Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 9 of 187
Found at i:2210057 original size:9 final size:9
Alignment explanation
Indices: 2210045--2210103 Score: 75
Period size: 9 Copynumber: 6.4 Consensus size: 9
2210035 AAATAAAAAA
2210045 AATTCGGGT
1 AATTCGGGT
2210054 AATTCGGGT
1 AATTCGGGT
*
2210063 ATTTTTC-GGT
1 A--ATTCGGGT
*
2210073 AATTCGGTT
1 AATTCGGGT
2210082 AATTCGGGT
1 AATTCGGGT
2210091 AATTCGGGT
1 AATTCGGGT
2210100 AATT
1 AATT
2210104 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
8 3 0.07
9 33 0.77
10 4 0.09
11 3 0.07
ACGTcount: A:0.22, C:0.10, G:0.27, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:2210953 original size:28 final size:28
Alignment explanation
Indices: 2210913--2210982 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
2210903 TACATGGACG
*
2210913 GATTATTTAACTAGTAGATAAAGTGCAA
1 GATTATTTAACTACTAGATAAAGTGCAA
* *
2210941 GATTATTTAACTACTAGATGAAGTGTAA
1 GATTATTTAACTACTAGATAAAGTGCAA
2210969 GATTATTTAACTAC
1 GATTATTTAACTAC
2210983 ATAAACAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.36
Consensus pattern (28 bp):
GATTATTTAACTACTAGATAAAGTGCAA
Found at i:2215432 original size:29 final size:29
Alignment explanation
Indices: 2215388--2215457 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
2215378 AAATAAAAAA
*
2215388 TTACCAAAAT-TCTATAAAATTTTTTTAT
1 TTACCAAAATATATATAAAATTTTTTTAT
*
2215416 TTACCAAAATATATATAAATTTTTTTTAT
1 TTACCAAAATATATATAAAATTTTTTTAT
*
2215445 TTATCAAAATATA
1 TTACCAAAATATA
2215458 CCAAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 10 0.26
29 28 0.74
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (29 bp):
TTACCAAAATATATATAAAATTTTTTTAT
Found at i:2215492 original size:17 final size:17
Alignment explanation
Indices: 2215459--2215491 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2215449 CAAAATATAC
2215459 CAAAAAAAACTAAAAAA
1 CAAAAAAAACTAAAAAA
2215476 CAAAAAAAA-TAAAAAA
1 CAAAAAAAACTAAAAAA
2215492 AAATGGACCG
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:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (17 bp):
CAAAAAAAACTAAAAAA
Found at i:2215663 original size:14 final size:14
Alignment explanation
Indices: 2215632--2215801 Score: 59
Period size: 14 Copynumber: 12.9 Consensus size: 14
2215622 GTTGGTGGGG
* **
2215632 GGAAGAAGGAGAGG
1 GGAAGAAGAAGAAA
2215646 GGAAGAAGAAGAAA
1 GGAAGAAGAAGAAA
2215660 GGAAG--GAAGAAA
1 GGAAGAAGAAGAAA
*
2215672 -GAAAAAGAAGGAAAA
1 GGAAGAAGAA-G-AAA
*
2215687 GGAAAGAAGAGGAAA
1 GG-AAGAAGAAGAAA
* *
2215702 GAAAGAAAAAG-AA
1 GGAAGAAGAAGAAA
2215715 GGAAAGAA-AAGGAAA
1 GG-AAGAAGAA-GAAA
*
2215730 GG--G--GAGGAAA
1 GGAAGAAGAAGAAA
*
2215740 GAAAGAA-AA-ATAA
1 GGAAGAAGAAGA-AA
*
2215753 GGAAAGAAAAAGAAA
1 GG-AAGAAGAAGAAA
2215768 GG-AGAAG-AGAAA
1 GGAAGAAGAAGAAA
*
2215780 --AA-AAAAAGAAA
1 GGAAGAAGAAGAAA
2215791 -GAAGAAGAAGA
1 GGAAGAAGAAGA
2215802 GGGAAGGAAG
Statistics
Matches: 117, Mismatches: 17, Indels: 45
0.65 0.09 0.25
Matches are distributed among these distances:
10 7 0.06
11 10 0.09
12 17 0.15
13 22 0.19
14 35 0.30
15 17 0.15
16 3 0.03
17 6 0.05
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (14 bp):
GGAAGAAGAAGAAA
Found at i:2215724 original size:38 final size:38
Alignment explanation
Indices: 2215648--2215826 Score: 162
Period size: 38 Copynumber: 4.8 Consensus size: 38
2215638 AGGAGAGGGG
2215648 AAGAAGAA-GAAAGGA-AGG-AAGAAAGAAAAAGAA-G-
1 AAGAA-AAGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGA
*
2215682 --GAAAAGGAAAGAAGAGGAAAGAAAGAAAAAGAAGGA
1 AAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGA
* *
2215718 AAGAAAAGGAAAGGGGAGGAAAGAAAGAAAAATAAGGA
1 AAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGA
* * *
2215756 AAGAAAAAGAAAGGAGAAGAGAA-AAA-AAAAAGAAAGAA
1 AAGAAAAGGAAAGGAGAGGA-AAGAAAGAAAAAG-AAGGA
* * *
2215794 GAAGAAGAGGGAAGGA-AGGAAAAAAAAGAAAAA
1 -AAGAAAAGGAAAGGAGAGG-AAAGAAAGAAAAA
2215827 AAAGTAATTT
Statistics
Matches: 119, Mismatches: 13, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
31 2 0.02
32 9 0.08
33 3 0.03
34 15 0.13
35 1 0.01
37 5 0.04
38 61 0.51
39 18 0.15
40 5 0.04
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (38 bp):
AAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAAGGA
Found at i:2215730 original size:10 final size:10
Alignment explanation
Indices: 2215668--2215768 Score: 79
Period size: 10 Copynumber: 10.5 Consensus size: 10
2215658 AAGGAAGGAA
*
2215668 GAAAGAAAAA
1 GAAAGAAAAG
*
2215678 GAAGGAAAAG
1 GAAAGAAAAG
*
2215688 GAAAGAAGAG
1 GAAAGAAAAG
2215698 GAAAG-AAA-
1 GAAAGAAAAG
2215706 GAAA-AAGAAG
1 GAAAGAA-AAG
2215716 GAAAGAAAAG
1 GAAAGAAAAG
***
2215726 GAAAGGGGAG
1 GAAAGAAAAG
2215736 GAAAG-AAA-
1 GAAAGAAAAG
2215744 GAAA-AATAAG
1 GAAAGAA-AAG
*
2215754 GAAAGAAAAA
1 GAAAGAAAAG
2215764 GAAAG
1 GAAAG
2215769 GAGAAGAGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
8 10 0.14
9 7 0.10
10 51 0.71
11 4 0.06
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:2216545 original size:19 final size:18
Alignment explanation
Indices: 2216505--2216555 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
2216495 AAAATATATA
**
2216505 TAATATTTTGGTATTTTT
1 TAATATTTTATTATTTTT
2216523 TAATATTTTATTATTTTT
1 TAATATTTTATTATTTTT
*
2216541 GTAATGTTTTATTAT
1 -TAATATTTTATTAT
2216556 GGGTTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (18 bp):
TAATATTTTATTATTTTT
Found at i:2216622 original size:28 final size:26
Alignment explanation
Indices: 2216591--2216815 Score: 264
Period size: 28 Copynumber: 8.5 Consensus size: 26
2216581 AAATAAAAAA
2216591 TTACCAAAATATTATAAATTTTTTTTAT
1 TTACCAAAATA-TAT-AATTTTTTTTAT
*
2216619 TTACCGAAATATAT-A--TTTTTTAT
1 TTACCAAAATATATAATTTTTTTTAT
*
2216642 TTACCAAAATATTATAAAATTTTTTTAT
1 TTACCAAAATA-TAT-AATTTTTTTTAT
* *
2216670 TTACCGAAATATAT-ATATTTTTTAT
1 TTACCAAAATATATAATTTTTTTTAT
2216695 TTACCAAAATATTATAATTTTTTTTAT
1 TTACCAAAATA-TATAATTTTTTTTAT
*
2216722 TTACCGAAATATAT-A-TTTTTTTAT
1 TTACCAAAATATATAATTTTTTTTAT
*
2216746 TTACCAAAATATATATAATTTTGTTTAT
1 TTACC-AAA-ATATATAATTTTTTTTAT
*
2216774 TTACCAAAATATATATAGTTTTGTTTAT
1 TTACCAAAATATATA-A-TTTTTTTTAT
2216802 TTACCAAAATATAT
1 TTACCAAAATATAT
2216816 CAAAAAAAAC
Statistics
Matches: 174, Mismatches: 10, Indels: 26
0.83 0.05 0.12
Matches are distributed among these distances:
23 18 0.10
24 17 0.10
25 23 0.13
26 20 0.11
27 31 0.18
28 65 0.37
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (26 bp):
TTACCAAAATATATAATTTTTTTTAT
Found at i:2216647 original size:51 final size:53
Alignment explanation
Indices: 2216591--2216813 Score: 332
Period size: 51 Copynumber: 4.2 Consensus size: 53
2216581 AAATAAAAAA
2216591 TTACCAAAATATTATAAATTTTTTTTATTTACCGAA-ATATATA-TTTTTTAT
1 TTACCAAAATATTATAAATTTTTTTTATTTACCGAATATATATATTTTTTTAT
*
2216642 TTACCAAAATATTATAAAATTTTTTTATTTACCGAA-ATATATATATTTTTTAT
1 TTACCAAAATATTATAAATTTTTTTTATTTACCGAATATATATAT-TTTTTTAT
2216695 TTACCAAAATATTAT-AATTTTTTTTATTTACCGAA-ATATATATTTTTTTAT
1 TTACCAAAATATTATAAATTTTTTTTATTTACCGAATATATATATTTTTTTAT
* *
2216746 TTACCAAAATA-TATATAATTTTGTTTATTTACCAAAATATATATAGTTTTGTTTAT
1 TTACCAAAATATTATA-AATTTTTTTTATTTACC-GAATATATATA-TTTT-TTTAT
2216802 TTACCAAAATAT
1 TTACCAAAATAT
2216814 ATCAAAAAAA
Statistics
Matches: 159, Mismatches: 4, Indels: 12
0.91 0.02 0.07
Matches are distributed among these distances:
50 3 0.02
51 61 0.38
52 43 0.27
53 25 0.16
54 7 0.04
55 4 0.03
56 16 0.10
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (53 bp):
TTACCAAAATATTATAAATTTTTTTTATTTACCGAATATATATATTTTTTTAT
Found at i:2216717 original size:52 final size:53
Alignment explanation
Indices: 2216591--2216813 Score: 348
Period size: 52 Copynumber: 4.2 Consensus size: 53
2216581 AAATAAAAAA
2216591 TTACCAAAATATTATAAATTTTTTTTATTTACCG-AA-ATATATATTTTTTAT
1 TTACCAAAATATTATAAATTTTTTTTATTTACCGAAATATATATATTTTTTAT
*
2216642 TTACCAAAATATTATAAAATTTTTTTATTTACCGAAATATATATATTTTTTAT
1 TTACCAAAATATTATAAATTTTTTTTATTTACCGAAATATATATATTTTTTAT
2216695 TTACCAAAATATTAT-AATTTTTTTTATTTACCGAAATATATAT-TTTTTTAT
1 TTACCAAAATATTATAAATTTTTTTTATTTACCGAAATATATATATTTTTTAT
* *
2216746 TTACCAAAATA-TATATAATTTTGTTTATTTACCAAAATATATATAGTTTTGTTTAT
1 TTACCAAAATATTATA-AATTTTTTTTATTTACCGAAATATATATA--TTT-TTTAT
2216802 TTACCAAAATAT
1 TTACCAAAATAT
2216814 ATCAAAAAAA
Statistics
Matches: 159, Mismatches: 4, Indels: 12
0.91 0.02 0.07
Matches are distributed among these distances:
50 3 0.02
51 52 0.33
52 55 0.35
53 30 0.19
55 3 0.02
56 16 0.10
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (53 bp):
TTACCAAAATATTATAAATTTTTTTTATTTACCGAAATATATATATTTTTTAT
Found at i:2218888 original size:18 final size:18
Alignment explanation
Indices: 2218847--2218888 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2218837 CCAATGATTG
* *
2218847 CCACCACCTTCTTCTTCG
1 CCACCACATTCTTCTTCA
*
2218865 CAACCACATTCTTCTTCA
1 CCACCACATTCTTCTTCA
2218883 CCACCA
1 CCACCA
2218889 ACCATATCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.48, G:0.02, T:0.29
Consensus pattern (18 bp):
CCACCACATTCTTCTTCA
Found at i:2219985 original size:27 final size:27
Alignment explanation
Indices: 2219939--2220003 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
2219929 AACACGAGTA
** * *
2219939 GTGCCGCCAACCTGGTTTCCTCCACTG
1 GTGCCGCCAACAGGGATTCCTCAACTG
2219966 GTGCCGCCAACAGGGATTCCTCAACTG
1 GTGCCGCCAACAGGGATTCCTCAACTG
2219993 GTGCCGCCAAC
1 GTGCCGCCAAC
2220004 CTGGTCCCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.17, C:0.38, G:0.25, T:0.20
Consensus pattern (27 bp):
GTGCCGCCAACAGGGATTCCTCAACTG
Found at i:2220097 original size:15 final size:16
Alignment explanation
Indices: 2220073--2220103 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
2220063 GGTCCAGTTT
2220073 TTTTTCTATTTTTTTG
1 TTTTTCTATTTTTTTG
2220089 TTTTT-TATTTTTTTG
1 TTTTTCTATTTTTTTG
2220104 GTATATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.84
Consensus pattern (16 bp):
TTTTTCTATTTTTTTG
Found at i:2220136 original size:28 final size:29
Alignment explanation
Indices: 2220105--2220161 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
2220095 ATTTTTTTGG
*
2220105 TATATTTTGGTAAAT-AAAAAAATTTATA
1 TATATTTTGGCAAATAAAAAAAATTTATA
2220133 TATATTTTGGCAAATAAAAAAAATTTATA
1 TATATTTTGGCAAATAAAAAAAATTTATA
2220162 GCATTTTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (29 bp):
TATATTTTGGCAAATAAAAAAAATTTATA
Found at i:2220167 original size:28 final size:28
Alignment explanation
Indices: 2220108--2220170 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
2220098 TTTTTGGTAT
* *
2220108 ATTTTGGTAAATAAAAAAATTTATATAT
1 ATTTTGGCAAATAAAAAAATTTATATAC
*
2220136 ATTTTGGCAAATAAAAAAAATTTATA-GC
1 ATTTTGGCAAAT-AAAAAAATTTATATAC
2220164 ATTTTGG
1 ATTTTGG
2220171 TAATTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 18 0.58
29 13 0.42
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (28 bp):
ATTTTGGCAAATAAAAAAATTTATATAC
Found at i:2229834 original size:22 final size:23
Alignment explanation
Indices: 2229806--2229853 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
2229796 AAGTGTGTGT
*
2229806 AGGTTACTTGACTGTT-GGAGGC
1 AGGTTACTTGACTGTTAAGAGGC
2229828 AGGTTACTTGACTGTTAAGAGGC
1 AGGTTACTTGACTGTTAAGAGGC
2229851 AGG
1 AGG
2229854 AGATGTGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.23, C:0.12, G:0.35, T:0.29
Consensus pattern (23 bp):
AGGTTACTTGACTGTTAAGAGGC
Found at i:2230119 original size:96 final size:97
Alignment explanation
Indices: 2229979--2230167 Score: 265
Period size: 96 Copynumber: 2.0 Consensus size: 97
2229969 ACCTTGTGCA
* *
