Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002881.1 Hibiscus syriacus cultivar Beakdansim tig00005939_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1746118
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 9
Found at i:978641 original size:20 final size:20
Alignment explanation
Indices: 978616--978660 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
978606 TCTAAAAGCC
*
978616 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
978636 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
978656 CATTT
1 CATTT
978661 GGTGGAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:981662 original size:20 final size:21
Alignment explanation
Indices: 981637--981680 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
981627 GATTTCTGGG
*
981637 CAAGGGGAATCG-TACCCATT
1 CAAGGGGAACCGATACCCATT
*
981657 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
981678 CAA
1 CAA
981681 ACGAACACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:982676 original size:31 final size:31
Alignment explanation
Indices: 982637--982763 Score: 143
Period size: 31 Copynumber: 4.1 Consensus size: 31
982627 AGAGTCGAGG
982637 GTTTACCTATGTT-TACGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
*
982667 GTTTTACCTATG-TCTTTC-GAGACATATGGACA
1 G-TTTACCTATGTTC-TACGGA-ACATATGGACA
* *
982699 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* * * *
982730 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
982761 GTT
1 GTT
982764 ACCGAGGATC
Statistics
Matches: 81, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
30 2 0.02
31 61 0.75
32 18 0.22
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAACATATGGACA
Found at i:982738 original size:62 final size:61
Alignment explanation
Indices: 982639--982766 Score: 179
Period size: 62 Copynumber: 2.1 Consensus size: 61
982629 AGTCGAGGGT
* *
982639 TTACCTATGTTTACGGAACATATGGACAGTTTTACCTATG-TCTTTCGAGACATATGGACAG
1 TTACCTATGTTTAAGGAACATATGGACAGTTTTACCTAGGTTC-TTCGAGACATATGGACAG
* *
982700 TATACCTATGTTCTAAGGAACATATGGACAG-TTTACCTAGGTTCTTCGGGACCTATGGACAG
1 T-TACCTATGTT-TAAGGAACATATGGACAGTTTTACCTAGGTTCTTCGAGACATATGGACAG
982762 TTACC
1 TTACC
982767 GAGGATCTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
61 5 0.08
62 36 0.60
63 19 0.32
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (61 bp):
TTACCTATGTTTAAGGAACATATGGACAGTTTTACCTAGGTTCTTCGAGACATATGGACAG
Found at i:982844 original size:29 final size:30
Alignment explanation
Indices: 982749--982850 Score: 152
Period size: 30 Copynumber: 3.4 Consensus size: 30
982739 GGTTCTTCGG
* *
982749 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
982779 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
* * *
982809 GACCTCTAGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
982838 GACCTCTGGATAG
1 GACCTCTGGATAG
982851 GTCCTTCGGG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
29 20 0.30
30 46 0.70
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:984855 original size:32 final size:34
Alignment explanation
Indices: 984819--984888 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
984809 CCATACAAAC
* *
984819 TCCCTAG-TTTTTC-CGGGCTAAACTAGAACCTT
1 TCCCTAGATTTTACACGGGATAAACTAGAACCTT
* *
984851 TCCCTAGATTTTACACGGGATTAGCTAGAACCTT
1 TCCCTAGATTTTACACGGGATAAACTAGAACCTT
984885 TCCC
1 TCCC
984889 CTTTACAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (34 bp):
TCCCTAGATTTTACACGGGATAAACTAGAACCTT
Found at i:985260 original size:22 final size:22
Alignment explanation
Indices: 985233--985276 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
985223 CCGTTAGACA
985233 GGGGGGAATCGGTACCCCCTGG
1 GGGGGGAATCGGTACCCCCTGG
**
985255 GGGGGGAATCTTTACCCCCTGG
1 GGGGGGAATCGGTACCCCCTGG
985277 ACAATCTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.27, G:0.41, T:0.18
Consensus pattern (22 bp):
GGGGGGAATCGGTACCCCCTGG
Found at i:985299 original size:20 final size:20
Alignment explanation
Indices: 985274--985313 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
985264 CTTTACCCCC
985274 TGGACAATCTGATTTTTCTT
1 TGGACAATCTGATTTTTCTT
985294 TGGACAATCTGATTTTTCTT
1 TGGACAATCTGATTTTTCTT
985314 GAAACCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (20 bp):
TGGACAATCTGATTTTTCTT
Found at i:985380 original size:22 final size:22
Alignment explanation
Indices: 985353--985396 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
985343 CCGTTAGACA
985353 GGGGGGAATCGGTACCCCCTGG
1 GGGGGGAATCGGTACCCCCTGG
**
985375 GGGGGGAATCTTTACCCCCTGG
1 GGGGGGAATCGGTACCCCCTGG
985397 ACAATCTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.27, G:0.41, T:0.18
Consensus pattern (22 bp):
GGGGGGAATCGGTACCCCCTGG
Found at i:985419 original size:20 final size:20
Alignment explanation
Indices: 985394--985433 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
985384 CTTTACCCCC
985394 TGGACAATCTGATTTTTCTT
1 TGGACAATCTGATTTTTCTT
985414 TGGACAATCTGATTTTTCTT
1 TGGACAATCTGATTTTTCTT
985434 GAAACCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (20 bp):
TGGACAATCTGATTTTTCTT
Found at i:985428 original size:120 final size:121
Alignment explanation
Indices: 985216--985460 Score: 483
Period size: 120 Copynumber: 2.0 Consensus size: 121
985206 GTGCAATCTG
985216 TTTTTGACCGTTAGACAGGGGGGAATCGGTACCCCCTGGGGGGGGAATCTTTACCCCCTGGACAA
1 TTTTTGACCGTTAGACAGGGGGGAATCGGTACCCCCTGGGGGGGGAATCTTTACCCCCTGGACAA
985281 TCTGATTTTTCTTTGGACAATCTGATTTTTCTTGAAACCCTTTAAAAA-GAAATAT
66 TCTGATTTTTCTTTGGACAATCTGATTTTTCTTGAAACCCTTTAAAAAGGAAATAT
985336 TTTTTGACCGTTAGACAGGGGGGAATCGGTACCCCCTGGGGGGGGAATCTTTACCCCCTGGACAA
1 TTTTTGACCGTTAGACAGGGGGGAATCGGTACCCCCTGGGGGGGGAATCTTTACCCCCTGGACAA
985401 TCTGATTTTTCTTTGGACAATCTGATTTTTCTTGAAACCCTTTAAAAAGGAAATAT
66 TCTGATTTTTCTTTGGACAATCTGATTTTTCTTGAAACCCTTTAAAAAGGAAATAT
985457 TTTT
1 TTTT
985461 GGCTCGATTA
Statistics
Matches: 124, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
120 113 0.91
121 11 0.09
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (121 bp):
TTTTTGACCGTTAGACAGGGGGGAATCGGTACCCCCTGGGGGGGGAATCTTTACCCCCTGGACAA
TCTGATTTTTCTTTGGACAATCTGATTTTTCTTGAAACCCTTTAAAAAGGAAATAT
Found at i:988262 original size:21 final size:19
Alignment explanation
Indices: 988216--988272 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
988206 CCTCATGAGG
*
988216 GGGGAATCTGTTCCCCCTGA
1 GGGGAATCTG-TACCCCTGA
*
988236 GGGGAAATCTGTACCCCTGG
1 GGGG-AATCTGTACCCCTGA
*
988256 GGTGGAATTTGTACCCC
1 GG-GGAATCTGTACCCC
988273 CTGGACAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 24 0.75
21 8 0.25
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.25
Consensus pattern (19 bp):
GGGGAATCTGTACCCCTGA
Found at i:988273 original size:21 final size:20
Alignment explanation
Indices: 988214--988276 Score: 74
Period size: 21 Copynumber: 3.1 Consensus size: 20
988204 TACCTCATGA
*
988214 GGGGGGAATCTGTTCCCCCT
1 GGGGGGAATCTGTACCCCCT
*
988234 GAGGGGAAATCTGTA-CCCCT
1 G-GGGGGAATCTGTACCCCCT
*
988254 GGGGTGGAATTTGTACCCCCT
1 GGGG-GGAATCTGTACCCCCT
988275 GG
1 GG
988277 ACAATCTGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 3 0.08
20 15 0.42
21 18 0.50
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (20 bp):
GGGGGGAATCTGTACCCCCT
Found at i:988863 original size:26 final size:26
Alignment explanation
Indices: 988834--988884 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
988824 TCAAAACTAT
988834 ATGTTATGTATGATTTTGAAAAAAAA
1 ATGTTATGTATGATTTTGAAAAAAAA
988860 ATGTTATGTATGATTTTGAAAAAAA
1 ATGTTATGTATGATTTTGAAAAAAA
988885 TGTTTAAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (26 bp):
ATGTTATGTATGATTTTGAAAAAAAA
Found at i:990398 original size:21 final size:21
Alignment explanation
Indices: 990364--990418 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
990354 ATGAATTATA
*
990364 TTTTTAAAAGTTTTCTA-GATTT
1 TTTTTATAA-TTTT-TATGATTT
*
990386 TTTTTATCATTTTTATGATTT
1 TTTTTATAATTTTTATGATTT
990407 TTTTTATAATTT
1 TTTTTATAATTT
990419 GTATTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.07
21 20 0.69
22 7 0.24
ACGTcount: A:0.24, C:0.04, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTTATAATTTTTATGATTT
Found at i:1005641 original size:16 final size:14
Alignment explanation
Indices: 1005622--1005705 Score: 77
Period size: 14 Copynumber: 5.9 Consensus size: 14
1005612 TGCTTGAAGA
1005622 AAAAAATGAATGAATG
1 AAAAAATGAA--AATG
1005638 AAAAAATGAAAATG
1 AAAAAATGAAAATG
1005652 --AAAA--AAAATG
1 AAAAAATGAAAATG
*
1005662 AAAAAATGAAAAAG
1 AAAAAATGAAAATG
1005676 AAAAAAATGAAAAAAATG
1 -AAAAAATG---AAAATG
1005694 AAAAAATGAAAA
1 AAAAAATGAAAA
1005706 AAGAAAAAGA
Statistics
Matches: 58, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
10 6 0.10
12 8 0.14
14 13 0.22
15 8 0.14
16 10 0.17
17 8 0.14
18 5 0.09
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (14 bp):
AAAAAATGAAAATG
Found at i:1005645 original size:8 final size:8
Alignment explanation
Indices: 1005622--1005713 Score: 95
Period size: 8 Copynumber: 11.6 Consensus size: 8
1005612 TGCTTGAAGA
1005622 AAAAAATG
1 AAAAAATG
**
1005630 AATGAATG
1 AAAAAATG
1005638 AAAAAATG
1 AAAAAATG
1005646 --AAAATG
1 AAAAAATG
1005652 AAAAAAAATG
1 --AAAAAATG
1005662 AAAAAATG
1 AAAAAATG
1005670 -AAAAA-G
1 AAAAAATG
1005676 AAAAAAATG
1 -AAAAAATG
1005685 AAAAAAATG
1 -AAAAAATG
1005694 AAAAAATG
1 AAAAAATG
1005702 AAAAAA-G
1 AAAAAATG
1005709 AAAAA
1 AAAAA
1005714 GAAAAGAAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
6 7 0.10
7 11 0.15
8 39 0.53
9 10 0.14
10 6 0.08
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:1005660 original size:32 final size:31
Alignment explanation
Indices: 1005621--1005728 Score: 130
Period size: 32 Copynumber: 3.4 Consensus size: 31
1005611 ATGCTTGAAG
**
1005621 AAAAAAATGAATGAATGAAAAAATGAAAATGA
1 AAAAAAATGAAAAAATGAAAAAA-GAAAATGA
*
1005653 AAAAAAATGAAAAAATGAAAAAGAAAAAAATG-
1 AAAAAAATGAAAAAATG-AAAA-AAGAAAATGA
*
1005685 AAAAAAATGAAAAAATGAAAAAAGAAAAAGA
1 AAAAAAATGAAAAAATGAAAAAAGAAAATGA
1005716 AAAGAAAA-GAAAA
1 AAA-AAAATGAAAA
1005729 TGAGGGTTCG
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
30 7 0.10
31 12 0.18
32 36 0.54
33 10 0.15
34 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (31 bp):
AAAAAAATGAAAAAATGAAAAAAGAAAATGA
Found at i:1005661 original size:24 final size:24
