Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_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: 9057482
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 37
Found at i:6895131 original size:16 final size:15
Alignment explanation
Indices: 6895066--6895132 Score: 61
Period size: 16 Copynumber: 4.5 Consensus size: 15
6895056 TTCAATCAAG
6895066 AACAAAA-AAGAAAA
1 AACAAAAGAAGAAAA
6895080 TAAGCAAAA-AAGAAAA
1 -AA-CAAAAGAAGAAAA
*
6895096 AAC--AAGAACAAAA
1 AACAAAAGAAGAAAA
*
6895109 AAGAAAAGAAGAAAA
1 AACAAAAGAAGAAAA
6895124 AATCAAAAG
1 AA-CAAAAG
6895133 GAAAAGGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
12 2 0.05
13 8 0.19
14 1 0.02
15 15 0.35
16 17 0.40
ACGTcount: A:0.78, C:0.07, G:0.12, T:0.03
Consensus pattern (15 bp):
AACAAAAGAAGAAAA
Found at i:6895131 original size:22 final size:23
Alignment explanation
Indices: 6895106--6895148 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6895096 AACAAGAACA
*
6895106 AAAAAGAAAA-GAAGAAAAAATC
1 AAAAAGAAAAGGAAAAAAAAATC
*
6895128 AAAAGGAAAAGGAAAAAAAAA
1 AAAAAGAAAAGGAAAAAAAAA
6895149 GCACATGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.02
Consensus pattern (23 bp):
AAAAAGAAAAGGAAAAAAAAATC
Found at i:6895137 original size:28 final size:26
Alignment explanation
Indices: 6895071--6895145 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 26
6895061 TCAAGAACAA
6895071 AAAAGAAAATAAGCAAAAAAGAAAAAAC
1 AAAAGAAAA-AAG-AAAAAAGAAAAAAC
*
6895099 AAGAACAAAAAAGAAAAGAAGAAAAAATC
1 AA-AAGAAAAAAGAAAA-AAGAAAAAA-C
* *
6895128 AAAAGGAAAAGGAAAAAA
1 AAAAGAAAAAAGAAAAAA
6895146 AAAGCACATG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 6 0.15
28 25 0.62
29 9 0.22
ACGTcount: A:0.77, C:0.05, G:0.15, T:0.03
Consensus pattern (26 bp):
AAAAGAAAAAAGAAAAAAGAAAAAAC
Found at i:6896988 original size:37 final size:37
Alignment explanation
Indices: 6896947--6897018 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
6896937 TGGAACTAAG
* *
6896947 TTTTGTCTCTCTTGAGACAGTTTTTCTTAAAACAAAA
1 TTTTGTCTCCCTTGAGACAGTTTTTCATAAAACAAAA
* *
6896984 TTTTGTCTCCCTTGAGACTGTTTTTCATGAAACAA
1 TTTTGTCTCCCTTGAGACAGTTTTTCATAAAACAA
6897019 CATATATCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.43
Consensus pattern (37 bp):
TTTTGTCTCCCTTGAGACAGTTTTTCATAAAACAAAA
Found at i:6897956 original size:106 final size:106
Alignment explanation
Indices: 6897637--6897956 Score: 514
Period size: 106 Copynumber: 3.0 Consensus size: 106
6897627 TCGCGCCACC
* * *
6897637 CGAGACGACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* *
6897702 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
* **
6897743 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTTTCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
*
6897808 TTCAGAACCAATTTCAACTTCACAGTGAAGGATATTGGACT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
* * *
6897849 CGAGATAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAGT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* *
6897914 TTCAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
6897955 CG
1 CG
6897957 GAACAGTACA
Statistics
Matches: 196, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
106 196 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (106 bp):
CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
Found at i:6899408 original size:11 final size:11
Alignment explanation
Indices: 6899394--6899450 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 11
6899384 TTTACTTATT
*
6899394 TTATTTATATG
1 TTATATATATG
*
6899405 TTATATATATA
1 TTATATATATG
*
6899416 TATATATATATA
1 T-TATATATATG
*
6899428 TATATATATATA
1 T-TATATATATG
6899440 TATATATATAT
1 T-TATATATAT
6899451 TACGTTATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
11 10 0.23
12 33 0.77
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (11 bp):
TTATATATATG
Found at i:6899413 original size:2 final size:2
Alignment explanation
Indices: 6899406--6899450 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
6899396 ATTTATATGT
6899406 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6899448 TA T
1 TA T
6899451 TACGTTATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6906198 original size:18 final size:19
Alignment explanation
Indices: 6906177--6906223 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
6906167 TTCCCCATAG
*
6906177 CACTAAATATAG-TCCTAT
1 CACTAAATATAGACCCTAT
6906195 CACTATCAATATAGACCCTAT
1 CACTA--AATATAGACCCTAT
6906216 CAC-AAATA
1 CACTAAATA
6906224 AGGAGAGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 9 0.36
20 8 0.32
21 8 0.32
ACGTcount: A:0.43, C:0.26, G:0.04, T:0.28
Consensus pattern (19 bp):
CACTAAATATAGACCCTAT
Found at i:6917202 original size:17 final size:17
Alignment explanation
Indices: 6917180--6917213 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6917170 ATACTGAAAT
*
6917180 ATTATAAGCAATTTTAA
1 ATTATAAACAATTTTAA
*
6917197 ATTATAAATAATTTTAA
1 ATTATAAACAATTTTAA
6917214 TAATTACAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (17 bp):
ATTATAAACAATTTTAA
Found at i:6923878 original size:2 final size:2
Alignment explanation
Indices: 6923873--6923915 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
6923863 TATGTTGTTA
*
6923873 AT AT AT AT AT TT 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
6923915 A
1 A
6923916 GATTCGTTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6924125 original size:40 final size:40
Alignment explanation
Indices: 6924070--6924149 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
6924060 TTGGACTTTG
6924070 CTGCATCCTTAATATTTTAATTGTTCCTGTATCTTATCAT
1 CTGCATCCTTAATATTTTAATTGTTCCTGTATCTTATCAT
*
6924110 CTGCATCTTTAATATTTTAATTGTTCCTGTATCTTATCAT
1 CTGCATCCTTAATATTTTAATTGTTCCTGTATCTTATCAT
6924150 ACACACTCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.23, C:0.19, G:0.07, T:0.51
Consensus pattern (40 bp):
CTGCATCCTTAATATTTTAATTGTTCCTGTATCTTATCAT
Found at i:6926997 original size:2 final size:2
Alignment explanation
Indices: 6926990--6927031 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
6926980 CGATCTTGCC
6926990 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
6927032 TGAACATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6929063 original size:8 final size:7
Alignment explanation
Indices: 6929045--6929084 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
6929035 ATATTTTTTA
*
6929045 AAAAATA
1 AAAAATT
6929052 AAAACATT
1 AAAA-ATT
6929060 AAAAATGT
1 AAAAAT-T
6929068 AAAAATT
1 AAAAATT
6929075 AAAAATT
1 AAAAATT
6929082 AAA
1 AAA
6929085 CGATCTAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 17 0.57
8 13 0.43
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:6929598 original size:31 final size:31
Alignment explanation
Indices: 6929522--6929600 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
6929512 GATAACTATG
*
6929522 TAGTGATCATTTTATTACAAATCGATAATGT
1 TAGTGATCATTTTGTTACAAATCGATAATGT
*
6929553 TAGTGATCATTTTGTTACAAATTGATAATGT
1 TAGTGATCATTTTGTTACAAATCGATAATGT
* *
6929584 TAGTGATTAATTTGTTA
1 TAGTGATCATTTTGTTA
6929601 TTTTTGAAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (31 bp):
TAGTGATCATTTTGTTACAAATCGATAATGT
Found at i:6931521 original size:10 final size:10
Alignment explanation
Indices: 6931506--6931548 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
6931496 CATTTAATAA
6931506 ATAAACGAAC
1 ATAAACGAAC
6931516 ATAAACGAAC
1 ATAAACGAAC
6931526 ----ACGAAC
1 ATAAACGAAC
6931532 ATAAACGAAC
1 ATAAACGAAC
6931542 ATAAACG
1 ATAAACG
6931549 TTGGAGACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
6 6 0.21
10 23 0.79
ACGTcount: A:0.58, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:6931531 original size:16 final size:16
Alignment explanation
Indices: 6931510--6931542 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6931500 TAATAAATAA
6931510 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
6931526 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
6931542 A
1 A
6931543 TAAACGTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:6932650 original size:10 final size:10
Alignment explanation
Indices: 6932635--6932696 Score: 52
Period size: 10 Copynumber: 5.4 Consensus size: 10
6932625 ATAAATGAAT
6932635 GAACATAAAC
1 GAACATAAAC
6932645 GAACATAACCAAAC
1 GAACAT----AAAC
6932659 GAACATAAAC
1 GAACATAAAC
6932669 GAACATAATCGAAC
1 GAACAT-A---AAC
6932683 GAACATAAAC
1 GAACATAAAC
6932693 GAAC
1 GAAC
6932697 GTTCACGAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
10 23 0.52
11 1 0.02
13 1 0.02
14 19 0.43
ACGTcount: A:0.56, C:0.23, G:0.11, T:0.10
Consensus pattern (10 bp):
GAACATAAAC
Found at i:6932662 original size:24 final size:24
Alignment explanation
Indices: 6932635--6932696 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
6932625 ATAAATGAAT
6932635 GAACATAAACGAACATAACCAAAC
1 GAACATAAACGAACATAACCAAAC
* *
6932659 GAACATAAACGAACATAATCGAAC
1 GAACATAAACGAACATAACCAAAC
6932683 GAACATAAACGAAC
1 GAACATAAACGAAC
6932697 GTTCACGAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.56, C:0.23, G:0.11, T:0.10
Consensus pattern (24 bp):
GAACATAAACGAACATAACCAAAC
Found at i:6932695 original size:14 final size:14
Alignment explanation
Indices: 6932642--6932697 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
6932632 AATGAACATA
* *
6932642 AACGAACATAACCA
1 AACGAACATAAACG
6932656 AACGAACAT--A--
1 AACGAACATAAACG
*
6932666 AACGAACATAATCG
1 AACGAACATAAACG
6932680 AACGAACATAAACG
1 AACGAACATAAACG
6932694 AACG
1 AACG
6932698 TTCACGAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 9 0.26
14 26 0.74
ACGTcount: A:0.55, C:0.23, G:0.12, T:0.09
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:6932705 original size:24 final size:25
Alignment explanation
Indices: 6932635--6932722 Score: 94
Period size: 24 Copynumber: 3.6 Consensus size: 25
6932625 ATAAATGAAT
* *
6932635 GAACATAAACGAAC-ATAACCAAAC
1 GAACATAAACGAACGATAATCGAAC
6932659 GAACATAAACGAAC-ATAATCGAAC
1 GAACATAAACGAACGATAATCGAAC
* *
6932683 GAACATAAACGAACGTTCA-CGAAC
1 GAACATAAACGAACGATAATCGAAC
*
6932707 GTAA-ATGAACGAACGA
1 G-AACATAAACGAACGA
6932723 GACCTATGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
