Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold119
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: 3173904
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 20
Found at i:2875644 original size:16 final size:14
Alignment explanation
Indices: 2875606--2875647 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 14
2875596 TTTGACTTAT
2875606 AATTTTTA--ATTA
1 AATTTTTATTATTA
2875618 AATTTTTATTATTA
1 AATTTTTATTATTA
2875632 ATATTTTTAATTATTA
1 A-ATTTTT-ATTATTA
2875648 TTTTCCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 8 0.31
14 5 0.19
15 6 0.23
16 7 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
AATTTTTATTATTA
Found at i:2875649 original size:13 final size:13
Alignment explanation
Indices: 2875602--2875651 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
2875592 TTTATTTGAC
2875602 TTATAATTTTTAA
1 TTATAATTTTTAA
2875615 TTA-AATTTTT-A
1 TTATAATTTTTAA
2875626 TTATTAATATTTTTAA
1 TTA-T-A-ATTTTTAA
*
2875642 TTATTATTTT
1 TTATAATTTT
2875652 CCTTTTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
11 4 0.13
12 7 0.23
13 8 0.26
14 1 0.03
15 7 0.23
16 4 0.13
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTATAATTTTTAA
Found at i:2876249 original size:97 final size:97
Alignment explanation
Indices: 2876139--2876334 Score: 347
Period size: 97 Copynumber: 2.0 Consensus size: 97
2876129 TACCAAATTT
* *
2876139 TAATGTTAGACTTTGAAACAATGATTTAATTTTTGTGATCTTCTATACTAATTTTTGTTGAAATA
1 TAATGTTAAACTTTGAAACAATGATTTAATTTTTGTGATCTTCTATAATAATTTTTGTTGAAATA
*
2876204 TTCATTTAGATTGTAATTTCATTGAATTTGCC
66 TTCATTTAGATTGTAATTTCATTAAATTTGCC
*
2876236 TAATGTTAAACTTTGAAACAATGATTTAATTTTTGTGATCTTTTATAATAATTTTTGTTGAAATA
1 TAATGTTAAACTTTGAAACAATGATTTAATTTTTGTGATCTTCTATAATAATTTTTGTTGAAATA
*
2876301 TTCATTTAGATTGTAATTTGATTAAATTTGCC
66 TTCATTTAGATTGTAATTTCATTAAATTTGCC
2876333 TA
1 TA
2876335 TGAATATTAT
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 94 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.49
Consensus pattern (97 bp):
TAATGTTAAACTTTGAAACAATGATTTAATTTTTGTGATCTTCTATAATAATTTTTGTTGAAATA
TTCATTTAGATTGTAATTTCATTAAATTTGCC
Found at i:2876743 original size:20 final size:20
Alignment explanation
Indices: 2876720--2876772 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
2876710 ACACCCAGAA
2876720 GTATCGATACATTATGCTTT
1 GTATCGATACATTATGCTTT
*
2876740 GTATCGGTACATTATGCTTT
1 GTATCGATACATTATGCTTT
2876760 GTATCGATACATT
1 GTATCGATACATT
2876773 GTATCGATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (20 bp):
GTATCGATACATTATGCTTT
Found at i:2876776 original size:13 final size:13
Alignment explanation
Indices: 2876758--2876784 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2876748 ACATTATGCT
2876758 TTGTATCGATACA
1 TTGTATCGATACA
2876771 TTGTATCGATACA
1 TTGTATCGATACA
2876784 T
1 T
2876785 GTTTATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2876794 original size:19 final size:19
Alignment explanation
Indices: 2876765--2876906 Score: 88
Period size: 20 Copynumber: 7.0 Consensus size: 19
2876755 GCTTTGTATC
2876765 GATACATTGTATCGATACAT
1 GATA-ATTGTATCGATACAT
* *
2876785 GTTTATTGTATCGATACAT
1 GATAATTGTATCGATACAT
2876804 GGATAATTGTATCGATACAT
1 -GATAATTGTATCGATACAT
* * * * *
2876824 GA-AACTGGCAGTAGCTACCCTAC
1 GATAA-TTGTA-TCGATA--C-AT
* **
2876847 CACTGTTTGTATCGATACAT
1 GA-TAATTGTATCGATACAT
*
2876867 GGTACATTGTATCGATACAT
1 GATA-ATTGTATCGATACAT
2876887 GATGAATTGTATCGATACAT
1 GAT-AATTGTATCGATACAT
2876907 TGCTTGTAAC
Statistics
Matches: 90, Mismatches: 22, Indels: 20
0.68 0.17 0.15
Matches are distributed among these distances:
18 2 0.02
19 21 0.23
20 55 0.61
21 2 0.02
22 1 0.01
23 6 0.07
24 3 0.03
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
GATAATTGTATCGATACAT
Found at i:2878453 original size:20 final size:19
Alignment explanation
Indices: 2878407--2878462 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
2878397 AAAACCCTTA
**
2878407 AATGTATCGATACACAATTC
1 AATGTATCGATACA-TGTTC
*
2878427 AAAGTATCGATACATGTTGC
1 AATGTATCGATACATGTT-C
2878447 AATGTATCGATACATG
1 AATGTATCGATACATG
2878463 AAAAATATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACATGTTC
Found at i:2878550 original size:13 final size:13
Alignment explanation
Indices: 2878532--2878557 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2878522 TACACCAAGT
2878532 ATGTATCGATACA
1 ATGTATCGATACA
2878545 ATGTATCGATACA
1 ATGTATCGATACA
2878558 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2878576 original size:34 final size:32
Alignment explanation
Indices: 2878514--2878578 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
2878504 TAGCCAAACT
**
2878514 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
2878546 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
2878579 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:2880803 original size:22 final size:22
Alignment explanation
Indices: 2880776--2880831 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
2880766 TTGCAAGTTG
2880776 AAATAAAGAACTTGGCTAATG-A
1 AAATAAAGAACTTGGCTAA-GAA
* *
2880798 AAATAATGAA-TTAGCTAAGAA
1 AAATAAAGAACTTGGCTAAGAA
2880819 AAATAAA-AACTTG
1 AAATAAAGAACTTG
2880832 CATGATTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 3 0.11
21 16 0.57
22 9 0.32
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
AAATAAAGAACTTGGCTAAGAA
Found at i:2884742 original size:13 final size:13
Alignment explanation
Indices: 2884724--2884761 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2884714 CATTTTTCTT
2884724 TGTATCGATACAA
1 TGTATCGATACAA
*
2884737 TGTATCGATACAC
1 TGTATCGATACAA
2884750 TGTATCGATACA
1 TGTATCGATACA
2884762 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2884925 original size:20 final size:20
Alignment explanation
Indices: 2884882--2884927 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2884872 AAATCTTTTG
2884882 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2884903 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2884923 CAAAA
1 CAAAA
2884928 ACAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2887240 original size:20 final size:19
Alignment explanation
Indices: 2887194--2887249 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
2887184 AAAACCCTTA
**
2887194 AATGTATCGATACACAATTC
1 AATGTATCGATACA-TGTTC
*
2887214 AAAGTATCGATACATGTTGC
1 AATGTATCGATACATGTT-C
2887234 AATGTATCGATACATG
1 AATGTATCGATACATG
2887250 AAAAATATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACATGTTC
Found at i:2887337 original size:13 final size:13
Alignment explanation
Indices: 2887319--2887344 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2887309 TACACCAAGT
2887319 ATGTATCGATACA
1 ATGTATCGATACA
2887332 ATGTATCGATACA
1 ATGTATCGATACA
2887345 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2887363 original size:34 final size:32
Alignment explanation
Indices: 2887301--2887365 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
2887291 TAGCCAAACT
**
2887301 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
2887333 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
2887366 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:2892576 original size:13 final size:13
Alignment explanation
Indices: 2892558--2892584 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2892548 ACATTATGCT
2892558 TTGTATCGATACA
1 TTGTATCGATACA
2892571 TTGTATCGATACA
1 TTGTATCGATACA
2892584 T
1 T
2892585 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2892593 original size:19 final size:19
Alignment explanation
Indices: 2892569--2892625 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
2892559 TGTATCGATA
*
2892569 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGAT
2892588 CATTGTATCGATACATGGAT
1 CATTGTATCGATACAT-GAT
*
2892608 AATTGTATCGATACATGA
1 CATTGTATCGATACATGA
2892626 AACTGGCAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 18 0.51
20 17 0.49
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:2892599 original size:32 final size:33
Alignment explanation
Indices: 2892540--2892603 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
2892530 ACACCCAGAA
*
2892540 GTATCGATACATTATGCTTTGTATCGATACATT
1 GTATCGATACATTATGCATTGTATCGATACATT
2892573 GTATCGATACATGT-T-CATTGTATCGATACAT
1 GTATCGATACAT-TATGCATTGTATCGATACAT
2892604 GGATAATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.52
33 13 0.45
34 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (33 bp):
GTATCGATACATTATGCATTGTATCGATACATT
Found at i:2892614 original size:20 final size:19
Alignment explanation
Indices: 2892565--2892706 Score: 97
Period size: 20 Copynumber: 7.0 Consensus size: 19
2892555 GCTTTGTATC
2892565 GATACATTGTATCGATACAT
1 GATA-ATTGTATCGATACAT
* *
2892585 GTTCATTGTATCGATACAT
1 GATAATTGTATCGATACAT
2892604 GGATAATTGTATCGATACAT
1 -GATAATTGTATCGATACAT
* * * * *
2892624 GA-AACTGGCAGTAGCTACCCTAC
1 GATAA-TTGTA-TCGATA--C-AT
* *
2892647 CACTATTTGTATCGATACAT
1 GA-TAATTGTATCGATACAT
*
2892667 GGTACATTGTATCGATACAT
1 GATA-ATTGTATCGATACAT
2892687 GATGAATTGTATCGATACAT
1 GAT-AATTGTATCGATACAT
2892707 TGCTTGTAAC
Statistics
Matches: 92, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
18 2 0.02
19 22 0.24
20 55 0.60
21 2 0.02
22 1 0.01
23 6 0.07
24 3 0.03
25 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (19 bp):
GATAATTGTATCGATACAT
Found at i:2897177 original size:87 final size:86
Alignment explanation
Indices: 2897067--2897368 Score: 448
Period size: 87 Copynumber: 3.5 Consensus size: 86
2897057 TCCTCACCTT
*
2897067 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAAGCCCACAAGTCAGTGGCA-TCTTTTCCAA
*
2897131 AGCCCACAAGTCAGTGGCATCC
65 AGCCCACAAGTCAGTGGCAACC
*
2897153 TTTCCAAAGCCCACAAGTCAGTGGCAACC-TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAA
1 -TTCAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAA
2897217 AGCCCACAAGTCAGTGGCAACC
65 AGCCCACAAGTCAGTGGCAACC
* * * * *
2897239 TTCAAAAGCCCACAAGTCGGCGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAA
2897304 AGCCCACAAGTCAGTGGCAACC
65 AGCCCACAAGTCAGTGGCAACC
* **
2897326 TTCAAAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCCACA
1 TTCAAAAGCCCACAAGTCAGTGGCAA-CCTTTCAAAAGCCCACA
2897369 CAAGTTGGTG
Statistics
Matches: 198, Mismatches: 14, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
85 24 0.12
86 47 0.24
87 127 0.64
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.18
Consensus pattern (86 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAA
GCCCACAAGTCAGTGGCAACC
Found at i:2897206 original size:57 final size:57
Alignment explanation
Indices: 2897067--2897368 Score: 394
Period size: 57 Copynumber: 5.2 Consensus size: 57
2897057 TCCTCACCTT
* *
2897067 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTCAAAAGCCCACAAGTCAGTGGCACCC
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTCCAAAGCCCACAAGTCAGTGGCAACC
* *
2897123 TTTTCCAAAGCCCACAAGTCAGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACC
1 --TTCAAAAGCCCACAAGTCAGTGGCAACCTTTCCAAAGCCCACAAGTCAGTGGCAACC
* *
2897182 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTCCAAAGCCCACAAGTCAGTGGCAACC
* * * * *
2897239 TTCAAAAGCCCACAAGTCGGCGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTTCCAAAGCCCACAAGTCAGTGGCAAC-C
* * **
2897298 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTCAAAAGCACACAAGTTGGT-GCAACCC
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTCCAAAGCCCACAAGTCAGTGGCAA-CC
2897354 TTTCAAAAGCCCACA
1 -TTCAAAAGCCCACA
2897369 CAAGTTGGTG
Statistics
Matches: 218, Mismatches: 21, Indels: 11
0.87 0.08 0.04
Matches are distributed among these distances:
56 3 0.01
57 111 0.51
58 53 0.24
59 51 0.23
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.18
Consensus pattern (57 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTTCCAAAGCCCACAAGTCAGTGGCAACC
Found at i:2897264 original size:144 final size:144
Alignment explanation
Indices: 2897064--2897368 Score: 504
Period size: 144 Copynumber: 2.1 Consensus size: 144
2897054 CATTCCTCAC
*
2897064 CTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 CTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCC
* *
2897129 AAAGCCCACAAGTCAGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCA
