Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 67 of 120
Found at i:19771540 original size:58 final size:57
Alignment explanation
Indices: 19771391--19771543 Score: 168
Period size: 58 Copynumber: 2.6 Consensus size: 57
19771381 ACTCGGGGGC
* * *
19771391 AAAATGGTAGATTTTGGTGAAAACG-GGGTTAAAAATGAGATTTAGGGAAGTTTGAGGGT
1 AAAATGGTA-ATTTT-ATGAAATCGAGGG-TAAAAATGAGATTTAAGGAAGTTTGAGGGT
* * *
19771450 AAAATGGTAATTTTAGTGAAATCGAGGTTAAAAATGGGATTTAAGGAAGTTTGGGGGT
1 AAAATGGTAATTTTA-TGAAATCGAGGGTAAAAATGAGATTTAAGGAAGTTTGAGGGT
19771508 AAAATGGTAATTTT-TGAAAGTTTC-AGGGTAAAAATG
1 AAAATGGTAATTTTATGAAA---TCGAGGGTAAAAATG
19771544 CAATTTTTTT
Statistics
Matches: 82, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
56 5 0.06
58 64 0.78
59 13 0.16
ACGTcount: A:0.37, C:0.02, G:0.30, T:0.31
Consensus pattern (57 bp):
AAAATGGTAATTTTATGAAATCGAGGGTAAAAATGAGATTTAAGGAAGTTTGAGGGT
Found at i:19771604 original size:30 final size:30
Alignment explanation
Indices: 19771507--19771778 Score: 266
Period size: 30 Copynumber: 9.0 Consensus size: 30
19771497 AGTTTGGGGG
* *
19771507 TAAAATGGTAATTTTTG-AAAGTTTCAGGGT
1 TAAAAT-GTAATTTTGGAAAAGTTTTAGGGT
* * *
19771537 AAAAATGCAATTTTTTTTGG-AAA-TTTTGGGGT
1 TAAAATGTAA----TTTTGGAAAAGTTTTAGGGT
* * * *
19771569 CAAAATATGATTTTGGAAAAATTTTAGGGT
1 TAAAATGTAATTTTGGAAAAGTTTTAGGGT
*
19771599 TAAAATCTAATTTTGGAAAAGTTTTAGGGT
1 TAAAATGTAATTTTGGAAAAGTTTTAGGGT
*
19771629 TAAAATGTAATTTTAGAAAAGTTTTAGGGT
1 TAAAATGTAATTTTGGAAAAGTTTTAGGGT
*
19771659 TAAAATGTAATTTTGGAAAAGTTTTGGGGT
1 TAAAATGTAATTTTGGAAAAGTTTTAGGGT
* * *
19771689 TAAAATGTGATTTT-CAGAAAGTTTTAGGAT
1 TAAAATGTAATTTTGGA-AAAGTTTTAGGGT
*
19771719 TAAAATATAATTTTGGAAAAG-TTTAGGGGT
1 TAAAATGTAATTTTGGAAAAGTTTTA-GGGT
* ** *
19771749 CAAAATGTAATTTTCAAAAAGTTTTGGGGT
1 TAAAATGTAATTTTGGAAAAGTTTTAGGGT
19771779 AATTTCTGAA
Statistics
Matches: 201, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
28 6 0.03
29 11 0.05
30 159 0.79
31 4 0.02
32 13 0.06
33 8 0.04
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.39
Consensus pattern (30 bp):
TAAAATGTAATTTTGGAAAAGTTTTAGGGT
Found at i:19773656 original size:6 final size:6
Alignment explanation
Indices: 19773639--19773714 Score: 72
Period size: 6 Copynumber: 13.0 Consensus size: 6
19773629 TTAATTTTAT
* *
19773639 TTTAAA TTTAAA TTTAAA -GTAAA TCTAAA TAATTAAA TTTAAA TTTAAGA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA TTTAAA TTTAA-A
19773689 --TAAA TTTAAA TTTAAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
19773715 ATCAATTTAA
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
4 5 0.08
5 7 0.12
6 41 0.69
7 1 0.02
8 5 0.08
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:19773676 original size:31 final size:32
Alignment explanation
Indices: 19773640--19773714 Score: 100
Period size: 31 Copynumber: 2.3 Consensus size: 32
19773630 TAATTTTATT
19773640 TTAAATTTAAATTTAA-AGTAAATCTAAA-TAA
1 TTAAATTTAAATTTAAGA-TAAATCTAAATTAA
*
19773671 TTAAATTTAAATTTAAGATAAATTTAAATTTAA
1 TTAAATTTAAATTTAAGATAAATCTAAA-TTAA
*
19773704 ATAAATTTAAA
1 TTAAATTTAAA
19773715 ATCAATTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
31 25 0.64
32 1 0.03
33 13 0.33
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (32 bp):
TTAAATTTAAATTTAAGATAAATCTAAATTAA
Found at i:19773716 original size:17 final size:16
Alignment explanation
Indices: 19773641--19773714 Score: 98
Period size: 17 Copynumber: 4.6 Consensus size: 16
19773631 AATTTTATTT
19773641 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
* *
19773657 GTAAATCTAAA--TAAT
1 -TAAATTTAAATTTAAA
19773672 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAA-A
19773689 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
19773705 TAAATTTAAA
1 TAAATTTAAA
19773715 ATCAATTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.18
15 3 0.06
16 14 0.28
17 24 0.48
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:19774078 original size:31 final size:31
Alignment explanation
Indices: 19774040--19774152 Score: 109
Period size: 31 Copynumber: 3.5 Consensus size: 31
19774030 TTATCCAGCT
19774040 TTACTTCAATTTCAAAGGGATGACGTTGCTC
1 TTACTTCAATTTCAAAGGGATGACGTTGCTC
* ** * * *
19774071 TTACTTCAATTTCAGAGATAAAGACGTGTTATCCAC
1 TTACTTCAATTTCAAAG-GGATGAC--G-T-TGCTC
*
19774107 TCTACTTCAATTTCAAGGGGATGACGTTGCTC
1 T-TACTTCAATTTCAAAGGGATGACGTTGCTC
19774139 TTACTTCAATTTCA
1 TTACTTCAATTTCA
19774153 GAGATAAAGA
Statistics
Matches: 63, Mismatches: 13, Indels: 12
0.72 0.15 0.14
Matches are distributed among these distances:
31 29 0.46
32 8 0.13
33 1 0.02
34 2 0.03
35 1 0.02
36 8 0.13
37 14 0.22
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (31 bp):
TTACTTCAATTTCAAAGGGATGACGTTGCTC
Found at i:19774128 original size:68 final size:68
Alignment explanation
Indices: 19773997--19774621 Score: 881
Period size: 68 Copynumber: 8.9 Consensus size: 68
19773987 CTTCATTTTA
