, C:0.11, G:0.47, T:0.41
Consensus pattern (35 bp):
TGTGTGTGCGCGGTTGTGCGTGTATGTGTGCGCTG
Found at i:8498392 original size:20 final size:22
Alignment explanation
Indices: 8498364--8498424 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
8498354 TGCGTGTATG
*
8498364 TGTGCGTGTGTGTGTGCGCGGT
1 TGTGTGTGTGTGTGTGCGCGGT
*
8498386 TGTGTGTGTGTGTGTGCGCTGT
1 TGTGTGTGTGTGTGTGCGCGGT
8498408 TGTGCT-TGTGTGTGTGC
1 TGTG-TGTGTGTGTGTGC
8498425 ACGCACTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 35 0.97
23 1 0.03
ACGTcount: A:0.00, C:0.11, G:0.46, T:0.43
Consensus pattern (22 bp):
TGTGTGTGTGTGTGTGCGCGGT
Found at i:8508877 original size:12 final size:12
Alignment explanation
Indices: 8508860--8508887 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
8508850 GTAAACAGAC
8508860 AATTTTAGGTGA
1 AATTTTAGGTGA
8508872 AATTTTAGGTGA
1 AATTTTAGGTGA
8508884 AATT
1 AATT
8508888 GCAGTCACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (12 bp):
AATTTTAGGTGA
Found at i:8509927 original size:2 final size:2
Alignment explanation
Indices: 8509922--8509947 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8509912 ACACACAGAA
8509922 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
8509948 TTAACACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8513634 original size:25 final size:24
Alignment explanation
Indices: 8513606--8513702 Score: 83
Period size: 24 Copynumber: 4.0 Consensus size: 24
8513596 CACCACAGCT
8513606 CGTATAAATTTGCACCGAAGTGCCA
1 CGTA-AAATTTGCACCGAAGTGCCA
* * *
8513631 CGTAGAATTTGTC-CTGAA-TGACCG
1 CGTAAAATTTG-CACCGAAGTG-CCA
*
8513655 CGTAGAAATTTGCATCGAAGTGCCA
1 CGTA-AAATTTGCACCGAAGTGCCA
* *
8513680 CGTAAAA-TTACACCGTAGTGCCA
1 CGTAAAATTTGCACCGAAGTGCCA
8513703 TATAACATTG
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
23 15 0.26
24 20 0.35
25 20 0.35
26 2 0.04
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (24 bp):
CGTAAAATTTGCACCGAAGTGCCA
Found at i:8514930 original size:3 final size:3
Alignment explanation
Indices: 8514918--8514949 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
8514908 ATTATTATTA
*
8514918 TTG TTA TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
8514950 ATTAGTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.28, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:8514930 original size:9 final size:9
Alignment explanation
Indices: 8514912--8514952 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
8514902 ATTATTATTA
*
8514912 TTATTATTG
1 TTATTGTTG
8514921 TTATTGTTG
1 TTATTGTTG
*
8514930 TTGTTGTTG
1 TTATTGTTG
*
8514939 TTGTTGTTG
1 TTATTGTTG
8514948 TTATT
1 TTATT
8514953 AGTATTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.10, C:0.00, G:0.22, T:0.68
Consensus pattern (9 bp):
TTATTGTTG
Found at i:8520807 original size:19 final size:19
Alignment explanation
Indices: 8520771--8520808 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8520761 TTTAATTTAA
*
8520771 TTAATAAAATGCATTATTT
1 TTAATAAAATACATTATTT
8520790 TTAATAAAA-ACATATATTT
1 TTAATAAAATACAT-TATTT
8520809 AAATTCGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (19 bp):
TTAATAAAATACATTATTT
Found at i:8524755 original size:19 final size:19
Alignment explanation
Indices: 8524728--8524775 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
8524718 TCTAGAAAGG
*
8524728 GTATTGATACTGAAGTAAA
1 GTATCGATACTGAAGTAAA
8524747 GTATCGATACTGAAGTAAA
1 GTATCGATACTGAAGTAAA
8524766 GTATCGATAC
1 GTATCGATAC
8524776 CACAGTAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (19 bp):
GTATCGATACTGAAGTAAA
Found at i:8525530 original size:23 final size:23
Alignment explanation
Indices: 8525499--8525577 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
8525489 GGTTCTATAC
* *
8525499 GGTCATTCGGAACATTTCTACGCT
1 GGTCCTTCGGGACATTTCTACG-T
* * *
8525523 -GTCCTTCGGGACAATACTATGT
1 GGTCCTTCGGGACATTTCTACGT
*
8525545 GGTCCTTCGGGACATTTCTATGT
1 GGTCCTTCGGGACATTTCTACGT
*
8525568 GGTACTTCGG
1 GGTCCTTCGG
8525578 TGCAATTTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 1 0.02
23 45 0.98
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (23 bp):
GGTCCTTCGGGACATTTCTACGT
Found at i:8535857 original size:40 final size:40
Alignment explanation
Indices: 8535797--8536047 Score: 152
Period size: 39 Copynumber: 6.3 Consensus size: 40
