Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold179
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: 2991183
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.31
Warning! 65816 characters in sequence are not A, C, G, or T
File 17 of 18
Found at i:2596638 original size:21 final size:21
Alignment explanation
Indices: 2596571--2596638 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
2596561 AATGTAGCTG
*
2596571 ACCTTGAATCAGCACATTGGC
1 ACCTTGAATCAGCATATTGGC
** *
2596592 ACCTT-AAGTCCAATATAGCTGG-
1 ACCTTGAA-T-CAGCATA-TTGGC
2596614 -CCTTGAATCAGCATATTGGC
1 ACCTTGAATCAGCATATTGGC
2596634 ACCTT
1 ACCTT
2596639 TTCCATCTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 12
0.64 0.13 0.23
Matches are distributed among these distances:
19 3 0.09
20 7 0.21
21 15 0.44
22 6 0.18
23 3 0.09
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (21 bp):
ACCTTGAATCAGCATATTGGC
Found at i:2596673 original size:52 final size:53
Alignment explanation
Indices: 2596595--2596746 Score: 180
Period size: 52 Copynumber: 2.8 Consensus size: 53
2596585 CATTGGCACC
2596595 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCATCT
* * ** *
2596647 TTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCATCT
* * * * * *
2596702 TTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
2596747 ATCACTTTTC
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
52 35 0.43
53 5 0.06
54 6 0.07
55 35 0.43
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.36
Consensus pattern (53 bp):
TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCATCT
Found at i:2597629 original size:13 final size:13
Alignment explanation
Indices: 2597611--2597635 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2597601 CATAAAGTGT
2597611 TGTATCGATACAA
1 TGTATCGATACAA
2597624 TGTATCGATACA
1 TGTATCGATACA
2597636 TATTTTTTTG
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:2597633 original size:33 final size:33
Alignment explanation
Indices: 2597591--2597657 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2597581 TTCAACGATT
2597591 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
2597624 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2597657 T
1 T
2597658 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2597716 original size:13 final size:13
Alignment explanation
Indices: 2597698--2597722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2597688 ATCACTTAAA
2597698 TGTATCGATACAT
1 TGTATCGATACAT
2597711 TGTATCGATACA
1 TGTATCGATACA
2597723 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2597787 original size:52 final size:52
Alignment explanation
Indices: 2597731--2597859 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
2597721 CACTGATCTT
*
2597731 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
2597783 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2597835 TATATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2597860 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2602027 original size:32 final size:31
Alignment explanation
Indices: 2601991--2602116 Score: 120
Period size: 30 Copynumber: 4.2 Consensus size: 31
2601981 AAAAAAAAGG
* *
2601991 TGCCACTAACTTGTGTGGGTTTTGAAAAGAGT
1 TGCCACCAACTTGTGTGGGCTTTG-AAAGAGT
* *
2602023 TGCCACCAACTTGTGGGGGCTTTGAAAG-GG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGAGT
*
2602053 TGCCACCGAC-T-TGTGGGCTTTGAAAGAGT
1 TGCCACCAACTTGTGTGGGCTTTGAAAGAGT
** *
2602082 ATGCCACTGAC-T-TGTGGGCTTTGAAAG-GG
1 -TGCCACCAACTTGTGTGGGCTTTGAAAGAGT
2602111 TGCCAC
1 TGCCAC
2602117 TGACTTATAG
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
28 20 0.24
29 3 0.04
30 35 0.42
31 4 0.05
32 21 0.25
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGAGT
Found at i:2602129 original size:28 final size:28
Alignment explanation
Indices: 2601986--2602802 Score: 922
Period size: 28 Copynumber: 29.1 Consensus size: 28
2601976 GTTTAAAAAA
* *
2601986 AAAGG-TGCCACTAACTTGTGTGGGTTTTG
1 AAAGGATGCCACTGAC-T-TGTGGGCTTTG
* **
2602015 AAAAGAGTTGCCACCAACTTGTGGGGGCTTTG
1 -AAAG-GATGCCACTGACTTGT--GGGCTTTG
* *
2602047 AAAGGGTGCCACCGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
2602075 AAAGAGTATGCCACTGACTTGTGGGCTTTG
1 AAAG-G-ATGCCACTGACTTGTGGGCTTTG
* * *
2602105 AAAGGGTGCCACTGACTTATAGGC-TT-
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
2602131 CAA--A----ACTGATTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
2602153 AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
2602181 AAAGGATGCCATTAACTTGTGGGCTTTCA
1 AAAGGATGCCACTGACTTGTGGGCTTT-G
* *
2602210 AAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
2602238 AAAGGATGCCACTGACTTGTGGTCTTTTG
1 AAAGGATGCCACTGACTTGTGGGC-TTTG
* *
2602267 -AAGAGATGCTACTGACTTGTGGGCTTTA
1 AAAG-GATGCCACTGACTTGTGGGCTTTG
*
2602295 AAAGGATGCCATTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
2602323 AAAGGATGCCACTGATTTG-GGAGCTTTG
1 AAAGGATGCCACTGACTTGTGG-GCTTTG
* *
2602351 AAAGGGTGCCACTGACTTGTGGGCTTGG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
2602379 AAAGGATACCACTGACTTGTGGTCTTTTG
1 AAAGGATGCCACTGACTTGTGGGC-TTTG
2602408 -AAGAGATGCCACTGACTTGTGGGCTTTG
1 AAAG-GATGCCACTGACTTGTGGGCTTTG
*
2602436 AAAAGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
2602464 AAAAGATGCCACTGACTTGTGGGTTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
2602492 AAAGGATGCCACTAACTTGTGGGCTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
2602520 AAAGGGTGCCACTGACTTGTGGGATTTC
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
2602548 AAAGGATGCCACTAACTTGTGGTCTTTT
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
2602576 AAAGAAATGCCACTGACTTATGGGCTTTG
1 AAAG-GATGCCACTGACTTGTGGGCTTTG
*
2602605 AAAGGATGCCATTGACTTGTGGGCTTT-
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
2602632 CAAGAGATGCCACTGACTTATGGGCTTTG
1 AAAG-GATGCCACTGACTTGTGGGCTTTG
2602661 AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
2602689 AAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
2602717 CAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * **
2602745 AAAAGATGCTACTAACTTGTAAGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
2602773 AAAGGATGCCATTGACCTATAGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
2602801 AA
1 AA
2602803 GAGATGAACA
Statistics
Matches: 675, Mismatches: 86, Indels: 54
0.83 0.11 0.07
Matches are distributed among these distances:
20 11 0.02
21 2 0.00
22 2 0.00
24 1 0.00
26 2 0.00
27 7 0.01
28 479 0.71
29 103 0.15
30 46 0.07
31 6 0.01
32 16 0.02
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
AAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:2602412 original size:141 final size:141
Alignment explanation
Indices: 2602135--2602802 Score: 853
Period size: 141 Copynumber: 4.7 Consensus size: 141
2602125 AGGCTTCAAA
* * * *
2602135 ACTGATTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCATTAACTTG
1 ACTGACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
* * * *
2602200 TGGGCTTTCAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGTCTTT
66 TGGGCTTT-GAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT
*
2602265 TGAAGAGATGCT
130 TGAAGAGATGCC
* *
2602277 ACTGACTTGTGGGCTTTAAAAGGATGCCATTGACTTGTGGGCTTTGAAAGGATGCCACTGATTTG
1 ACTGACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
* * * *
2602342 -GGAGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTGGAAAGGATACCACTGACTTGTGGTCTTT
66 TGG-GCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT
2602406 TGAAGAGATGCC
130 TGAAGAGATGCC
*
2602418 ACTGACTTGTGGGCTTTGAAAA-GATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTT
1 ACTGACTTGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTT
* * * * *
2602482 GTGGGTTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGATTT
65 GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT
**
2602547 CAAAG-GATGCC
130 TGAAGAGATGCC
* * * * * *
2602558 ACTAACTTGTGGTCTTTTAAAGAAATGCCACTGACTTATGGGCTTTGAAAGGATGCCATTGACTT
1 ACTGACTTGTGGGCTTTAAAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTT
* *
2602623 GTGGGCTTT-CAAGAGATGCCACTGACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGC-T
65 GTGGGCTTTGAAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
2602686 TTGAA-AGGATGCC
129 TTGAAGA-GATGCC
* ** * * *
2602699 ACTAACTTGTGGGCTTTGCAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCTACTAACTTG
1 ACTGACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
** * * * *
2602764 TAAGCTTTGAAAGGATGCCATTGACCTATAGGCTTTGAA
66 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAA
2602803 GAGATGAACA
Statistics
Matches: 461, Mismatches: 56, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
139 3 0.01
140 94 0.20
141 294 0.64
142 70 0.15
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (141 bp):
ACTGACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG
TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTT
GAAGAGATGCC
Found at i:2605818 original size:20 final size:20
Alignment explanation
Indices: 2605791--2605846 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2605781 AAAAAGACAG
*
2605791 AATGTATCGATACATTCACA
1 AATGTATCGATACATTCAAA
** *
2605811 CTTGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
2605831 AATGTATCGATACATT
1 AATGTATCGATACATT
2605847 TGGGTAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:2609590 original size:562 final size:562
Alignment explanation
Indices: 2608527--2609646 Score: 2204
Period size: 562 Copynumber: 2.0 Consensus size: 562
2608517 TAAATTAGTC
*
2608527 AGTTTAGAGAATAACGAGCATAAAATGAAATTGGTCAAATTAGAAAACAAATTGAATGAAATGCA
1 AGTTTAGAGAATAACGAGCATAAAATGAAATTGGTAAAATTAGAAAACAAATTGAATGAAATGCA
2608592 AGATACTAATAATGCCCTAACTAATGAAAATAATGAATTAGTAAGGAAAAATAAAAACTTGCTTG
66 AGATACTAATAATGCCCTAACTAATGAAAATAATGAATTAGTAAGGAAAAATAAAAACTTGCTTG
2608657 AATCATTCACTATGTTTTATATGTCACCTCAAAAGTTAAATGATATGCTTGAAACTCAAAGAGCA
131 AATCATTCACTATGTTTTATATGTCACCTCAAAAGTTAAATGATATGCTTGAAACTCAAAGAGCA
2608722 TTCTTTGATAAAGATGGTTTAGGGTATAATGCCTTTGAGAAAGAAACAAAATTTAAGAATTTCTT
196 TTCTTTGATAAAGATGGTTTAGGGTATAATGCCTTTGAGAAAGAAACAAAATTTAAGAATTTCTT
2608787 TGTCAAGCATAATCCTCAAATTGATGCCTCTGACATGTGTTCATTATGCCATAAATGAGGTCACA
261 TGTCAAGCATAATCCTCAAATTGATGCCTCTGACATGTGTTCATTATGCCATAAATGAGGTCACA
2608852 TTTCACATATGTATTTCTAGAATAAATAAATTTAGAGGCAAACTTATTAAGAAAATGTGGGTGCC
326 TTTCACATATGTATTTCTAGAATAAATAAATTTAGAGGCAAACTTATTAAGAAAATGTGGGTGCC
*
2608917 AAAAGGAATCGAAACTTTGAATATTGAAATAATAAAATGGATTCCAAAAGGATCAAAAGTATTAA
391 AAAAGGAATCGAAACTTTGAATAATGAAATAATAAAATGGATTCCAAAAGGATCAAAAGTATTAA
2608982 ACACAAACGAAAAAGGACCCAAGAAAATTGGGGTACCTAAAACCAAGACTTGATCCTTGTGTTTG
456 ACACAAACGAAAAAGGACCCAAGAAAATTGGGGTACCTAAAACCAAGACTTGATCCTTGTGTTTG
2609047 TAGGAGGTGGAGTATTGCTACAAGACAAAGGAATCAAAAGTT
521 TAGGAGGTGGAGTATTGCTACAAGACAAAGGAATCAAAAGTT
2609089 AGTTTAGAGAATAACGAGCATAAAATGAAATTGGTAAAATTAGAAAACAAATTGAATGAAATGCA
1 AGTTTAGAGAATAACGAGCATAAAATGAAATTGGTAAAATTAGAAAACAAATTGAATGAAATGCA
2609154 AGATACTAATAATGCCCTAACTAATGAAAATAATGAATTAGTAAGGAAAAATAAAAACTTGCTTG
66 AGATACTAATAATGCCCTAACTAATGAAAATAATGAATTAGTAAGGAAAAATAAAAACTTGCTTG
2609219 AATCATTCACTATGTTTTATATGTCACCTCAAAAGTTAAATGATATGCTTGAAACTCAAAGAGCA
131 AATCATTCACTATGTTTTATATGTCACCTCAAAAGTTAAATGATATGCTTGAAACTCAAAGAGCA
2609284 TTCTTTGATAAAGATGGTTTAGGGTATAATGCCTTTGAGAAAGAAACAAAATTTAAGAATTTCTT
196 TTCTTTGATAAAGATGGTTTAGGGTATAATGCCTTTGAGAAAGAAACAAAATTTAAGAATTTCTT
2609349 TGTCAAGCATAATCCTCAAATTGATGCCTCTGACATGTGTTCATTATGCCATAAATGAGGTCACA
261 TGTCAAGCATAATCCTCAAATTGATGCCTCTGACATGTGTTCATTATGCCATAAATGAGGTCACA
2609414 TTTCACATATGTATTTCTAGAATAAATAAATTTAGAGGCAAACTTATTAAGAAAATGTGGGTGCC
326 TTTCACATATGTATTTCTAGAATAAATAAATTTAGAGGCAAACTTATTAAGAAAATGTGGGTGCC
*