66 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACA
2897194 CAAGTCAGTGGCAT
131 CAAGTCAGTGGCAT
* *
2897208 CTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCGGCGGCACCCTTTTCC
1 CTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCC
*
2897273 AAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACA
66 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACA
** *
2897338 CAAGTTGGT-GCAAC
131 CAAGTCAGTGGC-AT
*
2897352 CCTTTCAAAAGCCCACA
1 CTTTTCAAAAGCCCACA
2897369 CAAGTTGGTG
Statistics
Matches: 149, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
143 2 0.01
144 147 0.99
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (144 bp):
CTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCC
AAAGCCCACAAGTCAGTGGCATCCTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACA
CAAGTCAGTGGCAT
Found at i:2897370 original size:31 final size:29
Alignment explanation
Indices: 2897066--2897378 Score: 150
Period size: 28 Copynumber: 10.8 Consensus size: 29
2897056 TTCCTCACCT
**
2897066 TTTCAAAAGCC-CACAAGTCAGTGGCAACC
1 TTTCAAAAGCCACACAAGTTGGT-GCAACC
** *
2897095 -TTCAAAAGCC-CACAAGTCAGTGGCACCC
1 TTTCAAAAGCCACACAAGTTGGT-GCAACC
* ** *
2897123 TTTTCCAAAGCC-CACAAGTCAGTGGCATCC
1 -TTTCAAAAGCCACACAAGTTGGT-GCAACC
* **
2897153 TTTCCAAAGCC-CACAAGTCAGTGGCAACC
1 TTTCAAAAGCCACACAAGTTGGT-GCAACC
** * *
2897182 -TTCAAAAGCC-CACAAGTCAGTGGCATCT
1 TTTCAAAAGCCACACAAGTTGGT-GCAACC
* **
2897210 TTTCCAAAGCC-CACAAGTCAGTGGCAACC
1 TTTCAAAAGCCACACAAGTTGGT-GCAACC
* * *
2897239 -TTCAAAAGCC-CACAAGTCGGCGGCACCC
1 TTTCAAAAGCCACACAAGTTGG-TGCAACC
* ** * *
2897267 TTTTCCAAAGCC-CACAAGTCAGTGGCATCT
1 -TTTCAAAAGCCACACAAGTTGGT-GCAACC
**
2897297 TTTCAAAAGCC-CACAAGTCAGTGGCAACC
1 TTTCAAAAGCCACACAAGTTGGT-GCAACC
2897326 -TTCAAAAG-CACACAAGTTGGTGCAACCC
1 TTTCAAAAGCCACACAAGTTGGTGCAA-CC
2897354 TTTCAAAAGCCCACACAAGTTGGTG
1 TTTCAAAAG-CCACACAAGTTGGTG
2897379 GCATCTTCTT
Statistics
Matches: 248, Mismatches: 24, Indels: 22
0.84 0.08 0.07
Matches are distributed among these distances:
27 5 0.02
28 94 0.38
29 87 0.35
30 48 0.19
31 14 0.06
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.19
Consensus pattern (29 bp):
TTTCAAAAGCCACACAAGTTGGTGCAACC
Found at i:2897502 original size:49 final size:49
Alignment explanation
Indices: 2897437--2897774 Score: 313
Period size: 49 Copynumber: 6.8 Consensus size: 49
2897427 CACCTTTAAA
* *
2897437 CCAATGTCACTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * * *
2897486 CCAATGTCGTTGGCCTTGAATCAGCACATCGACACCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * * * * **
2897535 CCAATATCGCTGGCCTTGAATTAGCATATTGGCGCCTTCGTCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCACATT-G-G-CATCTTCATCTTTAAGT
* *
2897587 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTACGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * ** * * * *
2897636 CCAATATCGTTGGCCTTGAATCAGCGTATTAGCATCTTTAACATTCCTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATC-TT--TAAGT
** *
2897688 CCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA--TT-ATTCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA-TCTTTAAGT
** * *
2897735 CTGATGTCGCTGGCCATGAATCAGCACATTGTCATTCTTC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTTC
2897775 GCATCTTCGA
Statistics
Matches: 226, Mismatches: 52, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
47 31 0.14
49 116 0.51
50 9 0.04
51 1 0.00
52 69 0.31
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
Found at i:2897692 original size:101 final size:101
Alignment explanation
Indices: 2897388--2897760 Score: 315
Period size: 101 Copynumber: 3.8 Consensus size: 101
2897378 GGCATCTTCT
* * * * * *
2897388 TCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAA-ACCAATGTCA
1 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
* * * *
2897446 CTAGCCTTGAATCAGCACATTGGCATCTT---CATC
66 CTGGCCTTGAATCAGCATATTAGCACCTTCAACATC
* * * * *
2897479 TTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATCGACACCTTCATCTTTAAGTCCAATATCG
1 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
* * * **
2897544 CTGGCCTTGAATTAGCATATTGGCGCCTTCGTCATC
66 CTGGCCTTGAATCAGCATATTAGCACCTTCAACATC
* * *
2897580 TTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTACGTCCAATATCG
1 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
* * * *
2897645 TTGGCCTTGAATCAGCGTATTAGCATCTTTAACAT-
66 CTGGCCTTGAATCAGCATATTAGCACCTTCAACATC
* ** * ** *
2897680 TCCTAAGCCCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA--TT-ATTCTTCAAGTCTGATGT
1 T-CTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA-TCTTTAAGTCCAATAT
*
2897742 CGCTGGCCATGAATCAGCA
64 CGCTGGCCTTGAATCAGCA
2897761 CATTGTCATT
Statistics
Matches: 228, Mismatches: 42, Indels: 16
0.80 0.15 0.06
Matches are distributed among these distances:
91 35 0.15
95 1 0.00
97 6 0.03
98 32 0.14
99 29 0.13
100 1 0.00
101 124 0.54
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (101 bp):
TCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
CTGGCCTTGAATCAGCATATTAGCACCTTCAACATC
Found at i:2906678 original size:20 final size:20
Alignment explanation
Indices: 2906653--2906727 Score: 150
Period size: 20 Copynumber: 3.8 Consensus size: 20
2906643 TTACAGGCCA
2906653 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATTTTGGG
2906673 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATTTTGGG
2906693 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATTTTGGG
2906713 ATGTATCGATACATT
1 ATGTATCGATACATT
2906728 GTATCGATAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTGGG
Found at i:2906732 original size:13 final size:13
Alignment explanation
Indices: 2906714--2906739 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2906704 CATTTTGGGA
2906714 TGTATCGATACAT
1 TGTATCGATACAT
2906727 TGTATCGATACAT
1 TGTATCGATACAT
2906740 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2906736 original size:33 final size:32
Alignment explanation
Indices: 2906694--2906757 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
2906684 CATTTTGGGA
*
2906694 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
*
2906727 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
2906758 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:2906835 original size:20 final size:21
Alignment explanation
Indices: 2906788--2906842 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
2906778 GCCAATGACC
*
2906788 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
2906809 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
2906829 TGTATCGATACATT
1 TGTATCGATACATT
2906843 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:2913696 original size:24 final size:24
Alignment explanation
Indices: 2913665--2913767 Score: 90
Period size: 24 Copynumber: 4.3 Consensus size: 24
2913655 CGTCCTCCAT
2913665 AAAA-AAAAGAAAGAAAAAAACAC
1 AAAACAAAAGAAAGAAAAAAACAC
*
2913688 AAAACAAAACAAAGAAAAAAACA-
1 AAAACAAAAGAAAGAAAAAAACAC
*
2913711 ACAAACAAAA-AAA-AAAAAGAA-AG
1 A-AAACAAAAGAAAGAAAAA-AACAC
* *
2913734 AAAGAAAAAAGAAAGGAAAAAAAAAC
1 AAA-ACAAAAGAAA-GAAAAAAACAC
2913760 AACAACAA
1 AA-AACAA
2913768 CAAAAAGGGT
Statistics
Matches: 66, Mismatches: 4, Indels: 17
0.76 0.05 0.20
Matches are distributed among these distances:
22 8 0.12
23 16 0.24
24 28 0.42
25 2 0.03
26 11 0.17
27 1 0.02
ACGTcount: A:0.82, C:0.10, G:0.09, T:0.00
Consensus pattern (24 bp):
AAAACAAAAGAAAGAAAAAAACAC
Found at i:2913710 original size:17 final size:18
Alignment explanation
Indices: 2913688--2913743 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
2913678 AAAAAAACAC
2913688 AAAACA-AAACAAAGAAA
1 AAAACACAAACAAAGAAA
2913705 AAAACAACAAACAAA-AAA
1 AAAAC-ACAAACAAAGAAA
* * *
2913723 AAAAAAGAAAGAAAGAAA
1 AAAACACAAACAAAGAAA
2913741 AAA
1 AAA
2913744 GAAAGGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
17 12 0.36
18 14 0.42
19 7 0.21
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.00
Consensus pattern (18 bp):
AAAACACAAACAAAGAAA
Found at i:2913721 original size:52 final size:52
Alignment explanation
Indices: 2913665--2913773 Score: 130
Period size: 52 Copynumber: 2.1 Consensus size: 52
2913655 CGTCCTCCAT
* * *
2913665 AAAAAAAAGAAAGAAAAAAACACAAAACAAAACAAAGAAAAA-AACAACAAAC
1 AAAAAAAAAAAAGAAAAAAACAAAAAACAAAACAAAAAAAAACAACAAC-AAC
* * * **
2913717 AAAAAAAAAAAAGAAAGAAAGAAAAAAGAAAGGAAAAAAAAACAACAACAAC
1 AAAAAAAAAAAAGAAAAAAACAAAAAACAAAACAAAAAAAAACAACAACAAC
2913769 AAAAA
1 AAAAA
2913774 GGGTCCGGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
52 42 0.88
53 6 0.12
ACGTcount: A:0.82, C:0.10, G:0.08, T:0.00
Consensus pattern (52 bp):
AAAAAAAAAAAAGAAAAAAACAAAAAACAAAACAAAAAAAAACAACAACAAC
Found at i:2913741 original size:15 final size:14
Alignment explanation
Indices: 2913665--2913758 Score: 86
Period size: 14 Copynumber: 6.6 Consensus size: 14
2913655 CGTCCTCCAT
2913665 AAAAAAAAGAAAGA
1 AAAAAAAAGAAAGA
* *
2913679 AAAAAACACAAA-A
1 AAAAAAAAGAAAGA
*
2913692 CAAAACAAAGAAA-A
1 -AAAAAAAAGAAAGA
*
2913706 AAACAACAAACAAA-A
1 AAA-AA-AAAGAAAGA
2913721 AAAAAAAAGAAAGA
1 AAAAAAAAGAAAGA
2913735 AAGAAAAAAGAAAGGA
1 AA-AAAAAAGAAA-GA
2913751 AAAAAAAA
1 AAAAAAAA
2913759 CAACAACAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
13 10 0.15
14 26 0.39
15 26 0.39
16 4 0.06
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAGA
Found at i:2913753 original size:28 final size:27
Alignment explanation
Indices: 2913665--2913758 Score: 100
Period size: 28 Copynumber: 3.3 Consensus size: 27
2913655 CGTCCTCCAT
*
2913665 AAAAAAAAGAAAGAAAAAAACACAAAA
1 AAAAAAAAGAAAGAAAAAAAAACAAAA
*
2913692 CAAAACAAAGAAA-AAAACAACAAACAAAA
1 -AAAAAAAAGAAAGAAAA-AA-AAACAAAA
*
2913721 AAAAAAAAGAAAGAAAGAAAAAAGAAAGGA
1 AAAAAAAAGAAAGAAA-AAAAAACAAA--A
2913751 AAAAAAAA
1 AAAAAAAA
2913759 CAACAACAAC
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
27 4 0.07
28 30 0.54
29 12 0.21
30 10 0.18
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (27 bp):
AAAAAAAAGAAAGAAAAAAAAACAAAA
Found at i:2915736 original size:13 final size:13
Alignment explanation
Indices: 2915718--2915742 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2915708 CATTTTATGG
2915718 TGTATCGATACAA
1 TGTATCGATACAA
2915731 TGTATCGATACA
1 TGTATCGATACA
2915743 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2915758 original size:32 final size:33
Alignment explanation
Indices: 2915695--2915762 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
2915685 CGTTACAAGC
**
2915695 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
2915728 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
2915760 CAA
1 CAA
2915763 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:2915844 original size:20 final size:21
Alignment explanation
Indices: 2915794--2915846 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
2915784 GCCAATGACC
**
2915794 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
* *
2915815 AGTATTGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
2915835 TGTATCGATACA
1 TGTATCGATACA
2915847 ATGTATCGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:2915852 original size:13 final size:13
Alignment explanation
Indices: 2915834--2915858 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2915824 ACATTTGGTC
2915834 ATGTATCGATACA
1 ATGTATCGATACA
2915847 ATGTATCGATAC
1 ATGTATCGATAC
2915859 TGTGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2916471 original size:28 final size:28
Alignment explanation
Indices: 2916426--2916715 Score: 328
Period size: 28 Copynumber: 10.1 Consensus size: 28
2916416 TCCTCACCTT
* * *
2916426 TTCAAAAGCTCACTAGTCAGTGGCAGCC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
2916454 TTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
*
2916482 TTCAAAAGCCCACAAGTCAGTGGCACCC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
* *
2916510 TTTTCCAAAGCCCACAAGTCAGTGGCATCC
1 --TTCAAAAGCCCACAAGTCAGTGGCAACC
*
2916540 TTTCCAAAGCCCACAAGTCAGTGGCAACC
1 -TTCAAAAGCCCACAAGTCAGTGGCAACC
* * *
2916569 TTCAAAAGCCCACAAGTTAGTGGCATCT
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
*
2916597 TCTCCAAAGCCCACAAGTCAGTGGCAACC
1 T-TCAAAAGCCCACAAGTCAGTGGCAACC
* *
2916626 TTCAAAAGCCCACAAGTCAGCGGCACCC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