Alignment explanation
Indices: 1005634--1005707 Score: 105
Period size: 24 Copynumber: 3.0 Consensus size: 24
1005624 AAAATGAATG
1005634 AATGAAAAAATGAAAATGAAAAAA
1 AATGAAAAAATGAAAATGAAAAAA
*
1005658 AATGAAAAAATGAAAAAG-AAAAA
1 AATGAAAAAATGAAAATGAAAAAA
1005681 AATGAAAAAAATGAAAAAATGAAAAAA
1 AATG-AAAAAATG--AAAATGAAAAAA
1005708 GAAAAAGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
23 9 0.20
24 25 0.57
26 5 0.11
27 5 0.11
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (24 bp):
AATGAAAAAATGAAAATGAAAAAA
Found at i:1005713 original size:24 final size:25
Alignment explanation
Indices: 1005653--1005707 Score: 87
Period size: 23 Copynumber: 2.2 Consensus size: 25
1005643 ATGAAAATGA
1005653 AAAAAAATG-AAAAAATG-AAAAAG
1 AAAAAAATGAAAAAAATGAAAAAAG
1005676 AAAAAAATGAAAAAAATGAAAAAATG
1 AAAAAAATGAAAAAAATGAAAAAA-G
1005702 AAAAAA
1 AAAAAA
1005708 GAAAAAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 9 0.31
24 8 0.28
25 5 0.17
26 7 0.24
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (25 bp):
AAAAAAATGAAAAAAATGAAAAAAG
Found at i:1006838 original size:105 final size:105
Alignment explanation
Indices: 1006651--1007020 Score: 607
Period size: 105 Copynumber: 3.5 Consensus size: 105
1006641 AACTATAATT
* * ** *
1006651 CACCCCAGAAAGAGGTGAATTAACATTTCTAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAG
1 CACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAG
*
1006716 GAGAAGGTTCGAAATGAGAAGAGCATGTTCCTTTCAAATC
66 GAGAAGGTTCGTAATGAGAAGAGCATGTTCCTTTCAAATC
*
1006756 CACCGCAGAAGGAGGTGAACCAATATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAG
1 CACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAG
1006821 GAGAAGGTTCGTAATGAGAAGAGCATGTTCCTTTCAAATC
66 GAGAAGGTTCGTAATGAGAAGAGCATGTTCCTTTCAAATC
* * *
1006861 CACCGCAGAACGAGGTGAACCAACAATTCCAGAAGAGTTCATAATGAGAAGAACTCGTCTTAAAG
1 CACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAG
* *
1006926 GAGAAGGTTCGTAATGAGAAGAGCTTGTTCCTTTCAAATT
66 GAGAAGGTTCGTAATGAGAAGAGCATGTTCCTTTCAAATC
* *
1006966 CACC-CAGAAGGAGGTGAATCAACATTTCCAGAAGAGTTGATAATGAGAAGAACTC
1 CACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTC
1007021 ATCCGACAAA
Statistics
Matches: 248, Mismatches: 17, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
104 47 0.19
105 201 0.81
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (105 bp):
CACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAG
GAGAAGGTTCGTAATGAGAAGAGCATGTTCCTTTCAAATC
Found at i:1020581 original size:123 final size:124
Alignment explanation
Indices: 1020433--1020681 Score: 491
Period size: 123 Copynumber: 2.0 Consensus size: 124
1020423 GGGCAGTGAT
1020433 GTGGTCAGTGTGGAAATGTAGAAATGAGATTATCTTTTAGAAAGGAAAGCTGGATTTGGTCAGAC
1 GTGGTCAGTGTGGAAATGTAGAAATGAGATTATCTTTTAGAAAGGAAAGCTGGATTTGGTCAGAC
1020498 TGTTTTTCATTGTTCGATTTAGAGTAGCTT-CTGGTTTGTTGCAAGGTTTAACGATGTG
66 TGTTTTTCATTGTTCGATTTAGAGTAGCTTCCTGGTTTGTTGCAAGGTTTAACGATGTG
1020556 GTGGTCAGTGTGGAAATGTAGAAATGAGATTATCTTTTAGAAAGGAAAGCTGGATTTGGTCAGAC
1 GTGGTCAGTGTGGAAATGTAGAAATGAGATTATCTTTTAGAAAGGAAAGCTGGATTTGGTCAGAC
1020621 TGTTTTTCATTGTTCGATTTAGAGTAGCTTCCTGGTTTGTTGCAAGGTTTAACGATGTG
66 TGTTTTTCATTGTTCGATTTAGAGTAGCTTCCTGGTTTGTTGCAAGGTTTAACGATGTG
1020680 GT
1 GT
1020682 TATTCCTTTA
Statistics
Matches: 125, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
123 95 0.76
124 30 0.24
ACGTcount: A:0.25, C:0.09, G:0.29, T:0.37
Consensus pattern (124 bp):
GTGGTCAGTGTGGAAATGTAGAAATGAGATTATCTTTTAGAAAGGAAAGCTGGATTTGGTCAGAC
TGTTTTTCATTGTTCGATTTAGAGTAGCTTCCTGGTTTGTTGCAAGGTTTAACGATGTG
Found at i:1025248 original size:26 final size:24
Alignment explanation
Indices: 1025186--1025248 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
1025176 CATTTTAATC
1025186 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
1025210 AAAATATAT-TTATTAATAT-TTCT
1 AAAATATATATTATTAAAATATT-T
1025233 AATAATATAATATTAT
1 AA-AATAT-ATATTAT
1025249 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 12 0.36
25 3 0.09
26 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:1025250 original size:22 final size:23
Alignment explanation
Indices: 1025220--1025266 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
1025210 AAAATATATT
1025220 TATTAATATTTCTAATAATATAA
1 TATTAATATTTCTAATAATATAA
* *
1025243 TATT-ATATTTTTAATATTATAA
1 TATTAATATTTCTAATAATATAA
1025265 TA
1 TA
1025267 AAATAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAA
Found at i:1025306 original size:23 final size:23
Alignment explanation
Indices: 1025256--1025309 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
1025246 TATATTTTTA
*
1025256 ATATTATAATAAAATAATTAATT
1 ATATTATAATAAAATAAATAATT
*
1025279 ATATTATAATAATATAAGAT-ATT
1 ATATTATAATAAAATAA-ATAATT
*
1025302 TTATTATA
1 ATATTATA
1025310 TTTTAATGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
ATATTATAATAAAATAAATAATT
Found at i:1025398 original size:27 final size:26
Alignment explanation
Indices: 1025368--1025432 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
1025358 ATTTCATAGA
1025368 AATAATATTATTAAATTATTAATAAT-G
1 AATAATATTATTAAA-TA-TAATAATCG
* *
1025395 AATAATAATATT-AATATAATAATCT
1 AATAATATTATTAAATATAATAATCG
1025420 AATAATATT-TTAA
1 AATAATATTATTAA
1025433 TAAAGATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 9 0.27
25 11 0.33
26 2 0.06
27 11 0.33
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (26 bp):
AATAATATTATTAAATATAATAATCG
Found at i:1025540 original size:31 final size:31
Alignment explanation
Indices: 1025515--1025612 Score: 77
Period size: 33 Copynumber: 3.3 Consensus size: 31
1025505 ATATAATTTA
1025515 TAATATTTTTATTTCAATAAAATAT-ATCAATAT
1 TAATATTTTTA-TT-AATAAAATATAAT-AATAT
1025548 TAATATTTTTATTAATAAAATTATAA-AA-A-
1 TAATATTTTTATTAATAAAA-TATAATAATAT
* * *
1025577 TAA-AATTTTA-AAAT-AAATA-AATAATTT
1 TAATATTTTTATTAATAAAATATAATAATAT
1025604 TAATATTTT
1 TAATATTTT
1025613 AAAAATAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 17
0.72 0.05 0.22
Matches are distributed among these distances:
24 2 0.04
25 4 0.07
26 3 0.05
27 6 0.11
28 10 0.18
29 3 0.05
30 1 0.02
31 9 0.16
32 5 0.09
33 12 0.22
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (31 bp):
TAATATTTTTATTAATAAAATATAATAATAT
Found at i:1025591 original size:13 final size:14
Alignment explanation
Indices: 1025561--1025593 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1025551 TATTTTTATT
1025561 AATAAAATTATAAA
1 AATAAAATTATAAA
*
1025575 AATAAAATT-TTAA
1 AATAAAATTATAAA
1025588 AATAAA
1 AATAAA
1025594 TAAATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAAATTATAAA
Found at i:1030796 original size:32 final size:34
Alignment explanation
Indices: 1030760--1030822 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 34
1030750 TGGCAAATTG
1030760 GAAATTTCATC-TGGTTGGTGGCC-AACTTTTTA
1 GAAATTTCATCTTGGTTGGTGGCCAAACTTTTTA
1030792 GAAATTTCATCTTGGTTGGTGGCCAAACTTT
1 GAAATTTCATCTTGGTTGGTGGCCAAACTTT
1030823 GAACATGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 11 0.38
33 12 0.41
34 6 0.21
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (34 bp):
GAAATTTCATCTTGGTTGGTGGCCAAACTTTTTA
Found at i:1034258 original size:9 final size:9
Alignment explanation
Indices: 1034244--1034276 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
1034234 ACTACACATT
1034244 TTTTTCTTC
1 TTTTTCTTC
1034253 TTTTTCTTC
1 TTTTTCTTC
1034262 TTTTTCTTC
1 TTTTTCTTC
1034271 TCTTTT
1 T-TTTT
1034277 TTTTACGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:1044246 original size:23 final size:23
Alignment explanation
Indices: 1044200--1044247 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1044190 GAAGGTTAAA
*
1044200 TTTAGAACAAGTTTAGGATTAGG
1 TTTAGAACAAGTTTAGGATCAGG
* *
1044223 TTTAGAATAAGTTTAGGGTCAGG
1 TTTAGAACAAGTTTAGGATCAGG
1044246 TT
1 TT
1044248 AGGTTCGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.38
Consensus pattern (23 bp):
TTTAGAACAAGTTTAGGATCAGG
Found at i:1044735 original size:16 final size:15
Alignment explanation
Indices: 1044697--1044742 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
1044687 TTAACGCGTG
*
1044697 AGGTTTAATTTGTTC
1 AGGTTTAATTTGTTT
*
1044712 ATGTTTAATTTAGTTT
1 AGGTTTAATTT-GTTT
1044728 AGGTTTAATTTGTTT
1 AGGTTTAATTTGTTT
1044743 TGGATTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.22, C:0.02, G:0.17, T:0.59
Consensus pattern (15 bp):
AGGTTTAATTTGTTT
Found at i:1047248 original size:331 final size:332
Alignment explanation
Indices: 1046614--1047278 Score: 1298
Period size: 330 Copynumber: 2.0 Consensus size: 332
1046604 ACCCGGCATA
1046614 TATAGTGAACATAGAGCCTGAACTTAGGTTGAACCAAACCCGAACCTTAAGAATCCCGTGAGGAG
1 TATAGTGAACATAGAGCCTGAACTTAGGTTGAACCAAACCCGAACCTTAAGAATCCCGTGAGGAG
1046679 AGTACACAAGGAAAAGCTTTTTTTTTGAGTCATTTATTTTCGTTTTTTGAATAAAAGCTTGCAAA
66 AGTACACAAGGAAAAGCTTTTTTTTTGAGTCATTTATTTTCGTTTTTTGAATAAAAGCTTGCAAA
1046744 CTAGATATCATGCGGTTAGGTTTATTTTCTCGAACAAGCATACGAATTAGATATCATGTGGTTAG
131 CTAGATATCATGCGGTTAGGTTTATTTTCTCGAACAAGCATACGAATTAGATATCATGTGGTTAG
1046809 GAATTCTTTTTGTGAATAACAAAGCATGGGGGTAGATATCATGTTGGGTAGGATCTGATAAAGCA
196 GAATTCTTTTTGTGAATAACAAAGCATGGGGGTAGATATCATGTTGGGTAGGATCTGATAAAGCA
1046874 TGATTGGGTAGCCAACATGTGGGTAGGATTCTTTAACAAATTA-T-CCCCGACTTAATTGCTTTA
261 TGATTGGGTAGCCAACATGTGGGTAGGATTCTTTAACAAATTATTACCCCGACTTAATTGCTTTA
1046937 TGTTTAC
326 TGTTTAC
1046944 TATAGTGAACATAGAGCCTGAACTTAGGTTGAACCAAACCCGAACCTTAAGAATCCCGTGAGGAG
1 TATAGTGAACATAGAGCCTGAACTTAGGTTGAACCAAACCCGAACCTTAAGAATCCCGTGAGGAG
1047009 AGTACACAAGGAAAAGCTTTTTTTTTGAGTCATTTATTTTCGTTTTTTGAATAAAAGCTTGCAAA
66 AGTACACAAGGAAAAGCTTTTTTTTTGAGTCATTTATTTTCGTTTTTTGAATAAAAGCTTGCAAA
1047074 CTAGATATCATGCGGTTAGGTTTATTTTTCTCGAACAAGCATACGAATTAGATATCATGTGGTTA
131 CTAGATATCATGCGGTTAGGTTTA-TTTTCTCGAACAAGCATACGAATTAGATATCATGTGGTTA
1047139 GGAATTCTTTTTGTGAATAACAAAGCATGGGGGTAGATATCATGTTGGGTAGGATCTGATAAAGC
195 GGAATTCTTTTTGTGAATAACAAAGCATGGGGGTAGATATCATGTTGGGTAGGATCTGATAAAGC
*
1047204 ATGATTGGGTAGCCAACATGTGGGTAGGATTCTTTAACAAATTATTATCCCGACTTAATTGCTTT
260 ATGATTGGGTAGCCAACATGTGGGTAGGATTCTTTAACAAATTATTACCCCGACTTAATTGCTTT
1047269 ATGTTTAC
325 ATGTTTAC
1047277 TA
1 TA
1047279 ACTGATCTTT
Statistics
Matches: 331, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
330 154 0.47
331 149 0.45
332 1 0.00