2609479 AAAAGGAATCGAGACTTTGAATAATGAAATAATAAAATGGATTCCAAAAGGATCAAAAGTATTAA
391 AAAAGGAATCGAAACTTTGAATAATGAAATAATAAAATGGATTCCAAAAGGATCAAAAGTATTAA
*
2609544 ACACTAACGAAAAAGGACCCAAGAAAATTGGGGTACCTAAAACCAAGACTTGATCCTTGTGTTTG
456 ACACAAACGAAAAAGGACCCAAGAAAATTGGGGTACCTAAAACCAAGACTTGATCCTTGTGTTTG
2609609 TAGGAGGTGGAGTATTGCTACAAGACAAAGGAATCAAA
521 TAGGAGGTGGAGTATTGCTACAAGACAAAGGAATCAAA
2609647 GAATAATTGT
Statistics
Matches: 554, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
562 554 1.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (562 bp):
AGTTTAGAGAATAACGAGCATAAAATGAAATTGGTAAAATTAGAAAACAAATTGAATGAAATGCA
AGATACTAATAATGCCCTAACTAATGAAAATAATGAATTAGTAAGGAAAAATAAAAACTTGCTTG
AATCATTCACTATGTTTTATATGTCACCTCAAAAGTTAAATGATATGCTTGAAACTCAAAGAGCA
TTCTTTGATAAAGATGGTTTAGGGTATAATGCCTTTGAGAAAGAAACAAAATTTAAGAATTTCTT
TGTCAAGCATAATCCTCAAATTGATGCCTCTGACATGTGTTCATTATGCCATAAATGAGGTCACA
TTTCACATATGTATTTCTAGAATAAATAAATTTAGAGGCAAACTTATTAAGAAAATGTGGGTGCC
AAAAGGAATCGAAACTTTGAATAATGAAATAATAAAATGGATTCCAAAAGGATCAAAAGTATTAA
ACACAAACGAAAAAGGACCCAAGAAAATTGGGGTACCTAAAACCAAGACTTGATCCTTGTGTTTG
TAGGAGGTGGAGTATTGCTACAAGACAAAGGAATCAAAAGTT
Found at i:2612667 original size:20 final size:20
Alignment explanation
Indices: 2612644--2612687 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
2612634 CATTGTAAAA
*
2612644 TGTATCGATACAATGAGCAG
1 TGTATCAATACAATGAGCAG
*
2612664 TGTATCAATACAATGAGCAT
1 TGTATCAATACAATGAGCAG
2612684 TGTA
1 TGTA
2612688 AAATGTATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (20 bp):
TGTATCAATACAATGAGCAG
Found at i:2612712 original size:20 final size:20
Alignment explanation
Indices: 2612622--2612722 Score: 69
Period size: 20 Copynumber: 4.7 Consensus size: 20
2612612 AAAATGCTTG
* *
2612622 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATGCAA
*
2612642 AATGTATCGATACAATG-AGC
1 AATGTATCGATACAATGCA-A
* *
2612662 AGTGTATCAATACAATGAGCATTGTAA
1 AATGTATCGATACAAT--GC-----AA
2612689 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATGCAA
*
2612709 AATGTATGGATACA
1 AATGTATCGATACA
2612723 TCTAGGTAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
19 1 0.02
20 45 0.70
22 1 0.02
25 2 0.03
27 14 0.22
28 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATGCAA
Found at i:2613269 original size:177 final size:177
Alignment explanation
Indices: 2612950--2613770 Score: 850
Period size: 177 Copynumber: 4.6 Consensus size: 177
2612940 AAAAATAGTA
* * * * *
2612950 CGTCCTGCT-TCTCGAGGACAAAGGAAAAAAGGGAAAACGAAA-TGCGTCTTGTTCTTTGAGGAT
1 CGTCCTGCTCT-TTGAGGACAAAGGAGAAAA-GGAAAA-TAAAGTGCGTCTTGCTCTTTGAGGAC
* * * *
2613013 AAAGGA-AAAAGGAAAATAAAGTGCATCCTGCTCTTTGAGAACTAGAAGGGAAAAGAAGGAAATT
63 AAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC-AAAAGGGAAAAGAAGGAAATG
* * **
2613077 ATGTGCGTCCTGCTCTTTGAGGACAAAAGGAGAAAAAAAGG-GAATGGAGCG
127 AAGTGCGTCCTGCTCTTTGAGGAC-AAAGGAGAAAAAAAGGAAAATAAAGCG
* * * *
2613128 TGTCATGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAGA
1 CGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCTTGCTCTTTGAGGACAAA
*
2613193 GGAGAAAAGGAAAATAAAGTACGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGT
66 GGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGT
* *
2613258 GCGTCCTGCTCTTTGAGGACAAAAGGAGAAAAGAAGG-GAATAGAA-CG
131 GCGTCCTGCTCTTTGAGGAC-AAAGGAGAAAAAAAGGAAAATA-AAGCG
* * * * * * *
2613305 TGTCCTGCTCTTTGAGGACAATGGAGAAAAGGAAAATAAAGTGCATCCTACTTTTTGAGGACAGA
1 CGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCTTGCTCTTTGAGGACAAA
* * *
2613370 GGAGAAAAGGAAAATAAAGTGTGCCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAAT
66 GGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGT
* * *
2613435 GCGTCCTGCTCTTTGAGGACAAAGGGGATAGAAAAGGAAAATAAAGTG
131 GCGTCCTGCTCTTTGAGGACAAAGGAGA-AAAAAAGGAAAATAAAGCG
*
2613483 CGTCCTGCTCTTTGAGGACAAAAAGGA-AATGAAGG-AAATGAAGTGCGTCTTGCTCTTTGAGGA
1 CGTCCTGCTCTTTGAGGAC--AAAGGAGAA--AAGGAAAATAAAGTGCGTCTTGCTCTTTGAGGA
* * *
2613546 CAAAAAGAGAAAA-GAAGGGAATGGAA-CGCGTCCTGCTCTTTGAGGAC-AAAGGAGAAAAG--G
62 C-AAAGGAGAAAAGGAA---AAT-AAAGTGCGTCCTGCTCTTTGAGGACAAAAGG-GAAAAGAAG
* * * * * *
2613606 AAAATCCAA-TCCGTCCTGCTCTTTAAGGACAGAGGAG---AAAAGGAAAATAAAGTG
121 GAAAT-GAAGTGCGTCCTGCTCTTTGAGGACAAAGGAGAAAAAAAGGAAAATAAAGCG
* * *
2613660 CGTCCTGCTCTTTGAGGACAAAAGG-GAAAAGAAGAAAATGAAGTGCATCTTGCTCTTTGAGAAC
1 CGTCCTGCTCTTTGAGGAC-AAAGGAGAAAAG--GAAAATAAAGTGCGTCTTGCTCTTTGAGGAC
* *
2613724 AAAAGGGAAAGAAAGGGAAAATAAAGTGTGTCCTGCTCTTTGAGGAC
63 -AAA-GG--AGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC
2613771 TAGGAGGTGC
Statistics
Matches: 558, Mismatches: 58, Indels: 54
0.83 0.09 0.08
Matches are distributed among these distances:
174 3 0.01
176 19 0.03
177 311 0.56
178 104 0.19
179 3 0.01
180 37 0.07
181 45 0.08
182 7 0.01
183 27 0.05
184 2 0.00
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.19
Consensus pattern (177 bp):
CGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCTTGCTCTTTGAGGACAAA
GGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGT
GCGTCCTGCTCTTTGAGGACAAAGGAGAAAAAAAGGAAAATAAAGCG
Found at i:2613498 original size:269 final size:268
Alignment explanation
Indices: 2613133--2613770 Score: 950
Period size: 269 Copynumber: 2.4 Consensus size: 268
2613123 GAGCGTGTCA
2613133 TGCTCTTTGAGGAC-AAAGGAGAAAAG--GAAAAT-AAAGTGCGTCCTGCTCTTTGAGGAC--AG
1 TGCTCTTTGAGGACAAAAGG-GAAAAGAAGAAAATGAAA-TGCGTCCTGCTCTTTGAGGACAAAG
* * *
2613192 AGG-AGAAAAGGAAAATAAAGTACGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAA
64 GGGAAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAAGGAAAAGAAGGAAATGAA
* *
2613256 GTGCGTCCTGCTCTTTGAGGACAAAAGGAGAAAAGAAGGGAATAGAACGTGTCCTGCTCTTTGAG
129 GTGCGTCCTGCTCTTTGAGGACAAAAAGAGAAAAGAAGGGAATAGAACGCGTCCTGCTCTTTGAG
* * * *
2613321 GACAATGGAGAAAAGGAAAAT-AAAGTGCATCCTACTTTTTGAGGACAGAGGAGAAAAGGAAAAT
194 GACAAAGGAGAAAAGGAAAATCAAA-TCCATCCTACTCTTTAAGGACAGAGGAGAAAAGGAAAAT
*
2613385 AAAGTGTGCCC
258 AAAGTGCGCCC
*
2613396 TGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGGG
1 TGCTCTTTGAGGACAAAAGGGAAAAGAAGAAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGGG
*
2613461 GATAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAAGGAAATGAAGGAAATGAAG
66 GA-AGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAAGGAAAAGAAGGAAATGAAG
* *
2613526 TGCGTCTTGCTCTTTGAGGACAAAAAGAGAAAAGAAGGGAATGGAACGCGTCCTGCTCTTTGAGG
130 TGCGTCCTGCTCTTTGAGGACAAAAAGAGAAAAGAAGGGAATAGAACGCGTCCTGCTCTTTGAGG
* * *
2613591 ACAAAGGAGAAAAGGAAAATCCAATCCGTCCTGCTCTTTAAGGACAGAGGAGAAAAGGAAAATAA
195 ACAAAGGAGAAAAGGAAAATCAAATCCATCCTACTCTTTAAGGACAGAGGAGAAAAGGAAAATAA
*
2613656 AGTGCGTCC
260 AGTGCGCCC
* * * *
2613665 TGCTCTTTGAGGACAAAAGGGAAAAGAAGAAAATGAAGTGCATCTTGCTCTTTGAGAACAAAAGG
1 TGCTCTTTGAGGACAAAAGGGAAAAGAAGAAAATGAAATGCGTCCTGCTCTTTGAGGAC-AAAGG
* * *
2613730 GAAAGAAAGGGAAAATAAAGTGTGTCCTGCTCTTTGAGGAC
65 GGAAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC
2613771 TAGGAGGTGC
Statistics
Matches: 339, Mismatches: 26, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
263 20 0.06
264 5 0.01
265 26 0.08
266 3 0.01
267 4 0.01
269 272 0.80
270 9 0.03
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.19
Consensus pattern (268 bp):
TGCTCTTTGAGGACAAAAGGGAAAAGAAGAAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGGG
GAAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAAGGAAAAGAAGGAAATGAAGT
GCGTCCTGCTCTTTGAGGACAAAAAGAGAAAAGAAGGGAATAGAACGCGTCCTGCTCTTTGAGGA
CAAAGGAGAAAAGGAAAATCAAATCCATCCTACTCTTTAAGGACAGAGGAGAAAAGGAAAATAAA
GTGCGCCC
Found at i:2613850 original size:62 final size:61
Alignment explanation
Indices: 2613753--2614199 Score: 571
Period size: 62 Copynumber: 7.3 Consensus size: 61
2613743 AATAAAGTGT
* **
2613753 GTCCTGCTCTTTGAGGACTAGGAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAATAC
1 GTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGC
* * * * * * * *
2613815 GTCCTACTCTTTGAGAACTAGAGGGTGCCACCAACTCGTGTGGACTTT--GAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGC
* * *
2613875 GTCTTGCTCTTTAAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGC
* * *
2613936 GTCATTCTCTTTGAGAACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGG-
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG--AAAAAGGC
** *
2613998 GTCCTATTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGC
* * *
2614058 ATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGT
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG-AAAAAGGC
* *
2614120 GTCTTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGC
*
2614181 GTCCTGCTCTTTGAAGACT
1 GTCCTGCTCTTTGAGGACT
2614200 GGAAGGGCTA
Statistics
Matches: 334, Mismatches: 43, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
59 7 0.02
60 115 0.34
61 66 0.20
62 140 0.42
63 6 0.02
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGC
Found at i:2614024 original size:122 final size:123
Alignment explanation
Indices: 2613757--2614194 Score: 600
Period size: 122 Copynumber: 3.6 Consensus size: 123
2613747 AAGTGTGTCC
* ** *
2613757 TGCTCTTTGAGGACTAGGAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAATACGTCCTAC
1 TGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGC
* * * * * *
2613822 TCTTTGAGAACTAGAGGGTGCCACCAACTCGTGTGGACTTT--GAAG--GAGAAGGCGTCT
65 TCTTTGAGAACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGG-GTCT
* * * *
2613879 TGCTCTTTAAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCATTC
1 TGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGC
*
2613943 TCTTTGAGAACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGGGTCC
65 TCTTTGAGAACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGGGTCT
** * *
2614002 TATTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATCCTGCT
1 TGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCT
* *
2614066 CTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGTGTCT
66 CTTTGAGAACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGGGTCT
*
2614124 TGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCT
1 TGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCT
2614189 CTTTGA
66 CTTTGA
2614195 AGACTGGAAG
Statistics
Matches: 282, Mismatches: 28, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
120 24 0.09
121 29 0.10
122 181 0.64
123 43 0.15
124 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (123 bp):
TGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCT
CTTTGAGAACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGGGTCT
Found at i:2620534 original size:79 final size:79
Alignment explanation
Indices: 2620385--2620571 Score: 207
Period size: 79 Copynumber: 2.4 Consensus size: 79
2620375 GATAACAATG
* * * * * * * *
2620385 GGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTCCGAAAATAAAATTGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCTGATTATGAAAAATAGGTATTCCGAAAATAAAATCGAGATTAGAGCATCC
2620450 TCTCGAAAAAAACA
66 TCTCGAAAAAAACA
* **
2620464 GGGTTGGAGTATCCCTGATT-TTAGAAAATAGGTATTTTGAAAATAAAATCGAGATTAGAGCATT
1 GGGTTGGAGTATCCCTGATTATGA-AAAATAGGTATTCCGAAAATAAAATCGAGATTAGAGCA-T
* *
2620528 CC-CTCGAAAATAACG
64 CCTCTCGAAAAAAACA
* *
2620543 GGGTTGGAGTATCCTTGATTGTGAAAAAT
1 GGGTTGGAGTATCCCTGATTATGAAAAAT
2620572 CAATGATTTA
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
78 2 0.02
79 83 0.92
80 5 0.06
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCCCTGATTATGAAAAATAGGTATTCCGAAAATAAAATCGAGATTAGAGCATCC
TCTCGAAAAAAACA
Found at i:2620650 original size:51 final size:52
Alignment explanation
Indices: 2620542--2620658 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 52
2620532 CGAAAATAAC
** *
2620542 GGGGTTGGAGTATCCTTGATTGTGAAAAATCAATGATTTAGAAATAAGGCTA
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGATTTAGAAATAAAGCTA
* * * *
2620594 -AGGTTGAAGTATCCCCGATTGTGAGAAATCAAT-ATTTTGGAAATAAAGC-A