* * * * *
2916654 TTTTCCAAAGCCCACAAGTTAGTGGTATCTT
1 --TTCAAAAGCCCACAAGTCAGTGGCAAC-C
* * *
2916685 TTCAAAAGCACACAAGTCAATGGCAATC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
2916713 TTC
1 TTC
2916716 TGCATTTTCC
Statistics
Matches: 224, Mismatches: 32, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
28 104 0.46
29 72 0.32
30 48 0.21
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.20
Consensus pattern (28 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACC
Found at i:2916567 original size:87 final size:85
Alignment explanation
Indices: 2916420--2916715 Score: 394
Period size: 87 Copynumber: 3.4 Consensus size: 85
2916410 AGACATTCCT
* * *
2916420 CACCTTTTCAAAAGCTCACTAGTCAGTGGCAGCCTTCAAAAGCCCACAAGTCAGTGGCAACCTTC
1 CACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTC
*
2916485 AAAAGCCCACAAGTCAGTGG
66 AAAAGCCCACAAGTTAGTGG
* * *
2916505 CACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCT
1 CA-CCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-TTCAAAAGCCCACAAGTCAGTGGCAACCT
2916570 TCAAAAGCCCACAAGTTAGTGG
64 TCAAAAGCCCACAAGTTAGTGG
* * * * *
2916592 CATCTTCTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACCCTTT
1 CACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACC--T
*
2916657 TCCAAAGCCCACAAGTTAGTGG
64 TCAAAAGCCCACAAGTTAGTGG
* * * * *
2916679 TATCTTTTCAAAAGCACACAAGTCAATGGCAATCTTC
1 CACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTC
2916716 TGCATTTTCC
Statistics
Matches: 188, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
85 27 0.14
86 57 0.30
87 104 0.55
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (85 bp):
CACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTC
AAAAGCCCACAAGTTAGTGG
Found at i:2922735 original size:13 final size:13
Alignment explanation
Indices: 2922717--2922741 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2922707 CATTTTATGG
2922717 TGTATCGATACAA
1 TGTATCGATACAA
2922730 TGTATCGATACA
1 TGTATCGATACA
2922742 TACTATGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2922757 original size:32 final size:33
Alignment explanation
Indices: 2922694--2922761 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
2922684 CGTTACAAGC
**
2922694 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
2922727 CAATGTATCGATACATACTAT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
2922759 CAA
1 CAA
2922762 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:2938328 original size:15 final size:14
Alignment explanation
Indices: 2938308--2938401 Score: 82
Period size: 15 Copynumber: 6.4 Consensus size: 14
2938298 CGTCCTCCAT
2938308 AAAAAAGAAAGAAA
1 AAAAAAGAAAGAAA
* *
2938322 GAAAAAA-ACACAAA
1 -AAAAAAGAAAGAAA
* *
2938336 ACAAAACAAAGAAA
1 AAAAAAGAAAGAAA
* *
2938350 AAAACAATAAACAAAA
1 AAAA-AAGAAA-GAAA
2938366 AAAAAAGAAAGAAA
1 AAAAAAGAAAGAAA
2938380 GAAAAAAGAAAGGAAA
1 -AAAAAAGAAA-GAAA
2938396 AAAAAA
1 AAAAAA
2938402 CAACAACAAC
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
13 5 0.08
14 16 0.25
15 32 0.50
16 11 0.17
ACGTcount: A:0.82, C:0.06, G:0.11, T:0.01
Consensus pattern (14 bp):
AAAAAAGAAAGAAA
Found at i:2938346 original size:24 final size:24
Alignment explanation
Indices: 2938319--2938365 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
2938309 AAAAAGAAAG
2938319 AAAGAAAAAAACACA-AAACAAAAC
1 AAAGAAAAAAACA-ATAAACAAAAC
2938343 AAAGAAAAAAACAATAAACAAAA
1 AAAGAAAAAAACAATAAACAAAA
2938366 AAAAAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.81, C:0.13, G:0.04, T:0.02
Consensus pattern (24 bp):
AAAGAAAAAAACAATAAACAAAAC
Found at i:2939870 original size:28 final size:28
Alignment explanation
Indices: 2939833--2940162 Score: 365
Period size: 28 Copynumber: 11.5 Consensus size: 28
2939823 TCCTCACCTT
2939833 TTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
*
2939861 TTCAAAAGCCCACAAGTCAGTGGCACCC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
* *
2939889 TTCAAAAGCCGACAAGTCAGTGGCACCC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
* *
2939917 TTTTCCAAAGCCCACAAGTCAGTGGCATCC
1 --TTCAAAAGCCCACAAGTCAGTGGCAACC
* * *
2939947 TTTCCAAAGCCCACAAGTCAATGGCTACC
1 -TTCAAAAGCCCACAAGTCAGTGGCAACC
* *
2939976 TTCAAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-C
*
2940005 TTCCAAAGCCCACAAGTCAGTGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
* * *
2940033 TTGAAAAGCCCACAAGTCAGCGGCACCC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
* * * **
2940061 TTTTCCAAAGCCCACAAGTTAGTGGTATATT
1 --TTCAAAAGCCCACAAGTCAGTGGCA-ACC
*
2940092 TTCAAAAGCCCAAAAGTCAGTGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
* **
2940120 TTCAAAAGCACACAAGTTGGT-GCAACCC
1 TTCAAAAGCCCACAAGTCAGTGGCAA-CC
2940148 TTTCAAAAGCCCACA
1 -TTCAAAAGCCCACA
2940163 CAAGTTGGTG
Statistics
Matches: 255, Mismatches: 39, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
27 4 0.02
28 121 0.47
29 85 0.33
30 45 0.18
ACGTcount: A:0.33, C:0.31, G:0.17, T:0.19
Consensus pattern (28 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACC
Found at i:2939991 original size:87 final size:85
Alignment explanation
Indices: 2939827--2940162 Score: 433
Period size: 87 Copynumber: 3.9 Consensus size: 85
2939817 AGACATTCCT
2939827 CACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTC
1 CACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTC
*
2939892 AAAAGCCGACAAGTCAGTGG
66 AAAAGCCCACAAGTCAGTGG
* * * *
2939912 CACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCCTTTCCAAAGCCCACAAGTCAATGGCTA-CC
1 CA-CCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-TTCAAAAGCCCACAAGTCAGTGGC-ACCC
2939976 TTCAAAAGCCCACAAGTCAGTGG
63 TTCAAAAGCCCACAAGTCAGTGG
* * * *
2939999 CATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTGAAAAGCCCACAAGTCAGCGGCACCCTTT
1 CACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCC--T
* *
2940064 TCCAAAGCCCACAAGTTAGTGG
64 TCAAAAGCCCACAAGTCAGTGG
* ** * * **
2940086 TATATTTTCAAAAGCCCAAAAGTCAGTGGCAACCTTCAAAAGCACACAAGTTGGT-GCAACCCTT
1 CACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGC-ACCC-T
2940150 TCAAAAGCCCACA
64 TCAAAAGCCCACA
2940163 CAAGTTGGTG
Statistics
Matches: 221, Mismatches: 23, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
84 1 0.00
85 24 0.11
86 76 0.34
87 119 0.54
88 1 0.00
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.19
Consensus pattern (85 bp):
CACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTC
AAAAGCCCACAAGTCAGTGG
Found at i:2940100 original size:144 final size:143
Alignment explanation
Indices: 2939833--2940162 Score: 464
Period size: 144 Copynumber: 2.3 Consensus size: 143
2939823 TCCTCACCTT
*
2939833 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTCAAAAGC
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGC
* * * * *
2939898 CGACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCCTTTCCAAAGCCCACAA
66 CCACAAGTCAGCGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATACTTTCAAAAGCCCAAAA
*
2939963 GTCAATGGCTACC
131 GTCAATGGCAACC
* * * *
2939976 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTGAAAAG
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
* * *
2940041 CCCACAAGTCAGCGGCACCCTTTTCCAAAGCCCACAAGTTAGTGGTATATTTTCAAAAGCCCAAA
65 CCCACAAGTCAGCGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATACTTTCAAAAGCCCAAA
*
2940106 AGTCAGTGGCAACC
130 AGTCAATGGCAACC
* **
2940120 TTCAAAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCCACA
1 TTCAAAAGCCCACAAGTCAGTGGCAA-CC-TTCAAAAGCCCACA
2940163 CAAGTTGGTG
Statistics
Matches: 163, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
143 29 0.18
144 134 0.82
ACGTcount: A:0.33, C:0.31, G:0.17, T:0.19
Consensus pattern (143 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGC
CCACAAGTCAGCGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATACTTTCAAAAGCCCAAAA
GTCAATGGCAACC
Found at i:2940303 original size:49 final size:49
Alignment explanation
Indices: 2940231--2940591 Score: 316
Period size: 49 Copynumber: 7.2 Consensus size: 49
2940221 CACCTTTAAA
* *
2940231 CCAATGTCACTAGCCTTGAATCAGCACATTGGCATCTTCATCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTCAAGT
* * *
2940280 CCAATGTCGCTGGCCTTGAATCAGCACATCGGCACCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTCAAGT
* * * * * **
2940329 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCACATT-G-G-CATCTTCATCTTCAAGT
* *
2940381 CCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCATCCTT-AAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT-CTTCAAGT
* * ** * * *
2940430 CCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATTCCTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATC-TT-C-AAGT
* **
2940482 CCAATGTCGATGGCCTTGTCTCAGCACATTGGCA--TT-ATTCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA-TCTTCAAGT
** * * * *
2940529 CTGATGTCGCTGGCCATGAATCAGCACATTGTCATTCTTTACATCTTCGAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TC-TT-CATCTTCAAGT
*
2940581 CCAATATCGCT
1 CCAATGTCGCT
2940592 AGCCACGTAT
Statistics
Matches: 247, Mismatches: 50, Indels: 27
0.76 0.15 0.08
Matches are distributed among these distances:
47 30 0.12
48 2 0.01
49 117 0.47
50 8 0.03
51 4 0.02
52 85 0.34
53 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (49 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTCAAGT
Found at i:2940486 original size:101 final size:101
Alignment explanation
Indices: 2940183--2940559 Score: 359
Period size: 101 Copynumber: 3.9 Consensus size: 101
2940173 GCATCTTCTT
* * * * * *
2940183 CTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--C-T--TTAA-ACCAATGTCAC
1 CTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGC
* *
2940241 TAGCCTTGAATCAGCACATTGGCATCTTCATC-TT-
66 TGGCCTTGAATCAGCATATTGGCATCTTCATCATTC
* * *
2940275 C-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATCGGCACCTTCATCTTTAAGTCCAATATCGC
1 CTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGC
** *
2940339 TGGCCTTGAATCAGCATATTGGCGCCTTCGTCA-TC
66 TGGCCTTGAATCAGCATATTGGCATCTTCATCATTC
* * *
2940374 TTTAAAACCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCATCCTTAAGTCCAATATCG
1 -CTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCG
* * * *
2940439 TTGGCCTTGAATCAGCGTATTGGCATCTTTAACATTC
65 CTGGCCTTGAATCAGCATATTGGCATCTTCATCATTC
* * ** * ** *
2940476 CTAAGCCCAATGTCGATGGCCTTGTCTCAGCACATTGGCA--TT-ATTCTTCAAGTCTGATGTCG
1 CTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTT-AAGTCCAATATCG
* *
2940538 CTGGCCATGAATCAGCACATTG
65 CTGGCCTTGAATCAGCATATTG
2940560 TCATTCTTTA
Statistics
Matches: 233, Mismatches: 39, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
91 35 0.15
92 2 0.01
94 1 0.00
95 1 0.00
97 4 0.02
98 41 0.18
99 30 0.13
101 117 0.50
102 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (101 bp):
CTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGC
TGGCCTTGAATCAGCATATTGGCATCTTCATCATTC
Found at i:2947612 original size:11 final size:11
Alignment explanation
Indices: 2947596--2947626 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
2947586 GATGTTATTA
2947596 ATAAATGATCT
1 ATAAATGATCT
2947607 ATAAATGATCT
1 ATAAATGATCT
2947618 ATAAATGAT
1 ATAAATGAT
2947627 GTTATTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (11 bp):
ATAAATGATCT
Found at i:2951841 original size:19 final size:19
Alignment explanation
Indices: 2951783--2951834 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
2951773 TACAAGCCAA
*
2951783 TGTATCGATACATTTTTTTGG
1 TGTATCGATACA--TATTTGG
*
2951804 TGTATCGATACATACTTGG
1 TGTATCGATACATATTTGG
2951823 TGTATCGATACA
1 TGTATCGATACA
2951835 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
21 12 0.41
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATATTTGG
Found at i:2956115 original size:48 final size:46
Alignment explanation
Indices: 2956054--2956148 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 46
2956044 CCTTTTATAA
2956054 AAAAAATCTCCCCCTTAATAAGATAATTTACACACATATCAAAAATTT
1 AAAAAATCTCCCCCTTAATAAGATAATTTACACA-A-ATCAAAAATTT
2956102 AAAAAATCTCCCCCTTAATAAGATAATTTACACAAATCAAAAATTT
1 AAAAAATCTCCCCCTTAATAAGATAATTTACACAAATCAAAAATTT
2956148 A
1 A
2956149 TTTGCACATA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 12 0.26
47 1 0.02
48 34 0.72