333 27 0.08
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (332 bp):
TATAGTGAACATAGAGCCTGAACTTAGGTTGAACCAAACCCGAACCTTAAGAATCCCGTGAGGAG
AGTACACAAGGAAAAGCTTTTTTTTTGAGTCATTTATTTTCGTTTTTTGAATAAAAGCTTGCAAA
CTAGATATCATGCGGTTAGGTTTATTTTCTCGAACAAGCATACGAATTAGATATCATGTGGTTAG
GAATTCTTTTTGTGAATAACAAAGCATGGGGGTAGATATCATGTTGGGTAGGATCTGATAAAGCA
TGATTGGGTAGCCAACATGTGGGTAGGATTCTTTAACAAATTATTACCCCGACTTAATTGCTTTA
TGTTTAC
Found at i:1057095 original size:366 final size:364
Alignment explanation
Indices: 1056368--1057095 Score: 1341
Period size: 366 Copynumber: 2.0 Consensus size: 364
1056358 GGGAAGACTG
* * *
1056368 ATCATTGAGAGTGATTGTAGAGTAGCTGTGGACTGGATTAGGTTGTCGACTTCAGCTCCTTTCTT
1 ATCATTGAGAGGGATTGTAGAGTAGCTGTGGACTAGATTAGGTTGTCAACTTCAGCTCCTTTCTT
1056433 TAGTTCTTTGGTTGGGAAGATTGTTTCCTTAATTTCGGCTAGGGAGATTATTGTTAGGCACATTT
66 TAGTTCTTTGGTTGGGAAGATTGTTTCCTTAATTTCGGCTAGGGAGATTATTGTTAGGCACATTT
1056498 CTAGAAGTTGCAATTGGGAGGCAGATTCCTTGGCTAAACAAGGGATTGGATGATTTCAGTCTGTG
131 CTAGAAGTTGCAATTGGGAGGCAGATTCCTTGGCTAAACAAGGGATTGGATGATTTCAGTCTGTG
*
1056563 TTTTGGTTCTTATTTGTTTGTGTTGGGAGTCAGTTTGTGTTGTTGGTGTGTAAGGAGTTTTCTGT
196 TTTTGGTTCTTATTTGTTTGTGTTGAGAGTCAGTTTGTGTTGTTGGTGTGTAAGGAGTTTTCTGT
* *
1056628 AAAGTATGTTGTACGAGTATGCTTTATTAATAAATCGTGGCACTCTTTTTCCCCTTCCGTTGATT
261 AAAGTATGTTGTACGAGTATGCTTTATTAATAAATCGTGGCACTCTTTTCCCCCTTCCGCTGATT
1056693 ATGGAACACCGTTTAGGTGGTCTGTTAATCATGAGAGTA
326 ATGGAACACCGTTTAGGTGGTCTGTTAATCATGAGAGTA
*
1056732 ATCA-TGAGAGGGATTGTAGAGTAGCTGTGGACTAGATTAGGTTGTCAACTTCGGCTCCTCCTTT
1 ATCATTGAGAGGGATTGTAGAGTAGCTGTGGACTAGATTAGGTTGTCAACTTCAG---CTCCTTT
1056796 CTTTAGTTCTTTGGTTGGGAAGATTGTTTCCTTAATTTCGGCTAGGGAGATTATTGTTAGGCACA
63 CTTTAGTTCTTTGGTTGGGAAGATTGTTTCCTTAATTTCGGCTAGGGAGATTATTGTTAGGCACA
1056861 TTTCTAGAAGTTGCAATTGGGAGGCAGATTCCTTGGCTAAACAAGGGATTGGATGATTTCAGTCT
128 TTTCTAGAAGTTGCAATTGGGAGGCAGATTCCTTGGCTAAACAAGGGATTGGATGATTTCAGTCT
*
1056926 GTGTTTTGGTTCTTATTTGTTTGTGTTGAGAGTCAGTTTGTTTTGTTGGTGTGTAAGGAGTTTTC
193 GTGTTTTGGTTCTTATTTGTTTGTGTTGAGAGTCAGTTTGTGTTGTTGGTGTGTAAGGAGTTTTC
1056991 TGTAAAGTATGTTGTACGAGTATGCTTTATTAATAAATCGTGGCACTCTTTTCCCCCTTCCGCTG
258 TGTAAAGTATGTTGTACGAGTATGCTTTATTAATAAATCGTGGCACTCTTTTCCCCCTTCCGCTG
*
1057056 ATTATGGAACACCGTTTTGGTGGTCTGTTAATCATGAGAG
323 ATTATGGAACACCGTTTAGGTGGTCTGTTAATCATGAGAG
1057096 GGATTTTTAA
Statistics
Matches: 352, Mismatches: 9, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
363 46 0.13
364 4 0.01
366 302 0.86
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.40
Consensus pattern (364 bp):
ATCATTGAGAGGGATTGTAGAGTAGCTGTGGACTAGATTAGGTTGTCAACTTCAGCTCCTTTCTT
TAGTTCTTTGGTTGGGAAGATTGTTTCCTTAATTTCGGCTAGGGAGATTATTGTTAGGCACATTT
CTAGAAGTTGCAATTGGGAGGCAGATTCCTTGGCTAAACAAGGGATTGGATGATTTCAGTCTGTG
TTTTGGTTCTTATTTGTTTGTGTTGAGAGTCAGTTTGTGTTGTTGGTGTGTAAGGAGTTTTCTGT
AAAGTATGTTGTACGAGTATGCTTTATTAATAAATCGTGGCACTCTTTTCCCCCTTCCGCTGATT
ATGGAACACCGTTTAGGTGGTCTGTTAATCATGAGAGTA
Found at i:1060980 original size:2 final size:2
Alignment explanation
Indices: 1060968--1061011 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
1060958 TGCATTAGTG
* *
1060968 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA GA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1061009 TA T
1 TA T
1061012 GTGCATTAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1063493 original size:12 final size:12
Alignment explanation
Indices: 1063473--1063508 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
1063463 CTTGTTTCTA
*
1063473 TGTTGTTTTTTT
1 TGTTTTTTTTTT
1063485 TGTTTTTTTTTT
1 TGTTTTTTTTTT
1063497 TGTTTTTTTTTT
1 TGTTTTTTTTTT
1063509 CCTCTTTGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (12 bp):
TGTTTTTTTTTT
Found at i:1069575 original size:41 final size:42
Alignment explanation
Indices: 1069473--1069579 Score: 135
Period size: 42 Copynumber: 2.6 Consensus size: 42
1069463 TTCACAATTT
* * * *
1069473 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGC
1 ATAAGTCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGC
* * *
1069515 TTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG-
1 ATAAGTCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGC
*
1069556 ATGAGTCCTTCGGGCCATCTGTAA
1 ATAAGTCCTTCGGGCCATCTGTAA
1069580 AACCTTCGGG
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
41 20 0.37
42 34 0.63
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (42 bp):
ATAAGTCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGC
Found at i:1069737 original size:215 final size:214
Alignment explanation
Indices: 1069367--1069758 Score: 660
Period size: 215 Copynumber: 1.8 Consensus size: 214
1069357 CATCCATAAG
* * *
1069367 ACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAATGATGTTTTAAGAAGATGGAAT
1 ACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACGATGTTTTAAGAAGATGAAAC
*
1069432 TTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAA
66 TTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAA
* *
1069497 GTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCA-TCTGTAAGCCTTTAGAGCAAGATGATGAG
131 GTCTTTCGAGCATGATGATTAAATCCTTCGGGTAACT-TGTAAGCCTTTAGAGCAAGATGATGAG
1069561 TCCTTCGGGCCATCTGTAAA
195 TCCTTCGGGCCATCTGTAAA
* * * *
1069581 ACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAACGATGTTTTGAGAAGATGAAA
1 ACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAAT-AAAAAACGATGTTTTAAGAAGATGAAA
1069646 CTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTA
65 CTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTA
*
1069711 AGTCTTTCGAGCATGATGATTAAATCCTTTGGGTAACTTGTAAGCCTT
130 AGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAACTTGTAAGCCTT
1069759 CACGGAAGAG
Statistics
Matches: 165, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
214 34 0.21
215 130 0.79
216 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (214 bp):
ACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACGATGTTTTAAGAAGATGAAAC
TTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAA
GTCTTTCGAGCATGATGATTAAATCCTTCGGGTAACTTGTAAGCCTTTAGAGCAAGATGATGAGT
CCTTCGGGCCATCTGTAAA
Found at i:1069858 original size:59 final size:59
Alignment explanation
Indices: 1069766--1069883 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
1069756 CTTCACGGAA
**
1069766 GAGTAGTGAAGCAAATTCATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGT
1 GAGTAGTGAAGCAAACCCATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGT
1069825 GAGTAGTGAAGCAAACCCATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGT
1 GAGTAGTGAAGCAAACCCATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGT
1069884 AATTTTTAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (59 bp):
GAGTAGTGAAGCAAACCCATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGT
Found at i:1070003 original size:42 final size:41
Alignment explanation
Indices: 1069940--1070026 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 41
1069930 AGTGCCATCA
* * *
1069940 GTAAGTCTTTTGAGCATGATGATTAAATCCTTCGGGTCATTT
1 GTAAGTCTTTCGAGCATGATGA-TAAATCCTCCGGGCCATTT
* *
1069982 GTAAGTCTTTCGAGTGA-GATGATAAGTCCTCCGGGCCATTT
1 GTAAGTCTTTCGAG-CATGATGATAAATCCTCCGGGCCATTT
1070023 -TAAG
1 GTAAG
1070027 CCTTCTCGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
40 4 0.10
41 16 0.41
42 18 0.46
43 1 0.03
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (41 bp):
GTAAGTCTTTCGAGCATGATGATAAATCCTCCGGGCCATTT
Found at i:1070461 original size:53 final size:53
Alignment explanation
Indices: 1070398--1070600 Score: 282
Period size: 53 Copynumber: 3.8 Consensus size: 53
1070388 AGAATTACAC
* *
1070398 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACTCGTAAG
1070451 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACTCGTAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACTCGTAAG
* * * ***
1070504 CAGAAGATTGTTCGAGTTCTACTTCCTGAAGAAATAGGGAGCGAACTCGTTTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACTCGTAAG
* * *
1070557 TAGAAGATTGTTCAAGTTCCTTAATCCCTGAA-CAAGAGGGAGCG
1 CAGAAGATTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGGGAGCG
1070601 GACACATCAT
Statistics
Matches: 134, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
53 114 0.85
54 11 0.08
55 9 0.07
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACTCGTAAG
Found at i:1085278 original size:4 final size:4
Alignment explanation
Indices: 1085265--1085294 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
1085255 TCCTAAATTT
1085265 TAAA -AAA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
1085295 GAACATAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:1103422 original size:16 final size:15
Alignment explanation
Indices: 1103385--1103423 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1103375 TATTTATTTG
*
1103385 ATTTTAAATTTTGTC
1 ATTTTAAATTTTGTA
*
1103400 ATGTTAAATATTTGTA
1 ATTTTAAAT-TTTGTA
1103416 ATTTTAAA
1 ATTTTAAA
1103424 ATTGATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (15 bp):
ATTTTAAATTTTGTA
Found at i:1108226 original size:26 final size:26
Alignment explanation
Indices: 1108196--1108273 Score: 138
Period size: 26 Copynumber: 3.0 Consensus size: 26
1108186 TTGAAAAAGC
* *
1108196 CTGAGTGCATCAATGCATCAAATGCA
1 CTGAGTGCATCGATGCATAAAATGCA
1108222 CTGAGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATAAAATGCA
1108248 CTGAGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATAAAATGCA
1108274 TTCGATGTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (26 bp):
CTGAGTGCATCGATGCATAAAATGCA
Found at i:1114268 original size:50 final size:50
Alignment explanation
Indices: 1114193--1114292 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
1114183 TATGTGATCA
1114193 TATTAGAAATATGTTAAGTGATATGTGAAAGTGGATTACATGTTTTTGTG
1 TATTAGAAATATGTTAAGTGATATGTGAAAGTGGATTACATGTTTTTGTG
1114243 TATTAGAAATATGTTAAGTGATATGTGAAAGTGGATTACATGTTTTTGTG
1 TATTAGAAATATGTTAAGTGATATGTGAAAGTGGATTACATGTTTTTGTG
1114293 AATGTGATAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.32, C:0.02, G:0.24, T:0.42
Consensus pattern (50 bp):
TATTAGAAATATGTTAAGTGATATGTGAAAGTGGATTACATGTTTTTGTG
Found at i:1114759 original size:32 final size:31
Alignment explanation
Indices: 1114719--1114841 Score: 124
Period size: 30 Copynumber: 4.0 Consensus size: 31
1114709 GTCGAGGGTT
*
1114719 TACCTATGTTTTACGGAACATATGGACAGAA