2229979 GCAGGTTTTATTAACTATTGGAATATTTTTATCTTATGATGTGAATTTGTAGTCGAATATAGATA
1 GCAGGTTTTATTAACTATTGGAATATTTATATCTTATGATGTGAATTCGTAGTCGAATATAGATA
*
2230044 TTGTATCTGTAGCAGCATTGTTTGATGGGACT
66 TTGTATCTGGAGCAGCATTGTTTGATGGGACT
* * * * * *
2230076 GCAGGATTTTA-TAATTTTTGGAATA-TTATATCTTATTATGTGAATTCGTGGTCGAATATTGGT
1 GCAGG-TTTTATTAACTATTGGAATATTTATATCTTATGATGTGAATTCGTAGTCGAATATAGAT
*
2230139 ATTGTATTTGGAGCAGCATTGTTTGATGG
65 ATTGTATCTGGAGCAGCATTGTTTGATGG
2230168 TGATTATTGT
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
96 59 0.73
97 17 0.21
98 5 0.06
ACGTcount: A:0.26, C:0.07, G:0.23, T:0.44
Consensus pattern (97 bp):
GCAGGTTTTATTAACTATTGGAATATTTATATCTTATGATGTGAATTCGTAGTCGAATATAGATA
TTGTATCTGGAGCAGCATTGTTTGATGGGACT
Found at i:2243768 original size:14 final size:14
Alignment explanation
Indices: 2243724--2243769 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
2243714 TCTATGTCAA
*
2243724 TTTAGGATTAAGGG
1 TTTAGGGTTAAGGG
* * *
2243738 TTAAGGGTTTAGTG
1 TTTAGGGTTAAGGG
2243752 TTTAGGGTTAAGGG
1 TTTAGGGTTAAGGG
2243766 TTTA
1 TTTA
2243770 AAGTACTCTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (14 bp):
TTTAGGGTTAAGGG
Found at i:2246470 original size:9 final size:9
Alignment explanation
Indices: 2246456--2246607 Score: 227
Period size: 9 Copynumber: 17.1 Consensus size: 9
2246446 NNNNNNNNNN
2246456 CTTACATAA
1 CTTACATAA
2246465 CTTACATAA
1 CTTACATAA
* *
2246474 ATTAAATAA
1 CTTACATAA
2246483 CTTACATAA
1 CTTACATAA
2246492 CTTACATAA
1 CTTACATAA
*
2246501 CTTACATAT
1 CTTACATAA
2246510 CTTACATAA
1 CTTACATAA
2246519 CTTACATAA
1 CTTACATAA
* *
2246528 ATTAAATAA
1 CTTACATAA
2246537 CTTACATAA
1 CTTACATAA
2246546 CTTACATAA
1 CTTACATAA
* *
2246555 CTTAAATAG
1 CTTACATAA
2246564 CTTACATAA
1 CTTACATAA
2246573 CTTACATAA
1 CTTACATAA
2246582 CTTACATAA
1 CTTACATAA
2246591 CTTACATAA
1 CTTACATAA
2246600 --TACATAA
1 CTTACATAA
2246607 C
1 C
2246608 CTTCCTTACT
Statistics
Matches: 128, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
7 7 0.05
9 121 0.95
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.34
Consensus pattern (9 bp):
CTTACATAA
Found at i:2247561 original size:21 final size:21
Alignment explanation
Indices: 2247536--2247601 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
2247526 CAACTTAAAA
*
2247536 CAGAGGCAGCAGCGAGGGAAG
1 CAGAGGCAGCAGCGAGAGAAG
*
2247557 CAGAGGCTGCAGCGAGAGAAG
1 CAGAGGCAGCAGCGAGAGAAG
*
2247578 CAGAGACCA-CAGCGAGAGAAG
1 CAGAG-GCAGCAGCGAGAGAAG
2247599 CAG
1 CAG
2247602 CGAGAGAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 39 0.98
22 1 0.03
ACGTcount: A:0.36, C:0.21, G:0.41, T:0.02
Consensus pattern (21 bp):
CAGAGGCAGCAGCGAGAGAAG
Found at i:2247604 original size:12 final size:12
Alignment explanation
Indices: 2247565--2247613 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
2247555 AGCAGAGGCT
2247565 GCAGCGAGAGAA
1 GCAGCGAGAGAA
**
2247577 GCA--GAGACCA
1 GCAGCGAGAGAA
2247587 -CAGCGAGAGAA
1 GCAGCGAGAGAA
2247598 GCAGCGAGAGAA
1 GCAGCGAGAGAA
2247610 GCAG
1 GCAG
2247614 AGGTTCAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
9 2 0.07
10 5 0.17
11 5 0.17
12 18 0.60
ACGTcount: A:0.41, C:0.20, G:0.39, T:0.00
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:2248162 original size:85 final size:85
Alignment explanation
Indices: 2248073--2248298 Score: 222
Period size: 85 Copynumber: 2.7 Consensus size: 85
2248063 AACACTACTT
* * * *
2248073 TTAGCGGT-ATTTGTAGATGAAGCGCCGCTAAAGAACATTA-CTTTTAGCGGCGTTTTCTCCCAA
1 TTAGCGGTGATTTGTACAT-AAGCGCCGCTAAAGAACATGATC-ATTAGCGGCATTTTCTCCCAA
2248136 GCGCCGCTAAAGAACATGATCA
64 GCGCCGCTAAAGAACATGATCA
* * * * * * *
2248158 TTAGCGGTGTTTTTTTCCTAAGCGCCGCTAAAGAACATGATCATTAGCGGCATTTTTTTCTAAGC
1 TTAGCGGTGATTTGTACATAAGCGCCGCTAAAGAACATGATCATTAGCGGCATTTTCTCCCAAGC
*
2248223 GCCGCTAAAGAACATGATTA
66 GCCGCTAAAGAACATGATCA
* * * * * * * * * *
2248243 TTAGCGGCGTTTTTTTCTTAAGCACCACTAAAGAACATGACCTTTAGCGGCGTTTT
1 TTAGCGGTGATTTGTACATAAGCGCCGCTAAAGAACATGATCATTAGCGGCATTTT
2248299 TTTATGTAAG
Statistics
Matches: 120, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
85 114 0.95
86 6 0.05
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (85 bp):
TTAGCGGTGATTTGTACATAAGCGCCGCTAAAGAACATGATCATTAGCGGCATTTTCTCCCAAGC
GCCGCTAAAGAACATGATCA
Found at i:2248194 original size:43 final size:43
Alignment explanation
Indices: 2248092--2248319 Score: 282
Period size: 43 Copynumber: 5.3 Consensus size: 43
2248082 TTTGTAGATG
* * * *
2248092 AAGCGCCGCTAAAGAACATTA-CTTTTAGCGGCG-TTTTCTCCC
1 AAGCGCCGCTAAAGAACATGATC-ATTAGCGGCGTTTTTTTCCT
*
2248134 AAGCGCCGCTAAAGAACATGATCATTAGCGGTGTTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCATTAGCGGCGTTTTTTTCCT
*
2248177 AAGCGCCGCTAAAGAACATGATCATTAGCGGCATTTTTTT-CT
1 AAGCGCCGCTAAAGAACATGATCATTAGCGGCGTTTTTTTCCT
* *
2248219 AAGCGCCGCTAAAGAACATGATTATTAGCGGCGTTTTTTTCTT
1 AAGCGCCGCTAAAGAACATGATCATTAGCGGCGTTTTTTTCCT
* * * * **
2248262 AAGCACCACTAAAGAACATGACCTTTAGCGGCGTTTTTTTATGT
1 AAGCGCCGCTAAAGAACATGATCATTAGCGGCGTTTTTTT-CCT
*
2248306 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
2248320 TTAGCGACGT
Statistics
Matches: 162, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
42 68 0.42
43 82 0.51
44 12 0.07
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
AAGCGCCGCTAAAGAACATGATCATTAGCGGCGTTTTTTTCCT
Found at i:2248299 original size:85 final size:85
Alignment explanation
Indices: 2248100--2248319 Score: 287
Period size: 85 Copynumber: 2.6 Consensus size: 85
2248090 TGAAGCGCCG
* * * * *
2248100 CTAAAGAACATTACTTTTAGCGGCGTTTTCTCCCAAGCGCCGCTAAAGAACATGATCATTAGCGG
1 CTAAAGAACATGACCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCATTAGCGG
* * *
2248165 TGTTTTTTTCCTAAGCGCCG
66 CGTTTTTTTCCTAAGCACCA
* * * *
2248185 CTAAAGAACATGATCATTAGCGGCATTTTTTTCTAAGCGCCGCTAAAGAACATGATTATTAGCGG
1 CTAAAGAACATGACCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCATTAGCGG
*
2248250 CGTTTTTTTCTTAAGCACCA
66 CGTTTTTTTCCTAAGCACCA
* *
2248270 CTAAAGAACATGACCTTTAGCGGCGTTTTTTTATGTAAGCGCCGCAAAAG
1 CTAAAGAACATGACCTTTAGCGGCG-TTTTTT-TCTAAGCGCCGCTAAAG
2248320 TTAGCGACGT
Statistics
Matches: 115, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
85 94 0.82
86 6 0.05
87 15 0.13
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (85 bp):
CTAAAGAACATGACCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCATTAGCGG
CGTTTTTTTCCTAAGCACCA
Found at i:2248357 original size:12 final size:12
Alignment explanation
Indices: 2248340--2248369 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
2248330 TATCCTTAGC
2248340 GGCGTTTTTTGT
1 GGCGTTTTTTGT
2248352 GGCGTTTTTTGT
1 GGCGTTTTTTGT
2248364 GGCGTT
1 GGCGTT
2248370 GCAAATGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.37, T:0.53
Consensus pattern (12 bp):
GGCGTTTTTTGT
Found at i:2249972 original size:23 final size:24
Alignment explanation
Indices: 2249932--2249979 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
2249922 ATAATAATAA
2249932 ATTTTTTTAATAAAATATAATTTTAT
1 ATTTTTTTAAT--AATATAATTTTAT
*
2249958 ATTTTTTTAAT-ATATATTTTTA
1 ATTTTTTTAATAATATAATTTTA
2249980 AAAAATACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 10 0.48
26 11 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTTTTTTAATAATATAATTTTAT
Found at i:2250217 original size:20 final size:18
Alignment explanation
Indices: 2250192--2250243 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
2250182 TAGAGAAAAA
2250192 AAAAGAGAGAAAGGAGAAGG
1 AAAAGA-AGAAAGGAGAA-G
*
2250212 AAAAGAAGAAGAAGAGAAG
1 AAAAGAAGAA-AGGAGAAG
2250231 AAGAAGAAGAAAG
1 AA-AAGAAGAAAG
2250244 AAAAAAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (18 bp):
AAAAGAAGAAAGGAGAAG
Found at i:2250233 original size:14 final size:13
Alignment explanation
Indices: 2250194--2250245 Score: 61
Period size: 14 Copynumber: 3.9 Consensus size: 13
2250184 GAGAAAAAAA
*
2250194 AAGAGAGAAAGGAG
1 AAGA-AGAAAGAAG
*
2250208 AAGGA-AAAGAAG
1 AAGAAGAAAGAAG
2250220 AAGAAGAGAAGAAG
1 AAGAAGA-AAGAAG
2250234 AAGAAGAAAGAA
1 AAGAAGAAAGAA
2250246 AAAAAAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
12 10 0.30
13 7 0.21
14 16 0.48
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAG
Found at i:2250452 original size:19 final size:19
Alignment explanation
Indices: 2250396--2250587 Score: 95
Period size: 19 Copynumber: 9.4 Consensus size: 19
2250386 TATAGCTTAG
* *
2250396 ATTAGAATTTTGTATGAAT
1 ATTATAATTTTTTATGAAT
*
2250415 ATTTTAACTTTTTTGTATGAAT
1 ATTATAA--TTTTT-TATGAAT
2250437 ATTATAATTTTTTATGAAT
1 ATTATAATTTTTTATGAAT
* * *
2250456 ATTGTAATGTTGTATGAAT
1 ATTATAATTTTTTATGAAT
* *
2250475 ACTGTAATTATTTTAT--A-
1 ATTATAATT-TTTTATGAAT
**
2250492 ATTA-AATTTGTATTTATAGTTTT
1 ATTATAA-TT-T-TTTAT-G-AAT
2250515 GGATTAGTAATTTTTTGTATGAAT
1 --ATTA-TAA-TTTTT-TATGAAT
*
2250539 ATTATAATTTTGTATGAAT
1 ATTATAATTTTTTATGAAT
2250558 ATTATAAATTTTTTGTATGAAT
1 ATTAT-AA-TTTTT-TATGAAT
*
2250580 ATTGTAAT
1 ATTATAAT
2250588 ATTATAGTTT
Statistics
Matches: 135, Mismatches: 19, Indels: 37
0.71 0.10 0.19
Matches are distributed among these distances:
16 2 0.01
17 5 0.04
18 6 0.04
19 47 0.35
20 17 0.13
21 13 0.10
22 28 0.21
24 1 0.01
25 7 0.05
26 4 0.03
27 5 0.04
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (19 bp):
ATTATAATTTTTTATGAAT
Found at i:2250580 original size:41 final size:41
Alignment explanation
Indices: 2250523--2250642 Score: 132
Period size: 49 Copynumber: 2.7 Consensus size: 41
2250513 TTGGATTAGT
*
2250523 AATTTTTTGTATGAATATTATAATTTTGTATGAATATTATA
1 AATTTTTTGTATGAATATTATAATTTTGTATGAATATTACA
*
2250564 AATTTTTTGTATGAATATTGTAATATTATAGTTTTGTATGAATATTGCA
1 AATTTTTTGTATGAATA---T--TA-TA-A-TTTTGTATGAATATTACA
* *
2250613 ATTTTTTTGTATGAATATTGTAATTTTGTA
1 AATTTTTTGTATGAATATTATAATTTTGTA
2250643 ATTTTGTATG
Statistics
Matches: 67, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
41 24 0.36
42 1 0.01
43 2 0.03
44 2 0.03
46 3 0.04
47 2 0.03
48 1 0.01
49 32 0.48
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (41 bp):
AATTTTTTGTATGAATATTATAATTTTGTATGAATATTACA
Found at i:2250589 original size:49 final size:49
Alignment explanation
Indices: 2250536--2250757 Score: 329
Period size: 49 Copynumber: 4.5 Consensus size: 49
2250526 TTTTTGTATG
* *
2250536 AATATTATAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
* *
2250585 AATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
* * *
2250634 AATTTTGTAATTTTGTATGAATATTA-TATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
* *
2250682 AATATTATAATTTTGCATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
*
2250731 AATATTGTAATTTTTTGTATGAATATT
1 AATATTATAA--TTTTGTATGAATATT
2250758 GTAATTATTT
Statistics
Matches: 154, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
48 43 0.28
49 97 0.63
51 14 0.09
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.54
Consensus pattern (49 bp):
AATATTATAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
Found at i:2250603 original size:27 final size:25
Alignment explanation
Indices: 2250536--2250767 Score: 211
Period size: 22 Copynumber: 9.3 Consensus size: 25
2250526 TTTTTGTATG
*
2250536 AATATTATAATTTTGTATGAATATTAT
1 AATATT-T-ATTTTGTATGAATATTGT
2250563 AA-A-TT-TTTTGTATGAATATTGT
1 AATATTTATTTTGTATGAATATTGT
2250585 AATATTATAGTTTTGTATGAATATTG-
1 AATATT-TA-TTTTGTATGAATATTGT
*
2250611 CA-ATTT-TTTTGTATGAATATTGT
1 AATATTTATTTTGTATGAATATTGT
*
2250634 AATTTTGTAATTTTGTATGAATA-T-T
1 AATATT-T-ATTTTGTATGAATATTGT
2250659 -ATATTT-TTTTGTATGAATATTGT
1 AATATTTATTTTGTATGAATATTGT
*
2250682 AATATTATAATTTTGCATGAATATTG-
1 AATATT-T-ATTTTGTATGAATATTGT
*