24 52 0.93
25 4 0.07
ACGTcount: A:0.52, C:0.22, G:0.15, T:0.11
Consensus pattern (25 bp):
GAACATAAACGAACGATAATCGAAC
Found at i:6936962 original size:37 final size:38
Alignment explanation
Indices: 6936918--6936991 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
6936908 TTTTGTTCAG
* *
6936918 GTCGGGTC-GGGTTTTTTAAGTTTGATATTCGGGTCGA
1 GTCGGGTCTGGGTTTTTTAAATGTGATATTCGGGTCGA
*
6936955 GTCGGGTCTGGTTTTTTTAAATGTGATATTCGGGTCG
1 GTCGGGTCTGGGTTTTTTAAATGTGATATTCGGGTCG
6936992 GGTTTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 8 0.24
38 25 0.76
ACGTcount: A:0.14, C:0.11, G:0.34, T:0.42
Consensus pattern (38 bp):
GTCGGGTCTGGGTTTTTTAAATGTGATATTCGGGTCGA
Found at i:6936988 original size:28 final size:28
Alignment explanation
Indices: 6936956--6937046 Score: 164
Period size: 28 Copynumber: 3.2 Consensus size: 28
6936946 TCGGGTCGAG
* *
6936956 TCGGGTCTGGTTTTTTTAAATGTGATAT
1 TCGGGTCGGGTTTTTTTAAGTGTGATAT
6936984 TCGGGTCGGGTTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTTAAGTGTGATAT
6937012 TCGGGTCGGGTTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTTAAGTGTGATAT
6937040 TCGGGTC
1 TCGGGTC
6937047 AGGTCGGGTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.14, C:0.09, G:0.31, T:0.46
Consensus pattern (28 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATAT
Found at i:6937657 original size:17 final size:18
Alignment explanation
Indices: 6937635--6937681 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
6937625 TATGAAATTT
*
6937635 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
6937652 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
6937670 GATTCCAATTCC
1 GATTCCAATTCC
6937682 ATCATAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:6940443 original size:24 final size:24
Alignment explanation
Indices: 6940416--6940467 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
6940406 CATTCATTTA
*
6940416 CGTTCGTGAACGTTCGATTATGTT
1 CGTTCATGAACGTTCGATTATGTT
* ** *
6940440 CGTTTATGTTCGTTCGGTTATGTT
1 CGTTCATGAACGTTCGATTATGTT
6940464 CGTT
1 CGTT
6940468 TATGTTCGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.15, G:0.25, T:0.48
Consensus pattern (24 bp):
CGTTCATGAACGTTCGATTATGTT
Found at i:6940452 original size:10 final size:10
Alignment explanation
Indices: 6940427--6940477 Score: 57
Period size: 10 Copynumber: 4.7 Consensus size: 10
6940417 GTTCGTGAAC
*
6940427 GTTCGATTAT
1 GTTCGTTTAT
6940437 GTTCGTTTAT
1 GTTCGTTTAT
6940447 GTTCGTTCGGTTAT
1 GTTCG-T---TTAT
6940461 GTTCGTTTAT
1 GTTCGTTTAT
6940471 GTTCGTT
1 GTTCGTT
6940478 CATTTATGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 25 0.69
11 1 0.03
13 1 0.03
14 9 0.25
ACGTcount: A:0.10, C:0.12, G:0.24, T:0.55
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:6940454 original size:14 final size:14
Alignment explanation
Indices: 6940437--6940487 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
6940427 GTTCGATTAT
6940437 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
6940451 GTTCGGTTA---T-
1 GTTCGTTTATGTTC
6940461 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
6940475 GTTCATTTATGTT
1 GTTCGTTTATGTT
6940488 TAACCCAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
10 8 0.27
11 1 0.03
13 1 0.03
14 20 0.67
ACGTcount: A:0.10, C:0.12, G:0.22, T:0.57
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:6940468 original size:24 final size:24
Alignment explanation
Indices: 6940426--6940487 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
6940416 CGTTCGTGAA
6940426 CGTTCGATTATGTTCGTTTATGTT
1 CGTTCGATTATGTTCGTTTATGTT
*
6940450 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGATTATGTTCGTTTATGTT
6940474 CGTTC-ATTTATGTT
1 CGTTCGA-TTATGTT
6940488 TAACCCAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.11, C:0.13, G:0.21, T:0.55
Consensus pattern (24 bp):
CGTTCGATTATGTTCGTTTATGTT
Found at i:6942017 original size:17 final size:18
Alignment explanation
Indices: 6941995--6942032 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
6941985 TATATGGGTT
6941995 TGAAATGGAAATTAG-CA
1 TGAAATGGAAATTAGACA
* *
6942012 TGAAATTGAAGTTAGACA
1 TGAAATGGAAATTAGACA
6942030 TGA
1 TGA
6942033 TGAATGGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.45, C:0.05, G:0.24, T:0.26
Consensus pattern (18 bp):
TGAAATGGAAATTAGACA
Found at i:6944003 original size:3 final size:3
Alignment explanation
Indices: 6943995--6944025 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
6943985 TGGAGCCGAC
*
6943995 GGT GGT GGT GGT GGT GGT GGT GTT GGT GGT G
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT G
6944026 CAGCAATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
GGT
Found at i:6945040 original size:2 final size:2
Alignment explanation
Indices: 6945033--6945057 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6945023 AGAGGTGATA
6945033 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 A
6945058 ATGCCAGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6945509 original size:2 final size:2
Alignment explanation
Indices: 6945500--6945534 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
6945490 AAATAAAAAA
6945500 AT AT -T 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
6945535 TGATGATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6946044 original size:5 final size:5
Alignment explanation
Indices: 6946036--6946084 Score: 53
Period size: 5 Copynumber: 9.2 Consensus size: 5
6946026 TTTTTTTATT
**
6946036 TCGGG TCGGG TCGGG TCGGG TTTCTAAG TCGGG TCGGG TCGGG TCGGG
1 TCGGG TCGGG TCGGG TCGGG --TC-GGG TCGGG TCGGG TCGGG TCGGG
6946084 T
1 T
6946085 GAAACATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
5 32 0.86
6 2 0.05
7 2 0.05
8 1 0.03
ACGTcount: A:0.04, C:0.18, G:0.51, T:0.27
Consensus pattern (5 bp):
TCGGG
Found at i:6947764 original size:23 final size:23
Alignment explanation
Indices: 6947738--6947785 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
6947728 TGTAATAATT
*
6947738 AAATAAAA-ATTTAAAAATATTAA
1 AAATAAAATA-TTAAAAATAATAA
*
6947761 AAATAAATTATTAAAAATAATAA
1 AAATAAAATATTAAAAATAATAA
6947784 AA
1 AA
6947786 TTACTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (23 bp):
AAATAAAATATTAAAAATAATAA
Found at i:6947785 original size:32 final size:33
Alignment explanation
Indices: 6947741--6947870 Score: 101
Period size: 32 Copynumber: 3.9 Consensus size: 33
6947731 AATAATTAAA
*
6947741 TAAAAAT-TTAAAAATATTAAAAA-TAAATTAT
1 TAAAAATAATAAAAATATTAAAAATTAAATTAT
* * *
6947772 TAAAAATAATAAAATTACTAACAA-TAAAGTACTAT
1 TAAAAATAATAAAAATATTAAAAATTAAA-T--TAT
*
6947807 TAAAAATAA-AAAAATTATATAAAAATTAAAAT-T
1 TAAAAATAATAAAAA-TAT-TAAAAATTAAATTAT
* *
6947840 TAACAAATTAT-AAAATATAAAAAATTAAATT
1 TAA-AAATAATAAAAATATTAAAAATTAAATT
6947871 TAAAACCATT
Statistics
Matches: 79, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
31 7 0.09
32 27 0.34
33 8 0.10
34 14 0.18
35 14 0.18
36 5 0.06
37 4 0.05
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.32
Consensus pattern (33 bp):
TAAAAATAATAAAAATATTAAAAATTAAATTAT
Found at i:6947788 original size:18 final size:18
Alignment explanation
Indices: 6947765--6947864 Score: 68
Period size: 17 Copynumber: 5.8 Consensus size: 18
6947755 TATTAAAAAT
6947765 AAATTATTAAAAATAATA
1 AAATTATTAAAAATAATA
* *
6947783 AAATTACTAACAATAA-A
1 AAATTATTAAAAATAATA
** * *
6947800 GTACTATTAAAAATAAAA
1 AAATTATTAAAAATAATA
6947818 AAATTATATAAAAAT--TA
1 AAATTAT-TAAAAATAATA
*
6947835 AAA-T-TTAACAAATTATA
1 AAATTATTAA-AAATAATA
*
6947852 AAA-TATAAAAAAT
1 AAATTATTAAAAAT
6947865 TAAATTTAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
14 3 0.05
15 5 0.08
16 1 0.02
17 26 0.41
18 22 0.34
19 7 0.11
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (18 bp):
AAATTATTAAAAATAATA
Found at i:6947834 original size:26 final size:25
Alignment explanation
Indices: 6947805--6947864 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 25
6947795 ATAAAGTACT
6947805 ATTAAAAATAAAAAAATTATATAAAA
1 ATTAAAAATAAAAAAATTATA-AAAA
* * * *
6947831 ATTAAAATTTAACAAATTATAAAAT
1 ATTAAAAATAAAAAAATTATAAAAA
*
6947856 ATAAAAAAT
1 ATTAAAAAT
6947865 TAAATTTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (25 bp):
ATTAAAAATAAAAAAATTATAAAAA
Found at i:6948237 original size:23 final size:23
Alignment explanation
Indices: 6948206--6948261 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
6948196 AGATCATTGA
6948206 AAATTTTGAATTTTCATTCATTT
1 AAATTTTGAATTTTCATTCATTT
* *
6948229 AATTTTTGAATTTTTATTCATTT
1 AAATTTTGAATTTTCATTCATTT
6948252 AAATTTTGAA
1 AAATTTTGAA
6948262 GAAAATCAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (23 bp):
AAATTTTGAATTTTCATTCATTT
Found at i:6950393 original size:18 final size:19
Alignment explanation
Indices: 6950370--6950405 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6950360 TAAATTTCCA
*
6950370 AAATAATAAAG-TAAAAGT
1 AAATAAAAAAGATAAAAGT
6950388 AAATAAAAAAGATAAAAG
1 AAATAAAAAAGATAAAAG
6950406 GGTTTACTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (19 bp):
AAATAAAAAAGATAAAAGT
Found at i:6953410 original size:2 final size:2
Alignment explanation
Indices: 6953403--6953449 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
6953393 CATCCCTAAT
* * *
6953403 TA TA TA TA CA T- TA TA TA CA TA TA TA CA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6953444 TA TA TA
1 TA TA TA
6953450 CTTGTACTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:6953523 original size:16 final size:16
Alignment explanation
Indices: 6953502--6953533 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6953492 TACTTGGAAC
6953502 AATCAAATTATAATTT
1 AATCAAATTATAATTT
6953518 AATCAAATTATAATTT
1 AATCAAATTATAATTT
6953534 TTTTAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
AATCAAATTATAATTT
Found at i:6953864 original size:2 final size:2
Alignment explanation
Indices: 6953857--6953883 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6953847 TTAGTTTTCA
6953857 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 A
6953884 ATCATATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6954358 original size:75 final size:75
Alignment explanation
Indices: 6954269--6954416 Score: 183