1 TACCTATGTTTTACGGAACATATGGACAGTA
* *
1114750 TTACCTATGTCTTT-CGGGACATATGGATAGTA
1 -TACCTATGT-TTTACGGAACATATGGACAGTA
* * *
1114782 TACCTATGTTCTAAGGAATATAT-GACAGTA
1 TACCTATGTTTTACGGAACATATGGACAGTA
* * * *
1114812 TACCTAGGTTTTTCGGGACCTATGGACAGT
1 TACCTATGTTTTACGGAACATATGGACAGT
1114842 TGCCGAGGAT
Statistics
Matches: 73, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
30 24 0.33
31 22 0.30
32 24 0.33
33 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.33
Consensus pattern (31 bp):
TACCTATGTTTTACGGAACATATGGACAGTA
Found at i:1114830 original size:61 final size:63
Alignment explanation
Indices: 1114719--1114837 Score: 161
Period size: 61 Copynumber: 1.9 Consensus size: 63
1114709 GTCGAGGGTT
* * *
1114719 TACCTATGTTTTACGGAACATATGGACAGAATTACCTATGTCTTTCGGGACATATGGATAGTA
1 TACCTATGTTCTAAGGAACATATGGACAGAATTACCTAGGTCTTTCGGGACATATGGATAGTA
* * * *
1114782 TACCTATGTTCTAAGGAATATAT-GACAGTA-TACCTAGGTTTTTCGGGACCTATGGA
1 TACCTATGTTCTAAGGAACATATGGACAGAATTACCTAGGTCTTTCGGGACATATGGA
1114838 CAGTTGCCGA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
61 23 0.47
62 6 0.12
63 20 0.41
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (63 bp):
TACCTATGTTCTAAGGAACATATGGACAGAATTACCTAGGTCTTTCGGGACATATGGATAGTA
Found at i:1119688 original size:31 final size:31
Alignment explanation
Indices: 1119618--1119741 Score: 142
Period size: 31 Copynumber: 4.0 Consensus size: 31
1119608 GTCGAGGGTT
* *
1119618 TACCTATGTTCTACGGAACATATGGACAGAA
1 TACCTATGTTCTTCGGAACATATGGACAGTA
* *
1119649 TTACCTATG-TCTTTCGGGACATATGGATAGTA
1 -TACCTATGTTC-TTCGGAACATATGGACAGTA
* *
1119681 TACCTATGTTCTTAGGAATATATGGACAGTA
1 TACCTATGTTCTTCGGAACATATGGACAGTA
* * *
1119712 TACCTAGGTTCTTCGGGACCTATGGACAGT
1 TACCTATGTTCTTCGGAACATATGGACAGT
1119742 TGCCGAGGAT
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
31 51 0.66
32 26 0.34
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (31 bp):
TACCTATGTTCTTCGGAACATATGGACAGTA
Found at i:1119704 original size:63 final size:62
Alignment explanation
Indices: 1119618--1119737 Score: 163
Period size: 63 Copynumber: 1.9 Consensus size: 62
1119608 GTCGAGGGTT
*
1119618 TACCTATGTTCTACGGAACATATGGACAGAATTACCTATG-TCTTTCGGGACATATGGATAGTA
1 TACCTATGTTCTACGGAACATATGGACAGAA-TACCTAGGTTC-TTCGGGACATATGGATAGTA
* * *
1119681 TACCTATGTTCTTA-GGAATATATGGACAGTATACCTAGGTTCTTCGGGACCTATGGA
1 TACCTATGTTC-TACGGAACATATGGACAGAATACCTAGGTTCTTCGGGACATATGGA
1119738 CAGTTGCCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
62 21 0.41
63 28 0.55
64 2 0.04
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (62 bp):
TACCTATGTTCTACGGAACATATGGACAGAATACCTAGGTTCTTCGGGACATATGGATAGTA
Found at i:1121627 original size:137 final size:138
Alignment explanation
Indices: 1121416--1121691 Score: 504
Period size: 137 Copynumber: 2.0 Consensus size: 138
1121406 TTGCTAGCGG
1121416 TAAAGGAAAGATTAAGAAAGGGAAGCAACATGAAAATTAGAAGGCATGATATTATAAAGGTATCC
1 TAAAGGAAAGATTAAGAAAGGGAAGCAACATGAAAATTAGAAGGCATGA-ATTATAAAGGTATCC
1121481 AGTGAAAATTCGAGGACGAATTTTCGT-AAAAGAGGGGAGATTTGTAACATCCC-AATCAGGGTC
65 AGTGAAAATTCGAGGACGAATTTTCGTAAAAAGAGGGGAGATTTGTAACATCCCAAATCAGGGTC
1121544 AGTGACTAA
130 AGTGACTAA
1121553 TAAAGGAAAGATTAAGAAAGGGAAGCAACATGAAAATATTAGAAGGCATG-ATTATAAAGGTATC
1 TAAAGGAAAGATTAAGAAAGGGAAGCAACATG-AAA-ATTAGAAGGCATGAATTATAAAGGTATC
1121617 CAGTGAAAATTCGAGGACGAATTTTCGTAAAAAGAGGGGAGATTTGTAACATCCCAAATCAGGGT
64 CAGTGAAAATTCGAGGACGAATTTTCGTAAAAAGAGGGGAGATTTGTAACATCCCAAATCAGGGT
1121682 CAGTGACTAA
129 CAGTGACTAA
1121692 ATTGCAAATT
Statistics
Matches: 135, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
137 74 0.55
138 29 0.21
139 32 0.24
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.22
Consensus pattern (138 bp):
TAAAGGAAAGATTAAGAAAGGGAAGCAACATGAAAATTAGAAGGCATGAATTATAAAGGTATCCA
GTGAAAATTCGAGGACGAATTTTCGTAAAAAGAGGGGAGATTTGTAACATCCCAAATCAGGGTCA
GTGACTAA
Found at i:1121816 original size:44 final size:45
Alignment explanation
Indices: 1121753--1121842 Score: 173
Period size: 44 Copynumber: 2.0 Consensus size: 45
1121743 AGGATTTAAA
1121753 TAGAAAAATTTTAGTGTTAGATTAAATGGTAATTTTTGGAAAGTT
1 TAGAAAAATTTTAGTGTTAGATTAAATGGTAATTTTTGGAAAGTT
1121798 TAGAAAAA-TTTAGTGTTAGATTAAATGGTAATTTTTGGAAAGTT
1 TAGAAAAATTTTAGTGTTAGATTAAATGGTAATTTTTGGAAAGTT
1121842 T
1 T
1121843 GAAGGTATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 37 0.82
45 8 0.18
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (45 bp):
TAGAAAAATTTTAGTGTTAGATTAAATGGTAATTTTTGGAAAGTT
Found at i:1123835 original size:23 final size:23
Alignment explanation
Indices: 1123802--1123869 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
1123792 ATTATTATAT
1123802 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
1123825 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* ** *
1123848 GTCACTTTGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
1123870 AGCTATGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1128049 original size:22 final size:21
Alignment explanation
Indices: 1128007--1128046 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1127997 GAGTTTATTT
*
1128007 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1128028 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1128047 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1130056 original size:20 final size:20
Alignment explanation
Indices: 1130031--1130068 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1130021 TGAAAAATTA
1130031 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
1130051 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
1130069 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:1133132 original size:84 final size:83
Alignment explanation
Indices: 1132831--1133385 Score: 626
Period size: 84 Copynumber: 6.7 Consensus size: 83
1132821 AATGGAATCA
*
1132831 AACTCGAAGGTC-TTTG--GCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGATGCC
1 AACTCGAAGGTCTTTTGTTGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATG-TGCC
* * * * *
1132893 TTTGAGTTGAGTGGATTCG
65 TTGGAGCTGAGCGTAGTCG
* * *
1132912 AACTCGAAGGTC-TTTG--GCAGATAGCCCTTCTTTCCTTGAGCTATGTTGCAAATGATGGTGCC
1 AACTCGAAGGTCTTTTGTTGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGAT-GTGCC
* *
1132974 TTTGAGCTGAGCGGAGTCG
65 TTGGAGCTGAGCGTAGTCG
* * * * * *
1132993 -ACTTGAAGGTC-TTTGTTGATAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCC
1 AACTCGAAGGTCTTTTGTTG-CAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCC
* *
1133056 TTGAAGCTGAGCGTAGTTG
65 TTGGAGCTGAGCGTAGTCG
* * * *
1133075 AACTCGAAGGTCTTTTATTAGAAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCC
1 AACTCGAAGGTCTTTTGTT-GCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCC
1133140 TTGGAGCTGAGCGTAGTCG
65 TTGGAGCTGAGCGTAGTCG
* *
1133159 AACTCGAAGGTCTTTTGTGTGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAAT-ATTGTGC
1 AACTCGAAGGTCTTTTGT-TGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGA-TGTGC
* * *
1133223 ATTGGAGCTGAGCATAGTCA
64 CTTGGAGCTGAGCGTAGTCG
* * *
1133243 AACTCGAAGGTCTTTTGTTGGC-GAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTTC
1 AACTCGAAGGTCTTTTGTT-GCAG-ATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGC
1133307 CTTGGAGCTGAGCGTAGTCG
64 CTTGGAGCTGAGCGTAGTCG
* * * * * *
1133327 AACTCGAATGTCTTTGGTGGGCAGATAACCATTCTAGCCTTGAGTTATGCTGCAAATGA
1 AACTCGAAGGTCTTTTGT-TGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGA
1133386 ACACGATATC
Statistics
Matches: 406, Mismatches: 54, Indels: 25
0.84 0.11 0.05
Matches are distributed among these distances:
80 14 0.03
81 74 0.18
82 22 0.05
83 44 0.11
84 248 0.61
85 4 0.01
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (83 bp):
AACTCGAAGGTCTTTTGTTGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCT
TGGAGCTGAGCGTAGTCG
Found at i:1133639 original size:116 final size:116
Alignment explanation
Indices: 1133432--1133724 Score: 475
Period size: 116 Copynumber: 2.6 Consensus size: 116
1133422 TGGCATTGCT
* * * *
1133432 AAATCCAATGAATGTTGCTGGTGAGCACGATTCCCTTCATCGTGAAATTGAAACCGTGGATGACC
1 AAATCCAATGAATATTGCTGGTGAGCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCC
*
1133497 CATTCCTTGTGAAGTTGAGCCATGAATTGGATATCCTTCGTCATGAAGTTG
66 CATTCCTTGTGAAGTTGAGCCATGAATTGGATATCCTTCATCATGAAGTTG
1133548 AAATCCAATGAATATTGCTGGTGAGCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCC
1 AAATCCAATGAATATTGCTGGTGAGCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCC
* * *
1133613 CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCATCGTGAAGTTG
66 CATTCCTTGTGAAGTTGAGCCATGAATTGGATATCCTTCATCATGAAGTTG
* *
1133664 AAATCCAATGAATATTGCTGGTGAGCACGTTTCCCTTTGTCGT---GTTGAAACCGTGGATGGC
1 AAATCCAATGAATATTGCTGGTGAGCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGC
1133725 ATTGCTGTTT
Statistics
Matches: 167, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
113 18 0.11
116 149 0.89
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (116 bp):
AAATCCAATGAATATTGCTGGTGAGCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCC
CATTCCTTGTGAAGTTGAGCCATGAATTGGATATCCTTCATCATGAAGTTG
Found at i:1133943 original size:116 final size:116
Alignment explanation
Indices: 1133739--1133954 Score: 342
Period size: 116 Copynumber: 1.9 Consensus size: 116
1133729 CTGTTTGTGG
* * *
1133739 GCACGATTCCCTTCGCCATGAAGTTAAAACTGTTGATGGCCCCTTCGTTGTGAAGTTGAGCCTTG
1 GCACGATTCCCTTCACCATGAAGTTAAAACTGTGGATGGCCCCTTCATTGTGAAGTTGAGCCTTG
* * * *
1133804 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATGAATGTTACTGGTGT
66 AATTGAATATCATTCGTCATGAAGTTAAAATCCAATGAATGTTACTGGTGT
* *
1133855 GCACGATTCCCTTCATCATGAAGTTGAAACTGTGGATGGCCCCTTCATTGTGAAGTTGAGCCTTG
1 GCACGATTCCCTTCACCATGAAGTTAAAACTGTGGATGGCCCCTTCATTGTGAAGTTGAGCCTTG
*
1133920 ACTTGAATATCATTCGTCATGAAGTTAAAATCCAA
66 AATTGAATATCATTCGTCATGAAGTTAAAATCCAA
1133955 GCTTGTATTG
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
116 90 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (116 bp):
GCACGATTCCCTTCACCATGAAGTTAAAACTGTGGATGGCCCCTTCATTGTGAAGTTGAGCCTTG
AATTGAATATCATTCGTCATGAAGTTAAAATCCAATGAATGTTACTGGTGT
Found at i:1136013 original size:35 final size:36
Alignment explanation
Indices: 1135952--1136019 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