2250708 CA-ATTT-TTTTGTATGAATATTGT
1 AATATTTATTTTGTATGAATATTGT
2250731 AATATTGTAATTTTTTGTATGAATATTGT
1 AATATT-T-A--TTTTGTATGAATATTGT
2250760 AATTATTT
1 AA-TATTT
2250768 TATAATTAAT
Statistics
Matches: 172, Mismatches: 9, Indels: 46
0.76 0.04 0.20
Matches are distributed among these distances:
21 13 0.08
22 50 0.29
23 5 0.03
24 18 0.10
25 12 0.07
26 4 0.02
27 46 0.27
29 20 0.12
30 4 0.02
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.54
Consensus pattern (25 bp):
AATATTTATTTTGTATGAATATTGT
Found at i:2250685 original size:29 final size:29
Alignment explanation
Indices: 2250653--2250762 Score: 112
Period size: 29 Copynumber: 4.1 Consensus size: 29
2250643 ATTTTGTATG
2250653 AATATTATATTTTTTTGTATGAATATTGT
1 AATATTATATTTTTTTGTATGAATATTGT
* *
2250682 AATATTATA--ATTTTGCATGAATATTG-
1 AATATTATATTTTTTTGTATGAATATTGT
*
2250708 -----CA-ATTTTTTTGTATGAATATTGT
1 AATATTATATTTTTTTGTATGAATATTGT
* *
2250731 AATATTGTAATTTTTTGTATGAATATTGT
1 AATATTATATTTTTTTGTATGAATATTGT
2250760 AAT
1 AAT
2250763 TATTTTATAA
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 15 0.23
27 15 0.23
29 32 0.50
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.54
Consensus pattern (29 bp):
AATATTATATTTTTTTGTATGAATATTGT
Found at i:2250694 original size:78 final size:77
Alignment explanation
Indices: 2250536--2250762 Score: 235
Period size: 78 Copynumber: 3.0 Consensus size: 77
2250526 TTTTTGTATG
* ** * *
2250536 AATATTATAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTAT-A-GTTTT
1 AATATTATAATTTTGCATGAATATTGCAATTTTTTTGTATG-ATATTGTAATATTATAATTTTTT
2250599 GTATGAATATTG-
65 GTATGAATATTGT
* * * *
2250611 CA-ATT-T--TTTTGTATGAATATTGTAATTTTGTAATT-T-TG-TA-TG-AATATTATATTTTT
1 AATATTATAATTTTGCATGAATATTGCAATTTT-T--TTGTATGATATTGTAATATTATAATTTT
2250667 TTGTATGAATATTGT
63 TTGTATGAATATTGT
*
2250682 AATATTATAATTTTGCATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTGTAATTTTTT
1 AATATTATAATTTTGCATGAATATTGCAATTTTTTTGTATG-ATATTGTAATATTATAATTTTTT
2250747 GTATGAATATTGT
65 GTATGAATATTGT
2250760 AAT
1 AAT
2250763 TATTTTATAA
Statistics
Matches: 126, Mismatches: 10, Indels: 29
0.76 0.06 0.18
Matches are distributed among these distances:
68 8 0.06
69 2 0.02
70 18 0.14
71 22 0.17
72 8 0.06
73 4 0.03
74 8 0.06
75 22 0.17
76 2 0.02
77 2 0.02
78 30 0.24
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (77 bp):
AATATTATAATTTTGCATGAATATTGCAATTTTTTTGTATGATATTGTAATATTATAATTTTTTG
TATGAATATTGT
Found at i:2250696 original size:97 final size:98
Alignment explanation
Indices: 2250536--2250757 Score: 374
Period size: 97 Copynumber: 2.3 Consensus size: 98
2250526 TTTTTGTATG
* * *
2250536 AATATTATAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAGTTTTGT
1 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAATTTTGC
2250601 ATGAATATTGCAATTTTTTTGTATGAATATTGT
66 ATGAATATTGCAATTTTTTTGTATGAATATTGT
* *
2250634 AATTTTGTAATTTTGTATGAATATTAT-ATTTTTTTGTATGAATATTGTAATATTATAATTTTGC
1 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAATTTTGC
2250698 ATGAATATTGCAATTTTTTTGTATGAATATTGT
66 ATGAATATTGCAATTTTTTTGTATGAATATTGT
2250731 AATATTGTAATTTTTTGTATGAATATT
1 AATATTGTAA--TTTTGTATGAATATT
2250758 GTAATTATTT
Statistics
Matches: 116, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
97 76 0.66
98 25 0.22
99 15 0.13
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.54
Consensus pattern (98 bp):
AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAATTTTGC
ATGAATATTGCAATTTTTTTGTATGAATATTGT
Found at i:2250822 original size:60 final size:60
Alignment explanation
Indices: 2250756--2250877 Score: 147
Period size: 60 Copynumber: 2.0 Consensus size: 60
2250746 TGTATGAATA
* * * * * *
2250756 TTGTAATTATTTTATAA-TTAATTTGTTAGCAATTTGGGAATATGTTATAAATTTTTGTGT
1 TTGTAATTA-TTTAAAATTTAATTTATTAGCAATTTAGGAATAAGCTATAAATTGTTGTGT
* * *
2250816 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTAAAATTTAATTTATTAGCAATTTAGGAATAAGCTATAAATTGTTGTGT
2250876 TT
1 TT
2250878 AGTTTAGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 6 0.12
60 46 0.88
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (60 bp):
TTGTAATTATTTAAAATTTAATTTATTAGCAATTTAGGAATAAGCTATAAATTGTTGTGT
Found at i:2250956 original size:38 final size:38
Alignment explanation
Indices: 2250911--2250992 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
2250901 CATATAAAGT
2250911 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
2250949 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
2250987 TTATAA
1 TTATAA
2250993 CTGACTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:2256483 original size:90 final size:90
Alignment explanation
Indices: 2256328--2256504 Score: 248
Period size: 90 Copynumber: 2.0 Consensus size: 90
2256318 TCTTAGTTGT
* * * * *
2256328 TTATAATTGAGGAGACTTGTATAGTTGATGCATTGATTCATGAGCACTTATTTTGTTCATTGAGG
1 TTATAATTGAGGACACTTGTATAGTTGATGCACTGATTCATGAACACTTATTTTATTCATCGAGG
*
2256393 AGCATTTCTTTGGAGTGCATTGTGC
66 AACATTTCTTTGGAGTGCATTGTGC
*
2256418 TTATAATTGAGGACACTTGTATAGTTGATGCACTGA-TCTTCGAACACTTATTTTATTCATCGAG
1 TTATAATTGAGGACACTTGTATAGTTGATGCACTGATTCAT-GAACACTTATTTTATTCATCGAG
* * *
2256482 GAACATTTTTTTGTATTGCATTG
65 GAACATTTCTTTGGAGTGCATTG
2256505 AATGTAAAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
89 3 0.04
90 73 0.96
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (90 bp):
TTATAATTGAGGACACTTGTATAGTTGATGCACTGATTCATGAACACTTATTTTATTCATCGAGG
AACATTTCTTTGGAGTGCATTGTGC
Found at i:2265162 original size:103 final size:104
Alignment explanation
Indices: 2264998--2265354 Score: 504
Period size: 104 Copynumber: 3.4 Consensus size: 104
2264988 GATTCCGCAT
* ** * *
2264998 TTAGCAACCACCAATGAA-TCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAACACTTAG
1 TTAGCAACCACCAAT-AAGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAG
* *
2265062 CAACCCCCTTT-ACATTTAGAAATACGGTGGGATCAGCAG
65 CAACCCCCTTTCACATTTAAAAATACGGTGGGATCAGCAC
* *
2265101 TTAGCAACCATCAATAAGTAGGGGAATCAACACTTAGCAACCCCTCGGGGGAATCAGCACTTAGC
1 TTAGCAACCACCAATAAGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGC
* *
2265166 AACCCCCTTTCACATTTAAAAATAGGGTGGAATCAGCAC
66 AACCCCCTTTCACATTTAAAAATACGGTGGGATCAGCAC
*
2265205 TTAGCAACCACCATTAAGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGC
1 TTAGCAACCACCAATAAGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGC
*
2265270 AACCCCCTTTCACATTTAAAAAATACGATGGGATCAGCAC
66 AACCCCCTTTCACATTT-AAAAATACGGTGGGATCAGCAC
* ** **
2265310 TTAGCAACCACCGATGAA-CCGGGGAATCAGCACACAGCAACCCCT
1 TTAGCAACCACCAAT-AAGTAGGGGAATCAGCACTTAGCAACCCCT
2265355 TTATATGCAA
Statistics
Matches: 227, Mismatches: 23, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
102 2 0.01
103 65 0.29
104 103 0.45
105 55 0.24
106 2 0.01
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.18
Consensus pattern (104 bp):
TTAGCAACCACCAATAAGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGC
AACCCCCTTTCACATTTAAAAATACGGTGGGATCAGCAC
Found at i:2265232 original size:33 final size:27
Alignment explanation
Indices: 2265188--2265275 Score: 104
Period size: 27 Copynumber: 3.0 Consensus size: 27
2265178 CATTTAAAAA
2265188 TAGGGTGGAATCAGCACTTAGCAACCACC
1 TAGGG-GGAATCAGCACTTAGCAACC-CC
2265217 ATTAAGTAGGGGAATCAGCACTTAGCAACCCC
1 --T-AG--GGGGAATCAGCACTTAGCAACCCC
*
2265249 TCGGGGGAATCAGCACTTAGCAACCCC
1 TAGGGGGAATCAGCACTTAGCAACCCC
2265276 CTTTCACATT
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
27 24 0.45
29 1 0.02
30 1 0.02
31 1 0.02
32 4 0.08
33 20 0.38
34 2 0.04
ACGTcount: A:0.31, C:0.28, G:0.24, T:0.17
Consensus pattern (27 bp):
TAGGGGGAATCAGCACTTAGCAACCCC
Found at i:2271170 original size:19 final size:19
Alignment explanation
Indices: 2271142--2271179 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2271132 CAATCACTCA
*
2271142 TCATTCGGAGGAAGGCTTC
1 TCATTAGGAGGAAGGCTTC
2271161 TCATTAGGAGGAAGGCTTC
1 TCATTAGGAGGAAGGCTTC
2271180 CCGAGCCTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (19 bp):
TCATTAGGAGGAAGGCTTC
Found at i:2276226 original size:33 final size:33
Alignment explanation
Indices: 2276184--2276266 Score: 139
Period size: 33 Copynumber: 2.5 Consensus size: 33
2276174 ATATGGTGGG
* *
2276184 ATCAGCACTTAGCAACCACCAATAAGTAGGGGA
1 ATCAGCACTTAGCAACCACCAATAAGTAAGGAA
*
2276217 ATCAGCACTTAGCAACCACCATTAAGTAAGGAA
1 ATCAGCACTTAGCAACCACCAATAAGTAAGGAA
2276250 ATCAGCACTTAGCAACC
1 ATCAGCACTTAGCAACC
2276267 CCCTTTCACA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.40, C:0.27, G:0.17, T:0.17
Consensus pattern (33 bp):
ATCAGCACTTAGCAACCACCAATAAGTAAGGAA
Found at i:2276302 original size:111 final size:103
Alignment explanation
Indices: 2276085--2276348 Score: 359
Period size: 111 Copynumber: 2.5 Consensus size: 103
2276075 GGTGGATTTC
* *
2276085 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGAGGAAATCAGCACT
* * *
2276150 TAGCAACCCCCTTTAGATTTAGAAATATGGTGGGATCA
66 TAGCAACCCCCTTTACATTTAAAAATACGGTGGGATCA
* **
2276188 GCACTTAGCAACCACCAAT-AAGTAGGGGAATCAGCACTTAGCAACCACCATTAAGTAAGGAAAT
1 GCACTTAGCAACCACCAATGAA-TCGGGGAATCAGCACACAGCAACC-CC-TT--G--AGGAAAT
2276252 CAGCACTTAGCAACCCCCTTTCACATTTAAAAAATACGGTGGGATCA
59 CAGCACTTAGCAACCCCCTTT-ACATTT-AAAAATACGGTGGGATCA
*
2276299 GCACTTAGCAACCACCGATGAATCGGGGAATCAGCACACAGCAACCCCTT
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT
2276349 TATATGCAAT
Statistics
Matches: 139, Mismatches: 12, Indels: 14
0.84 0.07 0.08
Matches are distributed among these distances:
102 2 0.01
103 40 0.29
104 2 0.01
105 2 0.01
107 1 0.01
109 28 0.20
110 7 0.05
111 55 0.40
112 2 0.01
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (103 bp):
GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGAGGAAATCAGCACT
TAGCAACCCCCTTTACATTTAAAAATACGGTGGGATCA
Found at i:2279165 original size:45 final size:45
Alignment explanation
Indices: 2279092--2279185 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
2279082 AAGAGTCCTA
* *
2279092 GTAAACGAGGATTGCATTGGTGTGATTGGGAATCTCTATGTGGAT
1 GTAAACGAGGATTGCATTGATGTAATTGGGAATCTCTATGTGGAT
2279137 GTAAACGAGGATTGCATTGATGTAATTGGGAATCTCTATGTGGAT
1 GTAAACGAGGATTGCATTGATGTAATTGGGAATCTCTATGTGGAT
2279182 -TAAA
1 GTAAA
2279186 GGAAAATGGT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 4 0.09
45 43 0.91
ACGTcount: A:0.29, C:0.09, G:0.30, T:0.33
Consensus pattern (45 bp):
GTAAACGAGGATTGCATTGATGTAATTGGGAATCTCTATGTGGAT
Found at i:2282615 original size:42 final size:42
Alignment explanation
Indices: 2282530--2282621 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 42
2282520 GTTTTTTAAA
* * ** * * **
2282530 AGTTACACGGCCTATCACATGGGCGTGTGAGGCCATTTCGAG
1 AGTTACACGGCCTAGCACACGGGCGTGTGACACAAGTGAGAG
2282572 AGTTACACGGCCTAGCACACGGGCGTGTGACACAAGTGAGAG
1 AGTTACACGGCCTAGCACACGGGCGTGTGACACAAGTGAGAG
2282614 AGTTACAC
1 AGTTACAC
2282622 AGGCATGGAC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (42 bp):
AGTTACACGGCCTAGCACACGGGCGTGTGACACAAGTGAGAG
Found at i:2285982 original size:41 final size:41
Alignment explanation
Indices: 2285932--2286023 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 41
2285922 GGCTTAGCAC
*
2285932 CTAGCAGGCTTATTGCC-AGTGAAACAATTCAGACTATATGT
1 CTAGCAGGCTTAATGCCGA-TGAAACAATTCAGACTATATGT
* * *
2285973 CTAGTAGGCTTAATGTCGATGAAACATTTCAGACTATATGT
1 CTAGCAGGCTTAATGCCGATGAAACAATTCAGACTATATGT
2286014 CTAGCAGGCT
1 CTAGCAGGCT
2286024 AAGTGCCTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
41 44 0.98
42 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGATGAAACAATTCAGACTATATGT
Found at i:2290457 original size:131 final size:131
Alignment explanation