Period size: 76 Copynumber: 2.0 Consensus size: 75
6954259 TAAACTCAAG
6954269 TTTAGGATAATATTTTAAACATTATAT-TTTATATTT-GTATTTTAATTTAAATAAGTTTTAGTA
1 TTTAGGATAATATTTT-AACATTATATCTTT-TATTTAGTATTTTAATTTAAATAAGTTTTAGTA
6954332 TTGTAATTAAGT
64 TTGTAATTAAGT
* * * * * * *
6954344 TTTAGGATATTATTTTTATATTTTATCTTTTCTTTAAGTATTTTAGTTTAAATAGGTTTTAGTAT
1 TTTAGGATAATATTTTAACATTATATCTTTTATTT-AGTATTTTAATTTAAATAAGTTTTAGTAT
*
6954409 TTTAATTA
65 TGTAATTA
6954417 GGATTTATAA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
74 11 0.18
75 18 0.29
76 33 0.53
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (75 bp):
TTTAGGATAATATTTTAACATTATATCTTTTATTTAGTATTTTAATTTAAATAAGTTTTAGTATT
GTAATTAAGT
Found at i:6955084 original size:4 final size:4
Alignment explanation
Indices: 6955075--6955102 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
6955065 AAACTCTTTA
6955075 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
6955103 TAAAAACAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:6955159 original size:28 final size:28
Alignment explanation
Indices: 6955128--6955181 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
6955118 AAAATTCTAA
6955128 TTTTATA-TTTATTATT-ATATTATTTTCC
1 TTTTATATTTTATT-TTAATA-TATTTTCC
*
6955156 TTTTTTATTTTATTTTAATATATTTT
1 TTTTATATTTTATTTTAATATATTTT
6955182 TTCAACTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (28 bp):
TTTTATATTTTATTTTAATATATTTTCC
Found at i:6956327 original size:29 final size:29
Alignment explanation
Indices: 6956294--6956527 Score: 126
Period size: 28 Copynumber: 8.3 Consensus size: 29
6956284 TGGTATTTTT
*
6956294 GTAAATATTGTTAAAAAAATGTTAGTTTC
1 GTAAATATTGTTAAAAAAATGATAGTTTC
* *
6956323 GTAAATATTGTTAAGAAGATGATAGTTTC
1 GTAAATATTGTTAAAAAAATGATAGTTTC
** * * *
6956352 GTAAATATT-TCGAAAAAGTGATATTTTG
1 GTAAATATTGTTAAAAAAATGATAGTTTC
* * * *
6956380 GTAATTATT-TCGAAAAAAATGATATTTTG
1 GTAAATATTGT-TAAAAAAATGATAGTTTC
* * *
6956409 GT-AAT-TTTTTCGAAAAAATGATA-TTTG
1 GTAAATATTGTT-AAAAAAATGATAGTTTC
* * * *
6956436 GTAATTATT-TAAAAAAAATGATATTTTG
1 GTAAATATTGTTAAAAAAATGATAGTTTC
* * ** *
6956464 GTAATTATT-TCAAAAAAGCGATA-TTTG
1 GTAAATATTGTTAAAAAAATGATAGTTTC
* * * *
6956491 GTAATTATT-TCAAAAAAATGATATTTTG
1 GTAAATATTGTTAAAAAAATGATAGTTTC
*
6956519 GTAATTATT
1 GTAAATATT
6956528 TCGAAAGTGA
Statistics
Matches: 173, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
27 44 0.25
28 75 0.43
29 54 0.31
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (29 bp):
GTAAATATTGTTAAAAAAATGATAGTTTC
Found at i:6956469 original size:55 final size:56
Alignment explanation
Indices: 6956341--6956650 Score: 425
Period size: 55 Copynumber: 5.6 Consensus size: 56
6956331 TGTTAAGAAG
* * * *
6956341 ATGATAGTTTCGTAAATATTTCGAAAAAGTGATATTTTGGTAATTATTTCGAAAAAA
1 ATGATATTTTGGTAATTATTTCGAAAAAATGATATTTTGGTAATTATTTC-AAAAAA
* *
6956398 ATGATATTTTGGTAATTTTTTCGAAAAAATGATA-TTTGGTAATTATTTAAAAAAA
1 ATGATATTTTGGTAATTATTTCGAAAAAATGATATTTTGGTAATTATTTCAAAAAA
*
6956453 ATGATATTTTGGTAATTATTTC-AAAAAAGCGATA-TTTGGTAATTATTTCAAAAAA
1 ATGATATTTTGGTAATTATTTCGAAAAAA-TGATATTTTGGTAATTATTTCAAAAAA
*
6956508 ATGATATTTTGGTAATTATTTCG--AAAGTGATATTTTGGTAATTATTTCAAAAAA
1 ATGATATTTTGGTAATTATTTCGAAAAAATGATATTTTGGTAATTATTTCAAAAAA
*
6956562 GTGATATTTTGGTAATTATTTCGAAAAAATTGATATTTTGGTAATTATTTCGAAAAAA
1 ATGATATTTTGGTAATTATTTCGAAAAAA-TGATATTTTGGTAATTATTTC-AAAAAA
* **
6956620 GTGATATATTT-GTAATTATTTAAAAAAAATG
1 ATGATAT-TTTGGTAATTATTTCGAAAAAATG
6956651 TGTTATTTTC
Statistics
Matches: 230, Mismatches: 15, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
53 4 0.02
54 52 0.23
55 73 0.32
56 17 0.07
57 52 0.23
58 29 0.13
59 3 0.01
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (56 bp):
ATGATATTTTGGTAATTATTTCGAAAAAATGATATTTTGGTAATTATTTCAAAAAA
Found at i:6956598 original size:29 final size:29
Alignment explanation
Indices: 6956342--6956665 Score: 420
Period size: 29 Copynumber: 11.5 Consensus size: 29
6956332 GTTAAGAAGA
* * *
6956342 TGATAGTTTCGTAAATATTTCG-AAAAAG
1 TGATATTTTGGTAATTATTTCGAAAAAAG
*
6956370 TGATATTTTGGTAATTATTTCGAAAAAAA
1 TGATATTTTGGTAATTATTTCGAAAAAAG
*
6956399 TGATATTTTGGTAATTTTTTCGAAAAAA-
1 TGATATTTTGGTAATTATTTCGAAAAAAG
* *
6956427 TGATA-TTTGGTAATTATTT-AAAAAAAA
1 TGATATTTTGGTAATTATTTCGAAAAAAG
6956454 TGATATTTTGGTAATTATTTC-AAAAAAG
1 TGATATTTTGGTAATTATTTCGAAAAAAG
* *
6956482 CGATA-TTTGGTAATTATTTC-AAAAAAA
1 TGATATTTTGGTAATTATTTCGAAAAAAG
6956509 TGATATTTTGGTAATTATTTCG---AAAG
1 TGATATTTTGGTAATTATTTCGAAAAAAG
6956535 TGATATTTTGGTAATTATTTC-AAAAAAG
1 TGATATTTTGGTAATTATTTCGAAAAAAG
*
6956563 TGATATTTTGGTAATTATTTCGAAAAAAT
1 TGATATTTTGGTAATTATTTCGAAAAAAG
6956592 TGATATTTTGGTAATTATTTCGAAAAAAG
1 TGATATTTTGGTAATTATTTCGAAAAAAG
**
6956621 TGATATATTT-GTAATTATTTAAAAAAAATG
1 TGATAT-TTTGGTAATTATTTCGAAAAAA-G
* *
6956651 TGTTATTTTCGTAAT
1 TGATATTTTGGTAAT
6956666 AGTTGATTGT
Statistics
Matches: 266, Mismatches: 17, Indels: 24
0.87 0.06 0.08
Matches are distributed among these distances:
26 30 0.11
27 43 0.16
28 88 0.33
29 91 0.34
30 14 0.05
ACGTcount: A:0.39, C:0.04, G:0.14, T:0.43
Consensus pattern (29 bp):
TGATATTTTGGTAATTATTTCGAAAAAAG
Found at i:6956645 original size:28 final size:29
Alignment explanation
Indices: 6956342--6956665 Score: 395
Period size: 28 Copynumber: 11.5 Consensus size: 29
6956332 GTTAAGAAGA
* * * *
6956342 TGATAGTTTCGTAAATATTTC-GAAAAAG
1 TGATATTTTGGTAATTATTTCAAAAAAAG
6956370 TGATATTTTGGTAATTATTTCGAAAAAAA-
1 TGATATTTTGGTAATTATTTC-AAAAAAAG
* *
6956399 TGATATTTTGGTAATTTTTTCGAAAAAA-
1 TGATATTTTGGTAATTATTTCAAAAAAAG
*
6956427 TGATA-TTTGGTAATTATTT-AAAAAAAA
1 TGATATTTTGGTAATTATTTCAAAAAAAG
6956454 TGATATTTTGGTAATTATTTC-AAAAAAG
1 TGATATTTTGGTAATTATTTCAAAAAAAG
*
6956482 CGATA-TTTGGTAATTATTTCAAAAAAA-
1 TGATATTTTGGTAATTATTTCAAAAAAAG
*
6956509 TGATATTTTGGTAATTATTTC---GAAAG
1 TGATATTTTGGTAATTATTTCAAAAAAAG
6956535 TGATATTTTGGTAATTATTTC-AAAAAAG
1 TGATATTTTGGTAATTATTTCAAAAAAAG
* *
6956563 TGATATTTTGGTAATTATTTCGAAAAAAT
1 TGATATTTTGGTAATTATTTCAAAAAAAG
*
6956592 TGATATTTTGGTAATTATTTCGAAAAAAG
1 TGATATTTTGGTAATTATTTCAAAAAAAG
*
6956621 TGATATATTT-GTAATTATTTAAAAAAAATG
1 TGATAT-TTTGGTAATTATTTCAAAAAAA-G
* *
6956651 TGTTATTTTCGTAAT
1 TGATATTTTGGTAAT
6956666 AGTTGATTGT
Statistics
Matches: 264, Mismatches: 18, Indels: 26
0.86 0.06 0.08
Matches are distributed among these distances:
25 3 0.01
26 27 0.10
27 37 0.14
28 99 0.38
29 79 0.30
30 19 0.07
ACGTcount: A:0.39, C:0.04, G:0.14, T:0.43
Consensus pattern (29 bp):
TGATATTTTGGTAATTATTTCAAAAAAAG
Found at i:6960789 original size:28 final size:29
Alignment explanation
Indices: 6960757--6960822 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
6960747 TGGTATTTTT
6960757 GTAAATATTGTTAA-AAAATGTTAGTTTC
1 GTAAATATTGTTAATAAAATGTTAGTTTC
* **
6960785 GTAAATACTGTTAATAAGGTGTTAGTTTC
1 GTAAATATTGTTAATAAAATGTTAGTTTC
6960814 GTAAATATT
1 GTAAATATT
6960823 TCGAAAAAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
28 13 0.39
29 20 0.61
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (29 bp):
GTAAATATTGTTAATAAAATGTTAGTTTC
Found at i:6960892 original size:27 final size:28
Alignment explanation
Indices: 6960814--6961071 Score: 351
Period size: 28 Copynumber: 9.2 Consensus size: 28
6960804 TGTTAGTTTC
* *
6960814 GTAAATATTTCGAAAAAGTGATATTTTG
1 GTAATTATTTCAAAAAAGTGATATTTTG
*
6960842 GTAATTATTTCGAAAAAAATGATA-TTTG
1 GTAATTATTTC-AAAAAAGTGATATTTTG
*
6960870 GTAATTATTTCAAAAAAATGATATTTTG
1 GTAATTATTTCAAAAAAGTGATATTTTG
6960898 GTAATTATTTCAAAAAAGTGATATTTTG
1 GTAATTATTTCAAAAAAGTGATATTTTG
* *
6960926 GTAATTATTTTGAAAAAAATGATATTTTG
1 GTAATTA-TTTCAAAAAAGTGATATTTTG
6960955 GTAATTATTTC-AAAAAGTGATATTTTG
1 GTAATTATTTCAAAAAAGTGATATTTTG
6960982 GTAATTATTTC-AAAAAGTGATATTTTG
1 GTAATTATTTCAAAAAAGTGATATTTTG
* * *
6961009 GTAATTATTTCGAAAAGGTGATATTTTT
1 GTAATTATTTCAAAAAAGTGATATTTTG
* * *
6961037 GTAATTATTTTAAAAAAAGGTGTTATTTTC
1 GTAATTA-TTTCAAAAAA-GTGATATTTTG
6961067 GTAAT
1 GTAAT
6961072 AGTTGACTGT
Statistics
Matches: 209, Mismatches: 15, Indels: 10
0.89 0.06 0.04
Matches are distributed among these distances:
27 65 0.31
28 87 0.42
29 43 0.21
30 14 0.07
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (28 bp):
GTAATTATTTCAAAAAAGTGATATTTTG
Found at i:6970163 original size:56 final size:56
Alignment explanation
Indices: 6970073--6970185 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 56
6970063 AATCCTTGTA
6970073 TATAAATAACATGGAGAAAAATATTTGTGACGGAAAGAGTCCATAAAATAATTTCTC
1 TATAAATAACATGGAGAAAAATA-TTGTGACGGAAAGAGTCCATAAAATAATTTCTC
*
6970130 TATACAATAACATGGAGAAAAATA-TGTGACGGAAAGAGTTCATAAAATAATTTCTC
1 TATA-AATAACATGGAGAAAAATATTGTGACGGAAAGAGTCCATAAAATAATTTCTC
6970186 ACCAGGCAAG
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
56 31 0.57
57 4 0.07
58 19 0.35
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (56 bp):
TATAAATAACATGGAGAAAAATATTGTGACGGAAAGAGTCCATAAAATAATTTCTC
Found at i:6971275 original size:42 final size:42
Alignment explanation
Indices: 6971228--6971312 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
6971218 AGGCTACAAA
6971228 TGACTACAAGTGATACCATCAAATGTTTGATAAAAGGAAACT
1 TGACTACAAGTGATACCATCAAATGTTTGATAAAAGGAAACT
*
6971270 TGACTACAAGTGATACCATCAAATGTTTGATAAAGGGAAACT
1 TGACTACAAGTGATACCATCAAATGTTTGATAAAAGGAAACT
6971312 T
1 T
6971313 ACTTTTGCAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (42 bp):
TGACTACAAGTGATACCATCAAATGTTTGATAAAAGGAAACT
Found at i:6973328 original size:2 final size:2
Alignment explanation
Indices: 6973321--6973418 Score: 58
Period size: 2 Copynumber: 48.5 Consensus size: 2
6973311 ATAGTATGAA
* * *
6973321 AT AT AT AT AT AT AT AT A- AGT AT AT AC AT AA AT AT AA AGT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT
* * * * *
6973364 AT AT AA AT GT AT A- AGT AT AT AC AT AT GT AT AA AGT AT AT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT
*
6973407 AT AC AT -T AT AT A
1 AT AT AT AT AT AT A
6973419 CATACATACA
Statistics
Matches: 71, Mismatches: 18, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
1 3 0.04
2 64 0.90
3 4 0.06
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (2 bp):
AT
Found at i:6973377 original size:39 final size:39
Alignment explanation