** * * * *
19773997 CTCTTACTTCAATTTCAGAAGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAAGGGATG
1 CTCTTACTTCAATTTCAG-A-GATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGGGGATG
19774062 ACGTTG
63 ACGTTG
19774068 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
19774133 TTG
66 TTG
19774136 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATAGGA
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT--G-
*
19774201 AATGATCTTG
63 -ACG---TTG
* * * * *
19774211 CACTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATGAC
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGGGGATGAC
19774276 GTTG
65 GTTG
*
19774280 CTCTTACTTCAATTTTAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
19774345 TTG
66 TTG
19774348 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
19774413 TTG
66 TTG
*
19774416 CTCTTACTTCATTTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
19774481 TTG
66 TTG
19774484 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCGAGCAGTCAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTC-A--AG---GG
* * *
19774549 AAAAGATCTTTG
59 -GATGA-CGTTG
* * * *
19774561 CTCCTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGTGGAT
1 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAT
19774622 TGGAAATGAT
Statistics
Matches: 506, Mismatches: 31, Indels: 36
0.88 0.05 0.06
Matches are distributed among these distances:
68 287 0.57
69 69 0.14
70 4 0.01
71 18 0.04
72 6 0.01
73 2 0.00
74 1 0.00
75 41 0.08
76 40 0.08
77 38 0.08
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (68 bp):
CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACG
TTG
Found at i:19774290 original size:31 final size:31
Alignment explanation
Indices: 19774252--19774500 Score: 156
Period size: 31 Copynumber: 7.5 Consensus size: 31
19774242 ATATCCAGCT
19774252 TTACTTCAATTTCAAGAGGATGACGTTGCTC
1 TTACTTCAATTTCAAGAGGATGACGTTGCTC
* ** * * *
19774283 TTACTTCAATTTTAGAGATAAAGACGTGTTATCCAC
1 TTACTTCAATTTCA-AGAGGATGAC--G-T-TGCTC
*
19774319 TCTACTTCAATTTCAAGGGGATGACGTTGCTC
1 T-TACTTCAATTTCAAGAGGATGACGTTGCTC
** * * *
19774351 TTACTTCAATTTCAGAGATAAAGACGTGTTATCCAC
1 TTACTTCAATTTCA-AGAGGATGAC--G-T-TGCTC
*
19774387 TCTACTTCAATTTCAAGGGGATGACGTTGCTC
1 T-TACTTCAATTTCAAGAGGATGACGTTGCTC
* ** * * *
19774419 TTACTTCATTTTCAGAGATAAAGACGTGTTATCCAC
1 TTACTTCAATTTCA-AGAGGATGAC--G-T-TGCTC
*
19774455 TCTACTTCAATTTCAAGGGGATGACGTTGCTC
1 T-TACTTCAATTTCAAGAGGATGACGTTGCTC
19774487 TTACTTCAATTTCA
1 TTACTTCAATTTCA
19774501 GAGATAAAGA
Statistics
Matches: 161, Mismatches: 39, Indels: 36
0.68 0.17 0.15
Matches are distributed among these distances:
31 51 0.32
32 31 0.19
33 3 0.02
34 6 0.04
35 3 0.02
36 30 0.19
37 37 0.23
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (31 bp):
TTACTTCAATTTCAAGAGGATGACGTTGCTC
Found at i:19774398 original size:212 final size:211
Alignment explanation
Indices: 19773999--19774635 Score: 930
Period size: 212 Copynumber: 3.0 Consensus size: 211
19773989 TCATTTTACT
** *
19773999 CTTACTTCAATTTCAGAAGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAA-AGGGATGA
1 CTTACTTCAATTTCAG-A-GATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGA-GGATGA
19774063 CGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGA
63 CGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGA
19774128 TGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
128 TGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
19774193 GGATAGGAAATGATCTTGCA
193 GGAT-GGAAATGATCTTGCA
*
19774213 CTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATGACGT
1 CTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATGACGT
*
19774278 TGCTCTTACTTCAATTTTAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGA
66 TGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGA
19774343 CGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGA
131 CGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGA
* *
19774408 T-G--ACG---TTGCT
196 TGGAAATGATCTTGCA
* * * *
19774418 CTTACTTCATTTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGGGGATGACGT
1 CTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATGACGT
19774482 TGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCGAGCAGTCA
66 TGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTC-A--AG---
* * * * * *
19774547 GGAAAAGATCTTTGCTCCTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATT
124 GG-GATGA-CGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATT
*
19774612 TCAAGTGGATTGGAAATGATCTTG
187 TCAAGGGGA-TGGAAATGATCTTG
19774636 TTTGGTCTGA
Statistics
Matches: 385, Mismatches: 21, Indels: 28
0.89 0.05 0.06
Matches are distributed among these distances:
204 64 0.17
205 53 0.14
206 1 0.00
208 4 0.01
210 1 0.00
211 2 0.01
212 175 0.45
213 62 0.16
214 17 0.04
215 1 0.00
217 2 0.01
220 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (211 bp):
CTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATGACGT
TGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGA
CGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGA
TGGAAATGATCTTGCA
Found at i:19786438 original size:58 final size:58
Alignment explanation
Indices: 19786348--19786478 Score: 208
Period size: 58 Copynumber: 2.2 Consensus size: 58
19786338 ACCTGGGGGT
*
19786348 AAAATGGTAGATTTTGGTAAAAACGGGGTTAAAAATGGGATTTAGGGAAGTTTGAGGGA
1 AAAATGGTA-ATTTTAGTAAAAACGGGGTTAAAAATGGGATTTAGGGAAGTTTGAGGGA
* * * *
19786407 AAAATGGTAATTTTAGTGAAATCGGGGTTAAAAATGGGATTTAGGGAAGTTTGGGGGT
1 AAAATGGTAATTTTAGTAAAAACGGGGTTAAAAATGGGATTTAGGGAAGTTTGAGGGA
19786465 AAAATGGTAATTTT
1 AAAATGGTAATTTT
19786479 TGAAAGTTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
58 58 0.87
59 9 0.13
ACGTcount: A:0.36, C:0.02, G:0.32, T:0.31
Consensus pattern (58 bp):
AAAATGGTAATTTTAGTAAAAACGGGGTTAAAAATGGGATTTAGGGAAGTTTGAGGGA
Found at i:19786464 original size:30 final size:29
Alignment explanation
Indices: 19786372--19786468 Score: 99
Period size: 29 Copynumber: 3.3 Consensus size: 29
19786362 TGGTAAAAAC
*
19786372 GGGGTTAAAAATGGGATTTAGGGAAGTTT
1 GGGGGTAAAAATGGGATTTAGGGAAGTTT
* * * * *
19786401 GAGGG-AAAAATGGTAATTTTAGTGAA-ATC
1 GGGGGTAAAAATGG-GA-TTTAGGGAAGTTT
*
19786430 GGGGTTAAAAATGGGATTTAGGGAAGTTT
1 GGGGGTAAAAATGGGATTTAGGGAAGTTT
19786459 GGGGGTAAAA
1 GGGGGTAAAA
19786469 TGGTAATTTT
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
28 16 0.31
29 19 0.37
30 16 0.31
ACGTcount: A:0.35, C:0.01, G:0.36, T:0.28
Consensus pattern (29 bp):
GGGGGTAAAAATGGGATTTAGGGAAGTTT
Found at i:19786468 original size:28 final size:28
Alignment explanation
Indices: 19786379--19786471 Score: 89
Period size: 28 Copynumber: 3.2 Consensus size: 28
19786369 AACGGGGTTA
* *
19786379 AAAATGGGATTTAGGGAAGTTTGAGGGA
1 AAAATGGGATTTAGGGAAGTTTGGGGGT
* * * * *
19786407 AAAATGGTAATTTTAGTGAA-ATCGGGGTT
1 AAAATGG-GA-TTTAGGGAAGTTTGGGGGT
19786436 AAAAATGGGATTTAGGGAAGTTTGGGGGT
1 -AAAATGGGATTTAGGGAAGTTTGGGGGT
19786465 AAAATGG
1 AAAATGG
19786472 TAATTTTTGA
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
28 22 0.45
29 12 0.24
30 15 0.31
ACGTcount: A:0.35, C:0.01, G:0.35, T:0.28
Consensus pattern (28 bp):
AAAATGGGATTTAGGGAAGTTTGGGGGT
Found at i:19786485 original size:29 final size:28
Alignment explanation
Indices: 19786453--19786615 Score: 157
Period size: 30 Copynumber: 5.5 Consensus size: 28
19786443 GGATTTAGGG
*
19786453 AAGTTTGGGGGTAAAATGGTAATTTTTGA
1 AAGTTTTGGGGTAAAAT-GTAATTTTTGA
* *
19786482 AAGTTTTAGGGTAGAAATGCAATTTTTTGGA
1 AAGTTTTGGGGTA-AAATGTAA-TTTTT-GA
* *
19786513 AA-TTTTAGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGT-AAAATGTAATTTTTG-A
* *
19786542 AAGTTTTGGGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGT-AAAATGTAATTTTTG-A
*
19786572 AAGTTTAGGGGTTAAAATGTAATTTTTAGA
1 AAGTTTTGGGG-TAAAATGTAATTTTT-GA
19786602 AAGTTTTGGGGTAA
1 AAGTTTTGGGGTAA
19786616 TTTTTGGACA
Statistics
Matches: 115, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
28 1 0.01
29 24 0.21
30 83 0.72
31 7 0.06
ACGTcount: A:0.34, C:0.02, G:0.26, T:0.38
Consensus pattern (28 bp):
AAGTTTTGGGGTAAAATGTAATTTTTGA
Found at i:19786500 original size:58 final size:56
Alignment explanation
Indices: 19786379--19786615 Score: 167
Period size: 60 Copynumber: 4.0 Consensus size: 56
19786369 AACGGGGTTA
* * *
19786379 AAAATGGGATTTAGGGAAGTTTGAGGGAAAAATGGTAATTTTAGTGAAA---TCGGGGTT
1 AAAATGGAATTTAGGGAAGTTTGAGGGTAAAAT-GTAATTTT--TGAAAGTTTTGGGG-T
* * *
19786436 AAAAATGGGATTTAGGGAAGTTTGGGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGT
1 -AAAATGGAATTTAGGGAAGTTTGAGGGTAAAAT-GTAATTTTTGAAAGTTTTGGGGT
* ** * * *
19786494 AGAAATGCAATTTTTTGGAAATTTTAGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGT
1 A-AAATGGAA-TTTAGGGAAGTTTGAGGGT-AAAATGTAATTTTTG-AAAGTTTTGGGGT
** * *
19786554 CAAAATATAATTTTGGAAAAGTTT-AGGGGTTAAAATGTAATTTTTAGAAAGTTTTGGGGT
1 -AAAATGGAATTTAGG-GAAGTTTGA-GGG-TAAAATGTAATTTTT-GAAAGTTTTGGGGT
19786614 AA
1 AA
19786616 TTTTTGGACA
Statistics
Matches: 148, Mismatches: 19, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
56 5 0.03
57 1 0.01
58 47 0.32
59 35 0.24
60 57 0.39
61 3 0.02
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.35
Consensus pattern (56 bp):
AAAATGGAATTTAGGGAAGTTTGAGGGTAAAATGTAATTTTTGAAAGTTTTGGGGT
Found at i:19786536 original size:59 final size:57
Alignment explanation
Indices: 19786453--19786615 Score: 177
Period size: 60 Copynumber: 2.7 Consensus size: 57
19786443 GGATTTAGGG
* * *
19786453 AAGTTTGGGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTAGAAATGCAATTTTTTGG-A
1 AAGTTTAGGGGTAAAAT-GTAATTTTTGAAAGTTTTGGGGTA-AAATACAA--TTTTGGAA
* * *
19786513 AATTTTA-GGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTGGAA
1 AAGTTTAGGGGT-AAAATGTAATTTTTG-AAAGTTTTGGGGT-AAAATACAATTTTGGAA
19786572 AAGTTTAGGGGTTAAAATGTAATTTTTAGAAAGTTTTGGGGTAA
1 AAGTTTAGGGG-TAAAATGTAATTTTT-GAAAGTTTTGGGGTAA
19786616 TTTTTGGACA
Statistics