Indices: 2290201--2290635 Score: 676
Period size: 131 Copynumber: 3.3 Consensus size: 131
2290191 ATTGACTATA
* ** * * *
2290201 TTCGATCCGCTCTGCTACTGCTTAGGGAGATAGGATCTGCAATTTCCAACCTATTCCACTGCT-G
1 TTCGATCTGCTCCACTATTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGG
* * * * * **
2290265 TTAGAGATATAGGACTTGTGGCCTAAATCTATTTCCCTACTC-CCGAGGAAGATAAGATTCGCCG
66 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCTTAG-GGAAGATAAGATTCGCCG
2290329 TC
130 TC
* * *
2290331 TTCGATCTGCTCCATTATTGCTTAGGGAGACAAGATCTACAATTTCTAACCTATTCCACTGCTGG
1 TTCGATCTGCTCCACTATTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGG
2290396 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCTTAGGGAAGATAAGATTCGCCGT
66 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCTTAGGGAAGATAAGATTCGCCGT
2290461 C
131 C
*
2290462 TTCGATCTGCTCCACTATTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGA
1 TTCGATCTGCTCCACTATTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGG
2290527 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCTTAGGGAAGATAAGATTCGCCGT
66 TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCTTAGGGAAGATAAGATTCGCCGT
2290592 C
131 C
* *
2290593 TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAAT
1 TTCGATCTGCTCCACTATTGCTTAGGGAGACAAGATCTGCAAT
2290636 CTTTACTGAT
Statistics
Matches: 281, Mismatches: 22, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
130 54 0.19
131 226 0.80
132 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (131 bp):
TTCGATCTGCTCCACTATTGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGG
TCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCTTAGGGAAGATAAGATTCGCCGT
C
Found at i:2303903 original size:14 final size:14
Alignment explanation
Indices: 2303884--2303916 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
2303874 TGGTGCTTTT
2303884 TGATTTTTGTATTC
1 TGATTTTTGTATTC
2303898 TGATTTTTGTATTC
1 TGATTTTTGTATTC
2303912 TGATT
1 TGATT
2303917 GCGTATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.06, G:0.15, T:0.64
Consensus pattern (14 bp):
TGATTTTTGTATTC
Found at i:2306132 original size:17 final size:17
Alignment explanation
Indices: 2306100--2306134 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2306090 AAGATATGAT
2306100 TCAACAACTTAATTAAC
1 TCAACAACTTAATTAAC
2306117 TCAA-AACTTAACTTAAC
1 TCAACAACTTAA-TTAAC
2306134 T
1 T
2306135 AACTCAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (17 bp):
TCAACAACTTAATTAAC
Found at i:2306965 original size:3 final size:3
Alignment explanation
Indices: 2306951--2307006 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
2306941 AAAGCTTCTT
*
2306951 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2306999 TTA TTA TT
1 TTA TTA TT
2307007 TTGCATTCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:2307398 original size:4 final size:4
Alignment explanation
Indices: 2307389--2307430 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
2307379 ACAAAACGGC
* * *
2307389 TACA TACA TACA TACA TGCA TGCA TACA TACA TACA AACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
2307431 TATATATGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.48, C:0.24, G:0.05, T:0.24
Consensus pattern (4 bp):
TACA
Found at i:2310761 original size:4 final size:4
Alignment explanation
Indices: 2310754--2310801 Score: 87
Period size: 4 Copynumber: 12.0 Consensus size: 4
2310744 ATATGCATGC
*
2310754 CTAT CTAT TTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
1 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
2310802 ATAGTAATCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.52
Consensus pattern (4 bp):
CTAT
Found at i:2313206 original size:13 final size:13
Alignment explanation
Indices: 2313188--2313212 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2313178 TGATTATGAA
2313188 ACTAACAATAAAT
1 ACTAACAATAAAT
2313201 ACTAACAATAAA
1 ACTAACAATAAA
2313213 CATTTGGTAC
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:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (13 bp):
ACTAACAATAAAT
Found at i:2316320 original size:22 final size:21
Alignment explanation
Indices: 2316272--2316324 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
2316262 TTTTTTGTCA
* * *
2316272 AAAAAATATTTTTTTAAATGT
1 AAAAAATATTATTTCAAATCT
2316293 ATAAAAATATATATTTCAAATCT
1 A-AAAAATAT-TATTTCAAATCT
2316316 -AAAAATATT
1 AAAAAATATT
2316325 TTAAAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 1 0.04
21 9 0.33
22 8 0.30
23 9 0.33
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (21 bp):
AAAAAATATTATTTCAAATCT
Found at i:2321188 original size:9 final size:9
Alignment explanation
Indices: 2321176--2321200 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2321166 ACTTAATGGA
2321176 TTTATTTTT
1 TTTATTTTT
2321185 TTTATTTTT
1 TTTATTTTT
2321194 TTTATTT
1 TTTATTT
2321201 GGTTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTATTTTT
Found at i:2322010 original size:21 final size:21
Alignment explanation
Indices: 2321986--2322029 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
2321976 TTTTTGAATG
*
2321986 TTCGGCACTTCTAAAGATAAA
1 TTCGACACTTCTAAAGATAAA
2322007 TTCGACACTTCTAAAGATAAA
1 TTCGACACTTCTAAAGATAAA
2322028 TT
1 TT
2322030 AAGGTATGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (21 bp):
TTCGACACTTCTAAAGATAAA
Found at i:2322382 original size:374 final size:374
Alignment explanation
Indices: 2321693--2322382 Score: 1371
Period size: 374 Copynumber: 1.8 Consensus size: 374
2321683 GATAAAAAAT
2321693 AATTTAATCGCATAAAATAAAAATTTAGAGTTTAAATTTTAAAAGCACTTATTTGTTGTTGTCTT
1 AATTTAATCGCATAAAATAAAAATTTAGAGTTTAAATTTTAAAAGCACTTATTTGTTGTTGTCTT
2321758 TTTAACTGGGAGGTCTAAAGATGTAATTAGACCAAAATATAGTTAGTGGATGACATATGACAACA
66 TTTAACTGGGAGGTCTAAAGATGTAATTAGACCAAAATATAGTTAGTGGATGACATATGACAACA
2321823 TTGTCCTTTACGTATATGTTTTATATATTTATTATAATAAGGTTAATTAAGTAATTTGATAATTA
131 TTGTCCTTTACGTATATGTTTTATATATTTATTATAATAAGGTTAATTAAGTAATTTGATAATTA
2321888 TAATGTATATATGTTAAAATAAACTAAGAAAAGATGATTTTTATCATCTTTGAAAGCCGAATGTG
196 TAATGTATATATGTTAAAATAAACTAAGAAAAGATGATTTTTATCATCTTTGAAAGCCGAATGTG
*
2321953 TAAGAGAACTCATGCATGGTTTCTTTTTGAATGTTCGGCACTTCTAAAGATAAATTCGACACTTC
261 TAAGAGAACTCATGCATGGTTTCTTTTTGAATGTTCGACACTTCTAAAGATAAATTCGACACTTC
2322018 TAAAGATAAATTAAGGTATGGGTTGGTTTCAGTTTTTGATAATTTTTAC
326 TAAAGATAAATTAAGGTATGGGTTGGTTTCAGTTTTTGATAATTTTTAC
2322067 AATTTAATCGCATAAAATAAAAATTTAGAGTTTAAATTTTAAAAGCACTTATTTGTTGTTGTCTT
1 AATTTAATCGCATAAAATAAAAATTTAGAGTTTAAATTTTAAAAGCACTTATTTGTTGTTGTCTT
2322132 TTTAACTGGGAGGTCTAAAGATGTAATTAGACCAAAATATAGTTAGTGGATGACATATGACAACA
66 TTTAACTGGGAGGTCTAAAGATGTAATTAGACCAAAATATAGTTAGTGGATGACATATGACAACA
2322197 TTGTCCTTTACGTATATGTTTTATATATTTATTATAATAAGGTTAATTAAGTAATTTGATAATTA
131 TTGTCCTTTACGTATATGTTTTATATATTTATTATAATAAGGTTAATTAAGTAATTTGATAATTA
2322262 TAATGTATATATGTTAAAATAAACTAAGAAAAGATGATTTTTATCATCTTTGAAAGCCGAATGTG
196 TAATGTATATATGTTAAAATAAACTAAGAAAAGATGATTTTTATCATCTTTGAAAGCCGAATGTG
2322327 TAAGAGAACTCATGCATGGTTTCTTTTTGAATGTTCGACACTTCTAAAGATAAATT
261 TAAGAGAACTCATGCATGGTTTCTTTTTGAATGTTCGACACTTCTAAAGATAAATT
2322383 AAGGTATGGG
Statistics
Matches: 315, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
374 315 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (374 bp):
AATTTAATCGCATAAAATAAAAATTTAGAGTTTAAATTTTAAAAGCACTTATTTGTTGTTGTCTT
TTTAACTGGGAGGTCTAAAGATGTAATTAGACCAAAATATAGTTAGTGGATGACATATGACAACA
TTGTCCTTTACGTATATGTTTTATATATTTATTATAATAAGGTTAATTAAGTAATTTGATAATTA
TAATGTATATATGTTAAAATAAACTAAGAAAAGATGATTTTTATCATCTTTGAAAGCCGAATGTG
TAAGAGAACTCATGCATGGTTTCTTTTTGAATGTTCGACACTTCTAAAGATAAATTCGACACTTC
TAAAGATAAATTAAGGTATGGGTTGGTTTCAGTTTTTGATAATTTTTAC
Found at i:2323533 original size:23 final size:23
Alignment explanation
Indices: 2323468--2323766 Score: 209
Period size: 23 Copynumber: 12.9 Consensus size: 23
2323458 TAAAATTGGA
* *
2323468 ATATATATGCTGCCCAATTTTGGT
1 ATATACATGCTGTCCAATTTT-GT
*
2323492 GA-ATAAATGCTGTCCAATTTTGT
1 -ATATACATGCTGTCCAATTTTGT
* *
2323515 ATATACATGCCGTCAAATTTTGT
1 ATATACATGCTGTCCAATTTTGT
* *
2323538 GTATA-AGTGCTGTCCAA-ATTGCT
1 ATATACA-TGCTGTCCAATTTTG-T
* * **
2323561 ACATATATGCTACCCAATTTTGGT
1 ATATACATGCTGTCCAATTTT-GT
* *
2323585 GA-ATAAATTCTGTCCAATTTTGT
1 -ATATACATGCTGTCCAATTTTGT
2323608 ATATACATGCTGTCCAATTTTGT
1 ATATACATGCTGTCCAATTTTGT
* * *
2323631 GTATA-AGTGCTGTCCAAATTGGT
1 ATATACA-TGCTGTCCAATTTTGT
* *
2323654 ATATATATGCTGCCCAATTTTGGT
1 ATATACATGCTGTCCAATTTT-GT
* *
2323678 GA-ATAAATGTTGTCCAATTTTGT
1 -ATATACATGCTGTCCAATTTTGT
*
2323701 ATATACATGCTGTCAAATTTTGT
1 ATATACATGCTGTCCAATTTTGT
* * * *
2323724 GTATGA-GTGCTGTCCAAATTGGT
1 ATAT-ACATGCTGTCCAATTTTGT
*
2323747 ATATACGTGCTG-CTCAATTT
1 ATATACATGCTGTC-CAATTT
2323767 CTGATGTATA
Statistics
Matches: 218, Mismatches: 40, Indels: 34
0.75 0.14 0.12
Matches are distributed among these distances:
22 10 0.05
23 148 0.68
24 56 0.26
25 4 0.02
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.40
Consensus pattern (23 bp):
ATATACATGCTGTCCAATTTTGT
Found at i:2323577 original size:93 final size:93
Alignment explanation
Indices: 2323470--2323788 Score: 478
Period size: 93 Copynumber: 3.4 Consensus size: 93
2323460 AAATTGGAAT
*
2323470 ATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCCGTCAAATTT
1 ATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTT
2323535 TGTGTATAAGTGCTGTCCAAATTGCTAC
66 TGTGTATAAGTGCTGTCCAAATTGCTAC
* * *
2323563 ATATATGCTACCCAATTTTGGTGAATAAATTCTGTCCAATTTTGTATATACATGCTGTCCAATTT
1 ATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTT
* *
2323628 TGTGTATAAGTGCTGTCCAAATTGGTAT
66 TGTGTATAAGTGCTGTCCAAATTGCTAC
*
2323656 ATATATGCTGCCCAATTTTGGTGAATAAATGTTGTCCAATTTTGTATATACATGCTGTCAAATTT
1 ATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTT
* * *
2323721 TGTGTATGAGTGCTGTCCAAATTGGTAT
66 TGTGTATAAGTGCTGTCCAAATTGCTAC
** * * *
2323749 ATACGTGCTGCTCAATTTCTGATGTATAAGA-GCTGTCCAA
1 ATATATGCTGCCCAATTT-TGGTGAATAA-ATGCTGTCCAA
2323789 ACAGGGTAGA
Statistics
Matches: 207, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
93 190 0.92
94 16 0.08
95 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.39
Consensus pattern (93 bp):
ATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTT
TGTGTATAAGTGCTGTCCAAATTGCTAC
Found at i:2331165 original size:9 final size:9
Alignment explanation
Indices: 2331151--2331226 Score: 68
Period size: 9 Copynumber: 8.7 Consensus size: 9
2331141 AATTAAACCA
2331151 TTATGTAAG
1 TTATGTAAG
*
2331160 TTATGTAAT
1 TTATGTAAG
*
2331169 TTATGTAAT
1 TTATGTAAG
*
2331178 TTATGATATG
1 TTATG-TAAG
* * *
2331188 ATATAT-AT
1 TTATGTAAG
2331196 TTATGT-A-
1 TTATGTAAG
2331203 TTATGTAAG
1 TTATGTAAG
2331212 TTATGTAAG
1 TTATGTAAG
2331221 TTATGT
1 TTATGT
2331227 TCTAAAGTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
7 6 0.11
8 6 0.11
9 38 0.69
10 5 0.09
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (9 bp):
TTATGTAAG
Found at i:2333595 original size:22 final size:22
Alignment explanation
Indices: 2333552--2333595 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2333542 ATATTTTGAT
*
2333552 TAAATTAATCAAAATTTACAAA
1 TAAATTAATCAAAAATTACAAA
*
2333574 TAAA-TAATCCAAAAATTGCAAA
1 TAAATTAAT-CAAAAATTACAAA
2333596 CAACAGCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.27
Consensus pattern (22 bp):
TAAATTAATCAAAAATTACAAA
Found at i:2335233 original size:41 final size:41
Alignment explanation
Indices: 2335167--2335480 Score: 465
Period size: 41 Copynumber: 7.6 Consensus size: 41
2335157 CATTCGGGGC
* *
2335167 TTTAGTGGCGTTTTTTAGAAAAGCGCCGCTAATGCTCAGGGT