Indices: 6973321--6973407 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
6973311 ATAGTATGAA
*
6973321 ATATATATATATATATAAGTATATACATAAATATAAAGT
1 ATATATATAAATATATAAGTATATACATAAATATAAAGT
* **
6973360 ATATATATAAATGTATAAGTATATACATATGTATAAAGT
1 ATATATATAAATATATAAGTATATACATAAATATAAAGT
6973399 ATATATATA
1 ATATATATA
6973408 TACATTATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (39 bp):
ATATATATAAATATATAAGTATATACATAAATATAAAGT
Found at i:6974076 original size:16 final size:16
Alignment explanation
Indices: 6974055--6974085 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6974045 ATTACAAGTG
6974055 AGGTTCATAACATGTC
1 AGGTTCATAACATGTC
6974071 AGGTTCATAACATGT
1 AGGTTCATAACATGT
6974086 ATGATAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (16 bp):
AGGTTCATAACATGTC
Found at i:6987711 original size:51 final size:51
Alignment explanation
Indices: 6987651--6987763 Score: 210
Period size: 51 Copynumber: 2.2 Consensus size: 51
6987641 AATCAAAAAA
6987651 TAATGTTATAAAGATTTTAAAAAATAATAGTTGATTGGCCGAAATAGAAAC
1 TAATGTTATAAAGATTTTAAAAAATAATAGTTGATTGGCCGAAATAGAAAC
6987702 TAATGTTATAAAGATTTTAAAAAATAATAGTTGATTGGCCGAAATAGAAAC
1 TAATGTTATAAAGATTTTAAAAAATAATAGTTGATTGGCCGAAATAGAAAC
*
6987753 T-ATGTAATAAA
1 TAATGTTATAAA
6987764 TGGGTGGCCA
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
50 9 0.15
51 52 0.85
ACGTcount: A:0.48, C:0.05, G:0.15, T:0.32
Consensus pattern (51 bp):
TAATGTTATAAAGATTTTAAAAAATAATAGTTGATTGGCCGAAATAGAAAC
Found at i:6993773 original size:17 final size:17
Alignment explanation
Indices: 6993751--6993795 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
6993741 CGAATTTCTT
6993751 AAAATTTAAAAATA-AA
1 AAAATTTAAAAATATAA
**
6993767 AATAATTTATCAATATAA
1 AA-AATTTAAAAATATAA
6993785 AAAATTTAAAA
1 AAAATTTAAAA
6993796 TCTAAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.09
17 17 0.74
18 4 0.17
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTTAAAAATATAA
Found at i:6994100 original size:6 final size:6
Alignment explanation
Indices: 6994089--6994115 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6994079 ATTTGGTCTG
6994089 AAATTA AAATTA AAATTA AAATTA AAA
1 AAATTA AAATTA AAATTA AAATTA AAA
6994116 GGACTAGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTA
Found at i:6996159 original size:18 final size:16
Alignment explanation
Indices: 6996123--6996162 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
6996113 TTGGATTTGA
*
6996123 AATATTATATATAATT
1 AATATTATATATAAAT
6996139 AATATTATGATAATAAAT
1 AATATTAT-AT-ATAAAT
6996157 AATATT
1 AATATT
6996163 TTTTAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 2 0.10
18 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
AATATTATATATAAAT
Found at i:6997811 original size:23 final size:23
Alignment explanation
Indices: 6997749--6997812 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 23
6997739 TCCTTAAGAC
* ***
6997749 CATTTCTCTTAAAATATAATTTT
1 CATTTCTCTTAAAACATAAAACT
* * * *
6997772 TATTTCCCTTGAGACATAAAACT
1 CATTTCTCTTAAAACATAAAACT
6997795 CATTTCTCTTAAAACATA
1 CATTTCTCTTAAAACATA
6997813 TGCCCTGTTT
Statistics
Matches: 29, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (23 bp):
CATTTCTCTTAAAACATAAAACT
Found at i:7006232 original size:48 final size:48
Alignment explanation
Indices: 7006161--7006257 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
7006151 GATCATTACC
7006161 GCACTCCATTGGATCAGATATGCAGAAGGTATGAATTGAAACTTGGGA
1 GCACTCCATTGGATCAGATATGCAGAAGGTATGAATTGAAACTTGGGA
*
7006209 GCACTCCATTGGATCAGATATGCAGAAGTTATGAATTGAAACTTGGGA
1 GCACTCCATTGGATCAGATATGCAGAAGGTATGAATTGAAACTTGGGA
7006257 G
1 G
7006258 AATCGTATTG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (48 bp):
GCACTCCATTGGATCAGATATGCAGAAGGTATGAATTGAAACTTGGGA
Found at i:7008801 original size:68 final size:68
Alignment explanation
Indices: 7008722--7008852 Score: 253
Period size: 68 Copynumber: 1.9 Consensus size: 68
7008712 ATTGATAATT
7008722 TATTTTTATCCTTCAAATTTTTATAAGTTTTTATCCCTTAAATTTTCTTTAAATTAATTTGGACA
1 TATTTTTATCCTTCAAATTTTTATAAGTTTTTATCCCTTAAATTTTCTTTAAATTAATTTGGACA
7008787 ATA
66 ATA
*
7008790 TATTTTTATCCTTCAAATTTTTATAAGTTTTTATCTCTTAAATTTTCTTTAAATTAATTTGGA
1 TATTTTTATCCTTCAAATTTTTATAAGTTTTTATCCCTTAAATTTTCTTTAAATTAATTTGGA
7008853 GTGATTAAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.55
Consensus pattern (68 bp):
TATTTTTATCCTTCAAATTTTTATAAGTTTTTATCCCTTAAATTTTCTTTAAATTAATTTGGACA
ATA
Found at i:7014660 original size:28 final size:27
Alignment explanation
Indices: 7014599--7014660 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
7014589 TCTTAAAATG
* * *
7014599 TTATAATAATATATATTTATAATATCAA
1 TTATAA-AATATATAGTTATAACATAAA
7014627 -T-TAAAATATATCAGTTATAACATAAA
1 TTATAAAATATAT-AGTTATAACATAAA
7014653 TTATAAAA
1 TTATAAAA
7014661 AAATACGAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 7 0.25
26 14 0.50
27 2 0.07
28 5 0.18
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (27 bp):
TTATAAAATATATAGTTATAACATAAA
Found at i:7019098 original size:56 final size:55
Alignment explanation
Indices: 7019038--7019143 Score: 158
Period size: 56 Copynumber: 1.9 Consensus size: 55
7019028 TGATATCCTC
** *
7019038 TATCATTATAATTTAGATTTTGAAAATAAAATTTTCTTTTACTACTGAGATTATTT
1 TATCATTATAATCCAGATTTTAAAAATAAAATTTT-TTTTACTACTGAGATTATTT
* *
7019094 TATCATTATAATCCAGATTTTAAAAATAACATTTTTTTTACTATTGAGAT
1 TATCATTATAATCCAGATTTTAAAAATAAAATTTTTTTTACTACTGAGAT
7019144 CGCTCAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
55 14 0.31
56 31 0.69
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.48
Consensus pattern (55 bp):
TATCATTATAATCCAGATTTTAAAAATAAAATTTTTTTTACTACTGAGATTATTT
Found at i:7026061 original size:32 final size:31
Alignment explanation
Indices: 7025988--7026064 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
7025978 CTAATGTGAC
* * *
7025988 TCTTAGGTAGGCTCTGTGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
** **
7026019 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-CAT
7026051 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
7026065 CACGGCCCCG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
Found at i:7028049 original size:3 final size:3
Alignment explanation
Indices: 7028041--7028084 Score: 54
Period size: 3 Copynumber: 14.0 Consensus size: 3
7028031 ATTAATTAAG
7028041 CTT CTT CTT CTT -TT CTTT CTTT CTTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT C-TT C-TT C-TT CTT CTT CTT CTT CTT CTT
7028085 TTTTTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 26 0.67
4 11 0.28
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
CTT
Found at i:7028072 original size:23 final size:23
Alignment explanation
Indices: 7028042--7028085 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
7028032 TTAATTAAGC
7028042 TTCTTCTTCTT-TTCTTTCTTTCT
1 TTCTTCTTCTTCTTC-TTCTTTCT
7028065 TTCTTCTTCTTCTTCTTCTTT
1 TTCTTCTTCTTCTTCTTCTTT
7028086 TTTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (23 bp):
TTCTTCTTCTTCTTCTTCTTTCT
Found at i:7029726 original size:21 final size:21
Alignment explanation
Indices: 7029701--7029749 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
7029691 TTAACAGAAC
* * *
7029701 TAATGATGTGGTATTTTCTAA
1 TAATGACGTGATATTATCTAA
*
7029722 TAATGACGTGATATTATCTTA
1 TAATGACGTGATATTATCTAA
7029743 TAATGAC
1 TAATGAC
7029750 ATATCAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (21 bp):
TAATGACGTGATATTATCTAA
Found at i:7043540 original size:39 final size:39
Alignment explanation
Indices: 7043465--7043541 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
7043455 ACTTAATGAT
* * *
7043465 ATTTAATTCCTCAACTTTATATTTTTGTTACGTTTAATG
1 ATTTAATTCCTCAACTTTATATTTTGGGTACATTTAATG
*
7043504 ATTTAATTCCTTAACTTTATATTTTGGGTACATTTAAT
1 ATTTAATTCCTCAACTTTATATTTTGGGTACATTTAAT
7043542 TCCTTAACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (39 bp):
ATTTAATTCCTCAACTTTATATTTTGGGTACATTTAATG
Found at i:7055125 original size:30 final size:34
Alignment explanation
Indices: 7055061--7055134 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 34
7055051 GCATCTCACA
*
7055061 ATTTAAATTTTCTCAAGTTTATAATAATAAATTC
1 ATTTAAATTTTCTCAAGTTTATAATAACAAATTC
*
7055095 A-TTAAATTTTCTTAAG-TT-T-ATAACAAATTC
1 ATTTAAATTTTCTCAAGTTTATAATAACAAATTC
7055125 ATTTAAATTT
1 ATTTAAATTT
7055135 ATAATTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
30 11 0.30
31 9 0.24
32 2 0.05
33 14 0.38
34 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (34 bp):
ATTTAAATTTTCTCAAGTTTATAATAACAAATTC
Found at i:7057812 original size:29 final size:29
Alignment explanation
Indices: 7057758--7057814 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
7057748 ACTGAAAATC
* *
7057758 AATTATACAATCAAACTCTTATCAAAAAA
1 AATTATACAATCAAACTCTCAACAAAAAA
7057787 AATTATACAATCAAACATC-CAACAAAAA
1 AATTATACAATCAAAC-TCTCAACAAAAA
7057815 TAAAGATAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (29 bp):
AATTATACAATCAAACTCTCAACAAAAAA
Found at i:7060314 original size:325 final size:322
Alignment explanation
Indices: 7059727--7060376 Score: 1147
Period size: 325 Copynumber: 2.0 Consensus size: 322
7059717 AACTCACCAG
7059727 AAAGATCTAACCAATATTGAGGTAAAGAACAGAAGCAATGTACACAATAAAGATAGAAACTGAAG
1 AAAGATCTAACCAATATTGAGGTAAAGAACAGAAGCAATGTACACAATAAAGATAGAAACTGAAG
7059792 CAGTTTGTACCTGACACAATGCTCAAAAGACTGTCTATATAACTGTATAGTTAAAAAAAATTGTC
66 CAGTTTGTACCTGACACAATGCTCAAAAGACTGTCTATATAACTGTATAGTTAAAAAAAATTGTC
*
7059857 CCTTTTTCCTCTTACTAAGGATACGTCGGTGTGGTCCTAATTAAAGCATATTAAAGATAATATAA
131 CCTTTTTCCTCTTACTAAGGATACGTCGGTGTGGTCCTAATTAAAGCATATTAAAGATAACATAA
7059922 TTCATACCGCTAACCTCGTATGGTGTGAACTGTGAAAGGGTTTAGGTTTATTCTCACTGTTCCAC
196 TTCATACCGCTAACCTCGTATGGTGTGAACTGTGAAAGGGTTTAGGTTTATTCTCACTGTTCCAC
* *
7059987 AAGAACACTGAGATTCCGATAAAAGATCATTATTCTTTACCCAAATAGCTTTAAACAGCTTT
261 AAGAACACTGAGATTCCGATAAAAGATCATTATTCTTTACCCAAACAGCTTCAAACAGCTTT
* * *
7060049 AAAGATCTAACCAATGTTGAGGTAAAGAACAGAAGCAATGTACACAATAAGGATGGAAACTGAAG
1 AAAGATCTAACCAATATTGAGGTAAAGAACAGAAGCAATGTACACAATAAAGATAGAAACTGAAG
* ***
7060114 CAGTTTGTACCTGACACAATGCTCAAAAGACTGTCTATATAACTGTATAGTTAATCAATTTTTGT
66 CAGTTTGTACCTGACACAATGCTCAAAAGACTGTCTATATAACTGTATAGTTAA-AAAAAATTGT