Matches: 88, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
58 6 0.07
59 22 0.25
60 57 0.65
61 3 0.03
ACGTcount: A:0.34, C:0.02, G:0.26, T:0.38
Consensus pattern (57 bp):
AAGTTTAGGGGTAAAATGTAATTTTTGAAAGTTTTGGGGTAAAATACAATTTTGGAA
Found at i:19787028 original size:15 final size:15
Alignment explanation
Indices: 19787008--19787042 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
19786998 GATCCTGAGG
*
19787008 CGGGTCGGGCCGAAT
1 CGGGTCGGGCCAAAT
19787023 CGGGTCGGGCCAAAT
1 CGGGTCGGGCCAAAT
19787038 -GGGTC
1 CGGGTC
19787043 CTATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.14, C:0.26, G:0.46, T:0.14
Consensus pattern (15 bp):
CGGGTCGGGCCAAAT
Found at i:19787763 original size:28 final size:27
Alignment explanation
Indices: 19787710--19787765 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
19787700 AATTCCTTTT
*
19787710 TTTATTATTTTATTATCATTATTATTA
1 TTTATTATTTTAATATCATTATTATTA
19787737 TTTATTATTATTAATATCA-TATTTATTA
1 TTTATTATT-TTAATATCATTA-TTATTA
19787765 T
1 T
19787766 GAAACCTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 11 0.42
28 15 0.58
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (27 bp):
TTTATTATTTTAATATCATTATTATTA
Found at i:19787765 original size:3 final size:3
Alignment explanation
Indices: 19787711--19787749 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
19787701 ATTCCTTTTT
*
19787711 TTA TTA TT- TTA TTA TCA TTA TTA TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
19787750 ATATCATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19788481 original size:6 final size:6
Alignment explanation
Indices: 19788464--19788539 Score: 72
Period size: 6 Copynumber: 13.0 Consensus size: 6
19788454 TTAATTTTAT
* *
19788464 TTTAAA TTTAAA TTTAAA -GTAAA TCTAAA TAATTAAA TTTAAA TTTAAGA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA TTTAAA TTTAA-A
19788514 --TAAA TTTAAA TTTAAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
19788540 ATCAATTTAA
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
4 5 0.08
5 7 0.12
6 41 0.69
7 1 0.02
8 5 0.08
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:19788501 original size:31 final size:32
Alignment explanation
Indices: 19788465--19788539 Score: 100
Period size: 31 Copynumber: 2.3 Consensus size: 32
19788455 TAATTTTATT
19788465 TTAAATTTAAATTTAA-AGTAAATCTAAA-TAA
1 TTAAATTTAAATTTAAGA-TAAATCTAAATTAA
*
19788496 TTAAATTTAAATTTAAGATAAATTTAAATTTAA
1 TTAAATTTAAATTTAAGATAAATCTAAA-TTAA
*
19788529 ATAAATTTAAA
1 TTAAATTTAAA
19788540 ATCAATTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
31 25 0.64
32 1 0.03
33 13 0.33
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (32 bp):
TTAAATTTAAATTTAAGATAAATCTAAATTAA
Found at i:19788541 original size:17 final size:16
Alignment explanation
Indices: 19788466--19788539 Score: 98
Period size: 17 Copynumber: 4.6 Consensus size: 16
19788456 AATTTTATTT
19788466 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
* *
19788482 GTAAATCTAAA--TAAT
1 -TAAATTTAAATTTAAA
19788497 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAA-A
19788514 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
19788530 TAAATTTAAA
1 TAAATTTAAA
19788540 ATCAATTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.18
15 3 0.06
16 14 0.28
17 24 0.48
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:19788560 original size:27 final size:27
Alignment explanation
Indices: 19788502--19788560 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
19788492 ATAATTAAAT
* **
19788502 TTAAATTTAAGATAAATTTAAATTTAA
1 TTAAATTTAAAATAAATTTAAATCCAA
* * *
19788529 ATAAATTTAAAATCAATTTAACTCCAA
1 TTAAATTTAAAATAAATTTAAATCCAA
19788556 TTAAA
1 TTAAA
19788561 ACAAAAGTCC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.39
Consensus pattern (27 bp):
TTAAATTTAAAATAAATTTAAATCCAA
Found at i:19793347 original size:111 final size:111
Alignment explanation
Indices: 19793153--19793421 Score: 308
Period size: 111 Copynumber: 2.4 Consensus size: 111
19793143 TTGCATTTAA
* * * * * *
19793153 GTAATCGGGCTATGTGCCTAGCAGGCTTTGAGCCGGTGTATTCGGGCTATGTGCTTAACATGCTT
1 GTAATCGGGCTATGTGCCTAGCAGGCTTTGTGTCGGTGTAATCGGGCGATGTGCCTAACAGGCTT
** * * * * ** * *
19793218 TGTACCGGTGTATTCGGGCTATGTGCCTAGC-AGACTTTGTGTCGGT
66 CATACCGGTGAAATCGGGCAATATGCCTAGCAAG-CTTCATGCCAGT
* *
19793264 GTAATCGGGCTATGTGCCTAGCAGACTTTGTGTCGGTGTAATCGGGCGATGTGCCTAGCAGGCTT
1 GTAATCGGGCTATGTGCCTAGCAGGCTTTGTGTCGGTGTAATCGGGCGATGTGCCTAACAGGCTT
19793329 CATACCGGTGAAATCGGGCAATATGCCTAGCAAGCTTCATGCCAGT
66 CATACCGGTGAAATCGGGCAATATGCCTAGCAAGCTTCATGCCAGT
* * * *
19793375 G-AGATCGAGCTATGTGCCTAGTAGGCTTTATGTCGGTGTTATCGGGC
1 GTA-ATCGGGCTATGTGCCTAGCAGGCTTTGTGTCGGTGTAATCGGGC
19793422 TTTATGCCTA
Statistics
Matches: 133, Mismatches: 23, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
110 1 0.01
111 130 0.98
112 2 0.02
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.30