1 TTTAGCGGCG-TTTTTGGAAAAGCGCCGCTAATGCTCAGGGT
*
2335209 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGGGT
*
2335250 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGGGT
*
2335291 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGGGT
*
2335332 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC-TGGT
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGGGT
* *
2335372 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTC-TGGT
1 -TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGGGT
*
2335413 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTA--GT
1 -TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC-AGGGT
*
2335454 CTTTAGCGGCGTTTTTGGGAAAGCGCC
1 -TTTAGCGGCGTTTTTGGAAAAGCGCC
2335481 ACAAAAACAT
Statistics
Matches: 261, Mismatches: 8, Indels: 7
0.95 0.03 0.03
Matches are distributed among these distances:
40 2 0.01
41 250 0.96
42 9 0.03
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGGGT
Found at i:2335301 original size:82 final size:82
Alignment explanation
Indices: 2335163--2335480 Score: 512
Period size: 82 Copynumber: 3.9 Consensus size: 82
2335153 TGACCATTCG
* * *
2335163 GGGCTTTAGTGGCGTTTTTTAGAAAAGCGCCGCTAATGCTCAGGGTTTTAGCGGCGTTTTTGGAA
1 GGGCTTTAGCGGCG-TTTTTGGAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGAA
2335228 AAGCGCCGCTAATGCTCA
65 AAGCGCCGCTAATGCTCA
2335246 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGAAA
1 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGAAA
2335311 AGCGCCGCTAATGCTCA
66 AGCGCCGCTAATGCTCA
* * *
2335328 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGGAGA
1 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGAAA
*
2335393 AGCGCCGCTAATGCTCT
66 AGCGCCGCTAATGCTCA
* * * *
2335410 GGTCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTA-GTCTTTAGCGGCGTTTTTGGGA
1 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC-AGGGCTTTAGCGGCGTTTTTGGAA
2335474 AAGCGCC
65 AAGCGCC
2335481 ACAAAAACAT
Statistics
Matches: 222, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
82 209 0.94
83 13 0.06
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (82 bp):
GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGAAA
AGCGCCGCTAATGCTCA
Found at i:2335876 original size:22 final size:24
Alignment explanation
Indices: 2335826--2335886 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 24
2335816 ATATGATTTA
2335826 GAGTTTAAGGTTTA-GGAGTTACT
1 GAGTTTAAGGTTTATGGAGTTACT
*
2335849 -ATTTTAAGGTTTATGGA-TTA-T
1 GAGTTTAAGGTTTATGGAGTTACT
* *
2335870 GAGTTTAGGGGTTATGG
1 GAGTTTAAGGTTTATGG
2335887 TTTACACTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 1 0.03
22 28 0.88
23 3 0.09
ACGTcount: A:0.25, C:0.02, G:0.31, T:0.43
Consensus pattern (24 bp):
GAGTTTAAGGTTTATGGAGTTACT
Found at i:2335904 original size:7 final size:7
Alignment explanation
Indices: 2335851--2335939 Score: 52
Period size: 7 Copynumber: 12.6 Consensus size: 7
2335841 GAGTTACTAT
*
2335851 TTTAAGG
1 TTTATGG
2335858 TTTATGG
1 TTTATGG
*
2335865 ATTATGAG
1 TTTATG-G
*
2335873 TTTAGGG
1 TTTATGG
*
2335880 GTTATGG
1 TTTATGG
***
2335887 TTTACAC
1 TTTATGG
2335894 TTTATGG
1 TTTATGG
* *
2335901 TTTAAGA
1 TTTATGG
*
2335908 TTTAGGG
1 TTTATGG
*
2335915 TTTAAGG
1 TTTATGG
* *
2335922 GTTACGG
1 TTTATGG
2335929 TTTATGG
1 TTTATGG
2335936 TTTA
1 TTTA
2335940 AAGGTATAGA
Statistics
Matches: 59, Mismatches: 22, Indels: 2
0.71 0.27 0.02
Matches are distributed among these distances:
7 54 0.92
8 5 0.08
ACGTcount: A:0.22, C:0.03, G:0.28, T:0.46
Consensus pattern (7 bp):
TTTATGG
Found at i:2335914 original size:35 final size:36
Alignment explanation
Indices: 2335858--2335940 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 36
2335848 TATTTTAAGG
* * * *
2335858 TTTATGGATTATGAGTTTAGGGGTTATGGTTTACAC
1 TTTATGGTTTAAGAGTTTAGGGGTTAAGGGTTACAC
* **
2335894 TTTATGGTTTAAGA-TTTAGGGTTTAAGGGTTACGG
1 TTTATGGTTTAAGAGTTTAGGGGTTAAGGGTTACAC
2335929 TTTATGGTTTAA
1 TTTATGGTTTAA
2335941 AGGTATAGAT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 28 0.70
36 12 0.30
ACGTcount: A:0.23, C:0.04, G:0.28, T:0.46
Consensus pattern (36 bp):
TTTATGGTTTAAGAGTTTAGGGGTTAAGGGTTACAC
Found at i:2336365 original size:21 final size:22
Alignment explanation
Indices: 2336341--2336381 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2336331 ATGGTTTATT
2336341 GTTTAAGGGTT-GGGATTTAAA
1 GTTTAAGGGTTAGGGATTTAAA
* *
2336362 GTTTAGGGGTTAGGGGTTTA
1 GTTTAAGGGTTAGGGATTTA
2336382 GGATTTCAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (22 bp):
GTTTAAGGGTTAGGGATTTAAA
Found at i:2341519 original size:43 final size:42
Alignment explanation
Indices: 2341426--2341688 Score: 140
Period size: 43 Copynumber: 6.2 Consensus size: 42
2341416 ATGTTTTTAG
*
2341426 GGCGTTT-TTGTAAGAAGCG-TCGCTAAAGGTTTGTTCTATAGC
1 GGCGTTTGTGGTAA-AAGCGCT-GCTAAAGGTTTGTTCTATAGC
2341468 GGCGTTTGTGGTAAAAGCGCTGCTAAAGGTTT-TTAGCTATAGC
1 GGCGTTTGTGGTAAAAGCGCTGCTAAAGGTTTGTT--CTATAGC
* * * ** * * *
2341511 GGCGTTTGTGGGAAAAGTGCCGCTAAAGGCCATGGTCTTTAAC
1 GGCGTTTGTGGTAAAAGCGCTGCTAAAGG-TTTGTTCTATAGC
* * * * * * *
2341554 GGTGTTTGTTGG-AGAAGTGCTGCTAAAGATTAGGATCTTTAGC
1 GGCGTTTG-TGGTAAAAGCGCTGCTAAAGGTT-TGTTCTATAGC
* * * * * ** *
2341597 GGCGTTTTTAG-AAAAGCGCCGCTGAAGGTCATGGCCTTTAGC
1 GGCGTTTGTGGTAAAAGCGCTGCTAAAGGT-TTGTTCTATAGC
* * * * * *
2341639 GGCGTTTTTGGGAAAAGCGTTGCTAAAGGTCATGGTCTTTAGC
1 GGCGTTTGTGGTAAAAGCGCTGCTAAAGGT-TTGTTCTATAGC
2341682 GGCGTTT
1 GGCGTTT
2341689 ATTTCTAAAA
Statistics
Matches: 176, Mismatches: 35, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
41 2 0.01
42 56 0.32
43 113 0.64
44 4 0.02
45 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.32, T:0.32
Consensus pattern (42 bp):
GGCGTTTGTGGTAAAAGCGCTGCTAAAGGTTTGTTCTATAGC
Found at i:2341663 original size:85 final size:86
Alignment explanation
Indices: 2341464--2341688 Score: 231
Period size: 85 Copynumber: 2.6 Consensus size: 86
2341454 GTTTGTTCTA
* * *** * * * *
2341464 TAGCGGCGTTTGTGGTAAAAGCGCTGCTAAAGGTTTTTAGCTATAGCGGCGTTTGTGGGAAAAGT
1 TAGCGGCGTTTTTGGGAAAAGCGCTGCTAAAGGTTAGGATCTTTAGCGGCGTTTGTGAGAAAAGC
*
2341529 GCCGCTAAAGGCCATGGTCTT
66 GCCGCTAAAGGCCATGGCCTT
* * * * * *
2341550 TAACGGTGTTTGTT-GGAGAAGTGCTGCTAAAGATTAGGATCTTTAGCGGCGTTT-TTAGAAAAG
1 TAGCGGCGTTT-TTGGGAAAAGCGCTGCTAAAGGTTAGGATCTTTAGCGGCGTTTGTGAGAAAAG
* *
2341613 CGCCGCTGAAGGTCATGGCCTT
65 CGCCGCTAAAGGCCATGGCCTT
* *
2341635 TAGCGGCGTTTTTGGGAAAAGCGTTGCTAAAGGTCATGG-TCTTTAGCGGCGTTT
1 TAGCGGCGTTTTTGGGAAAAGCGCTGCTAAAGGTTA-GGATCTTTAGCGGCGTTT
2341689 ATTTCTAAAA
Statistics
Matches: 111, Mismatches: 25, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
84 2 0.02
85 66 0.59
86 42 0.38
87 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.31
Consensus pattern (86 bp):
TAGCGGCGTTTTTGGGAAAAGCGCTGCTAAAGGTTAGGATCTTTAGCGGCGTTTGTGAGAAAAGC
GCCGCTAAAGGCCATGGCCTT
Found at i:2342670 original size:25 final size:25
Alignment explanation
Indices: 2342636--2342683 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
2342626 AGAGAGGATT
2342636 TTGTTAAATGAAATAATAAAAATAA
1 TTGTTAAATGAAATAATAAAAATAA
2342661 TTGTTAAATGAAATAATAAAAAT
1 TTGTTAAATGAAATAATAAAAAT
2342684 TGAGCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (25 bp):
TTGTTAAATGAAATAATAAAAATAA
Found at i:2342909 original size:27 final size:27
Alignment explanation
Indices: 2342878--2342951 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
2342868 GCAGAGGAGT
* *
2342878 GTCGACGGCGATGCAATAGAGGGGATA
1 GTCGACGGCGATGCAACAGAGGGGACA
*
2342905 GTCGACGGTGATGCAACAGAGGGGACA
1 GTCGACGGCGATGCAACAGAGGGGACA
* *
2342932 GTTGACGGCGATGCAGCAGA
1 GTCGACGGCGATGCAACAGA
2342952 TGGTCGGGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.28, C:0.18, G:0.41, T:0.14
Consensus pattern (27 bp):
GTCGACGGCGATGCAACAGAGGGGACA
Found at i:2343179 original size:41 final size:41
Alignment explanation
Indices: 2343132--2343241 Score: 148
Period size: 41 Copynumber: 2.7 Consensus size: 41
2343122 ATAGCACCAT
*
2343132 TAATGCTTGACCTTTTGCGGCGTTTTTCTCATAAATGCCGC
1 TAATGCTTGACCTTTTGCGGCGTTTTTCTCATAAACGCCGC
* * *
2343173 TAATGCTTGACCTTTTGCAGTGTTTTTCTCATAAACGCTGC
1 TAATGCTTGACCTTTTGCGGCGTTTTTCTCATAAACGCCGC
* * * *
2343214 TACTGCTTTACCTATTGTGGCGTTTTTC
1 TAATGCTTGACCTTTTGCGGCGTTTTTC
2343242 CGTTAGTGCC
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (41 bp):
TAATGCTTGACCTTTTGCGGCGTTTTTCTCATAAACGCCGC
Found at i:2343302 original size:12 final size:12
Alignment explanation
Indices: 2343285--2343310 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2343275 TTTTCCGTCC
2343285 AAACGCCACTAA
1 AAACGCCACTAA
2343297 AAACGCCACTAA
1 AAACGCCACTAA
2343309 AA
1 AA
2343311 CCTTACGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.31, G:0.08, T:0.08
Consensus pattern (12 bp):
AAACGCCACTAA
Found at i:2348110 original size:9 final size:9
Alignment explanation
Indices: 2348098--2348155 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
2348088 CAAAATTTAT
2348098 ATTTTAAAA
1 ATTTTAAAA
2348107 ATTTTATAAA
1 ATTTTA-AAA
*
2348117 ATTCTAAAA
1 ATTTTAAAA
* *
2348126 A-TATATATA
1 ATTTTA-AAA
2348135 A-TTT-AAA
1 ATTTTAAAA
2348142 ATTTTAAAA
1 ATTTTAAAA
2348151 ATTTT
1 ATTTT
2348156 CTAAAATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
7 3 0.08
8 6 0.15
9 23 0.57
10 8 0.20
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:2348133 original size:34 final size:31
Alignment explanation
Indices: 2348081--2348153 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 31
2348071 TATATTTAAA
*
2348081 AAAAATTCAAAATTTATAT-TTTAAAAATTTT
1 AAAAATTCAAAATATATATATTT-AAAATTTT
2348112 ATAAAATTCTAAAAATATATATAATTTAAAATTTT
1 A-AAAATTC--AAAATATATAT-ATTTAAAATTTT
2348147 AAAAATT
1 AAAAATT
2348154 TTCTAAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
31 1 0.03
32 7 0.19
34 16 0.44
35 9 0.25
36 3 0.08
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (31 bp):
AAAAATTCAAAATATATATATTTAAAATTTT
Found at i:2348567 original size:26 final size:27
Alignment explanation
Indices: 2348511--2348576 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
2348501 TTTAACGAGT
* * *
2348511 TTAAAAATAATTATAATTAACTTATTT
1 TTAAAAATAAATATAATTAACTAATTA
2348538 TTAAAAATAAATATTAATT-A-TAATTA
1 TTAAAAATAAATA-TAATTAACTAATTA
*
2348564 TTAAACATAAATA
1 TTAAAAATAAATA
2348577 AATACAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 16 0.47
27 13 0.38
28 5 0.15
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (27 bp):
TTAAAAATAAATATAATTAACTAATTA
Found at i:2348986 original size:16 final size:16
Alignment explanation
Indices: 2348965--2349012 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
2348955 AAAAAAATTA
2348965 TATTTTTCTATCTTTT
1 TATTTTTCTATCTTTT
*
2348981 TATTTTTTTTATCCTTTT
1 TA-TTTTTCTAT-CTTTT
*
2348999 AATTTTTC-ATCTTT
1 TATTTTTCTATCTTT
2349013 CTAACTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 4 0.15
16 4 0.15
17 13 0.48
18 6 0.22
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTTTCTATCTTTT
Found at i:2348993 original size:17 final size:18
Alignment explanation
Indices: 2348962--2349005 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
2348952 ATCAAAAAAA
2348962 TTATATTTTTCTAT-CTTT
1 TTAT-TTTTTCTATCCTTT
*
2348980 TTATTTTTTTTATCCTTT
1 TTATTTTTTCTATCCTTT
*
2348998 TAATTTTT
1 TTATTTTT
2349006 CATCTTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (18 bp):
TTATTTTTTCTATCCTTT
Found at i:2349613 original size:31 final size:31
Alignment explanation
Indices: 2349578--2349640 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