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.28
Consensus pattern (46 bp):
AAAAAATCTCCCCCTTAATAAGATAATTTACACAAATCAAAAATTT
Found at i:2957953 original size:13 final size:13
Alignment explanation
Indices: 2957935--2957972 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2957925 ATAACCCCAC
2957935 TGTATCGATACAG
1 TGTATCGATACAG
*
2957948 TGTATCGATACAT
1 TGTATCGATACAG
2957961 TGTATCGATACA
1 TGTATCGATACA
2957973 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2964174 original size:19 final size:19
Alignment explanation
Indices: 2964116--2964167 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
2964106 TACAAGCCAA
*
2964116 TGTATCGATACATTTTTTTGG
1 TGTATCGATACA--TATTTGG
*
2964137 TGTATCGATACATACTTGG
1 TGTATCGATACATATTTGG
2964156 TGTATCGATACA
1 TGTATCGATACA
2964168 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
21 12 0.41
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATATTTGG
Found at i:2967445 original size:15 final size:14
Alignment explanation
Indices: 2967425--2967517 Score: 78
Period size: 14 Copynumber: 6.4 Consensus size: 14
2967415 CATCCTCCAT
*
2967425 AAAAAAAAAGAAAG
1 AAAAAAAAAGAAAA
* *
2967439 AAAAAAACACAAAA
1 AAAAAAAAAGAAAA
* *
2967453 CAAAACAAAGAAAA
1 AAAAAAAAAGAAAA
* *
2967467 AAACAACAAACAAAA
1 AAA-AAAAAAGAAAA
*
2967482 AAAAAGAAAGAAAGA
1 AAAAAAAAAGAAA-A
*
2967497 AAAAAGAAAGGAAAA
1 AAAAA-AAAAGAAAA
2967512 AAAAAA
1 AAAAAA
2967518 CAACAACAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
14 32 0.51
15 25 0.40
16 6 0.10
ACGTcount: A:0.83, C:0.08, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAAAA
Found at i:2967476 original size:20 final size:18
Alignment explanation
Indices: 2967425--2967486 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 18
2967415 CATCCTCCAT
* *
2967425 AAAAAAA-AAGAAAGAAA
1 AAAAAAACAACAAACAAA
2967442 AAAACACAA-AACAAAACAAA
1 AAAA-A-AACAAC-AAACAAA
2967462 GAAAAAAACAACAAACAAA
1 -AAAAAAACAACAAACAAA
2967481 AAAAAA
1 AAAAAA
2967487 GAAAGAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 4 0.11
18 7 0.18
19 13 0.34
20 10 0.26
21 4 0.11
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (18 bp):
AAAAAAACAACAAACAAA
Found at i:2969230 original size:13 final size:13
Alignment explanation
Indices: 2969212--2969236 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2969202 CATTTTATGG
2969212 TGTATCGATACAA
1 TGTATCGATACAA
2969225 TGTATCGATACA
1 TGTATCGATACA
2969237 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2969252 original size:32 final size:33
Alignment explanation
Indices: 2969189--2969256 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
2969179 CGTTACAAGC
**
2969189 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
2969222 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
2969254 CAA
1 CAA
2969257 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:2969335 original size:20 final size:21
Alignment explanation
Indices: 2969288--2969340 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2969278 GCCAATGACC
**
2969288 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
2969309 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
2969329 TGTATCGATACA
1 TGTATCGATACA
2969341 ATGTATCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:2971361 original size:20 final size:21
Alignment explanation
Indices: 2971332--2971373 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
2971322 TGGGGGCTAC
*
2971332 CCGGTTGCGACCTGG-GGGTG
1 CCGGTCGCGACCTGGTGGGTG
2971352 CCGGTCGCGACCTGGTGGGTG
1 CCGGTCGCGACCTGGTGGGTG
2971373 C
1 C
2971374 TGCCTAGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.05, C:0.29, G:0.48, T:0.19
Consensus pattern (21 bp):
CCGGTCGCGACCTGGTGGGTG
Found at i:2978042 original size:13 final size:13
Alignment explanation
Indices: 2978024--2978048 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2978014 CATTTTATGG
2978024 TGTATCGATACAA
1 TGTATCGATACAA
2978037 TGTATCGATACA
1 TGTATCGATACA
2978049 TACTATGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2978064 original size:32 final size:33
Alignment explanation
Indices: 2978001--2978068 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
2977991 CGTTACAAGC
* **
2978001 CAATGTATCTATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
2978034 CAATGTATCGATACATACTAT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
2978066 CAA
1 CAA
2978069 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:2978831 original size:29 final size:29
Alignment explanation
Indices: 2978731--2979033 Score: 350
Period size: 28 Copynumber: 10.5 Consensus size: 29
2978721 TTCCTCACTT
2978731 TTTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
*
2978760 -TTCAAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
* *
2978788 TTTTCCAAAGCCCACAAGTCAGTGGCATCC
1 -TTTCAAAAGCCCACAAGTCAGTGGCAACC
*
2978818 TTTCCAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
* * *
2978847 -TTCAAAAGCCCACAAATTAGTGGC-ATC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
*
2978874 TTCTCCAAAGCCCACAAGTCAGTGGCAACC
1 TT-TCAAAAGCCCACAAGTCAGTGGCAACC
*
2978904 -TTCAAAAGCCCACAAGTCAGCGGC-ACTC
1 TTTCAAAAGCCCACAAGTCAGTGGCAAC-C
* * * * *
2978932 TTTTCCAAAGTCCACAAGTCAGTGGTATCT
1 -TTTCAAAAGCCCACAAGTCAGTGGCAACC
2978962 TTTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCCCACAAGTCAGTGGCAACC
* * **
2978991 -TTCAAAAGCACACGAGTTGGT-GCAACCC
1 TTTCAAAAGCCCACAAGTCAGTGGCAA-CC
2979019 TTTCAAAAGCCCACA
1 TTTCAAAAGCCCACA
2979034 CAAGTTGGTG
Statistics
Matches: 232, Mismatches: 31, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
27 8 0.03
28 90 0.39
29 85 0.37
30 48 0.21
31 1 0.00
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.19
Consensus pattern (29 bp):
TTTCAAAAGCCCACAAGTCAGTGGCAACC
Found at i:2978881 original size:57 final size:56
Alignment explanation
Indices: 2978732--2979033 Score: 345
Period size: 57 Copynumber: 5.2 Consensus size: 56
2978722 TCCTCACTTT
* * * *
2978732 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCC
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTCCAAAGCCCACAAGTCAGTGGCAACC
*
2978788 TTTTCCAAAGCCCACAAGTCAGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACC
1 --TTCAAAAGCCCACAAGTCAGTGGCAT-CTTTCCAAAGCCCACAAGTCAGTGGCAACC
* *
2978847 TTCAAAAGCCCACAAATTAGTGGCATCTTCTCCAAAGCCCACAAGTCAGTGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCATCTT-TCCAAAGCCCACAAGTCAGTGGCAACC
* * * * *
2978904 TTCAAAAGCCCACAAGTCAGCGGCACTCTTTTCCAAAGTCCACAAGTCAGTGGTATCTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-TC-TTTCCAAAGCCCACAAGTCAGTGGCAAC-C
* * * * * **
2978963 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACGAGTTGGT-GCAACCC
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTCCAAAGCCCACAAGTCAGTGGCAA-CC
2979019 TTTCAAAAGCCCACA
1 -TTCAAAAGCCCACA
2979034 CAAGTTGGTG
Statistics
Matches: 210, Mismatches: 27, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
56 5 0.02
57 102 0.49
58 50 0.24
59 53 0.25
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.19
Consensus pattern (56 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCTTTCCAAAGCCCACAAGTCAGTGGCAACC
Found at i:2978929 original size:144 final size:144
Alignment explanation
Indices: 2978736--2978999 Score: 474
Period size: 144 Copynumber: 1.8 Consensus size: 144
2978726 CACTTTTTCA
*
2978736 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCCAAAGCCC
*
2978801 ACAAGTCAGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAATTA
66 ACAAGTCAGTGGCATCCTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAATTA
2978866 GTGGCATCTTCTCC
131 GTGGCATCTTCTCC
* *
2978880 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACTCTTTTCCAAAGTCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCCAAAGCCC
* *
2978945 ACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGC
66 ACAAGTCAGTGGCATCCTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGC
2979000 ACACGAGTTG
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 114 1.00
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.19
Consensus pattern (144 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCCAAAGCCC
ACAAGTCAGTGGCATCCTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAATTA
GTGGCATCTTCTCC
Found at i:2978947 original size:87 final size:85
Alignment explanation
Indices: 2978732--2979033 Score: 392
Period size: 87 Copynumber: 3.5 Consensus size: 85
2978722 TCCTCACTTT
*
2978732 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAA
*
2978797 GCCCACAAGTCAGTGGCATCC
65 GCCCACAAGTCAGTGGCAACC
* * * *
2978818 TTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAATTAGTGGCATCTTCTCCAAA
1 -TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAA
2978883 GCCCACAAGTCAGTGGCAACC
65 GCCCACAAGTCAGTGGCAACC
* * * * *
2978904 TTCAAAAGCCCACAAGTCAGCGGC-ACTCTTTTCCAAAGTCCACAAGTCAGTGGTATCTTTTCAA
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-C--TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCA
2978968 AAGCCCACAAGTCAGTGGCAACC
63 AAGCCCACAAGTCAGTGGCAACC
* * **
2978991 TTCAAAAGCACACGAGTTGGT-GCAACCCTTTCAAAAGCCCACA
1 TTCAAAAGCCCACAAGTCAGTGGCAA-CC-TTCAAAAGCCCACA
2979034 CAAGTTGGTG
Statistics
Matches: 188, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
84 2 0.01
85 23 0.12
86 44 0.23
87 118 0.63
88 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.19
Consensus pattern (85 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAG
CCCACAAGTCAGTGGCAACC
Found at i:2979015 original size:27 final size:30
Alignment explanation
Indices: 2978962--2979043 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 30
2978952 AGTGGTATCT
**
2978962 TTTCAAAAGCC-CACAAGTCAGTGGCAA-CC
1 TTTCAAAAGCCACACAAGTTGGT-GCAACCC
*
2978991 -TTCAAAAG-CACACGAGTTGGTGCAACCC
1 TTTCAAAAGCCACACAAGTTGGTGCAACCC
2979019 TTTCAAAAGCCCACACAAGTTGGTG
1 TTTCAAAAG-CCACACAAGTTGGTG
2979044 GCATCTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.11
28 18 0.41
29 8 0.18
31 13 0.30
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (30 bp):
TTTCAAAAGCCACACAAGTTGGTGCAACCC
Found at i:2979028 original size:144 final size:143
Alignment explanation
Indices: 2978731--2979033 Score: 464
Period size: 144 Copynumber: 2.1 Consensus size: 143
2978721 TTCCTCACTT
*
2978731 TTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAA
1 TTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCCAA
* *
2978796 AGCCCACAAGTCAGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACA
66 AGCCCACAAGTCAGTGGCATCCTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACA
*
2978861 AATTAGTGGCATC
131 AATTAGTGGCACC
* *
2978874 TTCTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACTCTTTTCCA
1 TT-TCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCCA
* * *
2978939 AAGTCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACAC
65 AAGCCCACAAGTCAGTGGCATCCTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACAC
* * *
2979004 GAGTTGGT-GCAACCC
130 AAATTAGTGGC-A-CC
2979019 TTTCAAAAGCCCACA
1 TTTCAAAAGCCCACA
2979034 CAAGTTGGTG
Statistics
Matches: 144, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
143 4 0.03
144 137 0.95
145 3 0.02
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.19
Consensus pattern (143 bp):
TTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCCAA
AGCCCACAAGTCAGTGGCATCCTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACA
AATTAGTGGCACC
Found at i:2979167 original size:49 final size:49
Alignment explanation
Indices: 2979102--2979428 Score: 338
Period size: 49 Copynumber: 6.6 Consensus size: 49
2979092 CACCTTTAAA
* *
2979102 CCAATGTCACTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* *
2979151 CCAATGTCGCTGGCCTTGAATCAGCACATCGGCACCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * **
2979200 CCAATATCGCTGGCCTTGAATCAGCATATTGGC-TCCTTCGTCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCAT-C-T--TCATCTTTAAGT
* *
2979252 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * * ** * * *
2979301 CCAATATCGTTGGCCTTCAATCAGCGTATTGGCATCTTTAACATTCCTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATC-TT--TAAGT
** *
2979353 CCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA--TT-ATTCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA-TCTTTAAGT