1135942 ATGTCCTCAT
*
1135952 AAAAAGAAATATGGCAAAGTT-CAAAAACAAGTGAC
1 AAAAAGAAATATGGCAAAGTTAAAAAAACAAGTGAC
*
1135987 AAAAAGAAATATGAG-AAGGTTAAAAAAACAAGT
1 AAAAAGAAATATG-GCAAAGTTAAAAAAACAAGT
1136020 TTAAACAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 18 0.62
36 11 0.38
ACGTcount: A:0.60, C:0.07, G:0.18, T:0.15
Consensus pattern (36 bp):
AAAAAGAAATATGGCAAAGTTAAAAAAACAAGTGAC
Found at i:1143337 original size:21 final size:22
Alignment explanation
Indices: 1143305--1143345 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1143295 TATAATCAAC
*
1143305 TCAAATATTTAAAATAAAATGG
1 TCAAATATTTAAAAAAAAATGG
1143327 TCAAA-ATTTAAAAAAAAAT
1 TCAAATATTTAAAAAAAAAT
1143346 TACTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
TCAAATATTTAAAAAAAAATGG
Found at i:1147262 original size:17 final size:17
Alignment explanation
Indices: 1147240--1147272 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1147230 TAATTTACCA
1147240 TTTATATTTTCGATTAT
1 TTTATATTTTCGATTAT
*
1147257 TTTATATTTTTGATTA
1 TTTATATTTTCGATTA
1147273 ATATGAGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTATATTTTCGATTAT
Found at i:1149538 original size:542 final size:542
Alignment explanation
Indices: 1148516--1149597 Score: 1968
Period size: 542 Copynumber: 2.0 Consensus size: 542
1148506 TTTAATAAAA
*
1148516 CATTTTACTTTTATCAAAATACTGAGTTTTAAGGTCTGCGAAAATCCAAAAATCGGGTTCGAGAG
1 CATTTTACTTTTATCAAAATACTGAGTTTTAAGGTCTACGAAAATCCAAAAATCGGGTTCGAGAG
*
1148581 TTAGTTACGCGTAGGGAAGGATTAACATCCCCACAAGCGCCCAAAAATTGGTACTTAGTTGATTA
66 TCAGTTACGCGTAGGGAAGGATTAACATCCCCACAAGCGCCCAAAAATTGGTACTTAGTTGATTA
**
1148646 CCCTATATTTAAAATCGAAAATTTTGAGTTCGAACGTTAATTTAAAAATCATTACGGATACAAAG
131 CCCTATATTTAAAATAAAAAATTTTGAGTTCGAACGTTAATTTAAAAATCATTACGGATACAAAG
* *
1148711 TTGAAAAGGGTATTCGTTTATTAAAGCCGATAGCATTCATCCCTTAGCATAAACGCAGGAGATCA
196 TTGAAAAGGGTATTCATTTATTAAAGCCGATAGCATTCACCCCTTAGCATAAACGCAGGAGATCA
*
1148776 GTTATTGTGCTCGATAACCGAATAATGCATCGTTTTTAAAAAATCATGATGTTGTTTTGAAAAGG
261 GCTATTGTGCTCGATAACCGAATAATGCATCGTTTTTAAAAAATCATGATGTTGTTTTGAAAAGG
*
1148841 ATGTCGACTTATTTCAGGAATCACCAGTAGTCATCCCCTGAGCATACTTGCGGGAGATGTACTAT
326 ATGTCGACTTATTTCAGGAATCACCAGTAGTCACCCCCTGAGCATACTTGCGGGAGATGTACTAT
*
1148906 TAATTCCCTAATAAGTGAACATTGCCTTAGGGTTAAAAATAAAATGCAATCAAACAAATTCTATT
391 TAATTCCCTAATAAGTGAACATTGCCTTAGAGTTAAAAATAAAATGCAATCAAACAAATTCTATT
1148971 TATCCTAATTAAACTAAGAGTAAATTAAGGATTTTTCTAGCTTAAGGTGTCAAATTATGAAAATT
456 TATCCTAATTAAACTAAGAGTAAATTAAGGATTTTTCTAGCTTAAGGTGTCAAATTATGAAAATT
1149036 AAAGGACCTAAAGGCACAAATG
521 AAAGGACCTAAAGGCACAAATG
1149058 CATTTTACTTTTATCAAAATACTGAGTTTTAAGGTCTACGAAAATCCAAAAATCGGGTTCGAGAG
1 CATTTTACTTTTATCAAAATACTGAGTTTTAAGGTCTACGAAAATCCAAAAATCGGGTTCGAGAG
* * * * *
1149123 TCAGTTACGTGTAGGGAAGGATTAGCATTCCCTCAAGCGCCCAAAAATTGGTATTTAGTTGATTA
66 TCAGTTACGCGTAGGGAAGGATTAACATCCCCACAAGCGCCCAAAAATTGGTACTTAGTTGATTA
*
1149188 CCCTATATTTAAAATAAAAAATTTTGAGTTCGAACGTTAATTTAAAAATCATTACGGATGCAAAG
131 CCCTATATTTAAAATAAAAAATTTTGAGTTCGAACGTTAATTTAAAAATCATTACGGATACAAAG
*
1149253 TTGAAAAGGGTATTTATTTATTAAAGCCGATAGCATTCACCCCTTAGCATAAACGCAGGAGATCA
196 TTGAAAAGGGTATTCATTTATTAAAGCCGATAGCATTCACCCCTTAGCATAAACGCAGGAGATCA
* * *
1149318 GCTATTGTGCTCGATAACCGAATAATGCATCGTTTTTAGAAAATCATGATGTTGTTTTGAATATG
261 GCTATTGTGCTCGATAACCGAATAATGCATCGTTTTTAAAAAATCATGATGTTGTTTTGAAAAGG
*
1149383 ATGTCGACTTATTTTAGGAATCACCAGTAGTCACCCCCTGAGCATACTTGCGGGAGATAG-ACTA
326 ATGTCGACTTATTTCAGGAATCACCAGTAGTCACCCCCTGAGCATACTTGCGGGAGAT-GTACTA
1149447 TTAATTCCCTAATAAGTGAACATTGCCTTAGAGTTAAAAATAAAATGCAATCAAACAAATTCTAT
390 TTAATTCCCTAATAAGTGAACATTGCCTTAGAGTTAAAAATAAAATGCAATCAAACAAATTCTAT
1149512 TTATCCTAATTAAACTAAGAGTAAATTAAGGATTTTTCTAGCTTAAGGTGTCAAATTATGAAAAT
455 TTATCCTAATTAAACTAAGAGTAAATTAAGGATTTTTCTAGCTTAAGGTGTCAAATTATGAAAAT
1149577 TAAAGGACCTAAAGGCACAAA
520 TAAAGGACCTAAAGGCACAAA
1149598 CCTAAAAGTC
Statistics
Matches: 519, Mismatches: 20, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
542 518 1.00
543 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (542 bp):
CATTTTACTTTTATCAAAATACTGAGTTTTAAGGTCTACGAAAATCCAAAAATCGGGTTCGAGAG
TCAGTTACGCGTAGGGAAGGATTAACATCCCCACAAGCGCCCAAAAATTGGTACTTAGTTGATTA
CCCTATATTTAAAATAAAAAATTTTGAGTTCGAACGTTAATTTAAAAATCATTACGGATACAAAG
TTGAAAAGGGTATTCATTTATTAAAGCCGATAGCATTCACCCCTTAGCATAAACGCAGGAGATCA
GCTATTGTGCTCGATAACCGAATAATGCATCGTTTTTAAAAAATCATGATGTTGTTTTGAAAAGG
ATGTCGACTTATTTCAGGAATCACCAGTAGTCACCCCCTGAGCATACTTGCGGGAGATGTACTAT
TAATTCCCTAATAAGTGAACATTGCCTTAGAGTTAAAAATAAAATGCAATCAAACAAATTCTATT
TATCCTAATTAAACTAAGAGTAAATTAAGGATTTTTCTAGCTTAAGGTGTCAAATTATGAAAATT
AAAGGACCTAAAGGCACAAATG
Found at i:1150102 original size:13 final size:13
Alignment explanation
Indices: 1150084--1150108 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1150074 TTTGAAAGTT
1150084 AACTAAATCTAAA
1 AACTAAATCTAAA
1150097 AACTAAATCTAA
1 AACTAAATCTAA
1150109 TGATTTAAAC
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:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (13 bp):
AACTAAATCTAAA
Found at i:1151728 original size:18 final size:20
Alignment explanation
Indices: 1151691--1151728 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
1151681 TTAGGCCCGA
*
1151691 TTGGGTTTTGAGGTTTTATT
1 TTGGGTTTTGAGGTTATATT
1151711 TTGGG-TTT-AGGTTATATT
1 TTGGGTTTTGAGGTTATATT
1151729 GGTAAAAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.13, C:0.00, G:0.29, T:0.58
Consensus pattern (20 bp):
TTGGGTTTTGAGGTTATATT
Found at i:1152243 original size:133 final size:135
Alignment explanation
Indices: 1151942--1152300 Score: 494
Period size: 133 Copynumber: 2.7 Consensus size: 135
1151932 TTTTTATTAA
* * * *
1151942 AAATGTTGATCCCTCAAGTGAGGCGTCACTAATTCGAAGTGTTGTGAATCTAGCGATAGGTCGAA
1 AAATGTTAATCCCTCAAGTGAGGCGTTACTGATTCGAAGTGTTGTGAATCTAGCAATAGGTCGAA
* *
1152007 CAAGTTCATCTCATTATGAACTTATTCTCCCTCTGCTGGATGAGTTCTTCTCATTAGTAACTCTC
66 CAAGTTCTTCTCATTATGAACTT-TTCTCCCTCTGCTGGATGAGCTCTTCTCATTAGTAACTCTC
1152072 CATTGG
130 CATTGG
* * *
1152078 AAATGTTAATCCCTCAAGTGTGGCATTGCTGATTCGAAGTGTTGTGAATCTAG-AATTAGGTCGA
1 AAATGTTAATCCCTCAAGTGAGGCGTTACTGATTCGAAGTGTTGTGAATCTAGCAA-TAGGTCGA
* * *
1152142 ACAAGTTCTTCTCATTA-GAACTTTCTCTCCCTGT-C-GGATGAGCTCTTCTCATTA-TGGATTC
65 ACAAGTTCTTCTCATTATGAACTTT-TCTCCCTCTGCTGGATGAGCTCTTCTCATTAGT-AACTC
1152203 TCCATTGG
128 TCCATTGG
* * * * *
1152211 AAATGTTAATCCCTCAAGCGAGACGTTACTGATTGGAAGTGTTGTGAATCGAGCAACAGGTCGAA
1 AAATGTTAATCCCTCAAGTGAGGCGTTACTGATTCGAAGTGTTGTGAATCTAGCAATAGGTCGAA
1152276 CAAGTTCTTCTCATTATGAACTTTT
66 CAAGTTCTTCTCATTATGAACTTTT
1152301 TCTCTCGAAT
Statistics
Matches: 198, Mismatches: 20, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
132 1 0.01
133 100 0.51
134 11 0.06
135 15 0.08
136 71 0.36
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (135 bp):
AAATGTTAATCCCTCAAGTGAGGCGTTACTGATTCGAAGTGTTGTGAATCTAGCAATAGGTCGAA
CAAGTTCTTCTCATTATGAACTTTTCTCCCTCTGCTGGATGAGCTCTTCTCATTAGTAACTCTCC
ATTGG
Found at i:1152615 original size:22 final size:22
Alignment explanation
Indices: 1152564--1152617 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
1152554 TTTATGATTA
*
1152564 GGGGATTTGGGATTTGGGTTTTT
1 GGGG-TTTGGGATTTAGGTTTTT
**
1152587 GATGTTTGGGATTTTAGG-TTTT
1 GGGGTTTGGGA-TTTAGGTTTTT
1152609 GGGGTTTGG
1 GGGGTTTGG
1152618 AAGTGAGATA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.09, C:0.00, G:0.43, T:0.48
Consensus pattern (22 bp):
GGGGTTTGGGATTTAGGTTTTT
Found at i:1153121 original size:31 final size:29
Alignment explanation
Indices: 1153081--1153142 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
1153071 ATTCCATATT
*
1153081 TGATACATATACTTTGATAAAATGTCTAATA
1 TGATACATATAC-TT-ATAAAATGACTAATA
* *
1153112 TGATTCATATACTTCTAAAATGACTAATA
1 TGATACATATACTTATAAAATGACTAATA
1153141 TG
1 TG
1153143 GTATATTACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 15 0.54
30 2 0.07
31 11 0.39
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (29 bp):
TGATACATATACTTATAAAATGACTAATA
Found at i:1153536 original size:2 final size:2
Alignment explanation
Indices: 1153529--1153553 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1153519 AAACTATTCA
1153529 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1153554 AGTATCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1158197 original size:59 final size:60
Alignment explanation
Indices: 1158124--1158238 Score: 153
Period size: 59 Copynumber: 1.9 Consensus size: 60
1158114 TAATCAGCTA
* * *
1158124 ACCATTTTGTAACTTTTAACAGTCGAAT-GACTCAACAAAGCAATACTCTATAGTCGAAGG
1 ACCATTTTATAACTTTTAACAGTC-AATGGACTCAACAAAACAATACCCTATAGTCGAAGG
* * *
1158184 ACCA-TTTATAACTTTTAATAGTCAATGGACTTAATAAAACAATACCCTATAGTCG
1 ACCATTTTATAACTTTTAACAGTCAATGGACTCAACAAAACAATACCCTATAGTCG
1158239 GGGGGTCATT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 3 0.06
59 41 0.85
60 4 0.08
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.30
Consensus pattern (60 bp):
ACCATTTTATAACTTTTAACAGTCAATGGACTCAACAAAACAATACCCTATAGTCGAAGG
Found at i:1162976 original size:22 final size:22
Alignment explanation
Indices: 1162935--1163001 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
1162925 CTCGTATAAA
1162935 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
1162958 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
1162980 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1163002 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1164726 original size:21 final size:21
Alignment explanation
Indices: 1164702--1164746 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1164692 TCTTGTTCGT
* *
1164702 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1164723 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1164744 TTG
1 TTG
1164747 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1167496 original size:136 final size:134
Alignment explanation
Indices: 1167168--1167631 Score: 653
Period size: 136 Copynumber: 3.4 Consensus size: 134
1167158 CAATATTCAC
* **
1167168 GTGAAAGCGCTTCTTGTGGGACGTGCA--TTTCCTTTTTGTCAGAAAATAGGTTATAATTACCCT
1 GTGAAAGCGCTTCTTGTGGGA--TGCATCTTTCCTTTTTGTCAGAGAATAGGTTATAATTGTCCT
* * * *
1167231 ACTATGTGTGATGTCCCCCGATGAGGCACTATTCACATCAACACCTATTATGTTTGATGGGATGC
64 ATTATGTGTGATGTCCCCCGA-G-GGCACTATTCACGTCAACACCTATTATG-TTGAGGGGACGC
1167296 AACAATGTG