2349568 CAATTTGATC
* *
2349578 ACTGAATTATTCGAAAGTTTTCATTTAAGTT
1 ACTGAACTATTCAAAAGTTTTCATTTAAGTT
*
2349609 ACTGAACTATTCAAAAGTTTTTATTTAAGTT
1 ACTGAACTATTCAAAAGTTTTCATTTAAGTT
2349640 A
1 A
2349641 TTGCCTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (31 bp):
ACTGAACTATTCAAAAGTTTTCATTTAAGTT
Found at i:2352592 original size:5 final size:5
Alignment explanation
Indices: 2352584--2352624 Score: 73
Period size: 5 Copynumber: 8.0 Consensus size: 5
2352574 AACTAAAAAT
2352584 ATAAA ATAAA ATAAA CATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA -ATAAA ATAAA ATAAA ATAAA ATAAA
2352625 TTTCAAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 30 0.86
6 5 0.14
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:2352642 original size:26 final size:26
Alignment explanation
Indices: 2352584--2352647 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
2352574 AACTAAAAAT
*
2352584 ATAAAATAAAATAAACATAAAATAAA
1 ATAAAATAAAATAAACATAAAAGAAA
**
2352610 ATAAAATAAAATAAATTTCAAAAGAAA
1 ATAAAATAAAATAAACAT-AAAAGAAA
*
2352637 A-CAAATAAAAT
1 ATAAAATAAAAT
2352648 CAATGATCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 25 0.76
27 8 0.24
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (26 bp):
ATAAAATAAAATAAACATAAAAGAAA
Found at i:2359752 original size:15 final size:16
Alignment explanation
Indices: 2359718--2359757 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
2359708 AATAACAAGA
*
2359718 AAAATAATATAGATACT
1 AAAATAA-ATAGAAACT
2359735 AAAATAAA-AGAAACT
1 AAAATAAATAGAAACT
2359750 AAAATAAA
1 AAAATAAA
2359758 GTAATAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.64
16 1 0.05
17 7 0.32
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (16 bp):
AAAATAAATAGAAACT
Found at i:2363640 original size:6 final size:6
Alignment explanation
Indices: 2363579--2363621 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
2363569 ACTTAGAATG
* * * *
2363579 TAAAAA TTAAAC TAAAAA CAAAAA CAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
2363622 GGCTAAATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (6 bp):
TAAAAA
Found at i:2365089 original size:5 final size:5
Alignment explanation
Indices: 2365079--2365104 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2365069 CAATTTTAAA
2365079 TTCTT TTCTT TTCTT TTCTT TTCTT T
1 TTCTT TTCTT TTCTT TTCTT TTCTT T
2365105 CATTGTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:2365658 original size:126 final size:126
Alignment explanation
Indices: 2365397--2365840 Score: 680
Period size: 126 Copynumber: 3.5 Consensus size: 126
2365387 GATAAAATTG
* * ** * *
2365397 AAGCAGGATGCTTTATCAGAAGAATTTTTGAAGTCGCGCCGACGTGTACACGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
*
2365462 AGGTTCT--ACAAAAATAATTTTGAGTTGACGTTTTTGAGAAAATAGTAAAAAAAATACTTC
66 AGGTCCTGGA-AAAAATAATTTTGAGTTGACGTTTTTGAGAAAATAGTAAAAAAAATACTTC
* *
2365522 AAGCAGGATGCTTTCTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
2365587 AGGTCCTGGAAAAAATAATTTTGAGTTGACGTTTTTGAGAAAATAGTAAAAAAAATACTTC
66 AGGTCCTGGAAAAAATAATTTTGAGTTGACGTTTTTGAGAAAATAGTAAAAAAAATACTTC
* *
2365648 AAGCAGGATGCTTTCTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * ** *
2365713 AGGTCCTGGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGT-TTAAAAATGCTTC
66 AGGTCCTGGAAAAAATAATTTTGAGTTGACGTTTTTGAGAAAATAGTAAAAAAAATACTTC
*
2365773 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCGCTCCCAT-GTGGACGCGCTTTTTGCTACA
1 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCGCGCCC-TCGTGGACGCGC-TTTTGCTACA
2365837 GTAG
64 GTAG
2365841 CATGTTTGGG
Statistics
Matches: 298, Mismatches: 17, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
125 121 0.41
126 176 0.59
127 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (126 bp):
AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAAATAATTTTGAGTTGACGTTTTTGAGAAAATAGTAAAAAAAATACTTC
Found at i:2366941 original size:117 final size:117
Alignment explanation
Indices: 2366735--2366973 Score: 462
Period size: 117 Copynumber: 2.1 Consensus size: 117
2366725 AAGAAAATTC
2366735 ACGATTTAGAGGATACTCACCTCCAGCCCACATGCATAATGTCGATCTATCTGTAGATAATATGT
1 ACGATTTAGAGGATACTCACCTCCAGCCCACATGCATAATGTCGATCTATCTGTAGATAATATGT
2366800 TGGAGTTTCCAGATCTACCACACCGGTTGCGTAATCGTACAAGTTTTGGGCT
66 TGGAGTTTCCAGATCTACCACACCGGTTGCGTAATCGTACAAGTTTTGGGCT
*
2366852 ACGATTTAGAGGATACTCACCTCCAGCCCACATGCATAATGTCGATCTATCTGTAGATAATGTGT
1 ACGATTTAGAGGATACTCACCTCCAGCCCACATGCATAATGTCGATCTATCTGTAGATAATATGT
2366917 TGGAGTTTCCAGATCTACCACACCGGTTGCGTAATCGTACAAGTTTTGGGCT
66 TGGAGTTTCCAGATCTACCACACCGGTTGCGTAATCGTACAAGTTTTGGGCT
2366969 A-GATT
1 ACGATT
2366974 CGGGTGAATT
Statistics
Matches: 121, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
116 4 0.03
117 117 0.97
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (117 bp):
ACGATTTAGAGGATACTCACCTCCAGCCCACATGCATAATGTCGATCTATCTGTAGATAATATGT
TGGAGTTTCCAGATCTACCACACCGGTTGCGTAATCGTACAAGTTTTGGGCT
Found at i:2367341 original size:76 final size:76
Alignment explanation
Indices: 2367215--2367367 Score: 297
Period size: 76 Copynumber: 2.0 Consensus size: 76
2367205 GTACTGCAAA
*
2367215 TACAGTATTGACTGTTTTTTAATAATACTGTTATTATGTAATGTTGCATTATTTAATGTACTCCG
1 TACAGTATTGACTGTTTTTTAATAATACTATTATTATGTAATGTTGCATTATTTAATGTACTCCG
2367280 TTTATAGGTTG
66 TTTATAGGTTG
2367291 TACAGTATTGACTGTTTTTTAATAATACTATTATTATGTAATGTTGCATTATTTAATGTACTCCG
1 TACAGTATTGACTGTTTTTTAATAATACTATTATTATGTAATGTTGCATTATTTAATGTACTCCG
2367356 TTTATAGGTTG
66 TTTATAGGTTG
2367367 T
1 T
2367368 TTCACAAGAT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.49
Consensus pattern (76 bp):
TACAGTATTGACTGTTTTTTAATAATACTATTATTATGTAATGTTGCATTATTTAATGTACTCCG
TTTATAGGTTG
Found at i:2368059 original size:359 final size:359
Alignment explanation
Indices: 2367400--2368089 Score: 1157
Period size: 359 Copynumber: 1.9 Consensus size: 359
2367390 GATTCAGCTA
*** * *
2367400 TGTTAGCTAGCTTGATACTACCCACGGTGAAGGCAGATCCCAGGGCTTTAGTGCCTGTCTTAATT
1 TGTTAGCTAGCTTGATACTACCCACGGTGAAGGCAGATCCCAAAACTTCAGTGCCAGTCTTAATT
* * *
2367465 GCCAATATTCGTAGCCAAATGGGGTACACGCCCTCTTACCGCAAGGCTTGGATAGCTAAGCAGAA
66 ACCAATATTCGTAGCCAAATGAGGTACACACCCTCTTACCGCAAGGCTTGGATAGCTAAGCAGAA
*
2367530 GGCGTTGGAGAAGATGCATAGTGGGTGGGATGCTTCATATAATGAAATATGGCAGTGGTGTCAAG
131 GGCGTTGGAGAAGATGCATAGTGGGTGGGACGCTTCATATAATGAAATATGGCAGTGGTGTCAAG
* * * *
2367595 TGCTAGAGAGATATGTTCCAGATGCTATCACAGACCTTGAAACGGAACATACGTACTACAACGGC
196 TGCTAAAGAGATACGTTCCAGATGCCATCACAGACCTTGAAACAGAACATACGTACTACAACGGC
*
2367660 TGATTGCTACATGGATGCCAAGTGTTCAAAAGCCTGTTTTGGACCTTTAAGCAATACCGAGACGC
261 TGATTGCTACATGGATGCCAAGTGTTCAAAAGCCTGTTTTGGACCTTTAAGCAATACCGAGACAC
2367725 ATTTCCGTATATATTTCCATACGTATTTCCATAC
326 ATTTCCGTATATATTTCCATACGTATTTCCATAC
2367759 TGTTAGCTAGCTTGATACTACCCACGGTGAAGGCAGATCCCAAAACTTCAGTGCCAGTCTTAATT
1 TGTTAGCTAGCTTGATACTACCCACGGTGAAGGCAGATCCCAAAACTTCAGTGCCAGTCTTAATT
*
2367824 ACCAATATTCGTAGCCAAATGAGGTACACACCCTCTTACCGCAATGCTTGGATAGCTAAGCAGAA
66 ACCAATATTCGTAGCCAAATGAGGTACACACCCTCTTACCGCAAGGCTTGGATAGCTAAGCAGAA
2367889 GGCGTTGGAGAAGATGCATAGTGGGTGGGACGCTTCATATAATGAAATATGGCAGTGGTGTCAAG
131 GGCGTTGGAGAAGATGCATAGTGGGTGGGACGCTTCATATAATGAAATATGGCAGTGGTGTCAAG
* * * *
2367954 TGCTAAAGAGATACG-TCCTAGGTGCCATCACAGACCTTGAAACAGAACTTGCGTACTATAACGG
196 TGCTAAAGAGATACGTTCC-AGATGCCATCACAGACCTTGAAACAGAACATACGTACTACAACGG
* * * *
2368018 CTGATTGCTACGTGGATGCTAAGTGTTCAAATGCCTGTTTTGGACCTTTAAGCAATGCCGAGACA
260 CTGATTGCTACATGGATGCCAAGTGTTCAAAAGCCTGTTTTGGACCTTTAAGCAATACCGAGACA
2368083 CATTTCC
325 CATTTCC
2368090 ATACTACAAG
Statistics
Matches: 307, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
358 3 0.01
359 304 0.99
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (359 bp):
TGTTAGCTAGCTTGATACTACCCACGGTGAAGGCAGATCCCAAAACTTCAGTGCCAGTCTTAATT
ACCAATATTCGTAGCCAAATGAGGTACACACCCTCTTACCGCAAGGCTTGGATAGCTAAGCAGAA
GGCGTTGGAGAAGATGCATAGTGGGTGGGACGCTTCATATAATGAAATATGGCAGTGGTGTCAAG
TGCTAAAGAGATACGTTCCAGATGCCATCACAGACCTTGAAACAGAACATACGTACTACAACGGC
TGATTGCTACATGGATGCCAAGTGTTCAAAAGCCTGTTTTGGACCTTTAAGCAATACCGAGACAC
ATTTCCGTATATATTTCCATACGTATTTCCATAC
Found at i:2369547 original size:14 final size:14
Alignment explanation
Indices: 2369530--2369636 Score: 57
Period size: 14 Copynumber: 7.6 Consensus size: 14
2369520 GTTAAAGGTT
2369530 AGGGTTTAGAGTTA
1 AGGGTTTAGAGTTA
*
2369544 AGGGTTTTAGGGTT-
1 AGGG-TTTAGAGTTA
*
2369558 AGGGTTAAG-GTTA
1 AGGGTTTAGAGTTA
*
2369571 GGGGTTTA-AGGTTA
1 AGGGTTTAGA-GTTA
*
2369585 GTAGGTTTTTA-AGTTA
1 --AGG-GTTTAGAGTTA
*
2369601 AGGG-TTAGGGTT-
1 AGGGTTTAGAGTTA
2369613 AGGGTTTTTA-AGTTA
1 AGGG--TTTAGAGTTA
2369628 AGGGTTTAG
1 AGGGTTTAG
2369637 GGCTTGTCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 26
0.67 0.08 0.25
Matches are distributed among these distances:
12 10 0.14
13 17 0.24
14 18 0.25
15 15 0.21
16 6 0.08
17 5 0.07
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.39
Consensus pattern (14 bp):
AGGGTTTAGAGTTA
Found at i:2369564 original size:34 final size:34
Alignment explanation
Indices: 2369495--2369569 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
2369485 GTTAGGGTTT
* *
2369495 TTAA-GTTAAGAGTTTAGGGTTTTAAGTTAAAGG
1 TTAAGGTTTAGAGTTAAGGGTTTTAAGTTAAAGG
* * *
2369528 TTAGGGTTTAGAGTTAAGGGTTTTAGGGTT-AGGG
1 TTAAGGTTTAGAGTTAAGGGTTTTA-AGTTAAAGG
2369562 TTAAGGTT
1 TTAAGGTT
2369570 AGGGGTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
33 3 0.09
34 28 0.82
35 3 0.09
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (34 bp):
TTAAGGTTTAGAGTTAAGGGTTTTAAGTTAAAGG
Found at i:2369622 original size:27 final size:26
Alignment explanation
Indices: 2369526--2369638 Score: 113
Period size: 27 Copynumber: 4.1 Consensus size: 26
2369516 TTAAGTTAAA
2369526 GGTTAGGGTTTAGAGTTAAGGGTTTTAG
1 GGTTAGGGTTTA-AGTTAAGGG-TTTAG
* *
2369554 GGTTAGGG-TTAAGGTTAGGGGTTTAA
1 GGTTAGGGTTTAA-GTTAAGGGTTTAG
2369580 GGTTAGTAGGTTTTTAAGTTAAGGG-TTAG
1 GGTTAG--GG--TTTAAGTTAAGGGTTTAG
2369609 GGTTAGGGTTTTTAAGTTAAGGGTTTAG
1 GGTTAGGG--TTTAAGTTAAGGGTTTAG
2369637 GG
1 GG
2369639 CTTGTCAATT
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
26 11 0.15
27 27 0.36
28 16 0.22
29 9 0.12
30 7 0.09
31 4 0.05
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (26 bp):
GGTTAGGGTTTAAGTTAAGGGTTTAG
Found at i:2370881 original size:7 final size:7
Alignment explanation
Indices: 2370871--2370896 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2370861 TTATATACAT
2370871 AATACTA
1 AATACTA
2370878 AATACTA
1 AATACTA
2370885 AATACTA
1 AATACTA
2370892 AATAC
1 AATAC
2370897 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:2371102 original size:20 final size:20
Alignment explanation
Indices: 2371065--2371102 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2371055 ATTATTTTTA
*
2371065 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
2371085 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
2371103 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:2372554 original size:356 final size:356
Alignment explanation
Indices: 2372012--2372715 Score: 1365
Period size: 356 Copynumber: 2.0 Consensus size: 356
2372002 AAAAATTTAA
2372012 TTTTTTTTTAAAATTATTTAAAAATAGAGACTTAAGAGAAATTTAAGAGGAAATTGAGAGCAAAT
1 TTTTTTTTTAAAATTATTTAAAAATAGAGACTTAAGAGAAATTTAAGAGGAAATTGAGAGCAAAT
2372077 TGAGATTAAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGGAAATTGAGAAAATAATTG
66 TGAGATTAAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGGAAATTGAGAAAATAATTG
2372142 AGAGATGATTAGTTTGTGAAAAAAAATAAAGGGTGAGGGGTATTTATAGATTTTTTTTGACCGTT