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGA-TTTAGAAATAAAGCTA
2620644 GGGGTTGGAGTATCC
1 GGGGTTGGAGTATCC
2620659 TCTCGGAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
50 2 0.04
51 52 0.96
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.29
Consensus pattern (52 bp):
GGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGATTTAGAAATAAAGCTA
Found at i:2623045 original size:13 final size:13
Alignment explanation
Indices: 2623027--2623051 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2623017 AATGCCTGAA
2623027 TGTATCGATACAT
1 TGTATCGATACAT
2623040 TGTATCGATACA
1 TGTATCGATACA
2623052 ATGAGCAGTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2623083 original size:20 final size:20
Alignment explanation
Indices: 2623040--2623091 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
2623030 ATCGATACAT
* *
2623040 TGTATCGATACAATGAGCAG
1 TGTATCGATACAATGAGAAA
2623060 TGTATCGATACAATGCA-AAA
1 TGTATCGATACAATG-AGAAA
*
2623080 TGTATGGATACA
1 TGTATCGATACA
2623092 TCTAGGTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.27
Consensus pattern (20 bp):
TGTATCGATACAATGAGAAA
Found at i:2623127 original size:13 final size:13
Alignment explanation
Indices: 2623109--2623133 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2623099 AAACCTAGAA
2623109 TGTATCGATACAT
1 TGTATCGATACAT
2623122 TGTATCGATACA
1 TGTATCGATACA
2623134 ATGAACAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2629592 original size:13 final size:13
Alignment explanation
Indices: 2629574--2629599 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2629564 ACACCAAAGT
2629574 ATGTATCGATACA
1 ATGTATCGATACA
2629587 ATGTATCGATACA
1 ATGTATCGATACA
2629600 CAAAAAATTG
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:2629597 original size:33 final size:33
Alignment explanation
Indices: 2629555--2629619 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2629545 TAGCCAAACT
* *
2629555 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
2629588 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2629620 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2635780 original size:13 final size:13
Alignment explanation
Indices: 2635762--2635799 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2635752 CATTTTTCTT
2635762 TGTATCGATACAA
1 TGTATCGATACAA
*
2635775 TGTATCGATACAC
1 TGTATCGATACAA
2635788 TGTATCGATACA
1 TGTATCGATACA
2635800 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:2635954 original size:20 final size:20
Alignment explanation
Indices: 2635911--2635956 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2635901 AAATCTTTTG
2635911 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2635932 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2635952 CAAAA
1 CAAAA
2635957 CCAGCATCAA
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:2638378 original size:13 final size:13
Alignment explanation
Indices: 2638360--2638385 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2638350 ACACCAAAGT
2638360 ATGTATCGATACA
1 ATGTATCGATACA
2638373 ATGTATCGATACA
1 ATGTATCGATACA
2638386 CAAAAAATTG
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:2638385 original size:33 final size:33
Alignment explanation
Indices: 2638343--2638405 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
2638333 GCCAAACTTA
* *
2638343 TATCGATACAC-CAAAGTATGTATCGATACAATG
1 TATCGATACACAAAAAAT-TGTATCGATACAATG
2638376 TATCGATACACAAAAAATTGTATCGATACA
1 TATCGATACACAAAAAATTGTATCGATACA
2638406 TTGGGTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 23 0.85
34 4 0.15
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (33 bp):
TATCGATACACAAAAAATTGTATCGATACAATG
Found at i:2639933 original size:20 final size:20
Alignment explanation
Indices: 2639908--2639957 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
2639898 AGAGCTTACA
2639908 GTATCGATACAATTACCTAT
1 GTATCGATACAATTACCTAT
2639928 GTATCGATACAATTACCTAT
1 GTATCGATACAATTACCTAT
2639948 GTATCGATAC
1 GTATCGATAC
2639958 TTTGAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (20 bp):
GTATCGATACAATTACCTAT
Found at i:2639996 original size:22 final size:22
Alignment explanation
Indices: 2639966--2640008 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2639956 ACTTTGAATT
*
2639966 ATTTTTTGCTTGAAAACATTTG
1 ATTTATTGCTTGAAAACATTTG
*
2639988 ATTTATTGCTTGAAAATATTT
1 ATTTATTGCTTGAAAACATTT
2640009 ATACTTAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (22 bp):
ATTTATTGCTTGAAAACATTTG
Found at i:2642043 original size:20 final size:19
Alignment explanation
Indices: 2641997--2642053 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
2641987 TTGTATTGAT
2641997 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* *
2642016 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGC
2642035 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
2642054 AAATTGGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:2642101 original size:13 final size:13
Alignment explanation
Indices: 2642083--2642107 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2642073 TACCACTGTT
2642083 TGTATCGATACAA
1 TGTATCGATACAA
2642096 TGTATCGATACA
1 TGTATCGATACA
2642108 TGATGAATTG
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:2643027 original size:98 final size:98
Alignment explanation
Indices: 2642898--2643124 Score: 346
Period size: 98 Copynumber: 2.3 Consensus size: 98
2642888 ATGTTACAGA
*
2642898 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAAATGAACGTGCCAATGTACTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCAATATCGGACTTAAAAATGAACGTGCCAATGTACTGATT
* *
2642963 CAAGGCCAATGACATCAGTCTTAAAGATGAAGG
66 CAAGGCCAACGACATCAGTCTTAAAGATAAAGG
* * * *
2642996 TGCCAATATGCTGATTCAAGGTCAGCAATATCGGACTTAAAGATGAATGTGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCAATATCGGACTTAAAAATGAACGTGCCAATGTACTGATT
**
2643061 CAAGGCCAACGACATTGGTCTTAAAGATAAAGG
66 CAAGGCCAACGACATCAGTCTTAAAGATAAAGG
* * *
2643094 TGCCAATATGTTGATTCAAGGCTAGCGATAT
1 TGCCAATATGCTGATTCAAGGCCAGCAATAT
2643125 TGGGCTCATG
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 116 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (98 bp):
TGCCAATATGCTGATTCAAGGCCAGCAATATCGGACTTAAAAATGAACGTGCCAATGTACTGATT
CAAGGCCAACGACATCAGTCTTAAAGATAAAGG
Found at i:2643127 original size:49 final size:49
Alignment explanation
Indices: 2642898--2643124 Score: 274
Period size: 49 Copynumber: 4.6 Consensus size: 49
2642888 ATGTTACAGA
* *
2642898 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAAATGAACG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
* * ** * * *
2642947 TGCCAATGTACTGATTCAAGGCCAATGACATCAGTCTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
* * *
2642996 TGCCAATATGCTGATTCAAGGTCAGCAATATCGGACTTAAAGATGAATG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
* * * * * *
2643045 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
* *
2643094 TGCCAATATGTTGATTCAAGGCTAGCGATAT
1 TGCCAATATGCTGATTCAAGGCCAGCGATAT
2643125 TGGGCTCATG
Statistics
Matches: 145, Mismatches: 33, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 145 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
Found at i:2643198 original size:88 final size:88
Alignment explanation
Indices: 2643045--2643343 Score: 384
Period size: 88 Copynumber: 3.4 Consensus size: 88
2643035 AAGATGAATG
* * * * * *
2643045 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGTTGATT
1 TGCCAATGTGCTGATTCAGGGCTAGCGACATTGGTCTTAAAGATGACGGTGCCAATATGCTGATT
*
2643110 CAAGGCTAGCGATATTGGGCTCA
66 CAAGGCTAGCGATATTAGGCTCA
* * * *
2643133 TGCTAATGTGCTGATTTAGGGCTAGTGACATTGGTCTTACAGATGACGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAGGGCTAGCGACATTGGTCTTAAAGATGACGGTGCCAATATGCTGATT
**
2643198 CAAGGCTAGCGATATTAGGCTTG
66 CAAGGCTAGCGATATTAGGCTCA
2643221 TGCCAATGTGCTGATTCAGGGCTAGCGACATTGGTCTTAAAGATGACGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAGGGCTAGCGACATTGGTCTTAAAGATGACGGTGCCAATATGCTGATT
* * * *
2643286 CAAGGCCAGCCATA-TCGGACTTA
66 CAAGGCTAGCGATATTAGG-CTCA
* * * * *
2643309 TGCCAATGTACCGATTCAAGGCCAGCGGCATTGGT
1 TGCCAATGTGCTGATTCAGGGCTAGCGACATTGGT
2643344 TTTGAAAAAG
Statistics
Matches: 184, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
87 3 0.02
88 181 0.98
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (88 bp):
TGCCAATGTGCTGATTCAGGGCTAGCGACATTGGTCTTAAAGATGACGGTGCCAATATGCTGATT
CAAGGCTAGCGATATTAGGCTCA
Found at i:2643472 original size:34 final size:32
Alignment explanation
Indices: 2643434--2643519 Score: 84
Period size: 34 Copynumber: 2.6 Consensus size: 32
2643424 GAAAAAGCGA
*
2643434 TGCCATAGAGGTATGGGCTTAAAAGGGAAAAGGG
1 TGCCATAGAGGTATGGGCTTAAAA-AGAAAA-GG
* * *
2643468 TGCCACAGA-GTCGTGGACTTAAAAAGAAAAGG
1 TGCCATAGAGGT-ATGGGCTTAAAAAGAAAAGG
* *
2643500 TGCCATGGAGTTATGGGCTT
1 TGCCATAGAGGTATGGGCTT
2643520 TTGAAGATTG
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
32 15 0.37
33 8 0.20
34 18 0.44
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.21
Consensus pattern (32 bp):
TGCCATAGAGGTATGGGCTTAAAAAGAAAAGG
Found at i:2643985 original size:37 final size:37
Alignment explanation
Indices: 2643943--2644027 Score: 161
Period size: 37 Copynumber: 2.3 Consensus size: 37
2643933 AAAGATGAAG
2643943 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
*
2643980 CACAAATGTATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
2644017 CACAAATGCAT
1 CACAAATGCAT
2644028 GATTGTGGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
Found at i:2643988 original size:18 final size:18
Alignment explanation
Indices: 2643965--2644024 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
2643955 ATGCAAAATG
2643965 AAATGTTATGAATGTCAC
1 AAATGTTATGAATGTCAC
** *
2643983 AAATGTATCATGCAAAAT--G
1 AAATGT-T-ATG-AATGTCAC
2644002 AAATGTTATGAATGTCAC
1 AAATGTTATGAATGTCAC
2644020 AAATG
1 AAATG
2644025 CATGATTGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
16 3 0.10
17 3 0.10
18 12 0.39
19 7 0.23
20 3 0.10
21 3 0.10
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (18 bp):
AAATGTTATGAATGTCAC
Found at i:2645067 original size:10 final size:10
Alignment explanation
Indices: 2645052--2645097 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
2645042 ATCCGGACCC
2645052 TTTTTTGTTT
1 TTTTTTGTTT
2645062 TTTTTT-TTT
1 TTTTTTGTTT
*
2645071 GTTTTTGTTT
1 TTTTTTGTTT
2645081 GTTTTTTGTTT
1 -TTTTTTGTTT
2645092 TTTTTT
1 TTTTTT
2645098 TCGTCTCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 8 0.25
10 15 0.47
11 9 0.28
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:2660386 original size:21 final size:21
Alignment explanation
Indices: 2660362--2660403 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2660352 GACAATCTTA
2660362 AAATTAAAAAATATTGAAAAT
1 AAATTAAAAAATATTGAAAAT
2660383 AAATTAAAAAATATTGAAAAT
1 AAATTAAAAAATATTGAAAAT
2660404 GGTAATCTCG
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:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
AAATTAAAAAATATTGAAAAT
Found at i:2664502 original size:13 final size:13
Alignment explanation
Indices: 2664484--2664510 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2664474 ACAATATTCC
2664484 TTGTATCGATACA
1 TTGTATCGATACA
2664497 TTGTATCGATACA
1 TTGTATCGATACA
2664510 T
1 T
2664511 GGGTTACTAT
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:2666411 original size:22 final size:22
Alignment explanation
Indices: 2666386--2666427 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
2666376 TTTTTAAAGA
2666386 TTTGACAAAGGGGGAGAAATGC
1 TTTGACAAAGGGGGAGAAATGC
*
2666408 TTTGATAAAGGGGGAGAAAT
1 TTTGACAAAGGGGGAGAAAT
2666428 ATGTTTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.36, T:0.21