7060179 CTCCTTTTTTCCTCTTACTAAGGATACGTCGGTGTGGTCCTAATTAAAGCATATTAAAGATAACA
130 C-CC-TTTTTCCTCTTACTAAGGATACGTCGGTGTGGTCCTAATTAAAGCATATTAAAGATAACA
*
7060244 TAATTCATACTGCTAACCTCGTATGGTGTGAACTGTGAAAGGGTTTAGGTTTATTCTCACTGTTC
193 TAATTCATACCGCTAACCTCGTATGGTGTGAACTGTGAAAGGGTTTAGGTTTATTCTCACTGTTC
* * *
7060309 CACAAGAACACTGAGATTCCGGTAAAAGATCATTATTCTTTACCCAAACAGCTTCAAAGAGTTTT
258 CACAAGAACACTGAGATTCCGATAAAAGATCATTATTCTTTACCCAAACAGCTTCAAACAGCTTT
7060374 AAA
1 AAA
7060377 AAAATAGCAG
Statistics
Matches: 311, Mismatches: 14, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
322 116 0.37
323 7 0.02
324 2 0.01
325 186 0.60
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (322 bp):
AAAGATCTAACCAATATTGAGGTAAAGAACAGAAGCAATGTACACAATAAAGATAGAAACTGAAG
CAGTTTGTACCTGACACAATGCTCAAAAGACTGTCTATATAACTGTATAGTTAAAAAAAATTGTC
CCTTTTTCCTCTTACTAAGGATACGTCGGTGTGGTCCTAATTAAAGCATATTAAAGATAACATAA
TTCATACCGCTAACCTCGTATGGTGTGAACTGTGAAAGGGTTTAGGTTTATTCTCACTGTTCCAC
AAGAACACTGAGATTCCGATAAAAGATCATTATTCTTTACCCAAACAGCTTCAAACAGCTTT
Found at i:7062901 original size:2 final size:2
Alignment explanation
Indices: 7062896--7062952 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
7062886 AAAAAATGTT
7062896 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7062938 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
7062953 TGAATTGTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7066238 original size:22 final size:22
Alignment explanation
Indices: 7066213--7066307 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
7066203 AAAGTTAACT
7066213 TTTAATTTAAAATATTATATTG
1 TTTAATTTAAAATATTATATTG
*
7066235 TTTAATTTAAAAAATTATA---
1 TTTAATTTAAAATATTATATTG
* * *
7066254 -TAAATTTATAATATT-T-TTAA
1 TTTAATTTAAAATATTATATT-G
*
7066274 TTTAATTTAAAATATTATTTTG
1 TTTAATTTAAAATATTATATTG
*
7066296 TCTAATTTAAAA
1 TTTAATTTAAAA
7066308 AAATGATATT
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
17 1 0.02
18 12 0.21
21 13 0.22
22 30 0.52
23 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTAATTTAAAATATTATATTG
Found at i:7071185 original size:5 final size:5
Alignment explanation
Indices: 7071175--7071199 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7071165 TTAACTTTGC
7071175 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
7071200 TAGATCACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:7075495 original size:11 final size:12
Alignment explanation
Indices: 7075481--7075509 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7075471 GTTAATTTTT
7075481 TTTATTG-TTCA
1 TTTATTGTTTCA
7075492 TTTATTGTTTCA
1 TTTATTGTTTCA
7075504 TTTATT
1 TTTATT
7075510 ATTACTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.69
Consensus pattern (12 bp):
TTTATTGTTTCA
Found at i:7076118 original size:13 final size:13
Alignment explanation
Indices: 7076100--7076126 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7076090 CACAAACCTT
7076100 TCGTCGTGAATCG
1 TCGTCGTGAATCG
7076113 TCGTCGTGAATCG
1 TCGTCGTGAATCG
7076126 T
1 T
7076127 TAATTTCAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.22, G:0.30, T:0.33
Consensus pattern (13 bp):
TCGTCGTGAATCG
Found at i:7079233 original size:32 final size:31
Alignment explanation
Indices: 7079159--7079235 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
7079149 CTAATGTGAC
** * *
7079159 TCTTAGGTAGGCTTTGCGGCCTTGAGATTAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
** *
7079190 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-TAT
7079222 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
7079236 CGTGACCCCA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 22 0.61
32 14 0.39
ACGTcount: A:0.14, C:0.23, G:0.31, T:0.31
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
Found at i:7080834 original size:2 final size:2
Alignment explanation
Indices: 7080813--7080870 Score: 89
Period size: 2 Copynumber: 29.0 Consensus size: 2
7080803 AAGATAATTG
* * *
7080813 AT AT AC AT AC AT AC 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
7080855 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
7080871 GGAGTAACAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:7081263 original size:31 final size:31
Alignment explanation
Indices: 7081201--7081269 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
7081191 GTTTATTTTG
* * **
7081201 ATTTTACGCCTCATTTTCTATGATTTTTTAT
1 ATTTTACCCCTCATTTTCTATAATTAATTAT
7081232 ATTTTACCCCTCATTTTCTATAATTAATTAT
1 ATTTTACCCCTCATTTTCTATAATTAATTAT
*
7081263 ACTTTAC
1 ATTTTAC
7081270 TCATCTCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.54
Consensus pattern (31 bp):
ATTTTACCCCTCATTTTCTATAATTAATTAT
Found at i:7084029 original size:26 final size:26
Alignment explanation
Indices: 7083993--7084051 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
7083983 CCAAAATAGT
7083993 CACTTTATTCCTCATTCATTTTTAAA
1 CACTTTATTCCTCATTCATTTTTAAA
7084019 CACTTTATTCCTCATTCATTTTTAAA
1 CACTTTATTCCTCATTCATTTTTAAA
7084045 CACTTTA
1 CACTTTA
7084052 GCTCCAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.27, C:0.24, G:0.00, T:0.49
Consensus pattern (26 bp):
CACTTTATTCCTCATTCATTTTTAAA
Found at i:7084064 original size:25 final size:26
Alignment explanation
Indices: 7083993--7084064 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
7083983 CCAAAATAGT
* * *
7083993 CACTTTATTCCTCATTCATTTTTAAA
1 CACTTTACTCCTAAATCATTTTTAAA
* * *
7084019 CACTTTATTCCTCATTCATTTTTAAA
1 CACTTTACTCCTAAATCATTTTTAAA
7084045 CACTTTAGCTCC-AAAT-ATTT
1 CACTTTA-CTCCTAAATCATTT
7084065 CATTTTGAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 4 0.10
26 35 0.83
27 3 0.07
ACGTcount: A:0.28, C:0.24, G:0.01, T:0.47
Consensus pattern (26 bp):
CACTTTACTCCTAAATCATTTTTAAA
Found at i:7084432 original size:14 final size:14
Alignment explanation
Indices: 7084413--7084487 Score: 53
Period size: 14 Copynumber: 5.1 Consensus size: 14
7084403 AAATTAAAAA
* *
7084413 ATATTAGTATTTTT
1 ATATTAATATATTT
7084427 ATATTAATATATTT
1 ATATTAATATATTT
*
7084441 ATAACATAATATATTT
1 AT-A-TTAATATATTT
* * *
7084457 GT-TAAATGTATTTTT
1 ATATTAA--TATATTT
7084472 ATATTAATATATTT
1 ATATTAATATATTT
7084486 AT
1 AT
7084488 GATGTAAATA
Statistics
Matches: 46, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
13 2 0.04
14 22 0.48
15 8 0.17
16 14 0.30
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (14 bp):
ATATTAATATATTT
Found at i:7085499 original size:24 final size:24
Alignment explanation
Indices: 7085482--7085530 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
7085472 ACATGTCATT
* *
7085482 TCATCACTTTGGACACATGATATG
1 TCATCAATTTAGACACATGATATG
7085506 TCATCAATTTAGACACATGATATG
1 TCATCAATTTAGACACATGATATG
7085530 T
1 T
7085531 GATACATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (24 bp):
TCATCAATTTAGACACATGATATG
Found at i:7085572 original size:31 final size:32
Alignment explanation
Indices: 7085503--7085573 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 32
7085493 GACACATGAT
* * *
7085503 ATGTCATCAATTTAGACACATGATATGTGATAC
1 ATGTCATCAATTTAGACACATAACATAT-ATAC
*
7085536 A--TCATCATTTTAGACACATAACATAT-TAC
1 ATGTCATCAATTTAGACACATAACATATATAC
7085565 ATGTCATCA
1 ATGTCATCA
7085574 CATTGAATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
29 4 0.12
31 27 0.84
33 1 0.03
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (32 bp):
ATGTCATCAATTTAGACACATAACATATATAC
Found at i:7086001 original size:2 final size:2
Alignment explanation
Indices: 7085994--7086076 Score: 157
Period size: 2 Copynumber: 41.0 Consensus size: 2
7085984 TTACATCAAA
7085994 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
7086036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
7086077 TCAAATCATT
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 78 0.98
3 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7087377 original size:66 final size:67
Alignment explanation
Indices: 7087296--7087446 Score: 214
Period size: 66 Copynumber: 2.3 Consensus size: 67
7087286 TACCCATTCA
* * *
7087296 AGGGGAACCGATACCCCTTCAACGAACATGATTTCCAGAATGATAGAGGGGAATCGATACCCCCA
1 AGGGGAACCGATACCCCCTCAACGAACATGAATTCCAGAAGGATAGAGGGGAATCGATACCCCCA
7087361 GG
66 GG
* * * * *
7087363 -GGGGAATCGATACCCCCTCAACGCATATGAATTCCAGAAGGCTAGTGGGGAATCGATACCCCCA
1 AGGGGAACCGATACCCCCTCAACGAACATGAATTCCAGAAGGATAGAGGGGAATCGATACCCCCA
7087427 GG
66 GG
*
7087429 AGGGGAACCGATTCCCCC
1 AGGGGAACCGATACCCCC
7087447 ATGAGAAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
66 58 0.79
67 15 0.21
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (67 bp):
AGGGGAACCGATACCCCCTCAACGAACATGAATTCCAGAAGGATAGAGGGGAATCGATACCCCCA
GG
Found at i:7087787 original size:34 final size:29
Alignment explanation
Indices: 7087748--7087819 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
7087738 CATATTATGA
*
7087748 TACATGACATGAATTTATATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
*
7087777 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
7087806 TACATGACATGAAT
1 TACATGACATGAAT
7087820 ATGCAGAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:7088258 original size:149 final size:149
Alignment explanation
Indices: 7087988--7088289 Score: 568
Period size: 149 Copynumber: 2.0 Consensus size: 149
7087978 GAGTAGAGGG
*
7087988 TCTATTCGGTTCTTTAGGACATATGTATATTCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
1 TCTATTCGGTTCTTTAGGACATAAGTATATTCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
* *
7088053 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
7088118 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
7088137 TCTATTCGGTTCTTTAGGACATAAGTATATTCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
1 TCTATTCGGTTCTTTAGGACATAAGTATATTCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
*
7088202 ACTTGATCTATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
7088267 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
7088286 TCTA
1 TCTA
7088290 CGGGGCACTT
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 149 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (149 bp):
TCTATTCGGTTCTTTAGGACATAAGTATATTCTTTGGAACCTGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:7088314 original size:23 final size:23