** *
2979400 CTGATGTCGCTGGCCATGAATCAGCACAT
1 CCAATGTCGCTGGCCTTGAATCAGCACAT
2979429 AGTCATTCTT
Statistics
Matches: 228, Mismatches: 41, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
47 27 0.12
49 122 0.54
50 5 0.02
51 1 0.00
52 73 0.32
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (49 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
Found at i:2979274 original size:101 final size:98
Alignment explanation
Indices: 2979114--2979425 Score: 344
Period size: 101 Copynumber: 3.1 Consensus size: 98
2979104 AATGTCACTA
* **
2979114 GCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACA
1 GCCTTGAATCAGCATATTGGCATCTTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACA
*
2979179 TCGGCACCTTCATCTTTAAGTCCAATATCGCTG
66 TCGGCACCTTCATCCTTAAGTCCAATATCGCTG
2979212 GCCTTGAATCAGCATATTGGC-TCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAG
1 GCCTTGAATCAGCATATTGGCAT-C-T--TCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAG
* *
2979276 CACATTGGCACCTTCATCCTTAAGTCCAATATCGTTG
62 CACATCGGCACCTTCATCCTTAAGTCCAATATCGCTG
* * * * ** **
2979313 GCCTTCAATCAGCGTATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTGGCCTTGTCTCAGC
1 GCCTTGAATCAGCATATTGGCATCTTCATC-TT--TAAAACCAATGTCGCTGGCCTTGAATCAGC
* * ** *
2979378 ACATTGGCA--TT-ATTCTTCAAGTCTGATGTCGCTG
63 ACATCGGCACCTTCATCCTT-AAGTCCAATATCGCTG
*
2979412 GCCATGAATCAGCA
1 GCCTTGAATCAGCA
2979426 CATAGTCATT
Statistics
Matches: 183, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
97 1 0.01
98 29 0.16
99 28 0.15
100 1 0.01
101 123 0.67
102 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (98 bp):
GCCTTGAATCAGCATATTGGCATCTTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACA
TCGGCACCTTCATCCTTAAGTCCAATATCGCTG
Found at i:2992628 original size:15 final size:14
Alignment explanation
Indices: 2992610--2992702 Score: 89
Period size: 15 Copynumber: 6.4 Consensus size: 14
2992600 TGTCCTCCAT
2992610 AAAAAAGAAAGAAA
1 AAAAAAGAAAGAAA
* *
2992624 GAAAAAA-ACACAAA
1 -AAAAAAGAAAGAAA
* *
2992638 ACAAAACAAAGAAA
1 AAAAAAGAAAGAAA
* *
2992652 AAAACAATAAACAAA
1 AAAA-AAGAAAGAAA
2992667 AAAAAAGAAAGAAA
1 AAAAAAGAAAGAAA
2992681 GAAAAAAGAAAGGAAA
1 -AAAAAAGAAA-GAAA
2992697 AAAAAA
1 AAAAAA
2992703 CAACAACAAC
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
13 5 0.08
14 21 0.33
15 34 0.53
16 4 0.06
ACGTcount: A:0.82, C:0.06, G:0.11, T:0.01
Consensus pattern (14 bp):
AAAAAAGAAAGAAA
Found at i:2992648 original size:24 final size:25
Alignment explanation
Indices: 2992608--2992676 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 25
2992598 AGTGTCCTCC
2992608 ATAAA-AAAGAAAGAAAGAAAAAAACA
1 ATAAACAAA-AAA-AAAGAAAAAAACA
*
2992634 CA-AAAC-AAAACAAAGAAAAAAACA
1 -ATAAACAAAAAAAAAGAAAAAAACA
2992658 ATAAACAAAAAAAAAGAAA
1 ATAAACAAAAAAAAAGAAA
2992677 GAAAGAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
23 1 0.03
24 17 0.46
25 13 0.35
26 5 0.14
27 1 0.03
ACGTcount: A:0.81, C:0.09, G:0.07, T:0.03
Consensus pattern (25 bp):
ATAAACAAAAAAAAAGAAAAAAACA
Found at i:2994240 original size:87 final size:86
Alignment explanation
Indices: 2994133--2994424 Score: 399
Period size: 87 Copynumber: 3.3 Consensus size: 86
2994123 TTCCTCACCT
* * *
2994133 TTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCCTCTCCA
1 TTTCAAAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAACCT-TCAA
2994198 AAGCCCACAAGTCAGTGGCAACC
64 AAGCCCACAAGTCAGTGGCAACC
2994221 -TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAA
1 TTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAA
* *
2994285 GCCCACAAGTCAGCGGCACCC
66 GCCCACAAGTCAGTGGCAACC
* * *
2994306 TTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAA
1 -TTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAA
* **
2994371 AGCACACAAGTTGGT-GCAACCC
65 AGCCCACAAGTCAGTGGCAA-CC
**
2994393 TTTCAAAAGCCGGCACAAGTTGGTGGCATCTT
1 TTTCAAAAGCC--CACAAGTCAGTGGCATCTT
2994425 CTTCTAAGTC
Statistics
Matches: 182, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
85 24 0.13
86 44 0.24
87 98 0.54
88 16 0.09
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (86 bp):
TTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAA
GCCCACAAGTCAGTGGCAACC
Found at i:2994245 original size:57 final size:57
Alignment explanation
Indices: 2994133--2994422 Score: 341
Period size: 57 Copynumber: 5.0 Consensus size: 57
2994123 TTCCTCACCT
* * *
2994133 TTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCCAAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCCCACAAGTCAGTGGCATCC
* *
2994192 TCTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCT
1 TTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCC
* *
2994249 TTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACCC
1 TTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCC
* * * *
2994306 TTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCAACC
1 -TTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCATCC
* * ** **
2994365 -TTCAAAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCGGCACAAGTTGGTGGCATC
1 TTTCCAAAGCCCACAAGTCAGTGGCAA-CC-TTCAAAAGCC--CACAAGTCAGTGGCATC
2994423 TTCTTCTAAG
Statistics
Matches: 201, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
56 2 0.01
57 107 0.53
58 26 0.13
59 66 0.33
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.19
Consensus pattern (57 bp):
TTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCC
Found at i:2994402 original size:144 final size:145
Alignment explanation
Indices: 2994134--2994412 Score: 427
Period size: 144 Copynumber: 1.9 Consensus size: 145
2994124 TCCTCACCTT
* *
2994134 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCCTCTCCAA
1 TTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCCTCTCAAA
* * * *
2994199 AGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCC-CAC
66 AGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAGTCAGTGGCACCCTTTCAAAAGCCGCAC
2994263 AAGTCAGTGGCAACC
131 AAGTCAGTGGCAACC
* * *
2994278 TTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAA
1 TTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCCTCTCAAA
**
2994343 AGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCGGC
66 AGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAGTCAGTGGC-ACCCTTTCAAAAGCC-GC
2994407 ACAAGT
129 ACAAGT
2994413 TGGTGGCATC
Statistics
Matches: 121, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
143 2 0.02
144 112 0.93
146 7 0.06
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.19
Consensus pattern (145 bp):
TTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCCTCTCAAA
AGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAGTCAGTGGCACCCTTTCAAAAGCCGCAC
AAGTCAGTGGCAACC
Found at i:2994413 original size:31 final size:28
Alignment explanation
Indices: 2994133--2994417 Score: 155
Period size: 29 Copynumber: 9.8 Consensus size: 28
2994123 TTCCTCACCT
** *
2994133 TTTCAAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAAGCCCACAAGTTGGT-GCAACC
* ** *
2994162 TTTTCCAAAGCCCACAAGTCAGTGGCATCC
1 -TTTCAAAAGCCCACAAGTTGGT-GCAACC
* * **
2994192 TCTCCAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCCCACAAGTTGGT-GCAACC
** * *
2994221 -TTCAAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAAGCCCACAAGTTGGT-GCAACC
* **
2994249 TTTCCAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCCCACAAGTTGGT-GCAACC
* *
2994278 -TTCAAAAGCCCACAAGTCAGCG-GCACCC
1 TTTCAAAAGCCCACAAGT-TG-GTGCAACC
* ** * * *
2994306 TTTTCCAAAGCCCACAAGTCAGTGGTATCT
1 -TTTCAAAAGCCCACAAGTTGGT-GCAACC
**
2994336 TTTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCCCACAAGTTGGT-GCAACC
*
2994365 -TTCAAAAGCACACAAGTTGGTGCAACCC
1 TTTCAAAAGCCCACAAGTTGGTGCAA-CC
2994393 TTTCAAAAGCCGGCACAAGTTGGTG
1 TTTCAAAAGCC--CACAAGTTGGTG
2994418 GCATCTTCTT
Statistics
Matches: 215, Mismatches: 29, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
27 4 0.02
28 66 0.31
29 86 0.40
30 47 0.22
31 12 0.06
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.19
Consensus pattern (28 bp):
TTTCAAAAGCCCACAAGTTGGTGCAACC
Found at i:2994551 original size:49 final size:49
Alignment explanation
Indices: 2994476--2994814 Score: 310
Period size: 49 Copynumber: 6.8 Consensus size: 49
2994466 CACCTTTAAA
* *
2994476 CCAATGTCACTAGCCTTGAATCAGCACATTGGCATCTTCATCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTCAAGT
* * * * *
2994525 CCAATGTCGCTGGCCTTGAATTAGCACATCGGCACCTTTATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTCAAGT
* * * * * **
2994574 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCACATT-G-G-CATCTTCATCTTCAAGT
*
2994626 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTT-AAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT-CTTCAAGT
* * ** * * *
2994675 CCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATTCCTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATC-TT-C-AAGT
*
2994727 CCAATGTCGCTGGCCTT-ATCTCAGCACATTGGCA--TT-ATTCTTCAAGT
1 CCAATGTCGCTGGCCTTGA-ATCAGCACATTGGCATCTTCA-TCTTCAAGT
** * *
2994774 CTGATGTCGCTGGCCATGAATCAGCACATTGTCATTCTTCA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTTCA
2994815 CATCTTCGAG
Statistics
Matches: 231, Mismatches: 44, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
47 30 0.13
48 3 0.01
49 115 0.50
50 10 0.04
51 4 0.02
52 69 0.30
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTCAAGT
Found at i:2994731 original size:101 final size:101
Alignment explanation
Indices: 2994488--2994814 Score: 346
Period size: 101 Copynumber: 3.3 Consensus size: 101
2994478 AATGTCACTA
* * *
2994488 GCCTTGAATCAGCACATTGGCATCTTCATC-TT-C-AAGTCCAATGTCGCTGGCCTTGAATTAGC
1 GCCTTGAATCAGCATATTGGCATCTTCATCATTCCTAAGACCAATGTCGCTGGCCTTGAATCAGC
* * *
2994550 ACATCGGCACCTTTATCTTTAAGTCCAATATCGCTG
66 ACATTGGCACCTTCATCCTTAAGTCCAATATCGCTG
** * * *
2994586 GCCTTGAATCAGCATATTGGCGCCTTCGTCA-TCTTTAAAACCAATGTCGCTGGCCTTGAATCAG
1 GCCTTGAATCAGCATATTGGCATCTTCATCATTC-CTAAGACCAATGTCGCTGGCCTTGAATCAG
*
2994650 CACATTGGCACCTTCATCCTTAAGTCCAATATCGTTG
65 CACATTGGCACCTTCATCCTTAAGTCCAATATCGCTG
* * * * *
2994687 GCCTTGAATCAGCGTATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTGGCCTT-ATCTCAG
1 GCCTTGAATCAGCATATTGGCATCTTCATCATTCCTAAGACCAATGTCGCTGGCCTTGA-ATCAG
* ** *
2994751 CACATTGGCA--TT-ATTCTTCAAGTCTGATGTCGCTG
65 CACATTGGCACCTTCATCCTT-AAGTCCAATATCGCTG
* * *
2994786 GCCATGAATCAGCACATTGTCATTCTTCA
1 GCCTTGAATCAGCATATTGGCA-TCTTCA
2994815 CATCTTCGAG
Statistics
Matches: 189, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
98 32 0.17
99 32 0.17
100 6 0.03
101 117 0.62
102 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (101 bp):
GCCTTGAATCAGCATATTGGCATCTTCATCATTCCTAAGACCAATGTCGCTGGCCTTGAATCAGC
ACATTGGCACCTTCATCCTTAAGTCCAATATCGCTG
Found at i:3003307 original size:13 final size:13
Alignment explanation
Indices: 3003289--3003314 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3003279 CATTTTGGGA
3003289 TGTATCGATACAT
1 TGTATCGATACAT
3003302 TGTATCGATACAT
1 TGTATCGATACAT
3003315 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3003311 original size:33 final size:32
Alignment explanation
Indices: 3003269--3003332 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
3003259 TACACGCCAA
*
3003269 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
*
3003302 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
3003333 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:3003418 original size:20 final size:21
Alignment explanation
Indices: 3003374--3003425 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
3003364 GCCAATGACC
*
3003374 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
3003395 TGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
3003415 TGTATCGATAC
1 TGTATCGATAC
3003426 TGTGCAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:3010244 original size:14 final size:13
Alignment explanation
Indices: 3010211--3010244 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
3010201 GTCCTCCATA
3010211 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
3010224 AAGAAAAAAGAAAG
1 AA-AAAAAAGAAAG
*
3010238 GAAAAAA
1 AAAAAAA
3010245 TAAACAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:3011746 original size:28 final size:28
Alignment explanation