Consensus pattern (111 bp):
GTAATCGGGCTATGTGCCTAGCAGGCTTTGTGTCGGTGTAATCGGGCGATGTGCCTAACAGGCTT
CATACCGGTGAAATCGGGCAATATGCCTAGCAAGCTTCATGCCAGT
Found at i:19793430 original size:37 final size:37
Alignment explanation
Indices: 19793153--19793450 Score: 267
Period size: 37 Copynumber: 8.0 Consensus size: 37
19793143 TTGCATTTAA
*
19793153 GTAATCGGGCTATGTGCCTAGCAGGCTTTGA-GCCGGT
1 GTAATCGGGCTATGTGCCTAGCAGGCTTT-ATGTCGGT
* * * * * **
19793190 GTATTCGGGCTATGTGCTTAACATGCTTTGTACCGGT
1 GTAATCGGGCTATGTGCCTAGCAGGCTTTATGTCGGT
* * *
19793227 GTATTCGGGCTATGTGCCTAGCAGACTTTGTGTCGGT
1 GTAATCGGGCTATGTGCCTAGCAGGCTTTATGTCGGT
* *
19793264 GTAATCGGGCTATGTGCCTAGCAGACTTTGTGTCGGT
1 GTAATCGGGCTATGTGCCTAGCAGGCTTTATGTCGGT
* * **
19793301 GTAATCGGGCGATGTGCCTAGCAGGCTTCATACCGGT
1 GTAATCGGGCTATGTGCCTAGCAGGCTTTATGTCGGT
* * * * * * *
19793338 GAAATCGGGCAATATGCCTAGCAAGCTTCATGCCAGT
1 GTAATCGGGCTATGTGCCTAGCAGGCTTTATGTCGGT
* *
19793375 G-AGATCGAGCTATGTGCCTAGTAGGCTTTATGTCGGT
1 GTA-ATCGGGCTATGTGCCTAGCAGGCTTTATGTCGGT
* * * ** *
19793412 GTTATCGGGCTTTATGCCTAATAGGCCTTTGTGTCGGT
1 GTAATCGGGCTATGTGCCTAGCAGG-CTTTATGTCGGT
19793450 G
1 G
19793451 ATTAACAGAT
Statistics
Matches: 218, Mismatches: 39, Indels: 7
0.83 0.15 0.03
Matches are distributed among these distances:
36 1 0.00
37 205 0.94
38 12 0.06
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (37 bp):
GTAATCGGGCTATGTGCCTAGCAGGCTTTATGTCGGT
Found at i:19798047 original size:28 final size:28
Alignment explanation
Indices: 19798015--19798096 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 28
19798005 ATAAAATTAA
19798015 AGAAAATTAGGCCAAGCTTCCCTTAGTT
1 AGAAAATTAGGCCAAGCTTCCCTTAGTT
**
19798043 AGAAAA-T--G-CAA---TAAC-TATGTT
1 AGAAAATTAGGCCAAGCTTCCCTTA-GTT
*
19798064 AGAAAATTAGGCCAAGCTTCCCTAAGTT
1 AGAAAATTAGGCCAAGCTTCCCTTAGTT
19798092 AGAAA
1 AGAAA
19798097 TCAATGGTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 18
0.63 0.08 0.29
Matches are distributed among these distances:
20 2 0.05
21 11 0.28
22 1 0.03
24 4 0.10
25 4 0.10
27 1 0.03
28 16 0.40
29 1 0.03
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (28 bp):
AGAAAATTAGGCCAAGCTTCCCTTAGTT
Found at i:19803432 original size:620 final size:622
Alignment explanation
Indices: 19802239--19803468 Score: 1851
Period size: 620 Copynumber: 2.0 Consensus size: 622
19802229 TGGCTGTTGC
* * * * *
19802239 AGCATCTCATTGCGTTGAGATATTGATCCAGTACGTTGATAATTGTCACATTGTTGCACAAAATT
1 AGCATCTCATTGCGTTAAGATATTGATCCAATACGCTGACAATTGTCACATTATTGCACAAAATT
* * *
19802304 ATGTGCATCCCTAAACAATGAAGGCCAATAGAATCTTGACTGAAGTACCTTTGCAGCAATCCTAA
66 ATGTGCATCCCTAAACAATGAAGGCCAATAAAATCTTGACTAAAGTACCTTTGCAACAATCCTAA
* ** * *
19802369 CATCACCAAAATGGCCTCCATAAAGGGCATCATGGTAATGCTTCAGGATAGAAAGCATTTCTTCT
131 CACCACCAAAATGAACTCCATAAAGGGCATCATGGAAATGCTTCAAGATAGAAAGCATTTCTTCT
* *
19802434 TCTGGAACTCAATGTCTAATAATATTGTTGTTACATACCTTGAATACGTATGGCTCATTCCAGTA
196 TCTGGAACACAATGTCTAATAATATTGTCGTTACATACCTTGAATACGTATGGCTCATTCCAGTA
*** *
19802499 GTATTTTGTGATGTCACGAAGAAACCTTTCCTTCTTATGGCCTGTTGCACTCAAGGGTAACCTTT
261 GTATTTTACAATGTCACGAAGAAACCTTTCCTTCTTATGGCCTGTTGCACTCAAGGGTAACCTTC
* *
19802564 CACACACCAAGTAGTTGACGACATCTGCATACCATGAGGATGCATCGACAGCAAATAGCTTCTCG
326 CACACACCAAGTAGTTGACAACATCTACATACCATGAGGATGCATCGACAGCAAATAGCTTCTCG
* * * * *
19802629 TCAGGAAATACGTCAATAATTTGGAATAGATTTCCATCTTCACTTTCTACTTCCAAACAAGATAA
391 TCAGGAAATACATCAATAATTTGAAATAGATTTCCATCTTCACTTCCCACTTCCAAACAAGACAA
* *
19802694 ATGATCTGCTACTTGGTTCTTCGATCCTTTGTGATCCTTTATCTCAATGTCAAATTCTTGTAGTA
456 ATGATCTGCTACTTGGTTCTCCGATCCTTTGCGATCCTTTATCTCAATGTCAAATTCTTGTAGTA
* * *
19802759 AAAGGATCCATCGAATCAATCTTGTTTTGGTATCTTTCTTAGAAACAAGGTATCTCAACGTAGAA
521 AAAGGATCCATCGAATCAATCTTGGTTTGGCATCTTTCTTAGAAACAAGGTATCTCAACGCAGAA
19802824 TGATCAGTGAATACTGTAACCTTTGTGCTGATAAGAT
586 TGATCAGTGAATACTGTAACCTTTGTGCTGATAAGAT
* * *
19802861 AGCATCTCATTGCGTTAAGATATTGATCCAATGCGCTGACATTTGTCACATTATTGTACAAAATT
1 AGCATCTCATTGCGTTAAGATATTGATCCAATACGCTGACAATTGTCACATTATTGCACAAAATT
* * * *
19802926 AT-TGGCATCTCTAAACAATGAAGGCTAATAAAATCTTGACTAAAG-ACCTTTGCAACAGTCCTT
66 ATGT-GCATCCCTAAACAATGAAGGCCAATAAAATCTTGACTAAAGTACCTTTGCAACAATCCTA
* *
19802989 ACACCACCAAAATGAACTCTATAAGGGGCATCATGGAAATGCTTCAAGATAGAAAGCATTTCTTC
130 ACACCACCAAAATGAACTCCATAAAGGGCATCATGGAAATGCTTCAAGATAGAAAGCATTTCTTC
* * *
19803054 TTCTGGAACACAGTGTCTAATAATATTGTCGTTGCATACCTTGAATAGGTATGGCTCATTCCAGT
195 TTCTGGAACACAATGTCTAATAATATTGTCGTTACATACCTTGAATACGTATGGCTCATTCCAGT
** * * *
19803119 AGTATTTTACAATGTTGCGAAGAAATCTTTCCTTCTTGTGGTCTGTTGCACTCAA-GGTAACCTT
260 AGTATTTTACAATGTCACGAAGAAACCTTTCCTTCTTATGGCCTGTTGCACTCAAGGGTAACCTT
* * * *
19803183 CCACACACTAAGTAGTTGATAACATCTACATACCATGGGGATGCATTGACAGCAAATAGCTTCTC
325 CCACACACCAAGTAGTTGACAACATCTACATACCATGAGGATGCATCGACAGCAAATAGCTTCTC
* * * **
19803248 GTTAGGAAATGCATCAATAATTTGAAAT-GTATTTCCATTTTCACTTCCCACTTCCAAATGAGAC
390 GTCAGGAAATACATCAATAATTTGAAATAG-ATTTCCATCTTCACTTCCCACTTCCAAACAAGAC