126 AACAATGTG
* *
1167305 GTGAAAGCACTTCTTGTGGGATGCATATTTCCTTTTTGTCAGAGAATAGGTTATAATTGTCCTAT
1 GTGAAAGCGCTTCTTGTGGGATGCATCTTTCCTTTTTGTCAGAGAATAGGTTATAATTGTCCTAT
*
1167370 TATGTGTGATGTCCCCCGACGGGACACTATTCACGTCAACACCTATTATGTTAAGGGGACGCAAC
66 TATGTGTGATGTCCCCCGA-GGG-CACTATTCACGTCAACACCTATTATGTTGAGGGGACGCAAC
1167435 AATGTG
129 AATGTG
* * * *
1167441 GTGAAAGTGCTTCTTGTAGGATGCGTCTTTCCTTTTTGTTAGAGAATAGGTTATAATTGTCCTAT
1 GTGAAAGCGCTTCTTGTGGGATGCATCTTTCCTTTTTGTCAGAGAATAGGTTATAATTGTCCTAT
*
1167506 TATGTGTGATGTCCCCTTGAGGGGCACTATTCACGTCAACACCTATTATGTTGAGGGGACGCAAC
66 TATGTGTGATGTCCCC-CGA-GGGCACTATTCACGTCAACACCTATTATGTTGAGGGGACGCAAC
1167571 AATGTG
129 AATGTG
* * * * *
1167577 GTGAAAACGTTTCTTGTGGGATACACCTTTCCTTTTTGTTAGAGAATAGGTTATA
1 GTGAAAGCGCTTCTTGTGGGATGCATCTTTCCTTTTTGTCAGAGAATAGGTTATA
1167632 CAACAACAAC
Statistics
Matches: 297, Mismatches: 26, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
135 4 0.01
136 189 0.64
137 104 0.35
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (134 bp):
GTGAAAGCGCTTCTTGTGGGATGCATCTTTCCTTTTTGTCAGAGAATAGGTTATAATTGTCCTAT
TATGTGTGATGTCCCCCGAGGGCACTATTCACGTCAACACCTATTATGTTGAGGGGACGCAACAA
TGTG
Found at i:1167865 original size:13 final size:13
Alignment explanation
Indices: 1167829--1167865 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
1167819 AGTTGAACAA
*
1167829 TCTTCATATGCAG
1 TCTTCATATGTAG
1167842 TCTTCATATGTAG
1 TCTTCATATGTAG
1167855 TCTTCATATGT
1 TCTTCATATGT
1167866 GCGTCTGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.46
Consensus pattern (13 bp):
TCTTCATATGTAG
Found at i:1169183 original size:21 final size:21
Alignment explanation
Indices: 1169157--1169196 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1169147 TCAACATTCG
1169157 AATATATTAAATATTATTTCA
1 AATATATTAAATATTATTTCA
*
1169178 AATATATTAATTATTATTT
1 AATATATTAAATATTATTT
1169197 AAAGTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
AATATATTAAATATTATTTCA
Found at i:1169440 original size:18 final size:18
Alignment explanation
Indices: 1169417--1169453 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1169407 TTCATTTTAA
*
1169417 AAACATTTAACAAACATT
1 AAACATTTAAAAAACATT
1169435 AAACATTTAAAAAACATT
1 AAACATTTAAAAAACATT
1169453 A
1 A
1169454 CATAATCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (18 bp):
AAACATTTAAAAAACATT
Found at i:1171888 original size:23 final size:22
Alignment explanation
Indices: 1171856--1171902 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
1171846 TATTTTTAAA
1171856 AAACTATTTATAA-AAAATATACT
1 AAACTATTTA-AAGAAAA-ATACT
*
1171879 AAACTTTTTAAAGAAAAATACT
1 AAACTATTTAAAGAAAAATACT
1171901 AA
1 AA
1171903 TTTAAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (22 bp):
AAACTATTTAAAGAAAAATACT
Found at i:1171902 original size:22 final size:23
Alignment explanation
Indices: 1171856--1171902 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
1171846 TATTTTTAAA
*
1171856 AAACTATTTATAAAAAATATACT
1 AAACTATTTATAAAAAAAATACT
1171879 AAACT-TTT-TAAAGAAAAATACT
1 AAACTATTTATAAA-AAAAATACT
1171901 AA
1 AA
1171903 TTTAAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 13 0.59
23 5 0.23
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (23 bp):
AAACTATTTATAAAAAAAATACT
Found at i:1172329 original size:28 final size:29
Alignment explanation
Indices: 1172275--1172331 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
1172265 CAATCGAATG
* *
1172275 GGTGTTACTTTGGGAAATATTAGAAAAAT
1 GGTGTTACATTAGGAAATATTAGAAAAAT
1172304 GGTGTTACATTAGG-AATATTAGAAAAAT
1 GGTGTTACATTAGGAAATATTAGAAAAAT
1172332 AAGGTGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.33
Consensus pattern (29 bp):
GGTGTTACATTAGGAAATATTAGAAAAAT
Found at i:1173498 original size:55 final size:55
Alignment explanation
Indices: 1173361--1173764 Score: 637
Period size: 55 Copynumber: 7.3 Consensus size: 55
1173351 AATTACGTGG
* * * * *
1173361 TTTGCACACATAGTGACAATACGAAAATTCATAAACTCGTTATGAATTTCTTAGGT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTA-GT
* *
1173417 TTTGCACCCAAAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
1173472 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
* * **
1173527 TTTACACACAAAGTGCCTATACAAAAATTCATAAACTCATTATGAATTTCTTAGT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
*
1173582 TTTGCACACAAAGTTCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
* * *
1173637 TTTGCACACAAAGTGTCCATACGAAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
*
1173692 TTTGCACACAAAGTGCCCATATGGAAATTCATAAACTCATTATGAATTTCTTAGT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
* *
1173747 TTTACACACATAGTGCCC
1 TTTGCACACAAAGTGCCC
1173765 TTTTGGTAAT
Statistics
Matches: 320, Mismatches: 28, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
55 274 0.86
56 46 0.14
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (55 bp):
TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
Found at i:1174305 original size:95 final size:93
Alignment explanation
Indices: 1174102--1174305 Score: 214
Period size: 95 Copynumber: 2.2 Consensus size: 93
1174092 GGTACCCATA
* * * * *
1174102 CCATGGTATCGATACTTCTATACTATGGTACTGATACCCCTTTCAATATCAATACTATTTCTACC
1 CCATGGTATCGATACTACTATACTATGGTACTGATACCCCTTACAATATCAATACCATTTATACA
*
1174167 TTCTGTAATTCATGGTATCGATATCTTT
66 TTCTGTAATTCATGGTATCGATACCTTT
* ** * * * *
1174195 CTCTTAATATTGATACTACTTTATTATGGTA-TCGATACCCCATTACAATATCGATACCATTTAT
1 C-CATGGTATCGATACTACTATACTATGGTACT-GATACCCC-TTACAATATCAATACCATTTAT
**
1174259 GTATTCTGTAA-TCAATGGTATCGATACCTTTT
63 ACATTCTGTAATTC-ATGGTATCGATACC-TTT
1174291 CCATGGTATCGATAC
1 CCATGGTATCGATAC
1174306 CTCCCTCTCA
Statistics
Matches: 87, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
93 2 0.02
94 32 0.37
95 49 0.56
96 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.40
Consensus pattern (93 bp):
CCATGGTATCGATACTACTATACTATGGTACTGATACCCCTTACAATATCAATACCATTTATACA
TTCTGTAATTCATGGTATCGATACCTTT
Found at i:1174842 original size:95 final size:93
Alignment explanation
Indices: 1174639--1174842 Score: 214
Period size: 95 Copynumber: 2.2 Consensus size: 93
1174629 GGTACCCATA
* * * * *
1174639 CCATGGTATCGATACTTCTATACTATGGTACTGATACCCCTTTCAATATCAATACTATTTCTACC
1 CCATGGTATCGATACTACTATACTATGGTACTGATACCCCTTACAATATCAATACCATTTATACA
*
1174704 TTCTGTAATTCATGGTATCGATATCTTT
66 TTCTGTAATTCATGGTATCGATACCTTT
* ** * * *
1174732 CTCTTAATATTGATACTACTATATTATGGTA-TCGATACCCCATTACAATATCGATACCATTTAT
1 C-CATGGTATCGATACTACTATACTATGGTACT-GATACCCC-TTACAATATCAATACCATTTAT
** *
1174796 GTATTCTGTAA-TCAATGGTATTGATACCTTTT
63 ACATTCTGTAATTC-ATGGTATCGATACC-TTT
1174828 CCATGGTATCGATAC
1 CCATGGTATCGATAC
1174843 CTCCCTCTCA
Statistics
Matches: 87, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
93 2 0.02
94 33 0.38
95 48 0.55
96 4 0.05
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (93 bp):
CCATGGTATCGATACTACTATACTATGGTACTGATACCCCTTACAATATCAATACCATTTATACA
TTCTGTAATTCATGGTATCGATACCTTT
Found at i:1174860 original size:537 final size:537
Alignment explanation
Indices: 1173847--1174921 Score: 2105
Period size: 537 Copynumber: 2.0 Consensus size: 537
1173837 TGCACTCACC
1173847 TGGTCTGTCTCGCTATTATATCCAAAAATGCAAATCCAACTACTCAGCGACTTTATCTTTGTCTT
1 TGGTCTGTCTCGCTATTATATCCAAAAATGCAAATCCAACTACTCAGCGACTTTATCTTTGTCTT
* *
1173912 TAGGTTTGCTTGACTCAGAAGCTTGATTTCGACCTATTCAAACATCCACTAAAGACACATACCAT
66 TAGGTTTGCTTGACTCAGAAGCTTGATTTCGAACTATTCAAACATCCACTAAAGACACATAACAT
1173977 ACCAAATGTTAGTATATTCCCTAACATTTATACTTTAATAATACTCAAAAGTACTATTATTTTCA
131 ACCAAATGTTAGTATATTCCCTAACATTTATACTTTAATAATACTCAAAAGTACTATTATTTTCA
1174042 ATTTCTATAACAATTTCAGCCTATCTTATGATTCCTGGCTCAATAGTATCGGTACCCATACCATG
196 ATTTCTATAACAATTTCAGCCTATCTTATGATTCCTGGCTCAATAGTATCGGTACCCATACCATG
1174107 GTATCGATACTTCTATACTATGGTACTGATACCCCTTTCAATATCAATACTATTTCTACCTTCTG
261 GTATCGATACTTCTATACTATGGTACTGATACCCCTTTCAATATCAATACTATTTCTACCTTCTG
*
1174172 TAATTCATGGTATCGATATCTTTCTCTTAATATTGATACTACTTTATTATGGTATCGATACCCCA
326 TAATTCATGGTATCGATATCTTTCTCTTAATATTGATACTACTATATTATGGTATCGATACCCCA
1174237 TTACAATATCGATACCATTTATGTATTCTGTAATCAATGGTATCGATACCTTTTCCATGGTATCG
391 TTACAATATCGATACCATTTATGTATTCTGTAATCAATGGTATCGATACCTTTTCCATGGTATCG
*
1174302 ATACCTCCCTCTCAGTATCGATACTAATTGCATCAGTATCGATACTGTTCAGCTGATTTCTTCTA
456 ATACCTCCCTCTCAGTATCGATACTAATTGCATCAGTATCGATACTGCTCAGCTGATTTCTTCTA
1174367 ATTTTAAGCCTACAGTA
521 ATTTTAAGCCTACAGTA
1174384 TGGTCTGTCTCGCTATTATATCCAAAAATGCAAATCCAACTACTCAGCGACTTTATCTTTGTCTT
1 TGGTCTGTCTCGCTATTATATCCAAAAATGCAAATCCAACTACTCAGCGACTTTATCTTTGTCTT
1174449 TAGGTTTGCTTGACTCAGAAGCTTGATTTCGAACTATTCAAACATCCACTAAAGACACATAACAT
66 TAGGTTTGCTTGACTCAGAAGCTTGATTTCGAACTATTCAAACATCCACTAAAGACACATAACAT
1174514 ACCAAATGTTAGTATATTCCCTAACATTTATACTTTAATAATACTCAAAAGTACTATTATTTTCA
131 ACCAAATGTTAGTATATTCCCTAACATTTATACTTTAATAATACTCAAAAGTACTATTATTTTCA
1174579 ATTTCTATAACAATTTCAGCCTATCTTATGATTCCTGGCTCAATAGTATCGGTACCCATACCATG
196 ATTTCTATAACAATTTCAGCCTATCTTATGATTCCTGGCTCAATAGTATCGGTACCCATACCATG
1174644 GTATCGATACTTCTATACTATGGTACTGATACCCCTTTCAATATCAATACTATTTCTACCTTCTG
261 GTATCGATACTTCTATACTATGGTACTGATACCCCTTTCAATATCAATACTATTTCTACCTTCTG
1174709 TAATTCATGGTATCGATATCTTTCTCTTAATATTGATACTACTATATTATGGTATCGATACCCCA
326 TAATTCATGGTATCGATATCTTTCTCTTAATATTGATACTACTATATTATGGTATCGATACCCCA
*
1174774 TTACAATATCGATACCATTTATGTATTCTGTAATCAATGGTATTGATACCTTTTCCATGGTATCG
391 TTACAATATCGATACCATTTATGTATTCTGTAATCAATGGTATCGATACCTTTTCCATGGTATCG
1174839 ATACCTCCCTCTCAGTATCGATACTAATTGCATCAGTATCGATACTGCTCAGCTGATTTCTTCTA
456 ATACCTCCCTCTCAGTATCGATACTAATTGCATCAGTATCGATACTGCTCAGCTGATTTCTTCTA
1174904 ATTTTAAGCCTACAGTA
521 ATTTTAAGCCTACAGTA
1174921 T
1 T
1174922 CGGTACCGTT
Statistics
Matches: 533, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
537 533 1.00
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (537 bp):
TGGTCTGTCTCGCTATTATATCCAAAAATGCAAATCCAACTACTCAGCGACTTTATCTTTGTCTT
TAGGTTTGCTTGACTCAGAAGCTTGATTTCGAACTATTCAAACATCCACTAAAGACACATAACAT
ACCAAATGTTAGTATATTCCCTAACATTTATACTTTAATAATACTCAAAAGTACTATTATTTTCA
ATTTCTATAACAATTTCAGCCTATCTTATGATTCCTGGCTCAATAGTATCGGTACCCATACCATG
GTATCGATACTTCTATACTATGGTACTGATACCCCTTTCAATATCAATACTATTTCTACCTTCTG
TAATTCATGGTATCGATATCTTTCTCTTAATATTGATACTACTATATTATGGTATCGATACCCCA
TTACAATATCGATACCATTTATGTATTCTGTAATCAATGGTATCGATACCTTTTCCATGGTATCG