Indices: 3011695--3012022 Score: 369
Period size: 28 Copynumber: 11.5 Consensus size: 28
3011685 TCCTCACCTT
3011695 TTCAAAAGCCCA-AAGTCAGTGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
3011722 TTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
3011750 TTCAAAAGCCCACAAGTCAGTGGC-ACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
* * *
3011777 TTTTTCCAAAGCCCACAAGTCAGTGGTATCC
1 ---TTCAAAAGCCCACAAGTCAGTGGCAACC
* *
3011808 TTTCCAAAGCCCACAAGTTAGTGGCAACC
1 -TTCAAAAGCCCACAAGTCAGTGGCAACC
* *
3011837 TTCAAAAGCCCACAAGACAGTGGCATA-T
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACC
*
3011865 TCTCCAAAGCCCACAAGTCAGTGGCAACC
1 T-TCAAAAGCCCACAAGTCAGTGGCAACC
*
3011894 TTCAAAAGCCCACAAGTCAGCGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
* * * * *
3011922 TTTTC-CAAGCCCACAAGACAGTGGTATCTT
1 --TTCAAAAGCCCACAAGTCAGTGGCAAC-C
3011952 TTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
* **
3011980 TTCAAAAGCACACAAGTTGGT-GCAACCC
1 TTCAAAAGCCCACAAGTCAGTGGCAA-CC
3012008 TTTCAAAAGCCCACA
1 -TTCAAAAGCCCACA
3012023 CAAGTTGGTG
Statistics
Matches: 257, Mismatches: 30, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
27 19 0.07
28 111 0.43
29 100 0.39
30 25 0.10
31 2 0.01
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.18
Consensus pattern (28 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACC
Found at i:3011871 original size:57 final size:56
Alignment explanation
Indices: 3011699--3012022 Score: 320
Period size: 57 Copynumber: 5.7 Consensus size: 56
3011689 CACCTTTTCA
* *
3011699 AAAGCCCA-AAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAA-CCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAATTC-TCC
* * *
3011754 AAAGCCCACAAGTCAGTGGC-ACCTTTTTCCAAAGCCCACAAGTCAGTGG-TATCCTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC---TTCAAAAGCCCACAAGTCAGTGGCAAT--TCTCC
* *
3011813 AAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCCCACAAGACAGTGGCATATTCTCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCA-ATTCTCC
* *
3011870 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCAACCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAA--TTCTCC
* * * * * *
3011928 -AAGCCCACAAGACAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCAA-CCTTCA
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCAATTC-TCC
* **
3011984 AAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCCACA
1 AAAGCCCACAAGTCAGTGGCAA-CC-TTCAAAAGCCCACA
3012023 CAAGTTGGTG
Statistics
Matches: 223, Mismatches: 29, Indels: 32
0.79 0.10 0.11
Matches are distributed among these distances:
55 11 0.05
56 16 0.07
57 118 0.53
58 52 0.23
59 23 0.10
60 3 0.01
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.18
Consensus pattern (56 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAATTCTCC
Found at i:3011937 original size:86 final size:84
Alignment explanation
Indices: 3011693--3012022 Score: 432
Period size: 86 Copynumber: 3.9 Consensus size: 84
3011683 ATTCCTCACC
*
3011693 TTTTCAAAAGCCCA-AAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAA
1 TTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAA
*
3011757 GCCCACAAGTCAGTGGCACCT
66 GCCCACAAGACAGTGGCA--T
* * * *
3011778 TTTTCCAAAGCCCACAAGTCAGTGGTATCCTTTCCAAAGCCCACAAGTTAGTGGCAACCTTCAAA
1 TTTTCCAAAGCCCACAAGTCAGTGGCAACC-TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAA
3011843 AGCCCACAAGACAGTGGCAT
65 AGCCCACAAGACAGTGGCAT
* *
3011863 ATTCTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCAACCTTTTC-
1 -TTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACC--TTCA
* *
3011927 CAAGCCCACAAGACAGTGGTAT
63 AAAGCCCACAAGACAGTGGCAT
* * **
3011949 CTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAGTTGGT-GCAACCCTTTCA
1 -TTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAA-CC-TTCA
3012013 AAAGCCCACA
63 AAAGCCCACA
3012023 CAAGTTGGTG
Statistics
Matches: 216, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
85 47 0.22
86 116 0.54
87 53 0.25
ACGTcount: A:0.33, C:0.31, G:0.17, T:0.19
Consensus pattern (84 bp):
TTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAA
GCCCACAAGACAGTGGCAT
Found at i:3012154 original size:48 final size:49
Alignment explanation
Indices: 3012090--3012426 Score: 281
Period size: 48 Copynumber: 6.8 Consensus size: 49
3012080 CACCTTTAAA
* * *
3012090 CCAATGTCACTAGCCTTAAATCAGCACATTGGCATCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* *
3012139 CCAATGTCGCT-GCCTTGAATCAGCACATCGGCACCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * * * * **
3012187 CCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTCATCATCTTTAAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCACATT-G-G-CATCTTCATCTTT-AAGT
* *
3012240 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCTATCCTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTC-ATCTTTAAGT
* * ** * * *
3012290 CCAATATCGTTGGCC-TGAATCAGCGTATTGGCATCTTTAACATTCCTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATC-TT--TAAGT
** *
3012341 CCAATGTCGCTGGCC-TGTCTCAGCACATTGGCA--TT-ATTCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA-TCTTTAAGT
** * * *
3012387 CTGATGTCGCTGGACATGAATCAGCACATTGTCATTCTTC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTTC
3012427 GCATCTTCAA
Statistics
Matches: 228, Mismatches: 45, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
46 15 0.07
47 15 0.07
48 49 0.21
49 49 0.21
50 22 0.10
51 38 0.17
52 11 0.05
53 29 0.13
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (49 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
Found at i:3012225 original size:49 final size:49
Alignment explanation
Indices: 3012090--3012417 Score: 272
Period size: 49 Copynumber: 6.6 Consensus size: 49
3012080 CACCTTTAAA
* * *
3012090 CCAATGTCACTAGCCTTAAATCAGCACATTGGCATCTTCATCTTTAAGT
1 CCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
*
3012139 CCAATGTCGCT-GCCTTGAATCAGCACATCGGCACCTTCATCTTTAAGT
1 CCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * **
3012187 CCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTCATCATCTTTAAAAA
1 CCAATGTCGCTAGCCTTGAATCAGCACATTGGCACC-T--TCATCTTT-AAGT
* *
3012240 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCTATCCTTAAGT
1 CCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTC-ATCTTTAAGT
* * * ** * * * *
3012290 CCAATATCGTTGGCC-TGAATCAGCGTATTGGCATCTTTAACATTCCTAAGC
1 CCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATC-TT--TAAGT
* ** *
3012341 CCAATGTCGCTGGCC-TGTCTCAGCACATTGGCA--TT-ATTCTTCAAGT
1 CCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCA-TCTTTAAGT
** * * *
3012387 CTGATGTCGCTGGACATGAATCAGCACATTG
1 CCAATGTCGCTAGCCTTGAATCAGCACATTG
3012418 TCATTCTTCG
Statistics
Matches: 228, Mismatches: 40, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
46 15 0.07
47 13 0.06
48 49 0.21
49 54 0.24
50 18 0.08
51 36 0.16
52 9 0.04
53 34 0.15
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.30
Consensus pattern (49 bp):
CCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
Found at i:3012309 original size:102 final size:101
Alignment explanation
Indices: 3012139--3012321 Score: 296
Period size: 102 Copynumber: 1.8 Consensus size: 101
3012129 ATCTTTAAGT
*
3012139 CCAATGTCGCTGCCTTGAATCAGCACATCGGCACCTTCATCTTTAAGTCCAATATCGCTAGCCTT
1 CCAATGTCGCTGCCTTGAATCAGCACATCGGCACCTTCATCCTTAAGTCCAATATCGCTAGCCTT
3012204 GAATCAGCATATTGGCGCCTTCATCATCTTTAAAAA
66 GAATCAGCATATTGGCGCCTTCATCATCTTTAAAAA
* * *
3012240 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCTATCCTTAAGTCCAATATCGTTGGCC
1 CCAATGTCGCT-GCCTTGAATCAGCACATCGGCACCTTC-ATCCTTAAGTCCAATATCGCTAGCC
*
3012305 -TGAATCAGCGTATTGGC
64 TTGAATCAGCATATTGGC
3012322 ATCTTTAACA
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
101 11 0.15
102 42 0.56
103 22 0.29
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (101 bp):
CCAATGTCGCTGCCTTGAATCAGCACATCGGCACCTTCATCCTTAAGTCCAATATCGCTAGCCTT
GAATCAGCATATTGGCGCCTTCATCATCTTTAAAAA
Found at i:3025731 original size:15 final size:14
Alignment explanation
Indices: 3025713--3025805 Score: 89
Period size: 15 Copynumber: 6.4 Consensus size: 14
3025703 TGTCCTCCAT
3025713 AAAAAAGAAAGAAA
1 AAAAAAGAAAGAAA
* *
3025727 GAAAAAA-ACACAAA
1 -AAAAAAGAAAGAAA
* *
3025741 ACAAAACAAAGAAA
1 AAAAAAGAAAGAAA
* *
3025755 AAAACAATAAACAAA
1 AAAA-AAGAAAGAAA
3025770 AAAAAAGAAAGAAA
1 AAAAAAGAAAGAAA
3025784 GAAAAAAGAAAGGAAA
1 -AAAAAAGAAA-GAAA
3025800 AAAAAA
1 AAAAAA
3025806 CAACAACAAC
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
13 5 0.08
14 21 0.33
15 34 0.53
16 4 0.06
ACGTcount: A:0.82, C:0.06, G:0.11, T:0.01
Consensus pattern (14 bp):
AAAAAAGAAAGAAA
Found at i:3025751 original size:24 final size:25
Alignment explanation
Indices: 3025711--3025779 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 25
3025701 AGTGTCCTCC
3025711 ATAAA-AAAGAAAGAAAGAAAAAAACA
1 ATAAACAAA-AAA-AAAGAAAAAAACA
*
3025737 CA-AAAC-AAAACAAAGAAAAAAACA
1 -ATAAACAAAAAAAAAGAAAAAAACA
3025761 ATAAACAAAAAAAAAGAAA
1 ATAAACAAAAAAAAAGAAA
3025780 GAAAGAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
23 1 0.03
24 17 0.46
25 13 0.35
26 5 0.14
27 1 0.03
ACGTcount: A:0.81, C:0.09, G:0.07, T:0.03
Consensus pattern (25 bp):
ATAAACAAAAAAAAAGAAAAAAACA
Found at i:3027343 original size:87 final size:86
Alignment explanation
Indices: 3027236--3027527 Score: 399
Period size: 87 Copynumber: 3.3 Consensus size: 86
3027226 TTCCTCACCT
* * *
3027236 TTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCCTCTCCA
1 TTTCAAAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAACCT-TCAA
3027301 AAGCCCACAAGTCAGTGGCAACC
64 AAGCCCACAAGTCAGTGGCAACC
3027324 -TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAA
1 TTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAA
* *
3027388 GCCCACAAGTCAGCGGCACCC
66 GCCCACAAGTCAGTGGCAACC
* * *
3027409 TTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAA
1 -TTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAA
* **
3027474 AGCACACAAGTTGGT-GCAACCC
65 AGCCCACAAGTCAGTGGCAA-CC
**
3027496 TTTCAAAAGCCGGCACAAGTTGGTGGCATCTT
1 TTTCAAAAGCC--CACAAGTCAGTGGCATCTT
3027528 CTTCTAAGTC
Statistics
Matches: 182, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
85 24 0.13
86 44 0.24
87 98 0.54
88 16 0.09
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (86 bp):
TTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAA
GCCCACAAGTCAGTGGCAACC
Found at i:3027348 original size:57 final size:57
Alignment explanation
Indices: 3027236--3027525 Score: 341
Period size: 57 Copynumber: 5.0 Consensus size: 57
3027226 TTCCTCACCT
* * *
3027236 TTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCCAAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCCCACAAGTCAGTGGCATCC
* *
3027295 TCTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCT
1 TTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCC
* *
3027352 TTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACCC
1 TTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCC
* * * *
3027409 TTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCAACC
1 -TTTCCAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCATCC
* * ** **
3027468 -TTCAAAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCGGCACAAGTTGGTGGCATC
1 TTTCCAAAGCCCACAAGTCAGTGGCAA-CC-TTCAAAAGCC--CACAAGTCAGTGGCATC
3027526 TTCTTCTAAG
Statistics
Matches: 201, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
56 2 0.01
57 107 0.53
58 26 0.13
59 66 0.33
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.19
Consensus pattern (57 bp):
TTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCC
Found at i:3027505 original size:144 final size:145
Alignment explanation
Indices: 3027237--3027515 Score: 427
Period size: 144 Copynumber: 1.9 Consensus size: 145
3027227 TCCTCACCTT
* *
3027237 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCCTCTCCAA
1 TTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCCTCTCAAA
* * * *
3027302 AGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCC-CAC
66 AGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAGTCAGTGGCACCCTTTCAAAAGCCGCAC
3027366 AAGTCAGTGGCAACC
131 AAGTCAGTGGCAACC
* * *
3027381 TTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAA
1 TTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCCTCTCAAA
**
3027446 AGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCGGC
66 AGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAGTCAGTGGC-ACCCTTTCAAAAGCC-GC
3027510 ACAAGT
129 ACAAGT
3027516 TGGTGGCATC
Statistics
Matches: 121, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
143 2 0.02
144 112 0.93
146 7 0.06
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.19
Consensus pattern (145 bp):
TTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCATCCTCTCAAA
AGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAGTCAGTGGCACCCTTTCAAAAGCCGCAC
AAGTCAGTGGCAACC
Found at i:3027516 original size:31 final size:28
Alignment explanation
Indices: 3027236--3027520 Score: 155
Period size: 29 Copynumber: 9.8 Consensus size: 28
3027226 TTCCTCACCT
** *
3027236 TTTCAAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAAGCCCACAAGTTGGT-GCAACC
* ** *
3027265 TTTTCCAAAGCCCACAAGTCAGTGGCATCC
1 -TTTCAAAAGCCCACAAGTTGGT-GCAACC
* * **
3027295 TCTCCAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCCCACAAGTTGGT-GCAACC
** * *
3027324 -TTCAAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAAGCCCACAAGTTGGT-GCAACC
* **
3027352 TTTCCAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCCCACAAGTTGGT-GCAACC
* *
3027381 -TTCAAAAGCCCACAAGTCAGCG-GCACCC
1 TTTCAAAAGCCCACAAGT-TG-GTGCAACC
* ** * * *
3027409 TTTTCCAAAGCCCACAAGTCAGTGGTATCT
1 -TTTCAAAAGCCCACAAGTTGGT-GCAACC
**
3027439 TTTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCCCACAAGTTGGT-GCAACC
*
3027468 -TTCAAAAGCACACAAGTTGGTGCAACCC
1 TTTCAAAAGCCCACAAGTTGGTGCAA-CC
3027496 TTTCAAAAGCCGGCACAAGTTGGTG
1 TTTCAAAAGCC--CACAAGTTGGTG
3027521 GCATCTTCTT
Statistics
Matches: 215, Mismatches: 29, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
27 4 0.02
28 66 0.31
29 86 0.40
30 47 0.22
31 12 0.06
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.19
Consensus pattern (28 bp):
TTTCAAAAGCCCACAAGTTGGTGCAACC
Found at i:3027654 original size:49 final size:49
Alignment explanation
Indices: 3027579--3027917 Score: 310
Period size: 49 Copynumber: 6.8 Consensus size: 49
3027569 CACCTTTAAA
* *
3027579 CCAATGTCACTAGCCTTGAATCAGCACATTGGCATCTTCATCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTCAAGT
* * * * *
3027628 CCAATGTCGCTGGCCTTGAATTAGCACATCGGCACCTTTATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTCAAGT
* * * * * **
3027677 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCACATT-G-G-CATCTTCATCTTCAAGT
*
3027729 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTT-AAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT-CTTCAAGT
* * ** * * *
3027778 CCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATTCCTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATC-TT-C-AAGT
*
3027830 CCAATGTCGCTGGCCTT-ATCTCAGCACATTGGCA--TT-ATTCTTCAAGT
1 CCAATGTCGCTGGCCTTGA-ATCAGCACATTGGCATCTTCA-TCTTCAAGT
** * *
3027877 CTGATGTCGCTGGCCATGAATCAGCACATTGTCATTCTTCA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTTCA
3027918 CATCTTCGAG
Statistics
Matches: 231, Mismatches: 44, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
47 30 0.13
48 3 0.01
49 115 0.50
50 10 0.04
51 4 0.02
52 69 0.30
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTCAAGT
Found at i:3027834 original size:101 final size:101
Alignment explanation
Indices: 3027591--3027917 Score: 346
Period size: 101 Copynumber: 3.3 Consensus size: 101
3027581 AATGTCACTA
* * *
3027591 GCCTTGAATCAGCACATTGGCATCTTCATC-TT-C-AAGTCCAATGTCGCTGGCCTTGAATTAGC
1 GCCTTGAATCAGCATATTGGCATCTTCATCATTCCTAAGACCAATGTCGCTGGCCTTGAATCAGC
* * *
3027653 ACATCGGCACCTTTATCTTTAAGTCCAATATCGCTG
66 ACATTGGCACCTTCATCCTTAAGTCCAATATCGCTG
** * * *
3027689 GCCTTGAATCAGCATATTGGCGCCTTCGTCA-TCTTTAAAACCAATGTCGCTGGCCTTGAATCAG
1 GCCTTGAATCAGCATATTGGCATCTTCATCATTC-CTAAGACCAATGTCGCTGGCCTTGAATCAG
*
3027753 CACATTGGCACCTTCATCCTTAAGTCCAATATCGTTG
65 CACATTGGCACCTTCATCCTTAAGTCCAATATCGCTG
* * * * *
3027790 GCCTTGAATCAGCGTATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTGGCCTT-ATCTCAG
1 GCCTTGAATCAGCATATTGGCATCTTCATCATTCCTAAGACCAATGTCGCTGGCCTTGA-ATCAG
* ** *
3027854 CACATTGGCA--TT-ATTCTTCAAGTCTGATGTCGCTG
65 CACATTGGCACCTTCATCCTT-AAGTCCAATATCGCTG
* * *
3027889 GCCATGAATCAGCACATTGTCATTCTTCA
1 GCCTTGAATCAGCATATTGGCA-TCTTCA
3027918 CATCTTCGAG
Statistics
Matches: 189, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
98 32 0.17
99 32 0.17
100 6 0.03
101 117 0.62
102 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (101 bp):
GCCTTGAATCAGCATATTGGCATCTTCATCATTCCTAAGACCAATGTCGCTGGCCTTGAATCAGC
ACATTGGCACCTTCATCCTTAAGTCCAATATCGCTG
Found at i:3036409 original size:13 final size:13
Alignment explanation
Indices: 3036391--3036416 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3036381 CATTTTGGGA
3036391 TGTATCGATACAT
1 TGTATCGATACAT
3036404 TGTATCGATACAT
1 TGTATCGATACAT
3036417 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3036413 original size:33 final size:32
Alignment explanation
Indices: 3036371--3036434 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
3036361 TACAGGCCAA
*
3036371 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
*
3036404 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
3036435 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:3036520 original size:20 final size:21
Alignment explanation
Indices: 3036476--3036527 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
3036466 GCCAATGACC
*
3036476 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
3036497 TGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
3036517 TGTATCGATAC
1 TGTATCGATAC
3036528 TGTGCAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:3043357 original size:15 final size:14
Alignment explanation
Indices: 3043321--3043357 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
3043311 CGTCCTCCAT
3043321 AAAAAAAAAGAAAG
1 AAAAAAAAAGAAAG
3043335 AAAGAAAAAAGAAAG
1 AAA-AAAAAAGAAAG
*
3043350 GAAAAAAA
1 AAAAAAAA
3043358 TAAACAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAAAG
Found at i:3044845 original size:28 final size:28
Alignment explanation
Indices: 3044808--3045137 Score: 387
Period size: 28 Copynumber: 11.5 Consensus size: 28
3044798 TCCTCACCTT
3044808 TTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
3044836 TTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
3044864 TTCAAAAGCCCACAAGTCAGTGGC-ACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
* * *
3044891 TTTTTCCAAAGCCCACAAGTCAGTGGTATCC
1 ---TTCAAAAGCCCACAAGTCAGTGGCAACC
* *
3044922 TTTCCAAAGCCCACAAGTTAGTGGCAACC
1 -TTCAAAAGCCCACAAGTCAGTGGCAACC
* *
3044951 TTCAAAAGCCCACAAGACAGTGGCATA-T
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACC
*
3044979 TCTCCAAAGCCCACAAGTCAGTGGCAACC
1 T-TCAAAAGCCCACAAGTCAGTGGCAACC
*
3045008 TTCAAAAGCCCACAAGTCAGCGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
* * * * *
3045036 TTTTCCAAAGCCCACAAGACAGTGGTATCTT
1 --TTCAAAAGCCCACAAGTCAGTGGCAAC-C
3045067 TTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
* **
3045095 TTCAAAAGCACACAAGTTGGT-GCAACCC
1 TTCAAAAGCCCACAAGTCAGTGGCAA-CC
3045123 TTTCAAAAGCCCACA
1 -TTCAAAAGCCCACA
3045138 CAAGTTGGTG
Statistics
Matches: 260, Mismatches: 30, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
27 7 0.03
28 121 0.47
29 86 0.33
30 44 0.17
31 2 0.01
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.18
Consensus pattern (28 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACC
Found at i:3044951 original size:87 final size:86
Alignment explanation
Indices: 3044802--3045137 Score: 462
Period size: 87 Copynumber: 3.9 Consensus size: 86
3044792 AGACATTCCT
3044802 CACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACC-TT
1 CACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTT
*
3044866 CAAAAGCCCACAAGTCAGTGG
66 CAAAAGCCCACAAGACAGTGG
* * * * *
3044887 CACCTTTTTCCAAAGCCCACAAGTCAGTGGTATCCTTTCCAAAGCCCACAAGTTAGTGGCAACC-
1 CACC-TTTTCAAAAGCCCACAAGTCAGTGGCAACC-TTCAAAAGCCCACAAGTCAGTGGCAACCT
3044951 TTCAAAAGCCCACAAGACAGTGG
64 TTCAAAAGCCCACAAGACAGTGG
** * * *
3044974 CATATTCTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCAACCTTT
1 CACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACC-TT
*
3045039 TCCAAAGCCCACAAGACAGTGG
65 TCAAAAGCCCACAAGACAGTGG
* * * **
3045061 TATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAGTTGGT-GCAACCCTT
1 CACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAA-CCTT
3045125 TCAAAAGCCCACA
65 TCAAAAGCCCACA
3045138 CAAGTTGGTG
Statistics
Matches: 222, Mismatches: 24, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
85 29 0.13
86 72 0.32
87 121 0.55
ACGTcount: A:0.33, C:0.32, G:0.17, T:0.18
Consensus pattern (86 bp):
CACCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTT
CAAAAGCCCACAAGACAGTGG
Found at i:3045075 original size:144 final size:143
Alignment explanation
Indices: 3044808--3045137 Score: 486
Period size: 144 Copynumber: 2.3 Consensus size: 143
3044798 TCCTCACCTT
*
3044808 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGC
1 TTCAAAAGCCCACAAGACAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGC
* * *
3044873 CCACAAGTCAGTGGCACCTTTTTCCAAAGCCCACAAGTCAGTGGTATCCTTTCCAAAGCCCACAA
66 CCACAAGTCAGCGGCACCTTTTTCCAAAGCCCACAAGACAGTGGTATCCTTTCAAAAGCCCACAA
*
3044938 GTTAGTGGCAACC
131 GTCAGTGGCAACC
* *
3044951 TTCAAAAGCCCACAAGACAGTGGCATA-TTCTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAA
1 TTCAAAAGCCCACAAGACAGTGGCA-ACCT-TCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAA
*
3045015 GCCCACAAGTCAGCGGCAACC-TTTTCCAAAGCCCACAAGACAGTGGTATCTTTTCAAAAGCCCA
64 GCCCACAAGTCAGCGGC-ACCTTTTTCCAAAGCCCACAAGACAGTGGTATCCTTTCAAAAGCCCA
3045079 CAAGTCAGTGGCAACC
128 CAAGTCAGTGGCAACC
* ***
3045095 TTCAAAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCCACA
1 TTCAAAAGCCCACAAGACAGTGGCAA-CC-TTCAAAAGCCCACA
3045138 CAAGTTGGTG
Statistics
Matches: 167, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
142 1 0.01
143 28 0.17
144 134 0.80
145 4 0.02
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.18
Consensus pattern (143 bp):
TTCAAAAGCCCACAAGACAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGC
CCACAAGTCAGCGGCACCTTTTTCCAAAGCCCACAAGACAGTGGTATCCTTTCAAAAGCCCACAA
GTCAGTGGCAACC
Found at i:3045271 original size:49 final size:49
Alignment explanation
Indices: 3045206--3045543 Score: 322
Period size: 49 Copynumber: 6.8 Consensus size: 49
3045196 CACCTTTAAA
* * *
3045206 CCAATGTCACTAGCCTTAAATCAGCACATTGGCATCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* *
3045255 CCAATGTCGCTGGCCTTGAATCAGCACATCGGCACCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * * * * **
3045304 CCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTCATCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCACATT-G-G-CATCTTCATCTTTAAGT
* *
3045356 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * ** * * *
3045405 CCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACATTCCTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATC-TT--TAAGT
** *
3045457 CCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA--TT-ATTCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA-TCTTTAAGT
** * * *
3045504 CTGATGTCGCTGGACATGAATCAGCACATTGTCATTCTTC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTTC
3045544 GCATCTTCAA
Statistics
Matches: 230, Mismatches: 48, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
47 30 0.13
49 119 0.52
50 8 0.03
51 2 0.01
52 71 0.31
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (49 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
Found at i:3045379 original size:101 final size:101
Alignment explanation
Indices: 3045206--3045490 Score: 353
Period size: 101 Copynumber: 2.9 Consensus size: 101
3045196 CACCTTTAAA
* * * * * *
3045206 CCAATGTCACTAGCCTTAAATCAGCACATTGGCA---TCTTCATCTTTAAGTCCAATGTCGCTGG
1 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCATCTTTAAGACCAATGTCGCTGG
* *
3045268 CCTTGAATCAGCACATCGGCACCTTCATCTTTAAGT
66 CCTTGAATCAGCACATTGGCACCTTCATCCTTAAGT
* *
3045304 CCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTCATCATCTTTAAAACCAATGTCGCTGG