*
19803312 AAATGATTTGCTACTTGGTTCTCCGATCCTTTGCGATCCTTTATCTCAATGTCAAATTCTTGTAG
454 AAATGATCTGCTACTTGGTTCTCCGATCCTTTGCGATCCTTTATCTCAATGTCAAATTCTTGTAG
*
19803377 TAACAA-GATCCATCGAATCAATCTTGGTTTGGCATCTTTCTTAGCAAA-GAGGTATCTCAACGC
519 TAA-AAGGATCCATCGAATCAATCTTGGTTTGGCATCTTTCTTAG-AAACAAGGTATCTCAACGC
19803440 AGAATGATCAGTGAATACTGTAACCTTTG
582 AGAATGATCAGTGAATACTGTAACCTTTG
19803469 CGTTGACAAG
Statistics
Matches: 545, Mismatches: 59, Indels: 10
0.89 0.10 0.02
Matches are distributed among these distances:
619 1 0.00
620 262 0.48
621 186 0.34
622 96 0.18
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (622 bp):
AGCATCTCATTGCGTTAAGATATTGATCCAATACGCTGACAATTGTCACATTATTGCACAAAATT
ATGTGCATCCCTAAACAATGAAGGCCAATAAAATCTTGACTAAAGTACCTTTGCAACAATCCTAA
CACCACCAAAATGAACTCCATAAAGGGCATCATGGAAATGCTTCAAGATAGAAAGCATTTCTTCT
TCTGGAACACAATGTCTAATAATATTGTCGTTACATACCTTGAATACGTATGGCTCATTCCAGTA
GTATTTTACAATGTCACGAAGAAACCTTTCCTTCTTATGGCCTGTTGCACTCAAGGGTAACCTTC
CACACACCAAGTAGTTGACAACATCTACATACCATGAGGATGCATCGACAGCAAATAGCTTCTCG
TCAGGAAATACATCAATAATTTGAAATAGATTTCCATCTTCACTTCCCACTTCCAAACAAGACAA
ATGATCTGCTACTTGGTTCTCCGATCCTTTGCGATCCTTTATCTCAATGTCAAATTCTTGTAGTA
AAAGGATCCATCGAATCAATCTTGGTTTGGCATCTTTCTTAGAAACAAGGTATCTCAACGCAGAA
TGATCAGTGAATACTGTAACCTTTGTGCTGATAAGAT
Found at i:19825028 original size:50 final size:50
Alignment explanation
Indices: 19824776--19825201 Score: 287
Period size: 50 Copynumber: 8.5 Consensus size: 50
19824766 TCTGATCCGG
* ** *
19824776 TGCAACTTTAAGGATATAAGATTTGATGTCGTAACTTCATCTTGCTCCAC
1 TGCAACTTTAGGGATATAAGATTTGATGTTATAGCTTCATCTTGCTCCAC
* * * * * *
19824826 CGCATCTTAAGGGAGATAAGATTT-ACT-TCTATAGCTTCAAT-TCGAC-CTAC
1 TGCAACTTTAGGGATATAAGATTTGA-TGT-TATAGCTTC-ATCTTG-CTCCAC
* * * ** *
19824876 TGCAACTTCAGAGG-TATAGGATTTGGTGTGGTAGCTTCATCTTGCTCTAC
1 TGCAACTTTAG-GGATATAAGATTTGATGTTATAGCTTCATCTTGCTCCAC
* * * * * *
19824926 TGCAACTTCAGAGAGATA-AAGATTTGTTTTTATAGCTTCAATC-CGATTCAC
1 TGCAACTTTAG-G-GATATAAGATTTGATGTTATAGCTTC-ATCTTGCTCCAC
* *
19824977 TGCAACTTTAGGGATATAGGATTTGATGTTGTAGCTTCATCTTGCTCCAC
1 TGCAACTTTAGGGATATAAGATTTGATGTTATAGCTTCATCTTGCTCCAC
* * * * * *
19825027 TGCAACTTCAAGGAGATAAGATTTGCT-TCTATAGCTTCAATC-TGATCTAC
1 TGCAACTTTAGGGATATAAGATTTGATGT-TATAGCTTC-ATCTTGCTCCAC
* * * * * * * * *
19825077 TGTAATTTTAGGGGTATATGATTTGGTTTTATAG-TCTCATTTTACTCCAT
1 TGCAACTTTAGGGATATAAGATTTGATGTTATAGCT-TCATCTTGCTCCAC
* * *
19825127 TGGAACTTTAGGGATATAAGATTTGATGTCATAACTTCATCTTGCTCCAC
1 TGCAACTTTAGGGATATAAGATTTGATGTTATAGCTTCATCTTGCTCCAC
* *
19825177 TGCATCTTTAGGGAGATAAGATTTG
1 TGCAACTTTAGGGATATAAGATTTG
19825202 CCTTCTACAA
Statistics
Matches: 285, Mismatches: 71, Indels: 40
0.72 0.18 0.10
Matches are distributed among these distances:
49 16 0.06
50 222 0.78
51 42 0.15
52 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (50 bp):
TGCAACTTTAGGGATATAAGATTTGATGTTATAGCTTCATCTTGCTCCAC
Found at i:19825146 original size:100 final size:100
Alignment explanation
Indices: 19824761--19825151 Score: 401
Period size: 100 Copynumber: 3.9 Consensus size: 100
19824751 CTAATGTAAT
*** * * * * * *
19824761 TTCAATCTGATCCGGTGCAACTTTAAGGATATAAGATTTGATGTCGTAACTTCATCTTGCTCCAC
1 TTCAATCTGATCTACTGCAACTTTAGGGGTATAGGATTTGGTGTTGTAGCTTCATCTTGCTCCAC
* * * *
19824826 CGCATCTTAAGGGAGATAAGATTTACTTCTATAGC
66 TGCAACTTCAGGGAGATAAGATTTGCTTCTATAGC
* * * * *
19824861 TTCAAT-TCGACCTACTGCAACTTCAGAGGTATAGGATTTGGTGTGGTAGCTTCATCTTGCTCTA
1 TTCAATCT-GATCTACTGCAACTTTAGGGGTATAGGATTTGGTGTTGTAGCTTCATCTTGCTCCA
* * *
19824925 CTGCAACTTCAGAGAGATAAAGATTTGTTTTTATAGC
65 CTGCAACTTCAGGGAGAT-AAGATTTGCTTCTATAGC
* * *
19824962 TTCAATCCGAT-TCACTGCAACTTTAGGGATATAGGATTTGATGTTGTAGCTTCATCTTGCTCCA
1 TTCAATCTGATCT-ACTGCAACTTTAGGGGTATAGGATTTGGTGTTGTAGCTTCATCTTGCTCCA
*
19825026 CTGCAACTTCAAGGAGATAAGATTTGCTTCTATAGC
65 CTGCAACTTCAGGGAGATAAGATTTGCTTCTATAGC
* * * * * * *
19825062 TTCAATCTGATCTACTGTAATTTTAGGGGTATATGATTTGGTTTTATAG-TCTCATTTTACTCCA
1 TTCAATCTGATCTACTGCAACTTTAGGGGTATAGGATTTGGTGTTGTAGCT-TCATCTTGCTCCA
* * * *
19825126 TTGGAACTTTAGGGATATAAGATTTG
65 CTGCAACTTCAGGGAGATAAGATTTG
19825152 ATGTCATAAC
Statistics
Matches: 238, Mismatches: 47, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
99 2 0.01
100 151 0.63
101 85 0.36
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.37
Consensus pattern (100 bp):
TTCAATCTGATCTACTGCAACTTTAGGGGTATAGGATTTGGTGTTGTAGCTTCATCTTGCTCCAC
TGCAACTTCAGGGAGATAAGATTTGCTTCTATAGC
Found at i:19825166 original size:150 final size:151
Alignment explanation
Indices: 19824980--19825254 Score: 392
Period size: 150 Copynumber: 1.8 Consensus size: 151
19824970 GATTCACTGC
* ** *
19824980 AACTTTAGGGATATAGGATTTGATGTTGTAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATA
1 AACTTTAGGGATATAAGATTTGATGTCATAACTTCATCTTGCTCCACTGCAACTTCAAGGAGATA
* * * * * * *
19825045 AGATTTG-CTTCTATAGCTTCAATCTGATCTA-CTGTAATTTTAGGGGTATATGATTTGGTTTTA