131 AGAGATGATTAGTTTGTGAAAAAAAATAAAGGGTGAGGGGTATTTATAGATTTTTTTTGACCGTT
2372207 CGGGGGGCAACGGTAAAAAAATGACCATTGCACTATTCACGCGCGAGGAAATCGCGTCCCCAGGG
196 CGGGGGGCAACGGTAAAAAAATGACCATTGCACTATTCACGCGCGAGGAAATCGCGTCCCCAGGG
*
2372272 GCGCGCTTCGTGGCATCAAATCACGTCCACGTCAGAGCGCTTTGCTGACGTGGACACAAATGGCG
261 GCGCGCTACGTGGCATCAAATCACGTCCACGTCAGAGCGCTTTGCTGACGTGGACACAAATGGCG
2372337 CTTACGTGGACGCAATTTGCTGATTTTAAAT
326 CTTACGTGGACGCAATTTGCTGATTTTAAAT
2372368 TTTTTTTTTAAAATTATTTAAAAATAGAGACTTAAGAGAAATTTAAGAGGAAATTGAGAGCAAAT
1 TTTTTTTTTAAAATTATTTAAAAATAGAGACTTAAGAGAAATTTAAGAGGAAATTGAGAGCAAAT
2372433 TGAGATTAAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGGAAATTGAGAAAATAATTG
66 TGAGATTAAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGGAAATTGAGAAAATAATTG
2372498 AGAGATGATTAGTTTGTG-AAAAAAATAAAGGGTGAGGGGTATTTATAGATTTTTTTTTGACCGT
131 AGAGATGATTAGTTTGTGAAAAAAAATAAAGGGTGAGGGGTATTTATAGA-TTTTTTTTGACCGT
*
2372562 TGGGGGGGCAACGGTAAAAAAATGACCATTGCACTATTCACGCGCGAGGAAATCGCGTCCCCAGG
195 TCGGGGGGCAACGGTAAAAAAATGACCATTGCACTATTCACGCGCGAGGAAATCGCGTCCCCAGG
*
2372627 GGCGTGCTACGTGGCATCAAATCACGTCCACGTCAGAGCGCTTTGCTGACGTGGACACAAATGGC
260 GGCGCGCTACGTGGCATCAAATCACGTCCACGTCAGAGCGCTTTGCTGACGTGGACACAAATGGC
2372692 GCTTACGTGGACGCAATTTGCTGA
325 GCTTACGTGGACGCAATTTGCTGA
2372716 CAAGTCCCCT
Statistics
Matches: 344, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
355 31 0.09
356 313 0.91
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (356 bp):
TTTTTTTTTAAAATTATTTAAAAATAGAGACTTAAGAGAAATTTAAGAGGAAATTGAGAGCAAAT
TGAGATTAAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGGAAATTGAGAAAATAATTG
AGAGATGATTAGTTTGTGAAAAAAAATAAAGGGTGAGGGGTATTTATAGATTTTTTTTGACCGTT
CGGGGGGCAACGGTAAAAAAATGACCATTGCACTATTCACGCGCGAGGAAATCGCGTCCCCAGGG
GCGCGCTACGTGGCATCAAATCACGTCCACGTCAGAGCGCTTTGCTGACGTGGACACAAATGGCG
CTTACGTGGACGCAATTTGCTGATTTTAAAT
Found at i:2372892 original size:11 final size:11
Alignment explanation
Indices: 2372876--2372900 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2372866 AAAGAATTAG
2372876 ATTATGACATC
1 ATTATGACATC
2372887 ATTATGACATC
1 ATTATGACATC
2372898 ATT
1 ATT
2372901 TATGCCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (11 bp):
ATTATGACATC
Found at i:2374063 original size:22 final size:22
Alignment explanation
Indices: 2374038--2374129 Score: 141
Period size: 22 Copynumber: 4.2 Consensus size: 22
2374028 AAATTCAATA
2374038 TCAATTTCCTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
2374060 TCAA-TTCCTTTCAAAAATTCTC
1 TCAATTTCC-TTCAAAAATTCTC
* *
2374082 TCAATTCCCTTCAAAATTTCTC
1 TCAATTTCCTTCAAAAATTCTC
*
2374104 TCAATTTCCTTCCAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
2374126 TCAA
1 TCAA
2374130 ACTCTCAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
21 4 0.06
22 56 0.89
23 3 0.05
ACGTcount: A:0.30, C:0.29, G:0.00, T:0.40
Consensus pattern (22 bp):
TCAATTTCCTTCAAAAATTCTC
Found at i:2374135 original size:30 final size:30
Alignment explanation
Indices: 2374101--2374159 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
2374091 TTCAAAATTT
* *
2374101 CTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
2374131 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
2374160 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.34
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:2374145 original size:52 final size:51
Alignment explanation
Indices: 2374079--2374181 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
2374069 TTCAAAAATT
* * *
2374079 CTCTCAATTCCCTT-CAAAATTTCTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA-TCCTCTCAATTTCCTTCAAAAAATCTC-CAAA
2374131 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
2374182 TCCATATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 4 0.09
52 33 0.72
53 9 0.20
ACGTcount: A:0.32, C:0.33, G:0.00, T:0.35
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
Found at i:2374170 original size:21 final size:22
Alignment explanation
Indices: 2374131--2374172 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2374121 TTCTCTCAAA
2374131 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
2374153 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
2374173 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:2374260 original size:29 final size:30
Alignment explanation
Indices: 2374214--2374271 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
2374204 ATTAAATTTC
2374214 ATTTTTTTAAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAAGAAAATTTTAAAATTTTTT
* *
2374244 ATTTTTTTAAA-ATAATTTTAACATTTTT
1 ATTTTTTTAAAGAAAATTTTAAAATTTTT
2374272 AATATTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (30 bp):
ATTTTTTTAAAGAAAATTTTAAAATTTTTT
Found at i:2374279 original size:29 final size:30
Alignment explanation
Indices: 2374217--2374279 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
2374207 AAATTTCATT
* *
2374217 TTTTTAAAGAAAATTTTAAAATTTTTTATT
1 TTTTTAAAGAAAATTTTAAAATTTTTAATA
* *
2374247 TTTTTAAA-ATAATTTTAACATTTTTAATA
1 TTTTTAAAGAAAATTTTAAAATTTTTAATA
2374276 TTTT
1 TTTT
2374280 CAACAATGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (30 bp):
TTTTTAAAGAAAATTTTAAAATTTTTAATA
Found at i:2374399 original size:14 final size:15
Alignment explanation
Indices: 2374370--2374403 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2374360 AAATTTTAAA
2374370 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
2374385 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
2374399 TTTTA
1 TTTTA
2374404 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:2377080 original size:124 final size:124
Alignment explanation
Indices: 2376860--2377124 Score: 397
Period size: 124 Copynumber: 2.1 Consensus size: 124
2376850 CCACGAGGGC
2376860 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
1 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
* * * **
2376925 AAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATTA
66 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
* * * *
2376984 GCGATTTTATACTATTTGCTCAGGAAACGTCAAAAAAATTTATTTCTTACATGACC-ACTGTAGC
1 GCGATTTGACACTATTTGCTCA-GAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGC
* *
2377048 GAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTGGTAGAA
65 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
**
2377108 GCGATTTCCCACTATTT
1 GCGATTTGACACTATTT
2377125 AACCAGATAC
Statistics
Matches: 126, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
124 95 0.75
125 31 0.25
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (124 bp):
GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
Found at i:2378230 original size:29 final size:31
Alignment explanation
Indices: 2378159--2378231 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 31
2378149 AAATTTTAAA
* *
2378159 TTAATAATAAT-AAAATTATATTTTAATCTC
1 TTAAAAATAATAAAAATTATAATTTAATCTC
2378189 TTAAAAATAATAAAAATT-TAATTTAAT-TC
1 TTAAAAATAATAAAAATTATAATTTAATCTC
*
2378218 TTAAAAATTATAAA
1 TTAAAAATAATAAA
2378232 GATCTAGTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 15 0.38
30 18 0.46
31 6 0.15
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (31 bp):
TTAAAAATAATAAAAATTATAATTTAATCTC
Found at i:2378929 original size:25 final size:25
Alignment explanation
Indices: 2378901--2378951 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2378891 GTTTAATTTA
2378901 GGACATCGTTAGAGTCAATTGAATG
1 GGACATCGTTAGAGTCAATTGAATG
2378926 GGACATCGTTAGAGTCAATTGAATG
1 GGACATCGTTAGAGTCAATTGAATG
2378951 G
1 G
2378952 ACTAAACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.27
Consensus pattern (25 bp):
GGACATCGTTAGAGTCAATTGAATG
Found at i:2380805 original size:3 final size:3
Alignment explanation
Indices: 2380797--2380827 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
2380787 ATCAATTTCT
2380797 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
2380828 TATTGACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:2381039 original size:26 final size:25
Alignment explanation
Indices: 2381010--2381064 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
2381000 AGATTTATTC
2381010 TAGAGTTTAAAT-TTTTAAGTGTTAAA
1 TAGAGTTTAAATCTTTTAA--GTTAAA
* *
2381036 TAGATTTTAGATCTTTTAAGTTAAA
1 TAGAGTTTAAATCTTTTAAGTTAAA
2381061 TAGA
1 TAGA
2381065 TTGTGGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 10 0.38
26 10 0.38
27 6 0.23
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.45
Consensus pattern (25 bp):
TAGAGTTTAAATCTTTTAAGTTAAA
Found at i:2388756 original size:20 final size:18
Alignment explanation
Indices: 2388712--2388759 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
2388702 AACTTGAGAG
2388712 AAGAAA-AAAAAGAAATC
1 AAGAAAGAAAAAGAAATC
2388729 AA-ACAAGAAAAAGAAAGTGC
1 AAGA-AAGAAAAAGAAA-T-C
2388749 AAGAAAGAAAA
1 AAGAAAGAAAA
2388760 TTGAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 1 0.04
17 4 0.15
18 9 0.35
19 1 0.04
20 10 0.38
21 1 0.04
ACGTcount: A:0.73, C:0.06, G:0.17, T:0.04
Consensus pattern (18 bp):
AAGAAAGAAAAAGAAATC
Found at i:2388795 original size:32 final size:36
Alignment explanation
Indices: 2388752--2388819 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
2388742 AAAGTGCAAG
*
2388752 AAAGAAAATTGA-AAT-AAAAAG-AGAGTGTGAAAA
1 AAAGAAAATTGAGAATGAAAAAGAAGAGAGTGAAAA
*
2388785 AAAG-AAATTGAGATTGAAAAAGAAGAGAGTGAAAA
1 AAAGAAAATTGAGAATGAAAAAGAAGAGAGTGAAAA
2388820 GAAATAACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 7 0.23
33 6 0.20
34 6 0.20
35 11 0.37
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.15
Consensus pattern (36 bp):
AAAGAAAATTGAGAATGAAAAAGAAGAGAGTGAAAA
Found at i:2391731 original size:19 final size:19
Alignment explanation
Indices: 2391707--2391896 Score: 245
Period size: 19 Copynumber: 9.7 Consensus size: 19
2391697 TTTTGAGGAC
2391707 ATGCAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
**
2391726 ATGCAATCCAAGATATGATAT
1 ATGCAATCTTAGATATG--AT
2391747 ATGCAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
**
2391766 ATGCAATCCAAGATATGATAT
1 ATGCAATCTTAGATATG--AT
2391787 ATGCAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
**
2391806 ATGCAATCCAAGATATGATAT
1 ATGCAATCTTAGATATG--AT
2391827 ATGCAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
*
2391846 ATGCAATCTTAGAGATGAT
1 ATGCAATCTTAGATATGAT
**
2391865 ATATAATCTTAGATATGAT
1 ATGCAATCTTAGATATGAT
2391884 ATGCAATCTTAGA
1 ATGCAATCTTAGA
2391897 ATATATGATT
Statistics
Matches: 147, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
19 96 0.65
21 51 0.35
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (19 bp):
ATGCAATCTTAGATATGAT
Found at i:2391751 original size:40 final size:40
Alignment explanation
Indices: 2391707--2391891 Score: 329
Period size: 40 Copynumber: 4.7 Consensus size: 40
2391697 TTTTGAGGAC
2391707 ATGCAATCTTAGATATGATATGCAATCCAAGATATGATAT
1 ATGCAATCTTAGATATGATATGCAATCCAAGATATGATAT
2391747 ATGCAATCTTAGATATGATATGCAATCCAAGATATGATAT
1 ATGCAATCTTAGATATGATATGCAATCCAAGATATGATAT
2391787 ATGCAATCTTAGATATGATATGCAATCCAAGATATGATAT
1 ATGCAATCTTAGATATGATATGCAATCCAAGATATGATAT
** *
2391827 ATGCAATCTTAGATATGATATGCAATCTTAGAGATGATAT
1 ATGCAATCTTAGATATGATATGCAATCCAAGATATGATAT
2391867 AT--AATCTTAGATATGATATGCAATC
1 ATGCAATCTTAGATATGATATGCAATC
2391892 TTAGAATATA
Statistics
Matches: 142, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
38 23 0.16
40 119 0.84
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (40 bp):
ATGCAATCTTAGATATGATATGCAATCCAAGATATGATAT
Found at i:2392935 original size:98 final size:98
Alignment explanation