Alignment explanation
Indices: 7088270--7088314 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7088260 ATCATTATAT
*
7088270 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
7088293 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
7088315 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:7092005 original size:21 final size:21
Alignment explanation
Indices: 7091976--7092028 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
7091966 ATTCTGACTA
7091976 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
7091997 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
7092018 TCGCAATGCGA
1 TCGCATTGCGA
7092029 ATACAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:7092058 original size:20 final size:20
Alignment explanation
Indices: 7092018--7092390 Score: 179
Period size: 20 Copynumber: 18.3 Consensus size: 20
7092008 TTTTCCTAAT
* **
7092018 TCGCAATGCGAATACAAAAA
1 TCGCAATGCGATTACGTAAA
* *
7092038 TCGTAATGTGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
* *
7092058 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCG-ATTACGTAAA
*
7092079 TCGCAATGTGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
* *
7092099 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCG-ATTACGTAAA
*
7092120 TCGCAATGCGAATACGT-AA
1 TCGCAATGCGATTACGTAAA
7092139 TCGCAATGCGATTTACGT-AA
1 TCGCAATGCGA-TTACGTAAA
* * * *
7092159 TCGCATTGCGATTTTCCTAAT
1 TCGCAATGCGA-TTACGTAAA
*
7092180 TCGCATTGCGATTTACGT-AA
1 TCGCAATGCGA-TTACGTAAA
* * * *
7092200 TCGCATTGCGATTTTCCTAAT
1 TCGCAATGCGA-TTACGTAAA
* * * *
7092221 TCGCATTGCGATTTTCCTAAT
1 TCGCAATGCGA-TTACGTAAA
* * *
7092242 TCGCATTGCGATTTTTC-TAAT
1 TCGCAATGCGA--TTACGTAAA
*
7092263 TCGCATTGCGATTTACGT-AA
1 TCGCAATGCGA-TTACGTAAA
* * *
7092283 CCGCATTGCGATTTTAC-TAAT
1 TCGCAATGCGA--TTACGTAAA
* *
7092304 TCGCATTACGATTTACGT-AA
1 TCGCAATGCGA-TTACGTAAA
* * * *
7092324 TCGCATTGCGATTTTCTTAAT
1 TCGCAATGCGA-TTACGTAAA
* *
7092345 TCGCACTTCGATTTACGT-AA
1 TCGCAATGCGA-TTACGTAAA
*
7092365 TCGCATTGCGATTTA-GTAAA
1 TCGCAATGCGA-TTACGTAAA
7092385 TCGCAA
1 TCGCAA
7092391 CGAGATTCTG
Statistics
Matches: 293, Mismatches: 48, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
19 15 0.05
20 141 0.48
21 132 0.45
22 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (20 bp):
TCGCAATGCGATTACGTAAA
Found at i:7092088 original size:41 final size:41
Alignment explanation
Indices: 7092018--7092149 Score: 205
Period size: 41 Copynumber: 3.3 Consensus size: 41
7092008 TTTTCCTAAT
** *
7092018 TCGCAATGCGAA-TACAAAAATCGTAATGTGATTACGTAAA
1 TCGCAATGCGAATTAGGAAAATCGCAATGTGATTACGTAAA
7092058 TCGCAATGCGAATTAGGAAAATCGCAATGTGATTACGTAAA
1 TCGCAATGCGAATTAGGAAAATCGCAATGTGATTACGTAAA
* *
7092099 TCGCAATGCGAATTAGGAAAATCGCAATGCGAATACGT-AA
1 TCGCAATGCGAATTAGGAAAATCGCAATGTGATTACGTAAA
7092139 TCGCAATGCGA
1 TCGCAATGCGA
7092150 TTTACGTAAT
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
40 25 0.29
41 61 0.71
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (41 bp):
TCGCAATGCGAATTAGGAAAATCGCAATGTGATTACGTAAA
Found at i:7092185 original size:21 final size:21
Alignment explanation
Indices: 7092139--7092378 Score: 285
Period size: 21 Copynumber: 11.7 Consensus size: 21
7092129 GAATACGTAA
* * *
7092139 TCGCAATGCGATTTACGTAA-
1 TCGCATTGCGATTTTCCTAAT
7092159 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCTAAT
* *
7092180 TCGCATTGCGATTTACGTAA-
1 TCGCATTGCGATTTTCCTAAT
7092200 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCTAAT
7092221 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCTAAT
*
7092242 TCGCATTGCGATTTTTCTAAT
1 TCGCATTGCGATTTTCCTAAT
* *
7092263 TCGCATTGCGATTTACGTAA-
1 TCGCATTGCGATTTTCCTAAT
* *
7092283 CCGCATTGCGATTTTACTAAT
1 TCGCATTGCGATTTTCCTAAT
* * *
7092304 TCGCATTACGATTTACGTAA-
1 TCGCATTGCGATTTTCCTAAT
*
7092324 TCGCATTGCGATTTTCTTAAT
1 TCGCATTGCGATTTTCCTAAT
* *
7092345 TCGCACTT-CGATTTACGTAA-
1 TCGCA-TTGCGATTTTCCTAAT
7092365 TCGCATTGCGATTT
1 TCGCATTGCGATTT
7092379 AGTAAATCGC
Statistics
Matches: 189, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.01
20 79 0.42
21 106 0.56
22 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCTAAT
Found at i:7092192 original size:41 final size:41
Alignment explanation
Indices: 7092139--7092378 Score: 383
Period size: 41 Copynumber: 5.8 Consensus size: 41
7092129 GAATACGTAA
*
7092139 TCGCAATGCGATTTACGTAATCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAAT
7092180 TCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAAT
* * *
7092221 TCGCATTGCGATTTTCCTAATTCGCATTGCGATTTTTCTAAT
1 TCGCATTGCGATTTACGTAA-TCGCATTGCGATTTTCCTAAT
* *
7092263 TCGCATTGCGATTTACGTAACCGCATTGCGATTTTACTAAT
1 TCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAAT
* *
7092304 TCGCATTACGATTTACGTAATCGCATTGCGATTTTCTTAAT
1 TCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAAT
7092345 TCGCACTT-CGATTTACGTAATCGCATTGCGATTT
1 TCGCA-TTGCGATTTACGTAATCGCATTGCGATTT
7092379 AGTAAATCGC
Statistics
Matches: 185, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
41 145 0.78
42 40 0.22
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAAT
Found at i:7092294 original size:124 final size:123
Alignment explanation
Indices: 7092139--7092378 Score: 392
Period size: 124 Copynumber: 1.9 Consensus size: 123
7092129 GAATACGTAA
* * *
7092139 TCGCAATGCGATTTACGTAATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAATCGC
1 TCGCAATGCGATTTACGTAACCGCATTGCGATTTTACTAATTCGCATTACGATTTACGTAATCGC
*
7092204 ATTGCGATTTTCCTAATTCGCA-TTGCGATTTTCCTAATTCGCATTGCGATTTTTCTAAT
66 ATTGCGATTTTCCTAATTCGCACTT-CGATTTACCTAA-TCGCATTGCGATTTTTCTAAT
*
7092263 TCGCATTGCGATTTACGTAACCGCATTGCGATTTTACTAATTCGCATTACGATTTACGTAATCGC
1 TCGCAATGCGATTTACGTAACCGCATTGCGATTTTACTAATTCGCATTACGATTTACGTAATCGC
* *
7092328 ATTGCGATTTTCTTAATTCGCACTTCGATTTACGTAATCGCATTGCGATTT
66 ATTGCGATTTTCCTAATTCGCACTTCGATTTACCTAATCGCATTGCGATTT
7092379 AGTAAATCGC
Statistics
Matches: 108, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
123 14 0.13
124 92 0.85
125 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.40
Consensus pattern (123 bp):
TCGCAATGCGATTTACGTAACCGCATTGCGATTTTACTAATTCGCATTACGATTTACGTAATCGC
ATTGCGATTTTCCTAATTCGCACTTCGATTTACCTAATCGCATTGCGATTTTTCTAAT
Found at i:7094252 original size:20 final size:19
Alignment explanation
Indices: 7094224--7094278 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
7094214 CAATCATCTT
*
7094224 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
7094244 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
7094263 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
7094279 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:7094266 original size:19 final size:17
Alignment explanation
Indices: 7094231--7094414 Score: 95
Period size: 19 Copynumber: 10.8 Consensus size: 17
7094221 CTTAATGTCT
*
7094231 ATCGCAACGCGGAAATGA
1 ATCGCAATGC-GAAATGA
7094249 CTATCGCAATGCGAAATGAAA
1 --ATCGCAATGCGAAATG--A
*
7094270 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
7094284 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
7094303 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
7094317 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
7094336 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
7094350 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
**
7094369 ATCGCAA--CG-AGGGA
1 ATCGCAATGCGAAATGA
*
7094383 ATCGCAAAGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
7094402 ATCGCAACGCGAA
1 ATCGCAATGCGAA
7094415 TTTAGTTTCG
Statistics
Matches: 130, Mismatches: 12, Indels: 45
0.70 0.06 0.24
Matches are distributed among these distances:
14 32 0.25
16 19 0.15
17 19 0.15
19 50 0.38
20 9 0.07
21 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:7094288 original size:14 final size:14
Alignment explanation
Indices: 7094269--7094389 Score: 71
Period size: 14 Copynumber: 7.6 Consensus size: 14
7094259 GCGAAATGAA
7094269 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
7094283 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
7094302 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
7094316 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
7094335 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
7094349 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
7094368 AATCGCAACGAGGG
1 AATCGCAACGAGAG
7094382 AATCGCAA
1 AATCGCAA
7094390 AGCGAAATGA
Statistics
Matches: 85, Mismatches: 7, Indels: 30
0.70 0.06 0.25
Matches are distributed among these distances:
14 37 0.44
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 30 0.35
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.12
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:7094293 original size:33 final size:33
Alignment explanation
Indices: 7094251--7094410 Score: 302
Period size: 33 Copynumber: 4.8 Consensus size: 33
7094241 GGAAATGACT
7094251 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
7094284 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
7094317 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
7094350 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
7094383 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
7094411 CGAATTTAGT
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 125 1.00
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:7094578 original size:14 final size:14
Alignment explanation
Indices: 7094559--7094595 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
7094549 CATCAATTAA
7094559 ACAAATCAACTTTT
1 ACAAATCAACTTTT
7094573 ACAAATCAACTTTT
1 ACAAATCAACTTTT
7094587 ACAAATCAA
1 ACAAATCAA
7094596 TTAAACAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:7095887 original size:21 final size:21
Alignment explanation
Indices: 7095821--7095887 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
7095811 GTGAATCGGG
* *
7095821 CTCTTGAATGGTGGGAG-GGA
1 CTCTTGAACGATGGGAGTGGA
* ** * *
7095841 CCTCTTCAACGATGACAGTTGC
1 -CTCTTGAACGATGGGAGTGGA
7095863 CTCTTGAACGATGGGAGTGGA
1 CTCTTGAACGATGGGAGTGGA
7095884 CTCT
1 CTCT
7095888 CGAGGAATGA
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGTGGA
Found at i:7096419 original size:20 final size:20