66 AGATTTGCCTTCTACAACTTCAATCCGA-CCAGCTGTAACTTCAGGGGTATAGGATTTGGTTTTA
19825108 TAGTCTCATTTTACTCCATTGG
130 TAGTCTCATTTTACTCCATTGG
* * *
19825130 AACTTTAGGGATATAAGATTTGATGTCATAACTTCATCTTGCTCCACTGCATCTTTAGGGAGATA
1 AACTTTAGGGATATAAGATTTGATGTCATAACTTCATCTTGCTCCACTGCAACTTCAAGGAGATA
*
19825195 AGATTTGCCTTCTACAACTTTAATCCGACCAGCTGTAACTTCAGGGGTATAGGATTTGGT
66 AGATTTGCCTTCTACAACTTCAATCCGACCAGCTGTAACTTCAGGGGTATAGGATTTGGT
19825255 GTTGTAACTT
Statistics
Matches: 108, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
150 67 0.62
151 41 0.38
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (151 bp):
AACTTTAGGGATATAAGATTTGATGTCATAACTTCATCTTGCTCCACTGCAACTTCAAGGAGATA
AGATTTGCCTTCTACAACTTCAATCCGACCAGCTGTAACTTCAGGGGTATAGGATTTGGTTTTAT
AGTCTCATTTTACTCCATTGG
Found at i:19827660 original size:7 final size:7
Alignment explanation
Indices: 19827648--19827674 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
19827638 TCTTAATGAT
19827648 TTCTTCA
1 TTCTTCA
19827655 TTCTTCA
1 TTCTTCA
19827662 TTCTTCA
1 TTCTTCA
19827669 TTCTTC
1 TTCTTC
19827675 TATTTATAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.30, G:0.00, T:0.59
Consensus pattern (7 bp):
TTCTTCA
Found at i:19830731 original size:7 final size:7
Alignment explanation
Indices: 19830719--19830745 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
19830709 TCTTAATGAT
19830719 TTCTTCA
1 TTCTTCA
19830726 TTCTTCA
1 TTCTTCA
19830733 TTCTTCA
1 TTCTTCA
19830740 TTCTTC
1 TTCTTC
19830746 TACTTATGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.30, G:0.00, T:0.59
Consensus pattern (7 bp):
TTCTTCA
Found at i:19835787 original size:3 final size:3
Alignment explanation
Indices: 19835779--19835827 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
19835769 TGATTAAACT
19835779 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
19835827 A
1 A
19835828 TAATAATAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:19835990 original size:25 final size:26
Alignment explanation
Indices: 19835962--19836012 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
19835952 AAATAGCGTG
* *
19835962 AAATAAAAGTACTAAAA-ATAAAATA
1 AAATAAAAGTAATAAAACAAAAAATA
19835987 AAATAAAAGTAATAAAACAAAAAATA
1 AAATAAAAGTAATAAAACAAAAAATA
19836013 GAAAAGGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (26 bp):
AAATAAAAGTAATAAAACAAAAAATA
Found at i:19842308 original size:51 final size:50
Alignment explanation
Indices: 19842253--19842389 Score: 143
Period size: 51 Copynumber: 2.7 Consensus size: 50
19842243 TTATTATTTT
19842253 TAATTAATTCAAATTAATTAAGAGATAAATAATAAAAAATTATATTACCAC
1 TAATTAATT-AAATTAATTAAGAGATAAATAATAAAAAATTATATTACCAC
* * * * * * * *
19842304 TAATTAAAAATAAAATAATTAAGTGAT-AATATTAAATAATTATTTTATCTC
1 TAATT--AATTAAATTAATTAAGAGATAAATAATAAAAAATTATATTACCAC
*
19842355 TAATTAATTAAATTAA-TATGAGATAAAATAATAAA
1 TAATTAATTAAATTAATTAAGAGAT-AAATAATAAA
19842390 TAAAATAGTT
Statistics
Matches: 69, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
48 6 0.09
49 9 0.13
50 8 0.12
51 29 0.42
52 14 0.20
53 3 0.04
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (50 bp):
TAATTAATTAAATTAATTAAGAGATAAATAATAAAAAATTATATTACCAC
Found at i:19847328 original size:26 final size:26
Alignment explanation
Indices: 19847278--19847338 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
19847268 GTTCACTCGA
*
19847278 GAAAACTAAAATTAATTTTAAAAAAG
1 GAAAAATAAAATTAATTTTAAAAAAG
**
19847304 GAAAAATAAAATTAATTTTTGAAAAG
1 GAAAAATAAAATTAATTTTAAAAAAG
*
19847330 AAAAAATAA
1 GAAAAATAA
19847339 GTAATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.26
Consensus pattern (26 bp):
GAAAAATAAAATTAATTTTAAAAAAG
Found at i:19855054 original size:3 final size:3
Alignment explanation
Indices: 19855048--19855082 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
19855038 CAACAACAAA
19855048 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19855083 ATATTTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:19855335 original size:2 final size:2
Alignment explanation
Indices: 19855328--19855355 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19855318 TTGTTTTGTA
19855328 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19855356 GTAACATCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19857202 original size:23 final size:23
Alignment explanation
Indices: 19857176--19857304 Score: 125
Period size: 23 Copynumber: 5.5 Consensus size: 23
19857166 ACACTAGCGC
19857176 GCTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
**
19857199 GCTCTCTAATTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
*
19857222 GCTCTCTATTATTAGCACT-TCGTGT
1 GCTCTCT-GT-TTAGCACTGT-GTGT
* * * *
19857247 GCTATCTGATTAGCACTTTGTGC
1 GCTCTCTGTTTAGCACTGTGTGT
* * *
19857270 ACTCTCTATTTAGCACTTTTGTGT
1 GCTCTCTGTTTAGCAC-TGTGTGT
19857294 GCTCTCTGTTT
1 GCTCTCTGTTT
19857305 GCCCAGCACT
Statistics
Matches: 86, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
23 51 0.59