Consensus pattern (22 bp):
TTTGACAAAGGGGGAGAAATGC
Found at i:2667116 original size:13 final size:13
Alignment explanation
Indices: 2667098--2667146 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
2667088 CTACCACTAT
2667098 TTGTATCGATACA
1 TTGTATCGATACA
2667111 TTGTATCGATACA
1 TTGTATCGATACA
2667124 -TG-AT--A-A-A
1 TTGTATCGATACA
2667131 TTGTATCGATACA
1 TTGTATCGATACA
2667144 TTG
1 TTG
2667147 CTTGTAACGG
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 1 0.03
8 3 0.10
9 3 0.10
11 3 0.10
12 3 0.10
13 17 0.57
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2667133 original size:20 final size:20
Alignment explanation
Indices: 2667105--2667144 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2667095 TATTTGTATC
*
2667105 GATACATTGTATCGATACAT
1 GATAAATTGTATCGATACAT
2667125 GATAAATTGTATCGATACAT
1 GATAAATTGTATCGATACAT
2667145 TGCTTGTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (20 bp):
GATAAATTGTATCGATACAT
Found at i:2667739 original size:20 final size:19
Alignment explanation
Indices: 2667684--2667739 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
2667674 AAAACCCTTA
*
2667684 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
2667704 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
2667724 AATGTATCGATACATG
1 AAAGTATCGATACATG
2667740 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:2667833 original size:32 final size:33
Alignment explanation
Indices: 2667791--2667852 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
2667781 TAGCCAAACT
*
2667791 TGTATCGATACA-C-AAAGTATGTATCGATAAAA
1 TGTATCGATACATCAAAAAT-TGTATCGATAAAA
*
2667823 TGTATGGATACATCAAAAATTGTATCGATA
1 TGTATCGATACATCAAAAATTGTATCGATA
2667853 CATTGGCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 11 0.42
33 11 0.42
34 4 0.15
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (33 bp):
TGTATCGATACATCAAAAATTGTATCGATAAAA
Found at i:2668883 original size:18 final size:18
Alignment explanation
Indices: 2668860--2668899 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
2668850 TGTGGAAGAT
2668860 TATTATCAATGGACCTCG
1 TATTATCAATGGACCTCG
2668878 TATTATCAATGGACCTCG
1 TATTATCAATGGACCTCG
2668896 TATT
1 TATT
2668900 CCATTGATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (18 bp):
TATTATCAATGGACCTCG
Found at i:2670088 original size:22 final size:21
Alignment explanation
Indices: 2670061--2670112 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
2670051 TTGCAAGTTG
2670061 AAATAAAAAATTTAGCTAATG-A
1 AAATAAAAAA-TTAGCTAA-GAA
**
2670083 AAATAATGAATTAGCTAAGAA
1 AAATAAAAAATTAGCTAAGAA
2670104 AAATAAAAA
1 AAATAAAAA
2670113 CTTGCATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 16 0.64
22 8 0.32
ACGTcount: A:0.63, C:0.04, G:0.10, T:0.23
Consensus pattern (21 bp):
AAATAAAAAATTAGCTAAGAA
Found at i:2674029 original size:13 final size:13
Alignment explanation
Indices: 2674011--2674047 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
2674001 ACATTTTCCT
2674011 TTGTATCGATACA
1 TTGTATCGATACA
2674024 TTGTATCGATACA
1 TTGTATCGATACA
*
2674037 CTGTATCGATA
1 TTGTATCGATA
2674048 TAGGGGGATT
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:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2675712 original size:22 final size:20
Alignment explanation
Indices: 2675670--2675712 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
2675660 GTGTTTAATG
*
2675670 TATTTGCTTGACTTTGTTTT
1 TATTTGCTTGACTTTGATTT
2675690 TATTTGCATTGTACTTTGATTT
1 TATTTGC-TTG-ACTTTGATTT
2675712 T
1 T
2675713 TTAATCTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 3 0.15
22 10 0.50
ACGTcount: A:0.14, C:0.09, G:0.14, T:0.63
Consensus pattern (20 bp):
TATTTGCTTGACTTTGATTT
Found at i:2676717 original size:20 final size:22
Alignment explanation
Indices: 2676686--2676729 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
2676676 GCTACATTTT
2676686 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
2676707 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
2676728 CA
1 CA
2676730 CGGGAAGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:2684622 original size:10 final size:10
Alignment explanation
Indices: 2684607--2684649 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
2684597 ATTGCTTGGA
*
2684607 TTTCTTGATG
1 TTTCTTGTTG
2684617 TTTCTTGTTG
1 TTTCTTGTTG
* *
2684627 GTTCTTGTTC
1 TTTCTTGTTG
2684637 TTTCTTGTTG
1 TTTCTTGTTG
2684647 TTT
1 TTT
2684650 TTCAGCTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.02, C:0.12, G:0.19, T:0.67
Consensus pattern (10 bp):
TTTCTTGTTG
Found at i:2686379 original size:21 final size:21
Alignment explanation
Indices: 2686355--2686398 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2686345 CTTAGAAATA
2686355 TGTATCGACACTTCATAAGCT
1 TGTATCGACACTTCATAAGCT
* *
2686376 TGTATTGACACTTCATGAGCT
1 TGTATCGACACTTCATAAGCT
2686397 TG
1 TG
2686399 CATTGATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (21 bp):
TGTATCGACACTTCATAAGCT
Found at i:2686403 original size:21 final size:21
Alignment explanation
Indices: 2686361--2686404 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2686351 AATATGTATC
*
2686361 GACACTTCATAAGCTTGTATT
1 GACACTTCATAAGCTTGCATT
*
2686382 GACACTTCATGAGCTTGCATT
1 GACACTTCATAAGCTTGCATT
2686403 GA
1 GA
2686405 TACACTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (21 bp):
GACACTTCATAAGCTTGCATT
Found at i:2686642 original size:21 final size:19
Alignment explanation
Indices: 2686618--2686671 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 19
2686608 TTTCAACAAT
2686618 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAA-AGT-A
* *
2686639 TTGTATCGATACATAAGTG
1 TTGTATCGATACAAAAGTA
2686658 TTGTATCGATACAA
1 TTGTATCGATACAA
2686672 TGTATCGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACAAAAGTA
Found at i:2686663 original size:19 final size:19
Alignment explanation
Indices: 2686639--2686753 Score: 119
Period size: 19 Copynumber: 6.7 Consensus size: 19
2686629 CAAACAGTAA
*
2686639 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAACTG
2686658 TTGTATCGATAC--AA---
1 TTGTATCGATACATAACTG
*
2686672 -TGTATCGATACGTAACTG
1 TTGTATCGATACATAACTG
2686690 TTGTATCGATAC--AA---
1 TTGTATCGATACATAACTG
*
2686704 -TGTATCGATACGTAACTG
1 TTGTATCGATACATAACTG
2686722 TTGTATCGATACATAACTG
1 TTGTATCGATACATAACTG
2686741 TTGTATCGATACA
1 TTGTATCGATACA
2686754 ATGTATCACT
Statistics
Matches: 83, Mismatches: 1, Indels: 24
0.77 0.01 0.22
Matches are distributed among these distances:
13 22 0.27
15 4 0.05
17 4 0.05
19 53 0.64
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAACTG
Found at i:2686677 original size:13 final size:13
Alignment explanation
Indices: 2686659--2686714 Score: 58
Period size: 13 Copynumber: 3.8 Consensus size: 13
2686649 ACATAAGTGT
2686659 TGTATCGATACAA
1 TGTATCGATACAA
2686672 TGTATCGATACGTAA
1 TGTATCGATAC--AA
2686687 CTGTTGTATCGATACAA
1 ----TGTATCGATACAA
2686704 TGTATCGATAC
1 TGTATCGATAC
2686715 GTAACTGTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2686681 original size:32 final size:32
Alignment explanation
Indices: 2686640--2686734 Score: 172
Period size: 32 Copynumber: 3.0 Consensus size: 32
2686630 AAACAGTAAT
* *
2686640 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACGTAACTGTTGTATCGATACAA
2686672 TGTATCGATACGTAACTGTTGTATCGATACAA
1 TGTATCGATACGTAACTGTTGTATCGATACAA
2686704 TGTATCGATACGTAACTGTTGTATCGATACA
1 TGTATCGATACGTAACTGTTGTATCGATACA
2686735 TAACTGTTGT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACGTAACTGTTGTATCGATACAA
Found at i:2702220 original size:29 final size:30
Alignment explanation
Indices: 2702180--2702299 Score: 151
Period size: 29 Copynumber: 4.1 Consensus size: 30
2702170 ATTCCTCACC
2702180 TTTCAAAAGCCCACAAGTCAGTGGCATCTT
1 TTTCAAAAGCCCACAAGTCAGTGGCATCTT
2702210 TTTC-AAAGCCCACAAGTCAGTGGCATC-T
1 TTTCAAAAGCCCACAAGTCAGTGGCATCTT
* * * *
2702238 TTTCCAAAGCCCATAAATCAGTGGCAAC--
1 TTTCAAAAGCCCACAAGTCAGTGGCATCTT
*
2702266 CTTCAAAAGCCCACAAGTTC-GTGGCATCTT
1 TTTCAAAAGCCCACAAG-TCAGTGGCATCTT
2702296 TTTC
1 TTTC
2702300 CTTTTAAGCC
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
28 25 0.32
29 45 0.58
30 7 0.09
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (30 bp):
TTTCAAAAGCCCACAAGTCAGTGGCATCTT
Found at i:2702337 original size:32 final size:32
Alignment explanation
Indices: 2702272--2702361 Score: 117
Period size: 32 Copynumber: 2.8 Consensus size: 32
2702262 CAACCTTCAA
* * *
2702272 AAGCCCACAAGTTCGTGGCATCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCA-CCTTTTCCTTTT
*
2702305 AAGCCCACAACTCCGTGGCACCTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTCCTTTT
* *
2702337 AAGTCCACAACTCTGTGGCACCTTT
1 AAGCCCACAACTCCGTGGCACCTTT
2702362 AAGCCCAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 33 0.65
33 18 0.35
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.34
Consensus pattern (32 bp):
AAGCCCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:2702443 original size:75 final size:75
Alignment explanation
Indices: 2702320--2702484 Score: 287
Period size: 75 Copynumber: 2.2 Consensus size: 75
2702310 CACAACTCCG
* *
2702320 TGGCACCTTTTCTTTTTAAGTCCACAACTCTGTGGCACCTTTAAGCCCAATATTGCT-AGCCTTG
1 TGGCACCTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTTAAGCCCAATATCGCTGA-CCTTG
2702384 AATCAGCATAT
65 AATCAGCATAT
2702395 TGGCACCTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTTAAGCCCAATATCGCTGACCTTGA
1 TGGCACCTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTTAAGCCCAATATCGCTGACCTTGA
2702460 ATCAGCATAT
66 ATCAGCATAT
*
2702470 TGGCACCTTGTCTTT
1 TGGCACCTTTTCTTT
2702485 AAGACCAATG
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
75 85 0.99
76 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (75 bp):
TGGCACCTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTTAAGCCCAATATCGCTGACCTTGA
ATCAGCATAT
Found at i:2702586 original size:88 final size:89
Alignment explanation
Indices: 2702441--2702799 Score: 411
Period size: 88 Copynumber: 3.9 Consensus size: 89
2702431 ACCTTTAAGC
* * *
2702441 CCAATATCGCTGACCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACCAATGTCGCTAGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCGTCTTTAAGACCAATGTCGCTGGCCT
2702505 TGAATCAGCACATTGGCATAAAG-
66 TGAATCAGCACATTGGCATAAAGA
*
2702528 CCTAATATCGCTGGCCTTGAATCAGCCTATTGGCACCAT-GTCTTTAAGACCAATGTCGCTGGCC
1 CC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCATCGTCTTTAAGACCAATGTCGCTGGCC
*
2702592 TTGAATCAGCACATTGGCA-CAAGA
65 TTGAATCAGCACATTGGCATAAAGA
* * * * *
2702616 CCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTTTAAGTCCAATGTTGTTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCG---TCTTTAAGACCAATGTCGCTGG
*
2702681 CCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
63 CCTTGAATCAGCACATTGGCA---T-A-----AAGA
* * *
2702717 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTTAAAACCAATATCGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--CATCGTCTTTAAGACCAATGTCGCTGG
*
2702782 CCTTGAATCAGCATATTG
63 CCTTGAATCAGCACATTG
2702800 ACACCTTCAT
Statistics
Matches: 231, Mismatches: 21, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
87 38 0.16
88 78 0.34
89 1 0.00
91 40 0.17
101 70 0.30
102 1 0.00
104 3 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (89 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCGTCTTTAAGACCAATGTCGCTGGCCT
TGAATCAGCACATTGGCATAAAGA
Found at i:2702627 original size:39 final size:39
Alignment explanation
Indices: 2702573--2702647 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
2702563 CCATGTCTTT
*
2702573 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
*
2702612 AAGACCAATATCGCTGGCCTTGAATCAGCATATTGG
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGG
2702648 TACCTTCGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (39 bp):
AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:2702731 original size:49 final size:49
Alignment explanation
Indices: 2702616--2703006 Score: 331
Period size: 52 Copynumber: 7.8 Consensus size: 49
2702606 TGGCACAAGA
*
2702616 CCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T--TCATCTTTAAGT
* * * *
2702668 CCAATGTTGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
**
2702717 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTTAAAA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T--TCATCTTTAAGT
*
2702769 CCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
* ** * * * *
2702818 CCGATATCATTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC-TT--TAAGT
* ** * * *
2702870 CCAATGTCGCTGGCCTTGTCTCAGCACATT-GCA--TTCTTCTTCAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
* * * * * * * * *
2702916 CTAAATGTCGCTGACCGTGAATTAGCACATTGACATTCTTTACATCTTTAAGC
1 C-CAATATCGCTGGCCTTGAATCAGCATATTGGCA--CCTT-CATCTTTAAGT
* * *
2702969 CCAATATCACTGGTGC-TAAATCAGCATATTGGCACCTT
1 CCAATATCGCTGG-CCTTGAATCAGCATATTGGCACCTT
2703007 TATCACTCTT
Statistics
Matches: 271, Mismatches: 54, Indels: 30
0.76 0.15 0.08
Matches are distributed among these distances:
46 4 0.01
47 23 0.08
48 4 0.01
49 92 0.34
50 6 0.02
51 5 0.02
52 127 0.47
53 10 0.04
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (49 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
Found at i:2702791 original size:101 final size:101
Alignment explanation
Indices: 2702616--2702900 Score: 383
Period size: 101 Copynumber: 2.8 Consensus size: 101
2702606 TGGCACAAGA
* * * * *
2702616 CCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTTTAAGTCCAATGTTGTTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTTAAGACCAATGTCGCTGG
*
2702681 CCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
66 CCTTGAATCAGCACATTGACACCTTCATCTTTAAGT
* *
2702717 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTTAAAACCAATATCGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTTAAGACCAATGTCGCTGG
*
2702782 CCTTGAATCAGCATATTGACACCTTCATCTTTAAGT
66 CCTTGAATCAGCACATTGACACCTTCATCTTTAAGT
* ** * * * * *
2702818 CCGATATCATTGGCCTTGAATCAGCATATTGGCATCTTTAACAT-TCCTAAGCCCAATGTCGCTG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCT-TTAAGACCAATGTCGCTG
**
2702882 GCCTTGTCTCAGCACATTG
65 GCCTTGAATCAGCACATTG
2702901 CATTCTTCTT
Statistics
Matches: 161, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
100 1 0.01
101 160 0.99
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (101 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTTAAGACCAATGTCGCTGG
CCTTGAATCAGCACATTGACACCTTCATCTTTAAGT
Found at i:2703680 original size:19 final size:19
Alignment explanation
Indices: 2703635--2703706 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
2703625 TTTCAACAAT
* *
2703635 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACATA-AGT-G
2703656 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
2703675 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
2703694 TTGTATCGATACA
1 TTGTATCGATACA
2703707 ATGTATCGCT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 32 0.65
20 3 0.06
21 14 0.29
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2721016 original size:20 final size:20
Alignment explanation
Indices: 2720991--2721044 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
2720981 GTTAGAAGCA
*
2720991 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
2721011 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
2721031 ATGTATCGATACAA
1 ATGTATCGATACAA
2721045 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:2721117 original size:19 final size:19
Alignment explanation
Indices: 2721073--2721128 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
2721063 TTGCCAGTTT
* **
2721073 CATGTATCGATACAATTGTC
1 CATGTATCAATACAA-TGAA
2721093 CATGTATCAATACAATGAA
1 CATGTATCAATACAATGAA
*
2721112 CATGTATCAATATAATG
1 CATGTATCAATACAATG
2721129 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.32
Consensus pattern (19 bp):
CATGTATCAATACAATGAA
Found at i:2721588 original size:33 final size:33
Alignment explanation
Indices: 2721551--2721613 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
2721541 AGCATTTATG
2721551 AACTTACCGATTTGTTCAAACTTGTATACATTC
1 AACTTACCGATTTGTTCAAACTTGTATACATTC
2721584 AACTTACCGATTTGTTCAAACTTGTATACA
1 AACTTACCGATTTGTTCAAACTTGTATACA
2721614 ATCATTCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (33 bp):
AACTTACCGATTTGTTCAAACTTGTATACATTC
Found at i:2730075 original size:55 final size:55
Alignment explanation
Indices: 2729991--2730100 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
2729981 GTATCGATAC
2729991 AAGGTCCCAACAGTCAAAACTTTTGAATTTCAACAATTTGTATCGATACAAACAG
1 AAGGTCCCAACAGTCAAAACTTTTGAATTTCAACAATTTGTATCGATACAAACAG
* *
2730046 AAGGTCCCAACGGTCAAAACTTTTGAATTTCAACAATTTGTATCGATATAAACAG
1 AAGGTCCCAACAGTCAAAACTTTTGAATTTCAACAATTTGTATCGATACAAACAG
2730101 TAACTATATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (55 bp):
AAGGTCCCAACAGTCAAAACTTTTGAATTTCAACAATTTGTATCGATACAAACAG
Found at i:2730135 original size:19 final size:17
Alignment explanation
Indices: 2730111--2730167 Score: 50
Period size: 19 Copynumber: 3.4 Consensus size: 17
2730101 TAACTATATT
2730111 GATACATAAGCGTTGTATC
1 GATACATAA--GTTGTATC
2730130 GATAC--AA--TGTATC
1 GATACATAAGTTGTATC
2730143 GATACATAAGTTTTGTATC
1 GATACATAAG--TTGTATC
2730162 GATACA
1 GATACA
2730168 ATGTATCGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.34
15 2 0.06
17 2 0.06
19 17 0.53
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (17 bp):
GATACATAAGTTGTATC
Found at i:2730142 original size:13 final size:13
Alignment explanation
Indices: 2730124--2730148 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2730114 ACATAAGCGT
2730124 TGTATCGATACAA
1 TGTATCGATACAA
2730137 TGTATCGATACA
1 TGTATCGATACA
2730149 TAAGTTTTGT
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:2730152 original size:32 final size:32
Alignment explanation
Indices: 2730111--2730175 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
2730101 TAACTATATT
2730111 GATACATAAGCGTTGTATCGATACAATGTATC
1 GATACATAAGCGTTGTATCGATACAATGTATC
**
2730143 GATACATAAGTTTTGTATCGATACAATGTATC
1 GATACATAAGCGTTGTATCGATACAATGTATC
2730175 G
1 G
2730176 CTACGAAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (32 bp):
GATACATAAGCGTTGTATCGATACAATGTATC
Found at i:2733414 original size:20 final size:20
Alignment explanation
Indices: 2733389--2733442 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
2733379 GTTAGAAGTA
* *
2733389 ATGTATCGATATAAT-TCATC
1 ATGTATCGATACAATGT-ACC
2733409 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
2733429 ATGTATCGATACAA
1 ATGTATCGATACAA
2733443 ATAATGGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:2735991 original size:28 final size:28
Alignment explanation
Indices: 2735960--2736621 Score: 581
Period size: 28 Copynumber: 23.4 Consensus size: 28
2735950 CGACTTCTTT
** * *
2735960 TCAAAGCGTACAAGTCAACGACACCTTC
1 TCAAAGCCCACAAGTCAATGGCACCTTC
*
2735988 TCAAAACCCACAAGTCAATGGCACCTTC
1 TCAAAGCCCACAAGTCAATGGCACCTTC
* *
2736016 TCCAAGCCCACAAGTCAGTGGCACCTTC
1 TCAAAGCCCACAAGTCAATGGCACCTTC
* * * * * *
2736044 TTAAAGCTCACAAGTGAGTGGCATCTTT
1 TCAAAGCCCACAAGTCAATGGCACCTTC
*
2736072 TCAAAGCCCACAAGT-AAGTGGTACCCTT-
1 TCAAAGCCCACAAGTCAA-TGGCA-CCTTC
* *
2736100 TCGAAGCCCACAAGTCAGTGGCACCTTC
1 TCAAAGCCCACAAGTCAATGGCACCTTC
* *
2736128 TCAAAGCCCACAAGTCAGTGGCATC-TC
1 TCAAAGCCCACAAGTCAATGGCACCTTC
2736155 TTCAAAGCCCACAAGT-AAGTGGCACCCTT-
1 -TCAAAGCCCACAAGTCAA-TGGCA-CCTTC
2736184 TCAAAGCCCACAAGT-AAGTGGCACCCTT-
1 TCAAAGCCCACAAGTCAA-TGGCA-CCTTC
2736212 TCAAAGCCCACAAGTCAATGGCATCCTT-
1 TCAAAGCCCACAAGTCAATGGCA-CCTTC
* *
2736240 TCAAAGCCAACAAGTCATTGGCATCCTT-
1 TCAAAGCCCACAAGTCAATGGCA-CCTTC
* * *
2736268 TCAAAGCCCACAAGTCAGTGGCATCTTT
1 TCAAAGCCCACAAGTCAATGGCACCTTC
* *
2736296 TCAAAGCCCACAAGTTAATGGCAACCCTTT
1 TCAAAGCCCACAAGTCAATGGC-A-CCTTC
* *
2736326 TCAAAGCCCACAAGTTAGTGGCACCTTC
1 TCAAAGCCCACAAGTCAATGGCACCTTC
* *
2736354 TCAAAGCCCACAAGTCAGTGCCACCTTC
1 TCAAAGCCCACAAGTCAATGGCACCTTC
* * * *
2736382 TCAAAGCCCACAAGTTAGTGGCATCTTT
1 TCAAAGCCCACAAGTCAATGGCACCTTC
* * * *
2736410 TCAAAGCCCATAAGTTAGTGGCAACTCTTT
1 TCAAAGCCCACAAGTCAATGGC-AC-CTTC
* *
2736440 TCAAAGCCCACAAGTCAGTGGCAACACTTT
1 TCAAAGCCCACAAGTCAATGGC-AC-CTTC
*
2736470 TCAAAGCCCACAAGTCAATGGCACCTTT
1 TCAAAGCCCACAAGTCAATGGCACCTTC
* * * *
2736498 TCAAAGCCCACAAGTCAGTGGTATCTTT
1 TCAAAGCCCACAAGTCAATGGCACCTTC
* *** * *
2736526 TTAAAGCCCACAAGTTGGTGGCATCTTT
1 TCAAAGCCCACAAGTCAATGGCACCTTC
**
2736554 TTGAAGCCCACAAGT-AAGTGGCACCCTT-
1 TCAAAGCCCACAAGTCAA-TGGCA-CCTTC
* * * * *
2736582 TCAAACCCCACAAGTTAGTGGCATCTTT
1 TCAAAGCCCACAAGTCAATGGCACCTTC
2736610 TCAAAGCCCACA
1 TCAAAGCCCACA
2736622 CAAGTTGATG
Statistics
Matches: 550, Mismatches: 66, Indels: 36
0.84 0.10 0.06
Matches are distributed among these distances:
27 14 0.03
28 442 0.80
29 16 0.03
30 78 0.14
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
TCAAAGCCCACAAGTCAATGGCACCTTC
Found at i:2736031 original size:56 final size:56
Alignment explanation
Indices: 2735956--2736621 Score: 680
Period size: 56 Copynumber: 11.8 Consensus size: 56
2735946 AATACGACTT
** * * * *
2735956 CTTTTCAAAGCGTACAAGTCAACGACACCTTCTCAAAACCCACAAGTCAATGGCAC
1 CTTTTCAAAGCCCACAAGTCAATGGCACCTTCTCAAAGCCCACAAGTCAGTGGCAC
* * * * * * *
2736012 CTTCTCCAAGCCCACAAGTCAGTGGCACCTTCTTAAAGCTCACAAGTGAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAATGGCACCTTCTCAAAGCCCACAAGTCAGTGGCAC
* *
2736068 CTTTTCAAAGCCCACAAGT-AAGTGGTACCCTT-TCGAAGCCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAA-TGGCA-CCTTCTCAAAGCCCACAAGTCAGTGGCAC
* * * *
2736124 CTTCTCAAAGCCCACAAGTCAGTGGCATC-TCTTCAAAGCCCACAAGTAAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAATGGCACCTTC-TCAAAGCCCACAAGTCAGTGGCAC
* *
2736180 CCTTTCAAAGCCCACAAGT-AAGTGGCACCCTT-TCAAAGCCCACAAGTCAATGGCATC
1 CTTTTCAAAGCCCACAAGTCAA-TGGCA-CCTTCTCAAAGCCCACAAGTCAGTGGCA-C
* * *
2736237 C-TTTCAAAGCCAACAAGTCATTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAATGGCA-CCTTCTCAAAGCCCACAAGTCAGTGGCAC
* * *
2736292 CTTTTCAAAGCCCACAAGTTAATGGCAACCCTTTTCAAAGCCCACAAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAATGGC-A-CCTTCTCAAAGCCCACAAGTCAGTGGCAC
* * * * *
2736350 CTTCTCAAAGCCCACAAGTCAGTGCCACCTTCTCAAAGCCCACAAGTTAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAATGGCACCTTCTCAAAGCCCACAAGTCAGTGGCAC
* * * *
2736406 CTTTTCAAAGCCCATAAGTTAGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCAAC
1 CTTTTCAAAGCCCACAAGTCAATGGC-AC-CTTCTCAAAGCCCACAAGTCAGTGGC-AC
* * *
2736465 ACTTTTCAAAGCCCACAAGTCAATGGCACCTTTTCAAAGCCCACAAGTCAGTGGTAT
1 -CTTTTCAAAGCCCACAAGTCAATGGCACCTTCTCAAAGCCCACAAGTCAGTGGCAC
* *** * * ** *
2736522 CTTTTTAAAGCCCACAAGTTGGTGGCATCTTTTTGAAGCCCACAAGTAAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAATGGCACCTTCTCAAAGCCCACAAGTCAGTGGCAC
* * * * * *
2736578 CCTTTCAAACCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACA
1 CTTTTCAAAGCCCACAAGTCAATGGCACCTTCTCAAAGCCCACA
2736622 CAAGTTGATG
Statistics
Matches: 514, Mismatches: 79, Indels: 34
0.82 0.13 0.05
Matches are distributed among these distances:
54 1 0.00
55 4 0.01
56 371 0.72
57 18 0.04
58 94 0.18
59 3 0.01
60 23 0.04
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (56 bp):
CTTTTCAAAGCCCACAAGTCAATGGCACCTTCTCAAAGCCCACAAGTCAGTGGCAC
Found at i:2736107 original size:84 final size:83
Alignment explanation
Indices: 2735988--2736621 Score: 698
Period size: 84 Copynumber: 7.5 Consensus size: 83
2735978 CGACACCTTC
* *
2735988 TCAAAACCCACAAGTCAA-TGGCA-CCTTCTCCAAGCCCACAAGTCAGTGGCACCTTCTTAAAGC