Alignment explanation
Indices: 7096394--7096431 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
7096384 CGCGATTATA
7096394 GTTTCGCGTTGCGATTTTTG
1 GTTTCGCGTTGCGATTTTTG
7096414 GTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
7096432 CATTCTCTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.16, G:0.29, T:0.50
Consensus pattern (20 bp):
GTTTCGCGTTGCGATTTTTG
Found at i:7096657 original size:94 final size:94
Alignment explanation
Indices: 7096546--7096921 Score: 539
Period size: 94 Copynumber: 4.1 Consensus size: 94
7096536 ATGAATTGCA
* * *
7096546 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAATAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
7096610 TTAACAGAATTGACAGCAAACGAACAAAT
66 TTAACAGAATTGGCAGCAACCGAACAAAT
* *
7096639 TTACTTTCAACCAAAAGACAAAACAAAGACAAATATTAACTTTACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
7096704 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAACAGAATTGGCAGCAACCGAACAAAT
* *
7096733 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCATAGTGTTAAAGAATGCACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
7096798 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAACAGAATTGGCAGCAACCGAACAAAT
* * * *
7096827 TTAC-TTCAACCAAAAGATAAAACAAAAGACAAATAGTAATTTCACAGTGTT----AATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
7096887 TTTAACAGTATTGGCAGCAACCGAATAAAT
65 TTTAACAGAATTGGCAGCAACCGAACAAAT
7096917 TTACT
1 TTACT
7096922 AAGCAATCTA
Statistics
Matches: 259, Mismatches: 21, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
90 39 0.15
93 22 0.08
94 198 0.76
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.23
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAACAGAATTGGCAGCAACCGAACAAAT
Found at i:7098532 original size:25 final size:25
Alignment explanation
Indices: 7098504--7098568 Score: 130
Period size: 25 Copynumber: 2.6 Consensus size: 25
7098494 ATACCAAGTT
7098504 AGATATACCAAAAACTACACTGTGA
1 AGATATACCAAAAACTACACTGTGA
7098529 AGATATACCAAAAACTACACTGTGA
1 AGATATACCAAAAACTACACTGTGA
7098554 AGATATACCAAAAAC
1 AGATATACCAAAAAC
7098569 AATAAACATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.51, C:0.20, G:0.11, T:0.18
Consensus pattern (25 bp):
AGATATACCAAAAACTACACTGTGA
Found at i:7098660 original size:20 final size:20
Alignment explanation
Indices: 7098635--7098697 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
7098625 TTTTGGTTGA
7098635 AATGAAAATCGCAACGAAAG
1 AATGAAAATCGCAACGAAAG
*
7098655 AATGAAAATCGCAACGCGAA-
1 AATGAAAATCGCAACG-AAAG
** *
7098675 AATGACTATCGCAACGAGAG
1 AATGAAAATCGCAACGAAAG
7098695 AAT
1 AAT
7098698 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.03
20 33 0.92
21 2 0.06
ACGTcount: A:0.49, C:0.17, G:0.21, T:0.13
Consensus pattern (20 bp):
AATGAAAATCGCAACGAAAG
Found at i:7098678 original size:40 final size:33
Alignment explanation
Indices: 7098633--7098721 Score: 97
Period size: 40 Copynumber: 2.5 Consensus size: 33
7098623 TCTTTTGGTT
7098633 GAAATGAAAATCGCAACGAAAGAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACG--AG-A-G--AATCGCAACGC
**
7098672 GAAAATGACTATCGCAACGAGAGAATCGCAACGC
1 G-AAATGAAAATCGCAACGAGAGAATCGCAACGC
7098706 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
7098722 TGCGATTTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
33 13 0.29
34 12 0.27
36 1 0.02
37 1 0.02
38 2 0.04
39 1 0.02
40 15 0.33
ACGTcount: A:0.48, C:0.19, G:0.21, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:7099345 original size:20 final size:20
Alignment explanation
Indices: 7099274--7099366 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
7099264 ATAGTCAGAT
7099274 TCGCATTGCGATTTACGTAAA
1 TCGCATTGCGATTTACGT-AA
* * * * *
7099295 TCGCAATGCAAATTAGGAAAA
1 TCGCATTGCGATTTACG-TAA
* *
7099316 TCGCAATGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAA
7099336 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAA
*
7099356 TCGCGTTGCGA
1 TCGCATTGCGA
7099367 ATTAGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAA
Found at i:7099387 original size:21 final size:21
Alignment explanation
Indices: 7099363--7099408 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
7099353 TAATCGCGTT
7099363 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
7099384 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
7099405 GCGA
1 GCGA
7099409 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:7099402 original size:62 final size:61
Alignment explanation
Indices: 7099274--7099430 Score: 174
Period size: 62 Copynumber: 2.5 Consensus size: 61
7099264 ATAGTCAGAT
** * * * *
7099274 TCGCATTGCGATTTACGTAAATCGCAATGCAAATTAGGAAAATCGCAATGCGATTTACGTAT
1 TCGCATTGCGATTTACGT-AATCGCGTTGCGAATTAGGAAAATCGCAACGCGATTTACGAAA
**
7099336 TCGCATTGCGATTTACGTAATCGCGTTGCGAATTAGGAAAATCGCAACGCGAATTTGGGAAA
1 TCGCATTGCGATTTACGTAATCGCGTTGCGAATTAGGAAAATCGCAACGCG-ATTTACGAAA
* *
7099398 TCGCAATGCGATAGT-CAG-AATCGCGTTGCGAAT
1 TCGCATTGCGAT-TTAC-GTAATCGCGTTGCGAAT
7099431 CTGGAAACTG
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
61 29 0.35
62 51 0.62
63 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (61 bp):
TCGCATTGCGATTTACGTAATCGCGTTGCGAATTAGGAAAATCGCAACGCGATTTACGAAA
Found at i:7101106 original size:17 final size:19
Alignment explanation
Indices: 7101086--7101127 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
7101076 ATCTGTTACA
7101086 ACTTACAA-TA-CTCCTAT
1 ACTTACAAGTACCTCCTAT
*
7101103 ACTTCATAAGTACCTCCTAT
1 ACTT-ACAAGTACCTCCTAT
7101123 ACTTA
1 ACTTA
7101128 ATCACATTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.19
18 3 0.14
19 3 0.14
20 11 0.52
ACGTcount: A:0.33, C:0.29, G:0.02, T:0.36
Consensus pattern (19 bp):
ACTTACAAGTACCTCCTAT
Found at i:7102297 original size:2 final size:2
Alignment explanation
Indices: 7102290--7102331 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
7102280 AAAATCATGA
7102290 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
7102332 TGGCCTCTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7104319 original size:24 final size:24
Alignment explanation
Indices: 7104287--7104333 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
7104277 TACAAAGAAA
7104287 AAAATATTATTTTGGTGCTCGGAT
1 AAAATATTATTTTGGTGCTCGGAT
*
7104311 AAAATATTATTTTGGTGTTCGGA
1 AAAATATTATTTTGGTGCTCGGA
7104334 ACACCGACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.43
Consensus pattern (24 bp):
AAAATATTATTTTGGTGCTCGGAT
Found at i:7105215 original size:324 final size:324
Alignment explanation
Indices: 7104311--7105580 Score: 1615
Period size: 324 Copynumber: 3.9 Consensus size: 324
7104301 GTGCTCGGAT
* * * * *
7104311 AAAATATTATTTTGGTGTTCGGAACACCGACTCCCTATCTACTGAAAATCATTTGGCTATCATAA
1 AAAATATTATTTTGGTGCTCGGAACACCGATTCCCTATCTGCTGAAAATCATTTGGCCATCATCA
* * *
7104376 TTCGTGGAGAGATATGAAATTGGAGTTATAAATTATAAGAATAGAGAATGAATCAGAAAGTAGGA
66 TTTGTGGAGAGATGTGAAATTGGAGTTATAACTTATAAGAATAGAGAATGAATCAGAAAGTAGGA
* * * *
7104441 AGTTGTATATTCATTCAGCCAAACAACCTCCAGATGTCCGGCACAACACAAATAGACTGCACCAG
131 AGTTGTATATTCATTCAGCCAAACAACCCCCAGATGTTCGGCACAGCACAAATAGACTACACCAG
** * * *
7104506 GGAAACATTGAGGATGAAACCAGTCATAATTACCTCCTATACTTCATCACTTTCCTCTCTATTCA
196 AAAAACATCGAGGCTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTCA
* * * * ** *
7104571 ATAAAAAATCTCTATATTTATTATTTATAGAAAAGAAAGTTCCAACTAGGATATTACAAAG-AA
261 AGAGAACATCTCTATACTTATTGCTTATAGAAAAGAAAGTTCCAAATAGGATATTACAAAGAAA
* * * *
7104634 AAAATATTATTTTGGTGCTCGGAACACCAATTCTCTATCTGCTGAAAATTATTTAGCCA-C--CA
1 AAAATATTATTTTGGTGCTCGGAACACCGATTCCCTATCTGCTGAAAATCATTTGGCCATCATCA
* *
7104696 TTTATGGAGAGATGTGAAATTGGAGTT-TAACTTATAAGAATAGAGAATGAATTAGAAAGTAGGA
66 TTTGTGGAGAGATGTGAAATTGGAGTTATAACTTATAAGAATAGAGAATGAA-T---CAG-A--A
* * * *
7104760 AGTAGGAAGTTGTATATTCATTTAGCCAAACAA-CCCCAGATTTTCGACACAGCACAAATAGATT
124 AGTAGGAAGTTGTATATTCATTCAGCCAAACAACCCCCAGATGTTCGGCACAGCACAAATAGACT
* * ** ** * *
7104824 GCACCAGGAAAACATAAAGTTTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTACTTT
189 ACACCAGAAAAACATCGAGGCTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCT
* * * *
7104889 CTATTCAAGAGAACATGTCTATACTTATTTCTTATAGAAAA-AAAGGTTTCAAATAGGATATTAA
254 CTATTCAAGAGAACATCTCTATACTTATTGCTTATAGAAAAGAAA-GTTCCAAATAGGATATTAC
7104953 AAAGAAA
318 AAAGAAA
* *
7104960 AAAATATTATTTTGGTGCTCGGAACACCGATTCCCTATATGCTGAAAATCATTTGGCCATTATCA
1 AAAATATTATTTTGGTGCTCGGAACACCGATTCCCTATCTGCTGAAAATCATTTGGCCATCATCA
* * * * * *
7105025 TTTGTGAAGAGATGTGAAAATGGAGTTATATA-TTATAATAATAGAGAATGAATTATAAACTAGG
66 TTTGTGGAGAGATGTGAAATTGGAGTTATA-ACTTATAAGAATAGAGAATGAATCAGAAAGTAGG
* * *
7105089 AAGTTGTATATTCATTCAG-CAGAACAACCCCCAGATGTTCAGCACAGCACACATAGGCTACACC
130 AAGTTGTATATTCATTCAGCCA-AACAACCCCCAGATGTTCGGCACAGCACAAATAGACTACACC
* * * * *
7105153 AGAAAAACGTCGAGGCTGAAACCAGTCATAGTTACCTCTTATACTTCATCCCCTTCCTTTCTATT
194 AGAAAAACATCGAGGCTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCTATT
* * *
7105218 CAAGAGAACGTCTCTATACTTATTGCTTTTAGAAAAGAAAGTTCCAAATAGAATATTACAAAGAA
259 CAAGAGAACATCTCTATACTTATTGCTTATAGAAAAGAAAGTTCCAAATAGGATATTACAAAGAA
7105283 A
324 A
* ** * *
7105284 AAAATATTATTTTGGTGCTCGGGACATAGATTCCTTATCTGCTGAAAATCATTTGGCCACCATCA
1 AAAATATTATTTTGGTGCTCGGAACACCGATTCCCTATCTGCTGAAAATCATTTGGCCATCATCA
7105349 TTTGTGGAGAGATGTGAAATTGGAGTTATAACTTATAAGAATAGAGAATGAATCAGAAAGTAGGA
66 TTTGTGGAGAGATGTGAAATTGGAGTTATAACTTATAAGAATAGAGAATGAATCAGAAAGTAGGA
* * * * **
7105414 AGTTGTATATTCATTTAACCAAACAACCCTCAGATGTTCGGCACAGCAGAAATAGGTTGGTTACA
131 AGTTGTATATTCATTCAGCCAAACAACCCCCAGATGTTCGGCACAGCACAAATA----GACTACA
* * * *
7105479 CCA-AGAAAACATCGAGGCTGAAACCAGACATAATTACCTCTTATACTTCATCAACTTCATCTCT
192 CCAGA-AAAACATCGAGGCTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCT
7105543 ATTCAAGAGAACATCTCTATACTTATTGCTTATAGAAA
256 ATTCAAGAGAACATCTCTATACTTATTGCTTATAGAAA
7105581 CAAATAGATA
Statistics
Matches: 817, Mismatches: 106, Indels: 43
0.85 0.11 0.04
Matches are distributed among these distances:
319 23 0.03
320 26 0.03
322 3 0.00
323 83 0.10
324 303 0.37
325 142 0.17
326 90 0.11
327 1 0.00
328 97 0.12
329 27 0.03
330 21 0.03
331 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.29
Consensus pattern (324 bp):