ATACCTCCCTCTCAGTATCGATACTAATTGCATCAGTATCGATACTGCTCAGCTGATTTCTTCTA
ATTTTAAGCCTACAGTA
Found at i:1182814 original size:75 final size:75
Alignment explanation
Indices: 1182690--1182841 Score: 259
Period size: 75 Copynumber: 2.0 Consensus size: 75
1182680 AAGCCGTTGG
* *
1182690 ATGAAAAATCATTCTTCTCATGTTGGGATGGTAATAATGACGATGTTCTAGCCCTAATTGTTTGG
1 ATGAAAAATCATTCTTCTCATGTTGGGATGGTAATAATGACAATGTTCTAGCCCAAATTGTTTGG
1182755 TGGGAACACA
66 TGGGAACACA
* * *
1182765 ATGAAAAATCATTCTTGTCATGTTGGGGTGGTAATAATGACAATTTTCTAGCCCAAATTGTTTGG
1 ATGAAAAATCATTCTTCTCATGTTGGGATGGTAATAATGACAATGTTCTAGCCCAAATTGTTTGG
1182830 TGGGAACACA
66 TGGGAACACA
1182840 AT
1 AT
1182842 AAATACAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (75 bp):
ATGAAAAATCATTCTTCTCATGTTGGGATGGTAATAATGACAATGTTCTAGCCCAAATTGTTTGG
TGGGAACACA
Found at i:1182965 original size:24 final size:25
Alignment explanation
Indices: 1182930--1182976 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
1182920 ACTCTTAATT
1182930 TAAAACATCAAGATTTGCTTAAACC
1 TAAAACATCAAGATTTGCTTAAACC
*
1182955 TAAAACA-CAAGATTTTCTTAAA
1 TAAAACATCAAGATTTGCTTAAA
1182977 GATCCGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.30
Consensus pattern (25 bp):
TAAAACATCAAGATTTGCTTAAACC
Found at i:1183834 original size:32 final size:32
Alignment explanation
Indices: 1183793--1183873 Score: 135
Period size: 32 Copynumber: 2.5 Consensus size: 32
1183783 AATGAATTAG
*
1183793 TACCCTATAATCAAAGAACTATTCATGTACTT
1 TACCCTATAATCAAAGAACTATTCATGTACTC
*
1183825 TACCCTATAATCAAGGAACTATTCATGTACTC
1 TACCCTATAATCAAAGAACTATTCATGTACTC
*
1183857 TACCCTATAATAAAAGA
1 TACCCTATAATCAAAGA
1183874 CCCCCGCTGC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (32 bp):
TACCCTATAATCAAAGAACTATTCATGTACTC
Found at i:1188388 original size:64 final size:65
Alignment explanation
Indices: 1188284--1188424 Score: 257
Period size: 64 Copynumber: 2.2 Consensus size: 65
1188274 ACCAACCGAT
*
1188284 GACCAATCGACGTTTTGTACCCTACGAACACTGGGCTGAAAATCGCGA-CCCATACGATCCAAAC
1 GACCAATTGACGTTTTGTACCCTACGAACACTGGGCTGAAAATCGCGACCCCATACGATCCAAAC
*
1188348 GACCAATTGACGTTTTGTACCCTACGAACACTGGGTTGAAAATCGCGACCCCATACGATCCAAAC
1 GACCAATTGACGTTTTGTACCCTACGAACACTGGGCTGAAAATCGCGACCCCATACGATCCAAAC
1188413 GACCAATTGACG
1 GACCAATTGACG
1188425 ATAACTATAA
Statistics
Matches: 74, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
64 46 0.62
65 28 0.38
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (65 bp):
GACCAATTGACGTTTTGTACCCTACGAACACTGGGCTGAAAATCGCGACCCCATACGATCCAAAC
Found at i:1190383 original size:27 final size:23
Alignment explanation
Indices: 1190319--1190385 Score: 62
Period size: 27 Copynumber: 2.7 Consensus size: 23
1190309 TGGAATCCCC
1190319 GATGGAATTCAATTCCATCAAAT
1 GATGGAATTCAATTCCATCAAAT
* * *
1190342 GAGGGAAAGTGAATTCCATCAAAAAAT
1 GATGG-AATTCAATTCCATC---AAAT
1190369 GGATGGAATTCAATTCC
1 -GATGGAATTCAATTCC
1190386 CTTGTCGGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
23 4 0.12
24 12 0.36
27 13 0.39
28 4 0.12
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.25
Consensus pattern (23 bp):
GATGGAATTCAATTCCATCAAAT
Found at i:1190783 original size:15 final size:16
Alignment explanation
Indices: 1190762--1190799 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
1190752 AAGTGTGATA
1190762 TTCGGGTCGAGTCGGG
1 TTCGGGTCGAGTCGGG
*
1190778 -TCGGGTCGAGTTGGG
1 TTCGGGTCGAGTCGGG
1190793 TTCGGGT
1 TTCGGGT
1190800 TTAGGGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.05, C:0.16, G:0.50, T:0.29
Consensus pattern (16 bp):
TTCGGGTCGAGTCGGG
Found at i:1191001 original size:233 final size:235
Alignment explanation
Indices: 1190554--1191014 Score: 759
Period size: 233 Copynumber: 2.0 Consensus size: 235
1190544 TATTCGGGTC
1190554 GGGTTCGGGTTTAGGGTGAAAAAAATCAGACCGACCTGAAAATATATATAATTCAGGTCGGGTCG
1 GGGTTCGGGTTTAGGGT-AAAAAAATCAGACCGACCTGAAAATATATATAATTCAGGTCGGGTCG
* **
1190619 GATTAAGTCACTGCTTTTATTAAATAAAAATATTTTTTTATTATTTCGAGTCGGGTCGGGTTGGA
65 GATTAAGTCACTGCTTTTATTAAATAAAAATATTTTTTTATTATTTCGAGTCGGGTCAGGTCAGA
* *
1190684 TTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTTGGGTTT
130 TTTCTAATTCATATATTCGGGTCGGGTCAGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTT
1190749 TTTAAGTGTGATATTCGGGTCGAGTCGGGTCGGGTCGAGTT
195 TTTAAGTGTGATATTCGGGTCGAGTCGGGTCGGGTCGAGTT
* *
1190790 GGGTTCGGGTTTAGGGT-AAAAAA-CGGGACCGA-CTCGAAAATATATATAATTCGGGTCGGGTC
1 GGGTTCGGGTTTAGGGTAAAAAAATC-AGACCGACCT-GAAAATATATATAATTCAGGTCGGGTC
* * *
1190852 GGATTAAGTCACTGTTTTTATTAAATAAAAATATTTTTTTATTATTTCGGGTCGGG-CATGTCAG
64 GGATTAAGTCACTGCTTTTATTAAATAAAAATATTTTTTTATTATTTCGAGTCGGGTCAGGTCAG
* *
1190916 ATTTCTAATTCATATATTTGGTTCGGGTCAGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTT
129 ATTTCTAATTCATATATTCGGGTCGGGTCAGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTT
1190981 TTTTAAGTGTGATATTCGGGTCGAGTCGGGTCGG
194 TTTTAAGTGTGATATTCGGGTCGAGTCGGGTCGG
1191015 TTTTTTAAGT
Statistics
Matches: 211, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
233 102 0.48
234 92 0.44
236 17 0.08
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.37
Consensus pattern (235 bp):
GGGTTCGGGTTTAGGGTAAAAAAATCAGACCGACCTGAAAATATATATAATTCAGGTCGGGTCGG
ATTAAGTCACTGCTTTTATTAAATAAAAATATTTTTTTATTATTTCGAGTCGGGTCAGGTCAGAT
TTCTAATTCATATATTCGGGTCGGGTCAGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTT
TTAAGTGTGATATTCGGGTCGAGTCGGGTCGGGTCGAGTT
Found at i:1191010 original size:37 final size:37
Alignment explanation
Indices: 1190967--1191053 Score: 142
Period size: 36 Copynumber: 2.4 Consensus size: 37
1190957 ATTTTGTTCG
*
1190967 GGTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTC-
1 GGTCGGGTCGGGTTTTTTAAGTGTGATATTCGAGTCA
1191003 GAGTCGGGTC-GGTTTTTTAAGTGTGATATTCGAGTCA
1 G-GTCGGGTCGGGTTTTTTAAGTGTGATATTCGAGTCA
1191040 GGTCGGGTCGGGTT
1 GGTCGGGTCGGGTT
1191054 CGGGTTTAGG
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
36 34 0.72
37 13 0.28
ACGTcount: A:0.13, C:0.11, G:0.39, T:0.37
Consensus pattern (37 bp):
GGTCGGGTCGGGTTTTTTAAGTGTGATATTCGAGTCA
Found at i:1192272 original size:14 final size:14
Alignment explanation
Indices: 1192253--1192288 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1192243 CGCTCGATTA
1192253 TATGTTCGTTCATT
1 TATGTTCGTTCATT
*
1192267 TATGTTCTTTCATT
1 TATGTTCGTTCATT
1192281 TATGTTCG
1 TATGTTCG
1192289 AACATAGGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.58
Consensus pattern (14 bp):
TATGTTCGTTCATT
Found at i:1192569 original size:13 final size:13
Alignment explanation
Indices: 1192553--1192597 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
1192543 GTTTGTGTTG
1192553 TTCGTTTATTGTA
1 TTCGTTTATTGTA
1192566 TTCGTTTA-TG--
1 TTCGTTTATTGTA
* *
1192576 TTCATTTATTATA
1 TTCGTTTATTGTA
1192589 TTCGTTTAT
1 TTCGTTTAT
1192598 GTTCCTTCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
10 7 0.27
11 1 0.04
12 2 0.08
13 16 0.62
ACGTcount: A:0.18, C:0.09, G:0.11, T:0.62
Consensus pattern (13 bp):
TTCGTTTATTGTA
Found at i:1192583 original size:23 final size:23
Alignment explanation
Indices: 1192551--1192601 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
1192541 GTGTTTGTGT
* *
1192551 TGTTCGTTTATTGTATTCGTTTA
1 TGTTCATTTATTATATTCGTTTA
1192574 TGTTCATTTATTATATTCGTTTA
1 TGTTCATTTATTATATTCGTTTA
1192597 TGTTC
1 TGTTC
1192602 CTTCGTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.16, C:0.10, G:0.14, T:0.61
Consensus pattern (23 bp):
TGTTCATTTATTATATTCGTTTA
Found at i:1192616 original size:10 final size:10
Alignment explanation
Indices: 1192603--1192641 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
1192593 TTTATGTTCC
*
1192603 TTCGTTTGTG
1 TTCGTTTATG
*
1192613 TTCGTTTACG
1 TTCGTTTATG
1192623 TTCGTTTATG
1 TTCGTTTATG
*
1192633 TCCGTTTAT
1 TTCGTTTAT
1192642 CATTTAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.08, C:0.15, G:0.21, T:0.56
Consensus pattern (10 bp):
TTCGTTTATG
Found at i:1192628 original size:20 final size:20
Alignment explanation
Indices: 1192603--1192640 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1192593 TTTATGTTCC
* *
1192603 TTCGTTTGTGTTCGTTTACG
1 TTCGTTTATGTCCGTTTACG
1192623 TTCGTTTATGTCCGTTTA
1 TTCGTTTATGTCCGTTTA
1192641 TCATTTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.16, G:0.21, T:0.55
Consensus pattern (20 bp):
TTCGTTTATGTCCGTTTACG
Found at i:1196682 original size:11 final size:11
Alignment explanation
Indices: 1196666--1196690 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1196656 TTATATTTAA
1196666 TGTTTCATTTT
1 TGTTTCATTTT
1196677 TGTTTCATTTT
1 TGTTTCATTTT
1196688 TGT
1 TGT
1196691 ATTCCAACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.12, T:0.72
Consensus pattern (11 bp):
TGTTTCATTTT
Found at i:1197960 original size:21 final size:21
Alignment explanation
Indices: 1197934--1197975 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1197924 TCATTCGTCA
1197934 CCCACCGTCCGTCGTCCGCCG
1 CCCACCGTCCGTCGTCCGCCG
1197955 CCCACCGTCCGTCGTCCGCCG
1 CCCACCGTCCGTCGTCCGCCG
1197976 TCACATTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.05, C:0.57, G:0.24, T:0.14
Consensus pattern (21 bp):
CCCACCGTCCGTCGTCCGCCG
Found at i:1215552 original size:13 final size:13
Alignment explanation
Indices: 1215534--1215567 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
1215524 CATCAAAATC
1215534 AATCCAAGTTTTA
1 AATCCAAGTTTTA
1215547 AATCCAAGTTTTA
1 AATCCAAGTTTTA
1215560 AATCCAAG
1 AATCCAAG
1215568 AAAGCATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (13 bp):
AATCCAAGTTTTA
Found at i:1217442 original size:22 final size:21
Alignment explanation
Indices: 1217390--1217449 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
1217380 GATTTTTGGG
1217390 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
1217411 CAA-GGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
* *
1217431 TAATGGGGAATCGATACCC
1 CAA-GGGGAATCGGTACCC
1217450 CTCAAGCGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 19 0.54
21 3 0.09
22 13 0.37
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (21 bp):
CAAGGGGAATCGGTACCCATT
Found at i:1217527 original size:23 final size:22
Alignment explanation
Indices: 1217483--1217527 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1217473 AATCTCATAG