1 TCAAAGCCCACAAGT-AAGTGGCACCCTT-TCAAAGCCCACAAGTCAGTGGCACCTT-TTAAAGC
* *
2736051 TCACAAGTGAGTGGCATCTTT
63 CCACAAGTCAGTGGCATCTTT
* * *
2736072 TCAAAGCCCACAAGTAAGTGGTACCCTTTCGAAGCCCACAAGTCAGTGGCACCTTCTCAAAGCCC
1 TCAAAGCCCACAAGTAAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTT-TTAAAGCCC
*
2736137 ACAAGTCAGTGGCATCTCT
65 ACAAGTCAGTGGCATCTTT
* *
2736156 TCAAAGCCCACAAGTAAGTGGCACCCTTTCAAAGCCCACAAGTAAGTGGCACCCTTTCAAAGCCC
1 TCAAAGCCCACAAGTAAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTAAAGCCC
* *
2736221 ACAAGTCAATGGCATCCTT
65 ACAAGTCAGTGGCATCTTT
* * * * *
2736240 TCAAAGCCAACAAGTCATTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCC
1 TCAAAGCCCACAAGTAAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTT-AAAGCCC
* * *
2736305 ACAAGTTAATGGCAACCCTTT
65 ACAAGTCAGTGGC-A-TCTTT
* * *
2736326 TCAAAGCCCACAAGTTAGTGGCA-CCTTCTCAAAGCCCACAAGTCAGTGCCACCTTCTCAAAGCC
1 TCAAAGCCCACAAGTAAGTGGCACCCTT-TCAAAGCCCACAAGTCAGTGGCACCTT-TTAAAGCC
*
2736390 CACAAGTTAGTGGCATCTTT
64 CACAAGTCAGTGGCATCTTT
* * *
2736410 TCAAAGCCCATAAGTTAGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCAACACTTTTCAAA
1 TCAAAGCCCACAAGTAAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGC-AC-CTTTT-AAA
* *
2736475 GCCCACAAGTCAATGGCACCTTT
61 GCCCACAAGTCAGTGGCATCTTT
* * * * * ** * *
2736498 TCAAAGCCCACAAGTCAGTGGTATCTTTTTAAAGCCCACAAGTTGGTGGCATCTTTTTGAAGCCC
1 TCAAAGCCCACAAGTAAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTAAAGCCC
* * *
2736563 ACAAGTAAGTGGCACCCTT
65 ACAAGTCAGTGGCATCTTT
* * * *
2736582 TCAAACCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACA
1 TCAAAGCCCACAAGTAAGTGGCACCCTTTCAAAGCCCACA
2736622 CAAGTTGATG
Statistics
Matches: 481, Mismatches: 54, Indels: 30
0.85 0.10 0.05
Matches are distributed among these distances:
83 6 0.01
84 290 0.60
85 20 0.04
86 112 0.23
87 8 0.02
88 45 0.09
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (83 bp):
TCAAAGCCCACAAGTAAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTAAAGCCCA
CAAGTCAGTGGCATCTTT
Found at i:2737787 original size:13 final size:13
Alignment explanation
Indices: 2737771--2737795 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2737761 TGAGTGGCGA
2737771 CCGACGGTGGTCG
1 CCGACGGTGGTCG
2737784 CCGACGGTGGTC
1 CCGACGGTGGTC
2737796 ACTACGACCG
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:0.08, C:0.32, G:0.44, T:0.16
Consensus pattern (13 bp):
CCGACGGTGGTCG
Found at i:2740866 original size:167 final size:166
Alignment explanation
Indices: 2740563--2740890 Score: 399
Period size: 167 Copynumber: 2.0 Consensus size: 166
2740553 TAAATTAAAA
* * *
2740563 TTTTCAAAACTGATTTAATATGAATTTAATGACTATATTAGATGAATTTTAAAAATTTTAAACTA
1 TTTTCAAAACTGATTTAATATGAATTAAATGACTATATTAGATGAATTTTAAAAATTATAAACCA
* ** * * * * * * * ** *
2740628 CGAAAAATTCCTTCGAAAATATTTATAGAATAGAAAACTTAGTTTTTCGAGAATAGGGGAATTTT
66 AGAAAAATTCCTTAAAAAACAATTAAAGAATAGAAAACTCAGTATTTCAAAAATAGGAAAATTTC
*
2740693 AAGGAAAAAGATGAAAAACTAATGAAAATAAATGAAT
131 AAGGAAAAA-AAGAAAAACTAATGAAAATAAATGAAT
* *
2740730 TTTTTAAAACTGATTTAATATGAATTAAATGA-TGATATTTGATGAATTTTAAAAATTATAAACC
1 TTTTCAAAACTGATTTAATATGAATTAAATGACT-ATATTAGATGAATTTTAAAAATTATAAACC
* * *
2740794 AAGAAAAATTTCC-TAAAAAACAATTAAATAGTAGAAAACTCCGTATTTCAAAAATAGGAAAATT
65 AAGAAAAA-TTCCTTAAAAAACAATTAAAGAATAGAAAACTCAGTATTTCAAAAATAGGAAAATT
* *
2740858 TCAAGGAAAAAAAGAAAAATTAATGAAATTAAA
129 TCAAGGAAAAAAAGAAAAACTAATGAAAATAAA
2740891 AAAAAAATTT
Statistics
Matches: 135, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
166 20 0.15
167 111 0.82
168 4 0.03
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.32
Consensus pattern (166 bp):
TTTTCAAAACTGATTTAATATGAATTAAATGACTATATTAGATGAATTTTAAAAATTATAAACCA
AGAAAAATTCCTTAAAAAACAATTAAAGAATAGAAAACTCAGTATTTCAAAAATAGGAAAATTTC
AAGGAAAAAAAGAAAAACTAATGAAAATAAATGAAT
Found at i:2742329 original size:47 final size:47
Alignment explanation
Indices: 2742104--2742329 Score: 222
Period size: 47 Copynumber: 4.8 Consensus size: 47
2742094 AATGAGGATG
* * * * * * *
2742104 AAAAGAGTTTGACTAGG-ACTAAAGCCAATATAGTAAAACGAGGGTA
1 AAAAGAGTTTGACCAGGTCCTAACGCTAATACAGTCAAACAAGGGTA
* * *
2742150 AAAAGAGTTTGAACAGGTCCTAAC-CTCAATATAGTCAAATAAGGGTA
1 AAAAGAGTTTGACCAGGTCCTAACGCT-AATACAGTCAAACAAGGGTA
* * * * *
2742197 AAAAGAGTTTGACCAAGTCCTAATGCCAATACAGTCAAACAATGGTG
1 AAAAGAGTTTGACCAGGTCCTAACGCTAATACAGTCAAACAAGGGTA
* * * * *
2742244 AAAAGAGTTTGACTAGGTCCTAATGCTAGTACAGTCAAACGAGGATA
1 AAAAGAGTTTGACCAGGTCCTAACGCTAATACAGTCAAACAAGGGTA
* * *
2742291 AAAAGAGTTTGACCAGGTCTTAACGCTAATGCAATCAAA
1 AAAAGAGTTTGACCAGGTCCTAACGCTAATACAGTCAAA
2742330 TGAGAAGAGT
Statistics
Matches: 147, Mismatches: 30, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
46 16 0.11
47 130 0.88
48 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.22
Consensus pattern (47 bp):
AAAAGAGTTTGACCAGGTCCTAACGCTAATACAGTCAAACAAGGGTA
Found at i:2742473 original size:35 final size:35
Alignment explanation
Indices: 2742380--2742669 Score: 152
Period size: 35 Copynumber: 8.6 Consensus size: 35
2742370 ATGGGAGTAA
* * *
2742380 AAAGAGTTTGACTAAATATAGTCAAGCAATGATGG
1 AAAGAGTTTGACCAGATATAGTCAAACAATGATGG
* ** * *
2742415 AAATAGTTTGATTAGATACAGTTAAACAATGATGG
1 AAAGAGTTTGACCAGATATAGTCAAACAATGATGG
* * * * * *
2742450 AAAGAGTTTGACCGGTTATAGTTAAATAATGACGA
1 AAAGAGTTTGACCAGATATAGTCAAACAATGATGG
* ** *
2742485 AAAGTGTTTGACCAGATATAGTCAAATGATGAGGG
1 AAAGAGTTTGACCAGATATAGTCAAACAATGATGG
* *
2742520 AAAGAGTTTAACC--A-A-AG-------ATGATGA
1 AAAGAGTTTGACCAGATATAGTCAAACAATGATGG
* * * ** * *
2742544 AAATAGTTTGACCAGATACAGTTAAATGATGACGA
1 AAAGAGTTTGACCAGATATAGTCAAACAATGATGG
* ** * **
2742579 AAAGAGTTTGACTAGATGCAATCAAATGATGATGG
1 AAAGAGTTTGACCAGATATAGTCAAACAATGATGG
* * * * *
2742614 AAACAGTTTAACCAGATATAATTAAACGATGATGG
1 AAAGAGTTTGACCAGATATAGTCAAACAATGATGG
*
2742649 AAAGAGTTTGACCAGAGATAG
1 AAAGAGTTTGACCAGATATAG
2742670 AAAGAGTTTG
Statistics
Matches: 197, Mismatches: 47, Indels: 22
0.74 0.18 0.08
Matches are distributed among these distances:
24 16 0.08
26 1 0.01
27 1 0.01
28 2 0.01
31 2 0.01
32 1 0.01
33 1 0.01
35 173 0.88
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (35 bp):
AAAGAGTTTGACCAGATATAGTCAAACAATGATGG
Found at i:2742604 original size:94 final size:94
Alignment explanation
Indices: 2742443--2742627 Score: 253
Period size: 94 Copynumber: 2.0 Consensus size: 94
2742433 CAGTTAAACA
* * * * * * *
2742443 ATGATGGAAAGAGTTTGACCGGTTATAGTTAAATAATGACGAAAAGTGTTTGACCAGATATAGTC
1 ATGATGAAAAGAGTTTGACCAGATACAGTTAAATAATGACGAAAAGAGTTTGACCAGATACAATC
*
2742508 AAATGATGAGGGAAAGAGTTTAACCAAAG
66 AAATGATGAGGGAAACAGTTTAACCAAAG
* * * *
2742537 ATGATGAAAATAGTTTGACCAGATACAGTTAAATGATGACGAAAAGAGTTTGACTAGATGCAATC
1 ATGATGAAAAGAGTTTGACCAGATACAGTTAAATAATGACGAAAAGAGTTTGACCAGATACAATC
*
2742602 AAATGATGATGGAAACAGTTTAACCA
66 AAATGATGAGGGAAACAGTTTAACCA
2742628 GATATAATTA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 78 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (94 bp):
ATGATGAAAAGAGTTTGACCAGATACAGTTAAATAATGACGAAAAGAGTTTGACCAGATACAATC
AAATGATGAGGGAAACAGTTTAACCAAAG
Found at i:2747008 original size:10 final size:11
Alignment explanation
Indices: 2746977--2747014 Score: 51
Period size: 10 Copynumber: 3.4 Consensus size: 11
2746967 TGATTTTATG
2746977 AAATATTTAGGAA
1 AAATATTTA--AA
2746990 AAATATTTAAA
1 AAATATTTAAA
2747001 AAAT-TTTAAA
1 AAATATTTAAA
2747011 AAAT
1 AAAT
2747015 CATCTAGTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.40
11 6 0.24
13 9 0.36
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (11 bp):
AAATATTTAAA
Found at i:2749038 original size:20 final size:20
Alignment explanation
Indices: 2748977--2749048 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
2748967 CATTTTAGAC
* *
2748977 ATGTATCGATGCATTCGCTT
1 ATGTATCGATACATTCACTT
* * *
2748997 AAGTATTGATACATTCATTT
1 ATGTATCGATACATTCACTT
2749017 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
*
2749037 ATTATATCGATA
1 A-TGTATCGATA
2749049 TAAATTGTAA
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 33 0.79
21 9 0.21
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:2757605 original size:61 final size:62
Alignment explanation
Indices: 2757495--2757615 Score: 136
Period size: 61 Copynumber: 2.0 Consensus size: 62
2757485 ACACTAGACT
* * * * * * *
2757495 TAAAGAAGATAAAGAGTGCCAACGTGCTGATTTAAGGCTAGTGACATTGGATTTAAAGATGA
1 TAAAGAAGAGAAAGAGTGCCAACATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGA
* * * *
2757557 TAAAGATGAGAAAGA-TGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTAAAGAT
1 TAAAGAAGAGAAAGAGTGCCAACATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGAT
2757616 ACGAAGAATG
Statistics
Matches: 48, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
61 35 0.73
62 13 0.27
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.25
Consensus pattern (62 bp):
TAAAGAAGAGAAAGAGTGCCAACATGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGA
Found at i:2757917 original size:32 final size:31
Alignment explanation
Indices: 2757880--2758164 Score: 292
Period size: 32 Copynumber: 9.0 Consensus size: 31
2757870 AGATGCCATG
* *
2757880 AACTTGTGTAGGCTTTTGAAAGGGTTGCTACC
1 AACTTGTGTGGGC-TTTGAAAGGGTTGCCACC
* * *
2757912 GACTTGTGTGGGCTTTAAGAAGGGTTGCCACT
1 AACTTGTGTGGGCTTTGA-AAGGGTTGCCACC
* * *
2757944 AGCTTGTGTGGGCTTTGAAGGGGTTGCCACT
1 AACTTGTGTGGGCTTTGAAAGGGTTGCCACC
*
2757975 AACTTGTGTGGGCTTTTG-AAGAGGTTGCCATC
1 AACTTGTGTGGGC-TTTGAAAG-GGTTGCCACC
2758007 AACTTGTGTGGGGC-TT-AAAGAAGGTTGCCACC
1 AACTTGTGT-GGGCTTTGAAAG--GGTTGCCACC
* *
2758039 AACTTGTGTGAGCTTTGAAGAAGGTTGCCACC
1 AACTTGTGTGGGCTTTGAA-AGGGTTGCCACC
2758071 AACTTGTGTGGGCTTTTG-AAGAGGTTGCCACC
1 AACTTGTGTGGGC-TTTGAAAG-GGTTGCCACC
* * *
2758103 AACTTGTGTAGGCTTTGAAGAAGGTTGTCACC
1 AACTTGTGTGGGCTTTGAA-AGGGTTGCCACC
*
2758135 AACTTGTATGGGCTTTTG-AAGGGTTGCCAC
1 AACTTGTGTGGGC-TTTGAAAGGGTTGCCAC
2758165 TTTGAAGAGG
Statistics
Matches: 214, Mismatches: 25, Indels: 29
0.80 0.09 0.11
Matches are distributed among these distances:
31 52 0.24
32 146 0.68
33 15 0.07
34 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (31 bp):
AACTTGTGTGGGCTTTGAAAGGGTTGCCACC
Found at i:2757958 original size:64 final size:64
Alignment explanation
Indices: 2757880--2758164 Score: 352
Period size: 64 Copynumber: 4.5 Consensus size: 64
2757870 AGATGCCATG
* * * *
2757880 AACTTGTGTAGGCTTTTGAAAGGGTTGCTACCGACTTGTGTGGGCTTT-AAGAAGGGTTGCCACT
1 AACTTGTGTGGGCTTTTGAAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAGAA-GGTTGCCACC
* * * *
2757944 AGCTTGTGTGGGC-TTTGAAGGGGTTGCCACTAACTTGTGTGGGCTTTTGAAG-AGGTTGCCATC
1 AACTTGTGTGGGCTTTTGAAAGGGTTGCCACCAACTTGTGTGGGC-TTTGAAGAAGGTTGCCACC
*
2758007 AACTTGTGTGGGGC--TT-AAAGAAGGTTGCCACCAACTTGTGTGAGCTTTGAAGAAGGTTGCCA
1 AACTTGTGT-GGGCTTTTGAAAG--GGTTGCCACCAACTTGTGTGGGCTTTGAAGAAGGTTGCCA
2758069 CC
63 CC
* *
2758071 AACTTGTGTGGGCTTTTG-AAGAGGTTGCCACCAACTTGTGTAGGCTTTGAAGAAGGTTGTCACC
1 AACTTGTGTGGGCTTTTGAAAG-GGTTGCCACCAACTTGTGTGGGCTTTGAAGAAGGTTGCCACC
*
2758135 AACTTGTATGGGCTTTTG-AAGGGTTGCCAC
1 AACTTGTGTGGGCTTTTGAAAGGGTTGCCAC
2758165 TTTGAAGAGG
Statistics
Matches: 195, Mismatches: 17, Indels: 19
0.84 0.07 0.08
Matches are distributed among these distances:
62 3 0.02
63 65 0.33
64 119 0.61
65 8 0.04
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (64 bp):
AACTTGTGTGGGCTTTTGAAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAGAAGGTTGCCACC
Found at i:2758085 original size:96 final size:93
Alignment explanation
Indices: 2757857--2759054 Score: 986
Period size: 96 Copynumber: 12.8 Consensus size: 93
2757847 CTAGCAACAT
* * ** * * *
2757857 TGGGCTTAGAAGGAGATGCCATGAACTTGTGTAGGCTTTTGAA-AGGGTTGCTACCGACTTGTGT
1 TGGGCTTTGAAGG-GTTGCCACCAACTTGTGTGGGCTTTTGAAGA-GGTTGCCACCAACTTGTGT