AAAATATTATTTTGGTGCTCGGAACACCGATTCCCTATCTGCTGAAAATCATTTGGCCATCATCA
TTTGTGGAGAGATGTGAAATTGGAGTTATAACTTATAAGAATAGAGAATGAATCAGAAAGTAGGA
AGTTGTATATTCATTCAGCCAAACAACCCCCAGATGTTCGGCACAGCACAAATAGACTACACCAG
AAAAACATCGAGGCTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTCA
AGAGAACATCTCTATACTTATTGCTTATAGAAAAGAAAGTTCCAAATAGGATATTACAAAGAAA
Found at i:7105604 original size:649 final size:642
Alignment explanation
Indices: 7104311--7105589 Score: 1703
Period size: 649 Copynumber: 2.0 Consensus size: 642
7104301 GTGCTCGGAT
* * *
7104311 AAAATATTATTTTGGTGTTCGGAACACCGACTCCCTATCTACTGAAAATCATTTGGCTATCATAA
1 AAAATATTATTTTGGTGCTCGGAACACCGACTCCCTATATACTGAAAATCATTTGGCCATCATAA
* * *
7104376 TTCGTGGAGAGATATGAAATTGGAGTTATAAATTATAAGAATAGAGAATGAATCAGAAAGTAGGA
66 TTCGTGAAGAGATATGAAAATGGAGTTATAAATTATAAGAATAGAGAATGAATCAGAAACTAGGA
* * *
7104441 AGTTGTATATTCATTCAGCCAAACAACCTCCAGATGTCCGGCACAACACAAATAGACTGCACCAG
131 AGTTGTATATTCATTCAGCCAAACAACCCCCAGATGTCCAGCACAACACAAATAGACTACACCAG
** * *
7104506 GGAAACATTGAGGATGAAACCAGTCATAATTACCTCCTATACTTCATCACTTTCCTCTCTATTCA
196 AAAAACATCGAGGATGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTCA
* * * *
7104571 ATAAAAAATCTCTATATTTATTATTTATAGAAAAGAAAGTTCCAACTAGGATATTACAAAGAAAA
261 AGAAAAAATCTCTATACTTATTATTTATAGAAAAGAAAGTTCCAAATAGAATATTACAAAGAAAA
*
7104636 AATATTATTTTGGTGCTCGGAACACCAATTCTCTATCTGCTGAAAATTATTTAGCCACCATTTAT
326 AATATTATTTTGGTGCTCGGAACACCAATTCTCTATCTGCTGAAAATCATTTAGCCACCATTTAT
7104701 GGAGAGATGTGAAATTGGAGTTTAACTTATAAGAATAGAGAATGAATTAGAAAGTAGGAAGTAGG
391 GGAGAGATGTGAAATTGGAGTTTAACTTATAAGAATAGAGAATGAATT--AAAGTA-GAAGTAGG
* * *
7104766 AAGTTGTATATTCATTTAGCCAAACAACCCCAGATTTTCGACACAGCACAAATAGATTGCACCAG
453 AAGTTGTATATTCATTTAACCAAACAACCCCAGATGTTCGACACAGCACAAATAGATTGCACCAA
** * * *
7104831 GAAAACATAAAGTTTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTACTTTCTATTCA
518 GAAAACATAAAGGCTGAAACCAGACATAATTACCTCCTATACTTCATCAACTTACTCTCTATTCA
* * *
7104896 AGAGAACATGTCTATACTTATTTCTTATAGAAAAAAAGGTTTCAAATAGGATATTAAAAAGAAA
583 AGAGAACATCTCTATACTTATTGCTTATAGAAAAAAAGATTTC--AT--GATATTAAAAAGAAA
* * * *
7104960 AAAATATTATTTTGGTGCTCGGAACACCGATTCCCTATATGCTGAAAATCATTTGGCCATTATCA
1 AAAATATTATTTTGGTGCTCGGAACACCGACTCCCTATATACTGAAAATCATTTGGCCATCATAA
* * * * * *
7105025 TTTGTGAAGAGATGTGAAAATGGAGTTATATATTATAATAATAGAGAATGAATTATAAACTAGGA
66 TTCGTGAAGAGATATGAAAATGGAGTTATAAATTATAAGAATAGAGAATGAATCAGAAACTAGGA
* * * *
7105090 AGTTGTATATTCATTCAG-CAGAACAACCCCCAGATGTTCAGCACAGCACACATAGGCTACACCA
131 AGTTGTATATTCATTCAGCCA-AACAACCCCCAGATGTCCAGCACAACACAAATAGACTACACCA
* * * * * *
7105154 GAAAAACGTCGAGGCTGAAACCAGTCATAGTTACCTCTTATACTTCATCCCCTTCCTTTCTATTC
195 GAAAAACATCGAGGATGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTC
* ** *
7105219 AAGAGAACGTCTCTATACTTATTGCTTT-TAGAAAAGAAAGTTCCAAATAGAATATTACAAAGAA
260 AAGAAAAAATCTCTATACTTATT-ATTTATAGAAAAGAAAGTTCCAAATAGAATATTACAAAG-A
* * *
7105283 AAAAATATTATTTTGGTGCTCGGGACA-TAGATTC-CTTATCTGCTGAAAATCATTTGGCCACCA
323 AAAAATATTATTTTGGTGCTCGGAACACCA-ATTCTC-TATCTGCTGAAAATCATTTAGCCA-C-
* *
7105346 TCATTTGTGGAGAGATGTGAAATTGGAGTTATAACTTATAAGAATAGAGAATGAA-T-CAG-A-A
384 -CATTTATGGAGAGATGTGAAATTGGAGTT-TAACTTATAAGAATAGAGAATGAATTAAAGTAGA
* * *
7105407 AGTAGGAAGTTGTATATTCATTTAACCAAACAACCCTCAGATGTTCGGCACAGCAGAAATAGGTT
447 AGTAGGAAGTTGTATATTCATTTAACCAAACAACCC-CAGATGTTCGACACAGCACAAATAGATT
** *
7105472 GGTTACACCAAGAAAACATCGAGGCTGAAACCAGACATAATTACCTCTTATACTTCATCAACTT-
511 -G---CACCAAGAAAACATAAAGGCTGAAACCAGACATAATTACCTCCTATACTTCATCAACTTA
7105536 CATCTCTATTCAAGAGAACATCTCTATACTTATTGCTTATAGAAACAAATAGAT
572 C-TCTCTATTCAAGAGAACATCTCTATACTTATTGCTTATAGAAA-AAA-AGAT
7105590 ATTCTTTGTT
Statistics
Matches: 549, Mismatches: 64, Indels: 29
0.86 0.10 0.05
Matches are distributed among these distances:
647 36 0.07
648 26 0.05
649 277 0.50
650 58 0.11
651 2 0.00
652 91 0.17
653 32 0.06
654 27 0.05
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (642 bp):
AAAATATTATTTTGGTGCTCGGAACACCGACTCCCTATATACTGAAAATCATTTGGCCATCATAA
TTCGTGAAGAGATATGAAAATGGAGTTATAAATTATAAGAATAGAGAATGAATCAGAAACTAGGA
AGTTGTATATTCATTCAGCCAAACAACCCCCAGATGTCCAGCACAACACAAATAGACTACACCAG
AAAAACATCGAGGATGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTCA
AGAAAAAATCTCTATACTTATTATTTATAGAAAAGAAAGTTCCAAATAGAATATTACAAAGAAAA
AATATTATTTTGGTGCTCGGAACACCAATTCTCTATCTGCTGAAAATCATTTAGCCACCATTTAT
GGAGAGATGTGAAATTGGAGTTTAACTTATAAGAATAGAGAATGAATTAAAGTAGAAGTAGGAAG
TTGTATATTCATTTAACCAAACAACCCCAGATGTTCGACACAGCACAAATAGATTGCACCAAGAA
AACATAAAGGCTGAAACCAGACATAATTACCTCCTATACTTCATCAACTTACTCTCTATTCAAGA
GAACATCTCTATACTTATTGCTTATAGAAAAAAAGATTTCATGATATTAAAAAGAAA
Found at i:7106844 original size:27 final size:26
Alignment explanation
Indices: 7106793--7106845 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
7106783 TAGGTTTGGC
*
7106793 AATGCTTTTGAAAAGTACTATAAGAA
1 AATGCTTTTGAAAAGTACTAAAAGAA
*
7106819 AATGCCTTTT-AAAAGTTCTTAAAAGAA
1 AATG-CTTTTGAAAAGTAC-TAAAAGAA
7106846 GTTGAGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.32
Consensus pattern (26 bp):
AATGCTTTTGAAAAGTACTAAAAGAA
Found at i:7110241 original size:315 final size:319
Alignment explanation
Indices: 7109477--7110643 Score: 1425
Period size: 315 Copynumber: 3.7 Consensus size: 319
7109467 ATTTGTGGAG
* *
7109477 TTATAAGAATAGAGAATGAATCAGAAAGTAGGAAGTTGTATATTCATTCAGTCAAACAACCTCCA
1 TTATAAGAATAGAGAATGAATCAGAAAGTAGGAAGTTGTATATTCATTCAGCCAAACAACCCCCA
* * *
7109542 GATGTTCGGCACAACACAAATAGACTGCACCAGGAAAACATCGAGGATGAAACCAGTCATAATTA
66 GATGTTCGGCACAGCACAAATAGACTGCACCAGGAAAACATCGAGGCTGAAACCAATCATAATTA
* * *** * * * * *
7109607 CCTCCTACACTTCATCACTTTCCTCTCTATTCAAGA-ATTTTTTTTGTACTTATTACTTACAGAA
131 CCTCCTATACTTCATCACCTTCCTCTCTATTCAAGAGAACATCTCTATACTTATTGCTTATAGAA
* * *
7109671 AAGAAAGTTCCAAATAGGATATTACAAAGAAAAAATATTATTTTGGTGCTCAGAACACCGATTCT
196 AAAAAAGTTCCAAATAGGATATTAC-AAGAAAAAATA-TA-TTTGGTGCTCAAAATACCGATTC-
7109736 CTATCTA-CTGAAAATTATTTGGCCACCATCATTTGTGAAGAGATGTGAAATTGGAGTTAT--A
257 CTAT-TAGCTGAAAATTATTTGGCCACCATCATTTGTGAAGAGATGTGAAATTGGAGTTATAAA
* * *
7109797 --AT---AATAGAGAATGAATTAGAAAGTAGGAAGTTGTATATTCATTTAGCCAAATAA-CCCCA
1 TTATAAGAATAGAGAATGAATCAGAAAGTAGGAAGTTGTATATTCATTCAGCCAAACAACCCCCA
* * * ** * ** *
7109856 TATGTTCGACATAGCACAAATAGGTTGCACCAGGAAAACATCAAGTTTGAAACCAGTCATAATTA
66 GATGTTCGGCACAGCACAAATAGACTGCACCAGGAAAACATCGAGGCTGAAACCAATCATAATTA
* * * *
7109921 CCTCCTATACTTTATCACCTTCCTCTCAATTCAAGAGAACATCTATATACTTATTTCTTATAGAA
131 CCTCCTATACTTCATCACCTTCCTCTCTATTCAAGAGAACATCTCTATACTTATTGCTTATAG-A
* *
7109986 AAAAAAAGTTTCAAATAGGATATTAC-A-AAAAAA-A-A-TTGGGGCTCAAAATACCGATTCCTA
195 AAAAAAAGTTCCAAATAGGATATTACAAGAAAAAATATATTTGGTGCTCAAAATACCGATTCCTA
* * * *** *
7110046 TAAGCTAAAAATCATTTGGCCATTGTCATTTGTGAATAGATGTGAAATTGGAGTTATAAA
260 TTAGCTGAAAATTATTTGGCCACCATCATTTGTGAAGAGATGTGAAATTGGAGTTATAAA
* * **
7110106 TTATAAGAATAGAGAATGAATTAGAAAGTAGGAAGTTGTATATTCAATCAGGAAAACAACCCCCA
1 TTATAAGAATAGAGAATGAATCAGAAAGTAGGAAGTTGTATATTCATTCAGCCAAACAACCCCCA
* *
7110171 GATGTTCGGCACGGCACAAATAGACTGCACCAGAAAAACATCGAGGCTGAAACCAATCATAATTA
66 GATGTTCGGCACAGCACAAATAGACTGCACCAGGAAAACATCGAGGCTGAAACCAATCATAATTA
* *
7110236 CCTCCTATACTTCATC-CTCTTCCTTTCTATTCAAGAGAACATCTCTATACTTATTGCTTATATA
131 CCTCCTATACTTCATCAC-CTTCCTCTCTATTCAAGAGAACATCTCTATACTTATTGCTTATAGA
* * ** *
7110300 AAAAAAAGTTCCAAATAGAATTTTACAAAGAAAAAATATTATTTTGGTGCTTGGGACATA--GAT
195 AAAAAAAGTTCCAAATAGGATATTAC-AAGAAAAAATA-TA-TTTGGTGC-T-CAAAATACCGAT
* * * *
7110363 TCCCTATTTGCTGAAAATTATTTGGCCACCATCATTTGTGGAGAGATATGAAATTGAAGTTATAA
255 T-CCTATTAGCTGAAAATTATTTGGCCACCATCATTTGTGAAGAGATGTGAAATTGGAGTTATAA
*
7110428 C
319 A
*
7110429 TTATAAGAATAGAGAATGAATCAGAAAGTAGGAAGTTGTATATTCATTCAGCCAAACAACCCTCA
1 TTATAAGAATAGAGAATGAATCAGAAAGTAGGAAGTTGTATATTCATTCAGCCAAACAACCCCCA
* * * * *
7110494 GATGTTCGGCACAGCAGAAATAGGCTAGCTACACCATGAAAACACCGAGGCTGAAACCAATTATA
66 GATGTTCGGCACAGCACAAATA-G--A-CTGCACCAGGAAAACATCGAGGCTGAAACCAATCATA
* *
7110559 ATTACCTCCTATACATCATCACCTTCATCTCTATTCAAGAGAACATCTCTATACTTATTGCTTAT
127 ATTACCTCCTATACTTCATCACCTTCCTCTCTATTCAAGAGAACATCTCTATACTTATTGCTTAT
*
7110624 AGAAAATAAAGTTCCAAATA
192 AGAAAAAAAAGTTCCAAATA
7110644 TATATTCTCT
Statistics
Matches: 723, Mismatches: 96, Indels: 49
0.83 0.11 0.06
Matches are distributed among these distances:
306 1 0.00
307 51 0.07
308 19 0.03
309 1 0.00
310 1 0.00
311 2 0.00
312 1 0.00
313 6 0.01
314 165 0.23
315 180 0.25
316 26 0.04
317 6 0.01
318 3 0.00
320 1 0.00
322 10 0.01
323 133 0.18
324 5 0.01
326 1 0.00
327 110 0.15
328 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (319 bp):
TTATAAGAATAGAGAATGAATCAGAAAGTAGGAAGTTGTATATTCATTCAGCCAAACAACCCCCA
GATGTTCGGCACAGCACAAATAGACTGCACCAGGAAAACATCGAGGCTGAAACCAATCATAATTA
CCTCCTATACTTCATCACCTTCCTCTCTATTCAAGAGAACATCTCTATACTTATTGCTTATAGAA
AAAAAAGTTCCAAATAGGATATTACAAGAAAAAATATATTTGGTGCTCAAAATACCGATTCCTAT
TAGCTGAAAATTATTTGGCCACCATCATTTGTGAAGAGATGTGAAATTGGAGTTATAAA
Found at i:7111905 original size:27 final size:26
Alignment explanation
Indices: 7111854--7111906 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
7111844 TAGGTTTGGC
*
7111854 AATGCTTTTGAAAAGTACTATAAGAA
1 AATGCTTTTGAAAAGTACTAAAAGAA
*
7111880 AATGCCTTTT-AAAAGTTCTTAAAAGAA
1 AATG-CTTTTGAAAAGTAC-TAAAAGAA
7111907 GTTGAGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.32
Consensus pattern (26 bp):
AATGCTTTTGAAAAGTACTAAAAGAA
Found at i:7114279 original size:2 final size:2
Alignment explanation
Indices: 7114272--7114303 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7114262 AAGATAATTG
7114272 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
7114304 GGAGTAACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7115074 original size:37 final size:37
Alignment explanation
Indices: 7115002--7115075 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
7114992 TGGAAAATAT
*
7115002 TTATATATTTTATTTTAAAAAAATTAAATTCATAAAA
1 TTATATATTTTATTTTAAAAAAATTAAAATCATAAAA
* * * *
7115039 TTATATTTTTTTTTTTTACAAAATTAAAAAT-ATAAAA
1 TTATATATTTTATTTTAAAAAAATT-AAAATCATAAAA
7115076 AGATTTAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 27 0.87
38 4 0.13
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (37 bp):
TTATATATTTTATTTTAAAAAAATTAAAATCATAAAA
Done.