1 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCATCTTTAAGACCAATGTCGCTGG
3045369 CCTTGAATCAGCACATTGGCACCTTCATCCTTAAGT
66 CCTTGAATCAGCACATTGGCACCTTCATCCTTAAGT
* * * * * * * *
3045405 CCAATATCGTTGGCCTTGAATCAGCGTATTGGCATCTTTAACAT-TCCTAAGCCCAATGTCGCTG
1 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCATCT-TTAAGACCAATGTCGCTG
**
3045469 GCCTTGTCTCAGCACATTGGCA
65 GCCTTGAATCAGCACATTGGCA
3045491 TTATTCTTCA
Statistics
Matches: 161, Mismatches: 22, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
98 29 0.18
100 1 0.01
101 131 0.81
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (101 bp):
CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCATCTTTAAGACCAATGTCGCTGG
CCTTGAATCAGCACATTGGCACCTTCATCCTTAAGT
Found at i:3060267 original size:11 final size:11
Alignment explanation
Indices: 3060251--3060333 Score: 59
Period size: 11 Copynumber: 7.5 Consensus size: 11
3060241 TCCTCCATAA
3060251 AAAAAAGAAAG
1 AAAAAAGAAAG
3060262 AAAAAAGCACAA-
1 AAAAAAG-A-AAG
*
3060274 AATAAAACAAAG
1 AA-AAAAGAAAG
3060286 AAAAAA-ACAA-
1 AAAAAAGA-AAG
* *
3060296 TAAACA-AAA-
1 AAAAAAGAAAG
3060305 AAAAAAGAAAG
1 AAAAAAGAAAG
3060316 AAAAAAGAAAGG
1 AAAAAAGAAA-G
3060328 AAAAAA
1 AAAAAA
3060334 AAACAACAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
9 6 0.10
10 9 0.15
11 25 0.42
12 13 0.22
13 6 0.10
ACGTcount: A:0.81, C:0.06, G:0.11, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:3060290 original size:15 final size:14
Alignment explanation
Indices: 3060272--3060339 Score: 54
Period size: 15 Copynumber: 4.9 Consensus size: 14
3060262 AAAAAAGCAC
*
3060272 AAAATAAAACAAAG
1 AAAAAAAAACAAAG
3060286 --AAAAAAACAATA-
1 AAAAAAAAACAA-AG
3060298 AACAAAAAAA-AAAG
1 AA-AAAAAAACAAAG
*
3060312 AAAGAAAAAAGAAAGG
1 AAA-AAAAAACAAA-G
3060328 AAAAAAAAACAA
1 AAAAAAAAACAA
3060340 CAACAACAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
12 9 0.20
13 3 0.07
14 10 0.23
15 18 0.41
16 4 0.09
ACGTcount: A:0.82, C:0.06, G:0.09, T:0.03
Consensus pattern (14 bp):
AAAAAAAAACAAAG
Found at i:3060304 original size:24 final size:25
Alignment explanation
Indices: 3060246--3060319 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 25
3060236 AGGCGTCCTC
* *
3060246 CATAAAAAAAAGAAAGAAAAAAGCA
1 CATAAAAAAAACAAAGAAAAAAACA
*
3060271 CA-AAATAAAACAAAGAAAAAAACA
1 CATAAAAAAAACAAAGAAAAAAACA
*
3060295 -ATAAACAAAAAAAAAAGAAAGAAAA
1 CAT-AA-AAAAAACAAAGAAA-AAAA
3060320 AAGAAAGGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
23 1 0.03
24 19 0.47
25 4 0.10
26 12 0.30
27 4 0.10
ACGTcount: A:0.80, C:0.08, G:0.08, T:0.04
Consensus pattern (25 bp):
CATAAAAAAAACAAAGAAAAAAACA
Found at i:3061735 original size:28 final size:29
Alignment explanation
Indices: 3061701--3061970 Score: 336
Period size: 28 Copynumber: 9.4 Consensus size: 29
3061691 TCACCTTTTT
3061701 AAAAGCCCACAAGTCAGTGGCAACCTTT-
1 AAAAGCCCACAAGTCAGTGGCAACCTTTC
* *
3061729 AAAAGCCCACAAGTTAGTGGC-ACCCTTC
1 AAAAGCCCACAAGTCAGTGGCAACCTTTC
3061757 AAAAGCCCACAAGTCAGTGGC-ACCTTTTTC
1 AAAAGCCCACAAGTCAGTGGCAACC--TTTC
* *
3061787 CAAAGCCCACAAGTCAGTGGCATCCTTTC
1 AAAAGCCCACAAGTCAGTGGCAACCTTTC
*
3061816 CAAAGCCCACAAGTCAGTGGCAACC-TTC
1 AAAAGCCCACAAGTCAGTGGCAACCTTTC
* *
3061844 AAAAGCCCACAAGTCAGCGGCACCCTTTTC
1 AAAAGCCCACAAGTCAGTGGCAACC-TTTC
* * * *
3061874 CAAAGCCCATAAGTCAGTGGCATCTTTTC
1 AAAAGCCCACAAGTCAGTGGCAACCTTTC
3061903 AAAAGCCCACAAGTCAGTGGCAACC-TTC
1 AAAAGCCCACAAGTCAGTGGCAACCTTTC
* **
3061931 AAAAGCACACAAGTTGGT-GCAACCCTTTC
1 AAAAGCCCACAAGTCAGTGGCAA-CCTTTC
3061960 AAAAGCCCACA
1 AAAAGCCCACA
3061971 CAAGTTGGTG
Statistics
Matches: 211, Mismatches: 23, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
27 9 0.04
28 88 0.42
29 66 0.31
30 46 0.22
31 2 0.01
ACGTcount: A:0.33, C:0.32, G:0.17, T:0.19
Consensus pattern (29 bp):
AAAAGCCCACAAGTCAGTGGCAACCTTTC
Found at i:3061844 original size:87 final size:87
Alignment explanation
Indices: 3061692--3061944 Score: 402
Period size: 87 Copynumber: 2.9 Consensus size: 87
3061682 AGACATTCCT
* * * *
3061692 CACCTTTTT-AAAAGCCCACAAGTCAGTGGCAACCTTT-AAAAGCCCACAAGTTAGTGGCACCCT
1 CACCTTTTTCCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAAGCCCACAAGTCAGTGGCAACCT
*
3061755 TCAAAAGCCCACAAGTCAGTGG
66 TCAAAAGCCCACAAGTCAGCGG
*
3061777 CACCTTTTTCCAAAGCCCACAAGTCAGTGGCATCCTTTCCAAAGCCCACAAGTCAGTGGCAACCT
1 CACCTTTTTCCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAAGCCCACAAGTCAGTGGCAACCT
3061842 TCAAAAGCCCACAAGTCAGCGG
66 TCAAAAGCCCACAAGTCAGCGG
* * *
3061864 CACCCTTTTCCAAAGCCCATAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
1 CACCTTTTTCCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAAGCCCACAAGTCAGTGGCAACCT
*
3061929 TCAAAAGCACACAAGT
66 TCAAAAGCCCACAAGT
3061945 TGGTGCAACC
Statistics
Matches: 155, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
85 9 0.06
86 26 0.17
87 120 0.77
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.20
Consensus pattern (87 bp):
CACCTTTTTCCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAAGCCCACAAGTCAGTGGCAACCT
TCAAAAGCCCACAAGTCAGCGG
Found at i:3061936 original size:115 final size:115
Alignment explanation
Indices: 3061701--3061970 Score: 375
Period size: 115 Copynumber: 2.3 Consensus size: 115
3061691 TCACCTTTTT
* * *
3061701 AAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTTCAAAAGCCCA
1 AAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACCCTTCAAAAGCCCA
* *
3061766 CAAGTCAGTGGCACCTTTTTCCAAAGCCCACAAGTCAGTGGCATCCTTTC
66 CAAGTCAGTGGCACCTTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTC
* *
3061816 CAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACCCTTTTCCAAAGCC
1 AAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACCC--TTCAAAAGCC
* *
3061881 CATAAGTCAGTGGCATC-TTTTCAAAAGCCCACAAGTCAGTGGCAACC-TTC
64 CACAAGTCAGTGGCACCTTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTC
* **
3061931 AAAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCCACA
1 AAAAGCCCACAAGTCAGTGGCAA-CC-TTCAAAAGCCCACA
3061971 CAAGTTGGTG
Statistics
Matches: 138, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
114 4 0.03
115 68 0.49
116 42 0.30
117 24 0.17
ACGTcount: A:0.33, C:0.32, G:0.17, T:0.19
Consensus pattern (115 bp):
AAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGCGGCACCCTTCAAAAGCCCA
CAAGTCAGTGGCACCTTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTC
Found at i:3062105 original size:49 final size:49
Alignment explanation
Indices: 3062052--3062378 Score: 327
Period size: 49 Copynumber: 6.6 Consensus size: 49
3062042 ATGGACACTA
*
3062052 GCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTCACTG
1 GCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTCGCTG
* * *
3062101 GCCTTGAATCAGCACATCGGCACCTTCATCTTTAAGTCCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTCGCTG
* * * **
3062150 GCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTG
1 GCCTTGAATCAGCACATT-G-G-CATCTTCATCTTTAAGTCCAATGTCGCTG
* * * * *
3062202 GCCTTGAATTAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGTTG
1 GCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTCGCTG
** * * *
3062251 GCCTTGAATCAGCGTATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCATCTTCATC-TT--TAAGTCCAATGTCGCTG
** * **
3062303 GCCTTGTCTCAGCACATTGGCA--TT-ATTCTTGAAGTCTGATGTCGCTG
1 GCCTTGAATCAGCACATTGGCATCTTCA-TCTTTAAGTCCAATGTCGCTG
* *
3062350 GCCATGAATCAGCACATTGTCATTCTTCA
1 GCCTTGAATCAGCACATTGGCA-TCTTCA
3062379 CATCTTCGAG
Statistics
Matches: 222, Mismatches: 45, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
47 31 0.14
49 109 0.49
50 8 0.04
51 3 0.01
52 71 0.32
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (49 bp):
GCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATGTCGCTG
Found at i:3062295 original size:101 final size:100
Alignment explanation
Indices: 3062052--3062378 Score: 358
Period size: 101 Copynumber: 3.3 Consensus size: 100
3062042 ATGGACACTA
* * *
3062052 GCCTTGAATCAGCACATTGGCATCTTCATC-TT-TAAGTCCAATGTCACTGGCCTTGAATCAGCA
1 GCCTTGAATCAGCATATTGGCATCTTCATCATTCTAAGACCAATGTCGCTGGCCTTGAATCAGCA
* *
3062115 CATCGGCACCTTCATCTTTAAGTCCAATATCGCTG
66 CATTGGCACCTTCATCCTTAAGTCCAATATCGCTG
** * * * *
3062150 GCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATTAGC
1 GCCTTGAATCAGCATATTGGCATCTTCATCAT-TCTAAGACCAATGTCGCTGGCCTTGAATCAGC
*
3062215 ACATTGGCACCTTCATCCTTAAGTCCAATATCGTTG
65 ACATTGGCACCTTCATCCTTAAGTCCAATATCGCTG
* * * * **
3062251 GCCTTGAATCAGCGTATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTGGCCTTGTCTCAGC
1 GCCTTGAATCAGCATATTGGCATCTTCATCATT-CTAAGACCAATGTCGCTGGCCTTGAATCAGC
* ** *
3062316 ACATTGGCA--TT-ATTCTTGAAGTCTGATGTCGCTG
65 ACATTGGCACCTTCATCCTT-AAGTCCAATATCGCTG
* * *
3062350 GCCATGAATCAGCACATTGTCATTCTTCA
1 GCCTTGAATCAGCATATTGGCA-TCTTCA
3062379 CATCTTCGAG
Statistics
Matches: 190, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
98 31 0.16
99 33 0.17
100 7 0.04
101 119 0.63
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (100 bp):
GCCTTGAATCAGCATATTGGCATCTTCATCATTCTAAGACCAATGTCGCTGGCCTTGAATCAGCA
CATTGGCACCTTCATCCTTAAGTCCAATATCGCTG
Found at i:3063001 original size:13 final size:13
Alignment explanation
Indices: 3062983--3063008 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3062973 CATTATTCAA
3062983 TGTATCGATACAT
1 TGTATCGATACAT
3062996 TGTATCGATACAT
1 TGTATCGATACAT
3063009 CTTGGAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3075100 original size:13 final size:13
Alignment explanation
Indices: 3075082--3075111 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3075072 ACAATTCATC
*
3075082 ATGTATCGATACA
1 ATGTATCAATACA
3075095 ATGTATCAATACA
1 ATGTATCAATACA
3075108 ATGT
1 ATGT
3075112 CCATGTATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:3075200 original size:19 final size:19
Alignment explanation
Indices: 3075155--3075215 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 19
3075145 ACTGCTAGTT
* *
3075155 TCATGTATTGATACAATTG
1 TCATGTATCGATACAATTA
*
3075174 TCCATGTATCGATATAATTA
1 T-CATGTATCGATACAATTA
3075194 TCATGTATCGATACAATGTA
1 TCATGTATCGATACAAT-TA
3075214 TC
1 TC
3075216 GATACAAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 16 0.44
20 20 0.56
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (19 bp):
TCATGTATCGATACAATTA
Found at i:3075214 original size:13 final size:13
Alignment explanation
Indices: 3075196--3075222 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3075186 TATAATTATC
3075196 ATGTATCGATACA
1 ATGTATCGATACA
3075209 ATGTATCGATACA
1 ATGTATCGATACA
3075222 A
1 A
3075223 AACATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3077762 original size:13 final size:13
Alignment explanation
Indices: 3077744--3077780 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
3077734 GTAACCCATA
3077744 TATCGATACAATG
1 TATCGATACAATG
*
3077757 TATCGATACAGTG
1 TATCGATACAATG
3077770 TATCGATACAA
1 TATCGATACAA
3077781 GGAATATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:3080250 original size:51 final size:51
Alignment explanation
Indices: 3080193--3080308 Score: 205
Period size: 51 Copynumber: 2.3 Consensus size: 51
3080183 ATAACTACGG
3080193 GGTTGGAGTATCCCCGATTATGGAAAATCGATGCTTTAGAAATAAGGCCGA
1 GGTTGGAGTATCCCCGATTATGGAAAATCGATGCTTTAGAAATAAGGCCGA
* *
3080244 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAGGCCGG
1 GGTTGGAGTATCCCCGATTATGGAAAATCGATGCTTTAGAAATAAGGCCGA
*
3080295 GGTTAGAGTATCCC
1 GGTTGGAGTATCCC
3080309 AGTGAAAATA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.26
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGGAAAATCGATGCTTTAGAAATAAGGCCGA
Found at i:3080386 original size:50 final size:51
Alignment explanation
Indices: 3080324--3080437 Score: 176
Period size: 51 Copynumber: 2.3 Consensus size: 51
3080314 AAATAACGGG
* * *
3080324 GTTGGAGTATCCC-GATTGTGAGAAATTGGTGTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCGGATTGTGAAAAATTGGTATTTTAGAAATAAAATCAGA
* *
3080374 GTTGGAGTATCCCGGATTGTGAAAAATTGGTATTTTAGAAATAAAATCCGG
1 GTTGGAGTATCCCGGATTGTGAAAAATTGGTATTTTAGAAATAAAATCAGA
3080425 GTTGGAGTATCCC
1 GTTGGAGTATCCC
3080438 CTCAGAAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
50 13 0.22
51 45 0.78
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCGGATTGTGAAAAATTGGTATTTTAGAAATAAAATCAGA
Done.