* * *
2757921 GGGCTTTAAGAAGGGTTGCCACTAGCTTGTG
64 GGGCTTAAAGAA-GGTTGCCACCAACTTGTG
* *
2757952 TGGGCTTTGAAGGGGTTGCCACTAACTTGTGTGGGCTTTTGAAGAGGTTGCCATCAACTTGTGTG
1 TGGGCTTTGAA-GGGTTGCCACCAACTTGTGTGGGCTTTTGAAGAGGTTGCCACCAACTTGTGT-
2758017 GGGCTTAAAGAAGGTTGCCACCAACTTGTG
64 GGGCTTAAAGAAGGTTGCCACCAACTTGTG
*
2758047 TGAGCTTTGAAGAAGGTTGCCACCAACTTGTGTGGGCTTTTGAAGAGGTTGCCACCAACTTGTGT
1 TGGGCTTTGAAG--GGTTGCCACCAACTTGTGTGGGCTTTTGAAGAGGTTGCCACCAACTTGTGT
* * * *
2758112 AGGCTTTGAAGAAGGTTGTCACCAACTTGTA
64 GGGC-TTAAAGAAGGTTGCCACCAACTTGTG
* ** * *
2758143 TGGGCTTTTGAAGGGTTG---CC-ACTT-TGAAGAGG---TTG-CCA-----CCGA-CTA-GTGT
1 TGGGC-TTTGAAGGGTTGCCACCAACTTGTG-TG-GGCTTTTGAAGAGGTTGCC-ACCAACTTGT
** *
2758192 G-GGCTTTTGAAG-AGGTTGCCACCAACTTGTG
62 GTGG-GCTTAAAGAAGGTTGCCACCAACTTGTG
* * * *
2758223 TGGGCTTTAAAGAAGGTTACCACCAAGTTGTGTGGGC-TTTGATGAAGGTTGCCACCAACTTGTG
1 TGGGCTTTGAAG--GGTTGCCACCAACTTGTGTGGGCTTTTGAAG-AGGTTGCCACCAACTTGTG
* * * *
2758287 GGGGCTT--TGAAGGGATTGCCACCGACCTGTG
63 TGGGCTTAAAGAA-GG-TTGCCACCAACTTGTG
* * ** *
2758318 TGGGCTTTTAAAGAGGTTGCCATCAACTTGTGTGGGGATTTAAAGAAGGTTGCCACCAACTTGTG
1 TGGGC-TTTGAAG-GGTTGCCACCAACTTGTGTGGGCTTTTGAAG-AGGTTGCCACCAACTTGTG
*
2758383 TGGGCTTTTGAA-AAGGTTGCCACCAACTTGTG
63 TGGGC--TTAAAGAAGGTTGCCACCAACTTGTG
*
2758415 TGGGCTTTGAAGAAGGTTGTCACCAACTTGTGTGGGCTTTTGAAG-GGTTG---CC-AC-T-T-T
1 TGGGCTTTGAAG--GGTTGCCACCAACTTGTGTGGGCTTTTGAAGAGGTTGCCACCAACTTGTGT
* *
2758472 --G----AAG-AGGTTGCCACCGACTGGTG
64 GGGCTTAAAGAAGGTTGCCACCAACTTGTG
* *
2758495 TGGGCTTTTGAAGAGGTTGCCACTAACTTGTGTGGGC-TTTAAAGAAGGTTGCCACCAACTTGTG
1 TGGGC-TTTGAAG-GGTTGCCACCAACTTGTGTGGGCTTTTGAAG-AGGTTGCCACCAACTTGTG
* * *
2758559 TGGGCTTTGAAGAAGGTTGCCACTAACTTATG
63 TGGGC-TTAAAGAAGGTTGCCACCAACTTGTG
*
2758591 TGGGCTTTGAAGAAGGTTGCCACCAACTTATGTGGGCTTTTGAAGAGGTTGCCACCAACTTGTGT
1 TGGGCTTTGAAG--GGTTGCCACCAACTTGTGTGGGCTTTTGAAGAGGTTGCCACCAACTTGTGT
* * ***
2758656 GGGTTTTGAAGAAGGTTGTTGCCAACTTGTG
64 GGG-CTTAAAGAAGGTTGCCACCAACTTGTG
* * * * * *
2758687 TGGGCTTTTGAAGGGGTTGCTACCGACTTCTCTGGGC-TTTGAAGAAGATTGCCACCAGCTTGTG
1 TGGGC-TTTGAA-GGGTTGCCACCAACTTGTGTGGGCTTTTGAAG-AGGTTGCCACCAACTTGTG
2758751 TGGGCTTTAAAGAAGGTTGCCACCAACTTGTG
63 TGGGC-TTAAAGAAGGTTGCCACCAACTTGTG
* *** * * *
2758783 TGGGCTTTTGAAAAGGTTGCCATTGACTTCTGTGGGCTTCTAAAGAGGTTGCCACCAACTTGTGT
1 TGGGC-TTTG-AAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAGAGGTTGCCACCAACTTGTGT
* *
2758848 CGGCTTTAAAGAAAGTTGCCACCAACTTGTG
64 GGGC-TTAAAGAAGGTTGCCACCAACTTGTG
* * * * * *
2758879 TTGGCTTTTGAAAGGTTGCCACCAACTTGTGTGGGCTTTGGAAGGGGTTGCCACCTATTTGTGTG
1 TGGGC-TTTGAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAGAGGTTGCCACCAACTTGTGTG
*
2758944 GGCTTTTGAA-AAGGTTGCCACCAACTTGTG
65 GGC--TTAAAGAAGGTTGCCACCAACTTGTG
* * *
2758974 TGGGTTTTGAAAAAGGTTGCCACCAACTTGTGTGAGCTTTTGAA-AGGTTGCCACCAACTTGTGT
1 TGGGCTTTG--AAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAGAGGTTGCCACCAACTTGTGT
*
2759038 GGGCTTTAGAGAAGGTT
64 GGGC-TTAAAGAAGGTT
2759055 TCTGCACTGG
Statistics
Matches: 910, Mismatches: 121, Indels: 144
0.77 0.10 0.12
Matches are distributed among these distances:
79 12 0.01
80 68 0.07
81 23 0.03
82 4 0.00
83 4 0.00
84 7 0.01
85 6 0.01
86 7 0.01
87 1 0.00
88 4 0.00
89 4 0.00
90 4 0.00
91 7 0.01
92 8 0.01
93 5 0.01
94 17 0.02
95 244 0.27
96 406 0.45
97 72 0.08
98 5 0.01
99 2 0.00
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (93 bp):
TGGGCTTTGAAGGGTTGCCACCAACTTGTGTGGGCTTTTGAAGAGGTTGCCACCAACTTGTGTGG
GCTTAAAGAAGGTTGCCACCAACTTGTG
Found at i:2758170 original size:16 final size:17
Alignment explanation
Indices: 2758149--2758181 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2758139 TGTATGGGCT
2758149 TTTGAAG-GGTTGCCAC
1 TTTGAAGAGGTTGCCAC
2758165 TTTGAAGAGGTTGCCAC
1 TTTGAAGAGGTTGCCAC
2758182 CGACTAGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (17 bp):
TTTGAAGAGGTTGCCAC
Found at i:2758195 original size:48 final size:50
Alignment explanation
Indices: 2758115--2758213 Score: 148
Period size: 48 Copynumber: 2.0 Consensus size: 50
2758105 CTTGTGTAGG
* *
2758115 CTTTGAAGAAGGTTGTCACCAACTTGTATGGGCTTTTGAAG-GGTTGCCA
1 CTTTGAAGAAGGTTGCCACCAACTAGTATGGGCTTTTGAAGAGGTTGCCA
* *
2758164 CTTTGAAG-AGGTTGCCACCGACTAGTGTGGGCTTTTGAAGAGGTTGCCA
1 CTTTGAAGAAGGTTGCCACCAACTAGTATGGGCTTTTGAAGAGGTTGCCA
2758213 C
1 C
2758214 CAACTTGTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 28 0.62
49 17 0.38
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (50 bp):
CTTTGAAGAAGGTTGCCACCAACTAGTATGGGCTTTTGAAGAGGTTGCCA
Found at i:2758206 original size:32 final size:31
Alignment explanation
Indices: 2758164--2758468 Score: 371
Period size: 32 Copynumber: 9.6 Consensus size: 31
2758154 AGGGTTGCCA
* *
2758164 CTTTGAAGAGGTTGCCACCGACTAGTGTGGG
1 CTTTGAAGAGGTTGCCACCAACTTGTGTGGG
2758195 CTTTTGAAGAGGTTGCCACCAACTTGTGTGGG
1 C-TTTGAAGAGGTTGCCACCAACTTGTGTGGG
* * *
2758227 CTTTAAAGAAGGTTACCACCAAGTTGTGTGGG
1 CTTTGAAG-AGGTTGCCACCAACTTGTGTGGG
* *
2758259 CTTTGATGAAGGTTGCCACCAACTTGTGGGGG
1 CTTTGAAG-AGGTTGCCACCAACTTGTGTGGG
* *
2758291 CTTTGAAG-GGATTGCCACCGACCTGTGTGGG
1 CTTTGAAGAGG-TTGCCACCAACTTGTGTGGG
* *
2758322 CTTTTAAAGAGGTTGCCATCAACTTGTGTGGGG
1 C-TTTGAAGAGGTTGCCACCAACTTGTGT-GGG
* *
2758355 ATTTAAAGAAGGTTGCCACCAACTTGTGTGGG
1 CTTTGAAG-AGGTTGCCACCAACTTGTGTGGG
*
2758387 CTTTTGAAAAGGTTGCCACCAACTTGTGTGGG
1 C-TTTGAAGAGGTTGCCACCAACTTGTGTGGG
*
2758419 CTTTGAAGAAGGTTGTCACCAACTTGTGTGGG
1 CTTTGAAG-AGGTTGCCACCAACTTGTGTGGG
2758451 CTTTTGAAG-GGTTGCCAC
1 C-TTTGAAGAGGTTGCCAC
2758469 TTTGAAGAGG
Statistics
Matches: 238, Mismatches: 26, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
30 2 0.01
31 39 0.16
32 161 0.68
33 36 0.15
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (31 bp):
CTTTGAAGAGGTTGCCACCAACTTGTGTGGG
Found at i:2758474 original size:16 final size:17
Alignment explanation
Indices: 2758453--2758485 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2758443 TGTGTGGGCT
2758453 TTTGAAG-GGTTGCCAC
1 TTTGAAGAGGTTGCCAC
2758469 TTTGAAGAGGTTGCCAC
1 TTTGAAGAGGTTGCCAC
2758486 CGACTGGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (17 bp):
TTTGAAGAGGTTGCCAC
Found at i:2758496 original size:48 final size:50
Alignment explanation
Indices: 2758419--2758518 Score: 159
Period size: 48 Copynumber: 2.0 Consensus size: 50
2758409 CTTGTGTGGG
* *
2758419 CTTTGAAGAAGGTTGTCACCAACTTGTGTGGGCTTTTGAAG-GGTTGCCA
1 CTTTGAAGAAGGTTGCCACCAACTGGTGTGGGCTTTTGAAGAGGTTGCCA
*
2758468 CTTTGAAG-AGGTTGCCACCGACTGGTGTGGGCTTTTGAAGAGGTTGCCA
1 CTTTGAAGAAGGTTGCCACCAACTGGTGTGGGCTTTTGAAGAGGTTGCCA
2758517 CT
1 CT
2758519 AACTTGTGTG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 29 0.62
49 18 0.38
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (50 bp):
CTTTGAAGAAGGTTGCCACCAACTGGTGTGGGCTTTTGAAGAGGTTGCCA
Found at i:2758510 original size:32 final size:32
Alignment explanation
Indices: 2758469--2759044 Score: 686
Period size: 32 Copynumber: 18.1 Consensus size: 32
2758459 GGGTTGCCAC
* *
2758469 TTTGAAGAGGTTGCCACCGACTGGTGTGGGCT
1 TTTGAAGAGGTTGCCACCAACTTGTGTGGGCT
*
2758501 TTTGAAGAGGTTGCCACTAACTTGTGTGGGC-
1 TTTGAAGAGGTTGCCACCAACTTGTGTGGGCT
*
2758532 TTTAAAGAAGGTTGCCACCAACTTGTGTGGGC-
1 TTTGAAG-AGGTTGCCACCAACTTGTGTGGGCT
* *
2758564 TTTGAAGAAGGTTGCCACTAACTTATGTGGGC-
1 TTTGAAG-AGGTTGCCACCAACTTGTGTGGGCT
*
2758596 TTTGAAGAAGGTTGCCACCAACTTATGTGGGCT
1 TTTGAAG-AGGTTGCCACCAACTTGTGTGGGCT
2758629 TTTGAAGAGGTTGCCACCAACTTGTGTGGG-T
1 TTTGAAGAGGTTGCCACCAACTTGTGTGGGCT
***
2758660 TTTGAAGAAGGTTGTTGCCAACTTGTGTGGGCT
1 TTTGAAG-AGGTTGCCACCAACTTGTGTGGGCT
* * * * *
2758693 TTTGAAGGGGTTGCTACCGACTTCTCTGGGC-
1 TTTGAAGAGGTTGCCACCAACTTGTGTGGGCT
* *
2758724 TTTGAAGAAGATTGCCACCAGCTTGTGTGGGC-
1 TTTGAAG-AGGTTGCCACCAACTTGTGTGGGCT
*
2758756 TTTAAAGAAGGTTGCCACCAACTTGTGTGGGCT
1 TTTGAAG-AGGTTGCCACCAACTTGTGTGGGCT
* *** *
2758789 TTTGAAAAGGTTGCCATTGACTTCTGTGGGCT
1 TTTGAAGAGGTTGCCACCAACTTGTGTGGGCT
* * *
2758821 TCTAAAGAGGTTGCCACCAACTTGTGTCGGC-
1 TTTGAAGAGGTTGCCACCAACTTGTGTGGGCT
* * *
2758852 TTTAAAGAAAGTTGCCACCAACTTGTGTTGGCT
1 TTTGAAG-AGGTTGCCACCAACTTGTGTGGGCT
2758885 TTTGAA-AGGTTGCCACCAACTTGTGTGGGCT
1 TTTGAAGAGGTTGCCACCAACTTGTGTGGGCT
* * * *
2758916 TTGGAAGGGGTTGCCACCTATTTGTGTGGGCT
1 TTTGAAGAGGTTGCCACCAACTTGTGTGGGCT
*
2758948 TTTGAAAAGGTTGCCACCAACTTGTGTGGG-T
1 TTTGAAGAGGTTGCCACCAACTTGTGTGGGCT
* *
2758979 TTTGAAAAAGGTTGCCACCAACTTGTGTGAGCT
1 TTTG-AAGAGGTTGCCACCAACTTGTGTGGGCT
2759012 TTTGAA-AGGTTGCCACCAACTTGTGTGGGCT
1 TTTGAAGAGGTTGCCACCAACTTGTGTGGGCT
2759043 TT
1 TT
2759045 AGAGAAGGTT
Statistics
Matches: 473, Mismatches: 60, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
31 86 0.18
32 357 0.75
33 30 0.06
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.32
Consensus pattern (32 bp):
TTTGAAGAGGTTGCCACCAACTTGTGTGGGCT
Found at i:2758561 original size:112 final size:112
Alignment explanation
Indices: 2758364--2758582 Score: 359
Period size: 112 Copynumber: 1.9 Consensus size: 112
2758354 GATTTAAAGA
* *
2758364 AGGTTGCCACCAACTTGTGTGGGCTTTTGAAAAGGTTGCCACCAACTTGTGTGGGCTTTGAAGAA
1 AGGTTGCCACCAACTGGTGTGGGCTTTTGAAAAGGTTGCCACCAACTTGTGTGGGCTTTAAAGAA
*
2758429 GGTTGTCACCAACTTGTGTGGGCTTTTGAAG-GGTTGCCACTTTGAAG
66 GGTTGCCACCAACTTGTGTGGGC-TTTGAAGAGGTTGCCACTTTGAAG
* * *
2758476 AGGTTGCCACCGACTGGTGTGGGCTTTTGAAGAGGTTGCCACTAACTTGTGTGGGCTTTAAAGAA
1 AGGTTGCCACCAACTGGTGTGGGCTTTTGAAAAGGTTGCCACCAACTTGTGTGGGCTTTAAAGAA
2758541 GGTTGCCACCAACTTGTGTGGGCTTTGAAGAAGGTTGCCACT
66 GGTTGCCACCAACTTGTGTGGGCTTTGAAG-AGGTTGCCACT
2758583 AACTTATGTG
Statistics
Matches: 99, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
111 7 0.07
112 82 0.83
113 10 0.10
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (112 bp):
AGGTTGCCACCAACTGGTGTGGGCTTTTGAAAAGGTTGCCACCAACTTGTGTGGGCTTTAAAGAA
GGTTGCCACCAACTTGTGTGGGCTTTGAAGAGGTTGCCACTTTGAAG
Found at i:2759268 original size:28 final size:28
Alignment explanation
Indices: 2759235--2759291 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
2759225 GTGTCACTGA
*
2759235 TTGTGGATTTCGAAA-AGATGCCACTAAC
1 TTGTGGACTTC-AAAGAGATGCCACTAAC
*
2759263 TTGTGGACTTCAAAGAGGTGCCACTAAC
1 TTGTGGACTTCAAAGAGATGCCACTAAC
2759291 T
1 T
2759292 AATGGGCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 23 0.88
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (28 bp):
TTGTGGACTTCAAAGAGATGCCACTAAC
Found at i:2759371 original size:13 final size:13
Alignment explanation
Indices: 2759353--2759390 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
2759343 TCTAACACAC
2759353 GTTCTTGACAAAA
1 GTTCTTGACAAAA
2759366 GTTCTTGACAAAA
1 GTTCTTGACAAAA
*
2759379 ATTACTTGACAA
1 GTT-CTTGACAA
2759391 CAATTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (13 bp):
GTTCTTGACAAAA
Found at i:2759386 original size:14 final size:13
Alignment explanation
Indices: 2759354--2759395 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
2759344 CTAACACACG
*
2759354 TTCTTGACAAAAG
1 TTCTTGACAAAAA
2759367 TTCTTGACAAAAA
1 TTCTTGACAAAAA
*
2759380 TTACTTGACAACAA
1 TT-CTTGACAAAAA
2759394 TT
1 TT
2759396 TTATTGACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (13 bp):
TTCTTGACAAAAA
Found at i:2760627 original size:25 final size:23
Alignment explanation
Indices: 2760592--2760688 Score: 97
Period size: 25 Copynumber: 4.0 Consensus size: 23
2760582 TTTCTTCCCC
*
2760592 TTTTTCTTGTTTGTTGTTTTTTT
1 TTTTTTTTGTTTGTTGTTTTTTT
*
2760615 GTGTTTTTTTGTTTGTTCTTTGTTTTT
1 -T-TTTTTTTGTTTGTT-GTT-TTTTT
2760642 TTTTTTTGTGTTTGTT-TTTTTTT
1 TTTTTTT-TGTTTGTTGTTTTTTT
* *
2760665 CTTTTTTTGGTTTTTTGTTTTTTT
1 -TTTTTTTTGTTTGTTGTTTTTTT
2760689 ATGAAGGACT
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
23 11 0.17
24 17 0.27
25 19 0.30
26 11 0.17
27 5 0.08
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.82
Consensus pattern (23 bp):