Indices: 2392812--2393002 Score: 292
Period size: 98 Copynumber: 1.9 Consensus size: 98
2392802 ATCATGAAGA
* *
2392812 AAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCATAACGTATTGGATGTGATTTCTTAAAT
1 AAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCATAACATATTGGATGTGATTTCTTAAAT
*
2392877 CTTGGATAAGAGGATGTTCCTTTAAAGTAAAGG
66 CTCGGATAAGAGGATGTTCCTTTAAAGTAAAGG
* * * *
2392910 AAATATTCTGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTCTTAAAT
1 AAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCATAACATATTGGATGTGATTTCTTAAAT
* * *
2392975 CTCGGATGAGTGGATGTTCTTTTAAAGT
66 CTCGGATAAGAGGATGTTCCTTTAAAGT
2393003 TTTATTGTAT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
98 83 1.00
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (98 bp):
AAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCATAACATATTGGATGTGATTTCTTAAAT
CTCGGATAAGAGGATGTTCCTTTAAAGTAAAGG
Found at i:2399080 original size:132 final size:132
Alignment explanation
Indices: 2398765--2399818 Score: 1802
Period size: 132 Copynumber: 7.9 Consensus size: 132
2398755 CTGCATTGAC
*
2398765 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
2398830 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGGTTGAAGATTGTAGATCTTATCTCC
66 CAAGCCTTGTCTCCCTCAGCAGCAGC-G-G-A----GAAGGTTGAAGATTGTAGATCTTATCTCC
2398895 CTAAGCAGT
124 CTAAGCAGT
*
2398904 AGTGGAGCAGATCGAAGACGGCAGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
2398969 CAAGCCGTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCTCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
2399034 GT
131 GT
* *
2399036 AGTGGAGTAGATCGAAGACGGCAGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
2399101 TAAGCCTTATCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
2399166 GT
131 GT
* *
2399168 AGTGGAGTAGATCGAAGACGGCAGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
2399233 CAAGCCTTATCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
2399298 GT
131 GT
2399300 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
2399365 CAAGCCTTGTCTCCCTCAGCAGCGGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
2399430 GT
131 GT
* *
2399432 AGTAGAGCAGATCGAAGACGGTGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
2399497 CAAGCCTTGTCTCCCTCAGCAGCGGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
2399562 GT
131 GT
* *
2399564 AGTAGAGCAGATCGAAGACGGTGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
2399629 CAAGCCTTGTCTCCCTCAGCAGCGGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
2399694 GT
131 GT
* *
2399696 AGTAGAGCAGATCGAAGACGGTGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
2399761 CAAGCCTTGTCTCCCTCAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCCTATCTCC
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCC
2399819 TTGAAGTTGC
Statistics
Matches: 890, Mismatches: 25, Indels: 7
0.97 0.03 0.01
Matches are distributed among these distances:
132 799 0.90
136 1 0.00
137 1 0.00
138 1 0.00
139 88 0.10
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GT
Found at i:2399942 original size:44 final size:43
Alignment explanation
Indices: 2399891--2400363 Score: 323
Period size: 44 Copynumber: 10.9 Consensus size: 43
2399881 GATCGCATCT
*
2399891 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
*
2399935 AGTCTTATC-CTCCTGAAGTTGCAGTGG-GACAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACT-AAGA-AGCA
*
2399980 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA-AAGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A
* * ** * * *
2400023 TAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAA-AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * *
2400067 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCA
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
*
2400108 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* *
2400152 AGTCTTATC-CTCCTAAAGTTGCAGTGGAGCAGA-TTA-AAGCTGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTAAGAAGC--A
* * * * * * *
2400195 TAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAA-AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * * * *
2400239 AGATCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * *
2400280 AGTCTTATCTCACTGAAGTTGCAGTGAAGCAGACTAAATAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAGCA
2400324 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA
2400364 TGGCACTAAT
Statistics
Matches: 338, Mismatches: 61, Indels: 60
0.74 0.13 0.13
Matches are distributed among these distances:
40 42 0.12
41 21 0.06
42 10 0.03
43 23 0.07
44 195 0.58
45 45 0.13
46 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
Found at i:2400051 original size:217 final size:216
Alignment explanation
Indices: 2399805--2400263 Score: 706
Period size: 217 Copynumber: 2.1 Consensus size: 216
2399795 TTGAAGATTG
*
2399805 TAGATCCTATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
1 TAGATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
* * *
2399870 TACAGAGAGTAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGCA
66 TACAGAGAGCAGATCGCATCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGCA
* * * * *
2399935 AGTCTTATCCTCCTGAAGTTGCAGTGG-GACAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGT
131 AGTCTTATCCTCCTAAAGTTGCAGTGGAG-CAGACTAAAGATGACAA-TCCTATCTCCCTAAAGT
*
2399999 TGCAGTGGAGCAGATTAAAGCCGA
194 TGCAGTGGAGCAGATTAAAACC-A
2400023 TA-ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
1 TAGATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
* *
2400087 TGCAGAGAGCAGATCGCATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
66 TACAGAGAGCAGATCGCATCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGCA
* * *
2400152 AGTCTTATCCTCCTAAAGTTGCAGTGGAGCAGATTAAAGCTGATAATCCTATCTCCCTAAAGTTG
131 AGTCTTATCCTCCTAAAGTTGCAGTGGAGCAGACTAAAGATGACAATCCTATCTCCCTAAAGTTG
* *
2400217 CAGTGGAGCGGATTAAAACCT
196 CAGTGGAGCAGATTAAAACCA
* *
2400238 TAGATCTTATCTCTCTGAAGTTGCAG
1 TAGATCCTATCTCCCTGAAGTTGCAG
2400264 AGAGTAGATC
Statistics
Matches: 220, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
215 2 0.01
216 56 0.25
217 159 0.72
218 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (216 bp):
TAGATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
TACAGAGAGCAGATCGCATCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGCA
AGTCTTATCCTCCTAAAGTTGCAGTGGAGCAGACTAAAGATGACAATCCTATCTCCCTAAAGTTG
CAGTGGAGCAGATTAAAACCA
Found at i:2400133 original size:84 final size:84
Alignment explanation
Indices: 2400024--2400305 Score: 320
Period size: 84 Copynumber: 3.3 Consensus size: 84
2400014 TAAAGCCGAT
*
2400024 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTG
2400089 CAGAGAGCAGATCGCATCA
66 CAGAGAGCAGATCGCATCA
* * * * * *
2400108 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-AAG-TCTTATC-CTCCTAAAG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA--AACCTTAGATCTTATCTCT-CTGAAG
* * *
2400170 TTGCAGTGGAGCAGATTAAAGC-TGA
63 TTGCAG-AGAGCAGA-T--CGCATCA
*
2400195 TAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTT
1 -AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTT
* *
2400260 GCAGAGAGTAGATCGCATCT
65 GCAGAGAGCAGATCGCATCA
* * *
2400280 AGTCTTATCTCACTGAAGTTGCAGTG
1 AATCCTATCTCCCTGAAGTTGCAGTG
2400306 AAGCAGACTA
Statistics
Matches: 160, Mismatches: 26, Indels: 24
0.76 0.12 0.11
Matches are distributed among these distances:
83 2 0.01
84 75 0.47
85 10 0.06
86 8 0.05
87 10 0.06
88 53 0.33
89 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (84 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTG
CAGAGAGCAGATCGCATCA
Found at i:2400190 original size:172 final size:172
Alignment explanation
Indices: 2399893--2400349 Score: 670
Period size: 172 Copynumber: 2.6 Consensus size: 172
2399883 TCGCATCTAG
* * * *
2399893 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CG-CATCAAGTCTTATCTC-CCTGAAGTTGC
*
2399957 AGTGG-GACAGACTGAAG-ATGGCAAGTCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
61 AGTGGAG-CAGACT-AAGTA-AGCAAGTCTTATCCT-CCTGAAGTTGCAGTGGAGCAGATTAAAG
* *
2400019 CCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGA
122 CCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCTTAGA
*
2400070 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAATCTTATCTCCCTGAAGTTGCAGTGG
1 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGG
* *
2400135 AGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGGAGCAGATTAAAGCTGATAATC
66 AGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATC
2400200 CTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCTTAGA
131 CTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCTTAGA
* * * *
2400242 TCTTATCTCTCTGAAGTTGCAGAGAGTAGATCGCATCTAGTCTTATCTCACTGAAGTTGCAGTGA
1 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGG
*
2400307 AGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
66 AGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
2400350 AGGCAGACTG
Statistics
Matches: 259, Mismatches: 17, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
172 190 0.73
173 36 0.14
174 3 0.01
175 1 0.00
176 8 0.03
177 21 0.08
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (172 bp):
TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGG
AGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATC
CTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCTTAGA
Found at i:2400330 original size:84 final size:84
Alignment explanation
Indices: 2399937--2400356 Score: 313
Period size: 84 Copynumber: 4.9 Consensus size: 84
2399927 AGTAAGCAAG
*
2399937 TCTTATC-CTCCTGAAGTTGCAGTGG-GACAGACTGAAGAT-GGCAAGTCTTAT-CTCCCTGAAG
1 TCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACT-AA-ATAAGCAAGTCTTATCCT-CCTGAAG
* * ***
2399998 TTGCAGTGGAGCAGATTAAAGCCGATAA
61 TTGCAG-AGAGCAGA-T--CGCATCTAA
* ** * * *
2400026 TCCTATCTCCCTGAAGTTGCAGTGGAGTGGA-TTAA-AACCTTAGATCTTAT-CTCTCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGC-AAG-TCTTATCCTC-CTGAAGTT
*
2400088 GCAGAGAGCAGATCGCATCAAA
63 GCAGAGAGCAGATCGCATCTAA
* *
2400110 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTGCA
* * *
2400175 GTGGAGCAGATTAAAGC-TGATAA
66 G-AGAGCAGA-T--CGCAT-CTAA
* * * * * *
2400198 TCCTATCTCCCTAAAGTTGCAGTGGAGCGGA-TTAA-AACCTTAGATCTTAT-CTCTCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGC-AAG-TCTTATCCTC-CTGAAGTT
* *
2400260 GCAGAGAGTAGATCGCATCTAG
63 GCAGAGAGCAGATCGCATCTAA
* *
2400282 TCTTATCTCACTGAAGTTGCAGTGAAGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTGCA
*
2400347 GTGAGGCAGA
66 GAGA-GCAGA
2400357 CTGAAGATGG
Statistics
Matches: 261, Mismatches: 48, Indels: 48
0.73 0.13 0.13
Matches are distributed among these distances:
84 99 0.38
85 27 0.10
86 14 0.05
87 25 0.10
88 70 0.27
89 24 0.09
90 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (84 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTGCA
GAGAGCAGATCGCATCTAA
Found at i:2400563 original size:19 final size:19
Alignment explanation
Indices: 2400541--2400646 Score: 158
Period size: 19 Copynumber: 5.5 Consensus size: 19
2400531 GAGGATATTT
*
2400541 AATCTTATATATGATATGC
1 AATCTTAGATATGATATGC
*
2400560 AATCCTAGATATGATATGC
1 AATCTTAGATATGATATGC
2400579 AATCTTAGATATGATATATGC
1 AATCTTAGATATG--ATATGC
**
2400600 AATCTTAGATATGATATAT
1 AATCTTAGATATGATATGC
2400619 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATGC
2400638 AATCTTAGA
1 AATCTTAGA
2400647 ATATATGATT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
19 59 0.76
21 19 0.24
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (19 bp):
AATCTTAGATATGATATGC
Done.