*
1217483 GGGAACCGATTCCCCCACAGGA
1 GGGAACCGATTCCCCCAAAGGA
*
1217505 GGGAATCGATTCCCCCTAAAGGA
1 GGGAACCGATTCCCCC-AAAGGA
1217528 AAAATGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.29, C:0.31, G:0.27, T:0.13
Consensus pattern (22 bp):
GGGAACCGATTCCCCCAAAGGA
Found at i:1219000 original size:103 final size:103
Alignment explanation
Indices: 1218821--1219033 Score: 390
Period size: 103 Copynumber: 2.1 Consensus size: 103
1218811 GGGTCTACGC
*
1218821 GGTCCTTCGGTACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* *
1218886 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
1218924 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
1218989 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
1219027 GGTCCTT
1 GGTCCTT
1219034 ATGGACATTA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:1219087 original size:23 final size:23
Alignment explanation
Indices: 1219057--1219117 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
1219047 TATGGAACTA
1219057 CGGTGCAATTCTACGCGGCACTC
1 CGGTGCAATTCTACGCGGCACTC
* *
1219080 CGGTGCAATTCTACGTGGCACTT
1 CGGTGCAATTCTACGCGGCACTC
*
1219103 CGGTGCAATTATACG
1 CGGTGCAATTCTACG
1219118 AGCTGTGGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.26
Consensus pattern (23 bp):
CGGTGCAATTCTACGCGGCACTC
Found at i:1222826 original size:22 final size:21
Alignment explanation
Indices: 1222774--1222827 Score: 92
Period size: 20 Copynumber: 2.6 Consensus size: 21
1222764 GATTTCTGGG
1222774 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
1222795 CAA-GGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
1222815 CAATGGGGAATCG
1 CAA-GGGGAATCG
1222828 ATACGACTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 20 0.65
21 3 0.10
22 8 0.26
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.19
Consensus pattern (21 bp):
CAAGGGGAATCGGTACCCATT
Found at i:1222911 original size:23 final size:22
Alignment explanation
Indices: 1222867--1222911 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1222857 AATCTCATAG
*
1222867 GGGAACCGATTCCCCCACAGGA
1 GGGAACCGATTCCCCCAAAGGA
*
1222889 GGGAATCGATTCCCCCTAAAGGA
1 GGGAACCGATTCCCCC-AAAGGA
1222912 AAAATGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.29, C:0.31, G:0.27, T:0.13
Consensus pattern (22 bp):
GGGAACCGATTCCCCCAAAGGA
Found at i:1224392 original size:103 final size:103
Alignment explanation
Indices: 1224213--1224406 Score: 361
Period size: 103 Copynumber: 1.9 Consensus size: 103
1224203 GCGGTCCTTC
* *
1224213 GGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCTTGGCA
1 GGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAGCA
1224278 TATGTATATGATTCTTAAGGAATGATATGTGGTCATTT
66 TATGTATATGATTCTTAAGGAATGATATGTGGTCATTT
*
1224316 GGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAGTA
1 GGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAGCA
1224381 TATGTATATGATTCTTAAGGAATGAT
66 TATGTATATGATTCTTAAGGAATGAT
1224407 GTATGGTCCT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 88 1.00
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (103 bp):
GGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAGCA
TATGTATATGATTCTTAAGGAATGATATGTGGTCATTT
Found at i:1224460 original size:23 final size:23
Alignment explanation
Indices: 1224434--1224501 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
1224424 ATTATTATAT
*
1224434 GGCACTACGGTGCAATTCTATGC
1 GGCACTACGGTGCAATTCTACGC
* *
1224457 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* * *
1224480 GGCACTTCGGTGTAATTATACG
1 GGCACTACGGTGCAATTCTACG
1224502 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1226230 original size:24 final size:24
Alignment explanation
Indices: 1226203--1226265 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
1226193 GCATCTTCAT
*
1226203 GATGTATCGATGCACATACAAAGG
1 GATGCATCGATGCACATACAAAGG
1226227 GATGCATCGATGCACATACAAAGG
1 GATGCATCGATGCACATACAAAGG
1226251 GATGCATCGATGCAC
1 GATGCATCGATGCAC
1226266 TATTAAGTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (24 bp):
GATGCATCGATGCACATACAAAGG
Found at i:1232129 original size:20 final size:20
Alignment explanation
Indices: 1232104--1232161 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
1232094 TAATTTATTC
1232104 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
1232124 ATTGGTGCATCAATGCATGG
1 ATTGGTGCATCGATGCATGG
*
1232144 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
1232162 TCCTTCGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.31
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:1235776 original size:15 final size:15
Alignment explanation
Indices: 1235756--1235786 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1235746 GTCATCGATG
1235756 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
1235771 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
1235786 A
1 A
1235787 TTTAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:1236179 original size:33 final size:32
Alignment explanation
Indices: 1236137--1236200 Score: 110
Period size: 33 Copynumber: 2.0 Consensus size: 32
1236127 ACCGAATATA
*
1236137 TATTTTTTTCCAAAAAATGACTCCTTAAATAAT
1 TATTTTTTTCAAAAAAAT-ACTCCTTAAATAAT
1236170 TATTTTTTTCAAAAAAATACTCCTTAAATAA
1 TATTTTTTTCAAAAAAATACTCCTTAAATAA
1236201 CTCTTTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (32 bp):
TATTTTTTTCAAAAAAATACTCCTTAAATAAT
Found at i:1236692 original size:2 final size:2
Alignment explanation
Indices: 1236685--1236721 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1236675 TAATAAACAA
1236685 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1236722 AATGCCAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1242098 original size:22 final size:22
Alignment explanation
Indices: 1242028--1242085 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
1242018 AATTTGAGCC
1242028 TTCAT-GGGGTATCGATACCCA
1 TTCATAGGGGTATCGATACCCA
1242049 TTCATAGGGGTATCGATACCCA
1 TTCATAGGGGTATCGATACCCA
1242071 TTCATAGGGGTATCG
1 TTCATAGGGGTATCG
1242086 GCACCCGTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 5 0.14
22 31 0.86
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (22 bp):
TTCATAGGGGTATCGATACCCA
Found at i:1242132 original size:35 final size:34
Alignment explanation
Indices: 1242074--1242141 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 34
1242064 ATACCCATTC
* *
1242074 ATAGGGGTATCGGCACCCGTTCATAAGAGGTATTG
1 ATAGGGGTATCGACACCCATTCAT-AGAGGTATTG
* * *
1242109 ATAGGGGTATCGATACTCATTCATAGGGGTATT
1 ATAGGGGTATCGACACCCATTCATAGAGGTATT
1242142 TATACGCATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 8 0.29
35 20 0.71
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (34 bp):
ATAGGGGTATCGACACCCATTCATAGAGGTATTG
Found at i:1242137 original size:22 final size:22
Alignment explanation
Indices: 1242109--1242164 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
1242099 AGAGGTATTG
*
1242109 ATAGGGGTATCGATACTCATTC
1 ATAGGGGTATCGATACGCATTC
**
1242131 ATAGGGGTATTTATACGCATTC
1 ATAGGGGTATCGATACGCATTC
1242153 ATAGGGGTATCG
1 ATAGGGGTATCG
1242165 GTACCTCTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (22 bp):
ATAGGGGTATCGATACGCATTC
Found at i:1242415 original size:19 final size:20
Alignment explanation
Indices: 1242367--1242430 Score: 76
Period size: 19 Copynumber: 3.2 Consensus size: 20
1242357 ATGTTTAATG
* *
1242367 AAAATGATATCAATTGTTTAC
1 AAAAAGATACCAATTG-TTAC
*
1242388 AAAAGGATACCAATTGTTA-
1 AAAAAGATACCAATTGTTAC
*
1242407 AAAAAGATACCAATTGTTAG
1 AAAAAGATACCAATTGTTAC
1242427 AAAA
1 AAAA
1242431 TATATAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
19 18 0.46
20 7 0.18
21 14 0.36
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.28
Consensus pattern (20 bp):
AAAAAGATACCAATTGTTAC
Found at i:1245688 original size:22 final size:22
Alignment explanation
Indices: 1245584--1245682 Score: 162
Period size: 22 Copynumber: 4.5 Consensus size: 22
1245574 AGAGGTATTG
*
1245584 ATAGGGGTATCGGTACCCTTTC
1 ATAGGGGTATCGGTACCCATTC
*
1245606 ATAGGGGTATCGGTACCCTTTC
1 ATAGGGGTATCGGTACCCATTC
*
1245628 ATAGGGGTATTGGTACCCATTC
1 ATAGGGGTATCGGTACCCATTC
*
1245650 ATAGGGGTATTGGTACCCATTC
1 ATAGGGGTATCGGTACCCATTC
1245672 ATAGGGGTATC
1 ATAGGGGTATC
1245683 AATACCTCTT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 74 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (22 bp):
ATAGGGGTATCGGTACCCATTC
Found at i:1245835 original size:2 final size:2
Alignment explanation
Indices: 1245828--1245854 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1245818 TCAACACTAA
1245828 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1245855 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1245859 original size:2 final size:2
Alignment explanation
Indices: 1245854--1245886 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1245844 TCTCTCTCTC
1245854 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1245887 TCTACAACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1253460 original size:15 final size:15
Alignment explanation
Indices: 1253442--1253478 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
1253432 ATGTTTTATA
1253442 TGAAAATGTGCTAAG
1 TGAAAATGTGCTAAG
* *
1253457 TGAAAATGTTCTACG
1 TGAAAATGTGCTAAG
1253472 TGAAAAT
1 TGAAAAT
1253479 ACACTATGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.30
Consensus pattern (15 bp):
TGAAAATGTGCTAAG
Found at i:1253460 original size:30 final size:30
Alignment explanation
Indices: 1253408--1253466 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
1253398 TTTTTGCTAG
* * *
1253408 TATATGAATATGAGATATGTGAATATGTTT
1 TATATGAAAATGAGATAAGTGAAAATGTTT
* *
1253438 TATATGAAAATGTGCTAAGTGAAAATGTT
1 TATATGAAAATGAGATAAGTGAAAATGTT
1253467 CTACGTGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (30 bp):
TATATGAAAATGAGATAAGTGAAAATGTTT
Found at i:1253806 original size:18 final size:18
Alignment explanation
Indices: 1253765--1253807 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1253755 CACAACCTCA
*
1253765 ATGTATATGAACTGAAAT
1 ATGTATATGAACTGAAAC
*
1253783 ACGTATATGAACT-AAAC
1 ATGTATATGAACTGAAAC
1253800 AGTGTATA
1 A-TGTATA
1253808 AGATTATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.30
Consensus pattern (18 bp):
ATGTATATGAACTGAAAC
Done.