TTTTTTTTGTTTGTTGTTTTTTT
Found at i:2760650 original size:45 final size:45
Alignment explanation
Indices: 2760592--2760688 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 45
2760582 TTTCTTCCCC
*
2760592 TTTTTCTTGTTTGTTGTTT-TTTTGTGTTTT-TTTGTTT-GTTCTTTG
1 TTTTTTTTGTTTG-TGTTTGTTTT-T-TTTTCTTTGTTTGGTTCTTTG
* * *
2760637 TTTTTTTTTTTTGTGTTTGTTTTTTTTTCTTTTTTTGGTTTTTTG
1 TTTTTTTTGTTTGTGTTTGTTTTTTTTTCTTTGTTTGGTTCTTTG
2760682 TTTTTTT
1 TTTTTTT
2760689 ATGAAGGACT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
43 4 0.09
44 12 0.27
45 29 0.64
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.82
Consensus pattern (45 bp):
TTTTTTTTGTTTGTGTTTGTTTTTTTTTCTTTGTTTGGTTCTTTG
Found at i:2760688 original size:19 final size:18
Alignment explanation
Indices: 2760592--2760688 Score: 83
Period size: 19 Copynumber: 5.3 Consensus size: 18
2760582 TTTCTTCCCC
* *
2760592 TTTTTCTTGTTTGTTG-T
1 TTTTTTTTGTTTTTTGTT
*
2760609 TTTTTTGTGTTTTTTTGTT
1 TTTTTTTTG-TTTTTTGTT
* *
2760628 TGTTCTTTGTTTTTT-TT
1 TTTTTTTTGTTTTTTGTT
2760645 TTTTGTGTTTGTTTTTT-TT
1 TTTT-T-TTTGTTTTTTGTT
2760664 TCTTTTTTTGGTTTTTTGTT
1 T-TTTTTTT-GTTTTTTGTT
2760684 TTTTT
1 TTTTT
2760689 ATGAAGGACT
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
17 12 0.18
18 15 0.23
19 32 0.49
20 6 0.09
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.82
Consensus pattern (18 bp):
TTTTTTTTGTTTTTTGTT
Found at i:2761684 original size:13 final size:13
Alignment explanation
Indices: 2761666--2761691 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2761656 CAATTTTTTG
2761666 TGTATCGATACAT
1 TGTATCGATACAT
2761679 TGTATCGATACAT
1 TGTATCGATACAT
2761692 ACTTTGGTGT
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:2761690 original size:33 final size:33
Alignment explanation
Indices: 2761648--2761710 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
2761638 CAAGCCAATT
* *
2761648 TATCGATACA-ATTTTTTGTGTATCGATACATTG
1 TATCGATACATA-CTTTGGTGTATCGATACATTG
2761681 TATCGATACATACTTTGGTGTATCGATACA
1 TATCGATACATACTTTGGTGTATCGATACA
2761711 AGTTTGGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (33 bp):
TATCGATACATACTTTGGTGTATCGATACATTG
Found at i:2764295 original size:13 final size:13
Alignment explanation
Indices: 2764277--2764312 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
2764267 ATTATCCCCC
*
2764277 TGTATCGATATAG
1 TGTATCGATATAA
2764290 TGTATCGATATAA
1 TGTATCGATATAA
2764303 TGTATCGATA
1 TGTATCGATA
2764313 CAAAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.39
Consensus pattern (13 bp):
TGTATCGATATAA
Found at i:2766982 original size:236 final size:236
Alignment explanation
Indices: 2766569--2767042 Score: 921
Period size: 236 Copynumber: 2.0 Consensus size: 236
2766559 ACCACTAAGG
2766569 TTCTTTTGTTAAACACTCGATAGGCTTTAGAGTTTGTTGAATAACCAAGAAAAATTCCTTCATCA
1 TTCTTTTGTTAAACACTCGATAGGCTTTAGAGTTTGTTGAATAACCAAGAAAAATTCCTTCATCA
2766634 CGTTTAGCATCAAATTTACCAAGATTGTCTTTTCCATTGTTTAAAACAAAACATTTACATCCAAA
66 CGTTTAGCATCAAATTTACCAAGATTGTCTTTTCCATTGTTTAAAACAAAACATTTACATCCAAA
2766699 AGGATGAAAGTAGCTTATGTTAGGCCTTTTACCTTTGTAAAGTTCATAAGAAGTTTTCTTTAAAA
131 AGGATGAAAGTAGCTTATGTTAGGCCTTTTACCTTTGTAAAGTTCATAAGAAGTTTTCTTTAAAA
2766764 TTGGCCTAATCATTGCTCGGTTTAAAACATAACACGCGGTA
196 TTGGCCTAATCATTGCTCGGTTTAAAACATAACACGCGGTA
2766805 TTCTTTTGTTAAACACTCGATAGGCTTTAGAGTTTGTTGAATAACCAAGAAAAATTCCTTCATCA
1 TTCTTTTGTTAAACACTCGATAGGCTTTAGAGTTTGTTGAATAACCAAGAAAAATTCCTTCATCA
*
2766870 CGTTTAGCATCAAATTTACCAAGATTGTCTTTTCCATTGTTTAAAACAAAACATTTACATCTAAA
66 CGTTTAGCATCAAATTTACCAAGATTGTCTTTTCCATTGTTTAAAACAAAACATTTACATCCAAA
2766935 AGGATGAAAGTAGCTTATGTTAGGCCTTTTACCTTTGTAAAGTTCATAAGAAGTTTTCTTTAAAA
131 AGGATGAAAGTAGCTTATGTTAGGCCTTTTACCTTTGTAAAGTTCATAAGAAGTTTTCTTTAAAA
* *
2767000 TTGGCCTAATCATTTCTCGGTTTAAAACATAACATGCGGTA
196 TTGGCCTAATCATTGCTCGGTTTAAAACATAACACGCGGTA
2767041 TT
1 TT
2767043 AATAGCTTCC
Statistics
Matches: 235, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
236 235 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (236 bp):
TTCTTTTGTTAAACACTCGATAGGCTTTAGAGTTTGTTGAATAACCAAGAAAAATTCCTTCATCA
CGTTTAGCATCAAATTTACCAAGATTGTCTTTTCCATTGTTTAAAACAAAACATTTACATCCAAA
AGGATGAAAGTAGCTTATGTTAGGCCTTTTACCTTTGTAAAGTTCATAAGAAGTTTTCTTTAAAA
TTGGCCTAATCATTGCTCGGTTTAAAACATAACACGCGGTA
Found at i:2770654 original size:13 final size:13
Alignment explanation
Indices: 2770636--2770661 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2770626 CAATTTTTTG
2770636 TGTATCGATACAT
1 TGTATCGATACAT
2770649 TGTATCGATACAT
1 TGTATCGATACAT
2770662 ACTTTGGTGT
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:2770658 original size:33 final size:33
Alignment explanation
Indices: 2770616--2770680 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2770606 TACAAGCCAA
* *
2770616 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
2770649 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
2770681 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:2773655 original size:19 final size:20
Alignment explanation
Indices: 2773631--2773684 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
2773621 ACATTATGCT
2773631 TTGTATCGATACATGCTC-A
1 TTGTATCGATACATGCTCAA
* **
2773650 TTGTATCGACACAAACTCAA
1 TTGTATCGATACATGCTCAA
2773670 TTGTATCGATACATG
1 TTGTATCGATACATG
2773685 AAATTGGTAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATGCTCAA
Found at i:2774179 original size:22 final size:26
Alignment explanation
Indices: 2774145--2774193 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
2774135 AACCTTGGGT
2774145 TATAATCTCTTAA-GA-ATT-TGAGG
1 TATAATCTCTTAACGAGATTGTGAGG
2774168 TATAAT-TCTTAACGAGATTGTGAGG
1 TATAATCTCTTAACGAGATTGTGAGG
2774193 T
1 T
2774194 TCTTATCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.26
23 8 0.35
24 3 0.13
25 6 0.26
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (26 bp):
TATAATCTCTTAACGAGATTGTGAGG
Found at i:2781110 original size:19 final size:19
Alignment explanation
Indices: 2781086--2781141 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
2781076 TGTATCGATA
2781086 CATTGTATTGATACATGCT
1 CATTGTATTGATACATGCT
*
2781105 CATTGTATTGATACATACT
1 CATTGTATTGATACATGCT
*
2781124 CAATTGTATCGATACATG
1 C-ATTGTATTGATACATG
2781142 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (19 bp):
CATTGTATTGATACATGCT
Found at i:2785153 original size:20 final size:19
Alignment explanation
Indices: 2785105--2785163 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
2785095 TGCTTTGTAT
*
2785105 ACAATGTATCGATACATGT
1 ACAATGTATCGATACATGA
* *
2785124 TCATTGTATCGATACATGA
1 ACAATGTATCGATACATGA
*
2785143 ACAAATGTATCGATAAATGA
1 AC-AATGTATCGATACATGA
2785163 A
1 A
2785164 ACTGGTAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (19 bp):
ACAATGTATCGATACATGA
Found at i:2791388 original size:13 final size:13
Alignment explanation
Indices: 2791370--2791409 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
2791360 ACAATGTTCT
2791370 TTATATCGATACA
1 TTATATCGATACA
2791383 TTATATCGATACA
1 TTATATCGATACA
* *
2791396 ATGTATCGATACA
1 TTATATCGATACA
2791409 T
1 T
2791410 GGGTTACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (13 bp):
TTATATCGATACA
Found at i:2792930 original size:33 final size:33
Alignment explanation
Indices: 2792888--2792954 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2792878 TGAGAGTTGA
* *
2792888 TCACTTCACTTTCGCAGCACATGAATGAGCACT
1 TCACTTCACTCTCGCAACACATGAATGAGCACT
** *
2792921 TCACTTCACTCTCGCAATGCATGGATGAGCACT
1 TCACTTCACTCTCGCAACACATGAATGAGCACT
2792954 T
1 T
2792955 TAGTTCTCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.28
Consensus pattern (33 bp):
TCACTTCACTCTCGCAACACATGAATGAGCACT
Found at i:2794845 original size:20 final size:20
Alignment explanation
Indices: 2794820--2794860 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2794810 TAGGTAAAAG
2794820 TAAAAATGATCTTGACAAAT
1 TAAAAATGATCTTGACAAAT
2794840 TAAAAATGATCTTGACAAAT
1 TAAAAATGATCTTGACAAAT
2794860 T
1 T
2794861 TGAAAACGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.32
Consensus pattern (20 bp):
TAAAAATGATCTTGACAAAT
Found at i:2796860 original size:105 final size:104
Alignment explanation
Indices: 2796732--2797076 Score: 272
Period size: 105 Copynumber: 3.3 Consensus size: 104
2796722 CCGATGAAAT
* * *
2796732 AACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAATTGGAG
1 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAG
*
2796797 TATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAA
66 TATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
* * * * * *
2796836 AACCGGGGTTGGAGTATCCCCGATTATGAAAAATCGATA-TTTTGAAAATAAAGTCGGGGTTGGA
1 AA-CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGA
* * * * * ** *
2796900 GTATCCCCTCAGAAATAACGG-G--GTTGGAGTATCCCCGATGAT-T
65 GTAT-CCC-C-G-ATTAAAGGAGAAATTGGTGT-T--CTGAAAATAA
* *
2796943 AACGGGGTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTTTGGAAATAAAATCGGAGTT
1 AACGGGGTTGGAGTATCCCCGATTGTGAA-AAATT-G-G-TATTTTTGGAAATAAAATCGGAGTT
* ** * *
2797008 GGAGTATCCCCGATTATA-GA-AAATTAATGTTTTGAAAGTAA
62 GGAGTATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
* * *
2797049 AATCGGAGTTGGAATATCCTCGATTGTG
1 AA-CGGGGTTGGAGTATCCCCGATTGTG
2797077 GAGAATTGAG
Statistics
Matches: 180, Mismatches: 43, Indels: 33
0.70 0.17 0.13
Matches are distributed among these distances:
104 27 0.15
105 43 0.24
106 30 0.17
107 33 0.18
108 16 0.09
109 1 0.01
110 4 0.02
111 26 0.14
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (104 bp):
AACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAG
TATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
Found at i:2796897 original size:51 final size:51
Alignment explanation
Indices: 2796737--2796907 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
2796727 GAAATAACGA
* * *
2796737 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
2796789 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
2796842 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
2796893 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2796908 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:2796953 original size:27 final size:28
Alignment explanation
Indices: 2796890--2796965 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
2796880 AAAATAAAGT
*
2796890 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
2796918 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
2796945 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2796966 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:2799457 original size:13 final size:13
Alignment explanation
Indices: 2799439--2799464 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2799429 ACAAAGATCC
2799439 ATGTATCGATACA
1 ATGTATCGATACA
2799452 ATGTATCGATACA
1 ATGTATCGATACA
2799465 CAGAAAAATG
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:2799460 original size:33 final size:33
Alignment explanation
Indices: 2799418--2799484 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2799408 AAAATTTCCA
***
2799418 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2799451 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2799484 A
1 A
2799485 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2799528 original size:19 final size:18
Alignment explanation
Indices: 2799504--2799571 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2799494 CAGTAGCTAA
2799504 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2799523 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2799538 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2799555 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2799572 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Done.