8535787 ATTTAATACG
* * * *
8535797 GAAGATTTTATATCGCTCAAGATTGTTTTTCCTTGGAACA
1 GAAGATATTATCTCACTCAAGATTGTTTTTCCTTGAAACA
* *
8535837 GAAGATATTATCTCATTCAAGATTGTTTTTTCTTGAAACA
1 GAAGATATTATCTCACTCAAGATTGTTTTTCCTTGAAACA
* * * *
8535877 GAAGATTTTATCTCACTCAAGATAG-TTTCCCTCGAAACA
1 GAAGATATTATCTCACTCAAGATTGTTTTTCCTTGAAACA
* * * ** * *
8535916 AAAGATTTTATCTCGCTTGAGATAGTTTCT-CTTGAAAC-
1 GAAGATATTATCTCACTCAAGATTGTTTTTCCTTGAAACA
* * ** * * * *
8535954 GAAAGATTTTATCTCGCTTGAGATAG-TTTCCCTCGAAGCA
1 G-AAGATATTATCTCACTCAAGATTGTTTTTCCTTGAAACA
* * ** * * *
8535994 GAAGATTTTATCTCGCTTGAGATAG-TTTCCCTCGAAACA
1 GAAGATATTATCTCACTCAAGATTGTTTTTCCTTGAAACA
*
8536033 GAAAGATTTTATCTC
1 G-AAGATATTATCTC
8536048 GCTTGAGATA
Statistics
Matches: 181, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
38 2 0.01
39 107 0.59
40 72 0.40
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (40 bp):
GAAGATATTATCTCACTCAAGATTGTTTTTCCTTGAAACA
Found at i:8535925 original size:39 final size:39
Alignment explanation
Indices: 8535871--8536261 Score: 391
Period size: 39 Copynumber: 10.2 Consensus size: 39
8535861 GTTTTTTCTT
* * **
8535871 GAAACAGAAGATTTTATCTCACTCAAGATAGTTTCCCTC
1 GAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCCCTC
* *
8535910 GAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCTCTT
1 GAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCCCTC
*
8535949 GAAACGAAAGATTTTATCTCGCTTGAGATAGTTTCCCTC
1 GAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCCCTC
* *
8535988 GAAGCAGAAGATTTTATCTCGCTTGAGATAGTTTCCCTC
1 GAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCCCTC
*
8536027 GAAACAGAAAGATTTTATCTCGCTTGAGATAGTTTCTCTC
1 GAAACA-AAAGATTTTATCTCGCTTGAGATAGTTTCCCTC
* * * * * *
8536067 GAAACAGAAAAATTTTGTCTC-CTTGAGACAATTTTCCTT
1 GAAACA-AAAGATTTTATCTCGCTTGAGATAGTTTCCCTC
* * ** *
8536106 GAAAC--AA-ATTTTGTCTCCCTTGAGACGGTTTCCCTA
1 GAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCCCTC
* * * * * * *
8536142 GAAAC--AA-ATTTTGTTTCCCTTGAGACAATTTCACTT
1 GAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCCCTC
* * * * *
8536178 GAAACAGAAGATTTTATCTCGTTTGAGATTGTTTCACTT
1 GAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCCCTC
* * *
8536217 GAAACAGAAGATTCTATCTCGCTTGAGATAGTTTCGCTC
1 GAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCCCTC
8536256 GAAACA
1 GAAACA
8536262 CTATTTTTTG
Statistics
Matches: 304, Mismatches: 43, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
35 10 0.03
36 52 0.17
38 2 0.01
39 190 0.62
40 50 0.16
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (39 bp):
GAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCCCTC
Found at i:8536146 original size:36 final size:36
Alignment explanation
Indices: 8536076--8536183 Score: 146
Period size: 36 Copynumber: 3.0 Consensus size: 36
8536066 CGAAACAGAA
* *
8536076 AAATTTTGTCT-CCTTGAGACAATTTTCCTTGAAAC
1 AAATTTTGTCTCCCTTGAGACAATTTCCCTAGAAAC
**
8536111 AAATTTTGTCTCCCTTGAGACGGTTTCCCTAGAAAC
1 AAATTTTGTCTCCCTTGAGACAATTTCCCTAGAAAC
* * *
8536147 AAATTTTGTTTCCCTTGAGACAATTTCACTTGAAAC
1 AAATTTTGTCTCCCTTGAGACAATTTCCCTAGAAAC
8536183 A
1 A
8536184 GAAGATTTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
35 11 0.17
36 52 0.83
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (36 bp):
AAATTTTGTCTCCCTTGAGACAATTTCCCTAGAAAC
Found at i:8536394 original size:43 final size:43
Alignment explanation
Indices: 8536333--8536512 Score: 231
Period size: 43 Copynumber: 4.2 Consensus size: 43
8536323 CGTGATATAC
*
8536333 AAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGGTGAA
1 AAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAA
**
8536376 AAGCTTGAGGGACCATCGTGATATGTAGGGG-TTCTTTGAT-AA
1 AAGCTTGAGAAACCATCGTGATATGTAGGGGTTTC-TTGATGAA
* *
8536418 CAAGCTTGAGAAACCATCGTGATATGTAAGGGTTTCTTGATGAC
1 -AAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAA
* ** *
8536462 AATCTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACA
1 AAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGA-A
8536506 AA-CTTGA
1 AAGCTTGA
8536513 TGACCACTTG
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
42 5 0.04
43 108 0.91
44 6 0.05
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (43 bp):
AAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAA
Done.