24 17 0.20
25 18 0.21
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.44
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:19857247 original size:48 final size:45
Alignment explanation
Indices: 19857177--19857300 Score: 140
Period size: 48 Copynumber: 2.6 Consensus size: 45
19857167 CACTAGCGCG
* **
19857177 CTCTCTGTTTAGCACTGTGTGTGCTCTCTAATTAGCACTGTGTGTG
1 CTCTCTATTTAGCACT-TGTGTGCTCTCTAATTAGCACTGTGTGCA
* * *
19857223 CTCTCTATTATTAGCACTTCGTGTGCTATCTGATTAGCACTTTGTGCA
1 CTCTCTA-T-TTAGCACTT-GTGTGCTCTCTAATTAGCACTGTGTGCA
19857271 CTCTCTATTTAGCACTTTTGTGTGCTCTCT
1 CTCTCTATTTAGCAC--TTGTGTGCTCTCT
19857301 GTTTGCCCAG
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
46 13 0.20
47 13 0.20
48 40 0.61
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.44
Consensus pattern (45 bp):
CTCTCTATTTAGCACTTGTGTGCTCTCTAATTAGCACTGTGTGCA
Found at i:19863792 original size:19 final size:19
Alignment explanation
Indices: 19863770--19863815 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
19863760 TTTTATAAAA
*
19863770 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTGTAAAAATT
* *
19863789 ATTTTCAAATTGTGAAAATT
1 ATTTT-GAATTGTAAAAATT
19863809 ATTTTGA
1 ATTTTGA
19863816 TTATTTTGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTTTGAATTGTAAAAATT
Found at i:19864749 original size:26 final size:26
Alignment explanation
Indices: 19864685--19864751 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 26
19864675 AAAAATATGT
* *
19864685 TTATGTTTATGTTTGTATTTATTTAA
1 TTATATTTATGTTTGTATTTAATTAA
19864711 TTAATTACGTTTATGTTTGTATTTAATTAA
1 TT-A-TA--TTTATGTTTGTATTTAATTAA
19864741 TTATATTTATG
1 TTATATTTATG
19864752 CTTATGTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
26 8 0.23
27 1 0.03
28 3 0.09
29 1 0.03
30 22 0.63
ACGTcount: A:0.27, C:0.01, G:0.10, T:0.61
Consensus pattern (26 bp):
TTATATTTATGTTTGTATTTAATTAA
Found at i:19864761 original size:26 final size:26
Alignment explanation
Indices: 19864704--19864761 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
19864694 TGTTTGTATT
* * *
19864704 TATTTAATTAATTACGTTTATGTTTG
1 TATTTAATTAATTACATTTATGCTTA
*
19864730 TATTTAATTAATTATATTTATGCTTA
1 TATTTAATTAATTACATTTATGCTTA
*
19864756 TGTTTA
1 TATTTA
19864762 TGTTTGGGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (26 bp):
TATTTAATTAATTACATTTATGCTTA
Found at i:19864815 original size:21 final size:21
Alignment explanation
Indices: 19864773--19864815 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
19864763 GTTTGGGGTA
* **
19864773 TAAGGTTTAGGGTTCATGGTT
1 TAAGATTTAGGGTTCAAAGTT
*
19864794 TAAGATTTAGGGTTTAAAGTT
1 TAAGATTTAGGGTTCAAAGTT
19864815 T
1 T
19864816 TGAGTTTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (21 bp):
TAAGATTTAGGGTTCAAAGTT
Found at i:19865602 original size:21 final size:21
Alignment explanation
Indices: 19865555--19865604 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
19865545 AACAGTGTAG
* *
19865555 ACTTCTACCGATACCTATGAC
1 ACTTCTACCGATACCAATGAA
*
19865576 AGTTCTACCGATA-CAAGTGAA
1 ACTTCTACCGATACCAA-TGAA
19865597 ACTTCTAC
1 ACTTCTAC
19865605 TAAAGCAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (21 bp):
ACTTCTACCGATACCAATGAA
Found at i:19867972 original size:38 final size:35
Alignment explanation
Indices: 19867930--19868021 Score: 100
Period size: 32 Copynumber: 2.6 Consensus size: 35
19867920 ACCTATACCC
19867930 CAAACATAAAAATAAGCATAAATACGATTAATTAAATA
1 CAAACATAAAAATAA-CATAAATA--ATTAATTAAATA
*
19867968 CAAACATAAACATAA-AT--ATAATTAATTAAATA
1 CAAACATAAAAATAACATAAATAATTAATTAAATA
* *
19868000 TAAACATAAATATAAACATAAA
1 CAAACATAAAAAT-AACATAAA
19868022 CATAAACATA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
32 23 0.49
33 2 0.04
34 5 0.11
36 3 0.06
38 14 0.30
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (35 bp):
CAAACATAAAAATAACATAAATAATTAATTAAATA
Found at i:19867980 original size:6 final size:6
Alignment explanation
Indices: 19867969--19868038 Score: 79
Period size: 6 Copynumber: 11.3 Consensus size: 6
19867959 AATTAAATAC
* * *
19867969 AAACAT AAACAT AAATAT AATTA-ATT AAATAT AAACAT AAATAT AAACAT
1 AAACAT AAACAT AAACAT AA--ACA-T AAACAT AAACAT AAACAT AAACAT
19868019 AAACAT AAACAT AAACAT AA
1 AAACAT AAACAT AAACAT AA
19868039 TTAATTAAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
6 50 0.89
7 2 0.04
8 4 0.07
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (6 bp):
AAACAT
Found at i:19867981 original size:44 final size:44
Alignment explanation
Indices: 19867931--19868107 Score: 177
Period size: 44 Copynumber: 4.2 Consensus size: 44
19867921 CCTATACCCC
* * **
19867931 AAACATAAAAATAAGCATAAATACGATTAATTAAATACAAACAT
1 AAACATAAACATAAACATAAATATAATTAATTAAATACAAACAT
* * * * * *
19867975 AAACAT-AA-ATATA-ATTAAT-TAAAT-A-TAAACATAAATAT
1 AAACATAAACATAAACATAAATATAATTAATTAAATACAAACAT
* * *
19868013 AAACATAAACATAAACATAAACATAATTAATTAAATACAAATAC
1 AAACATAAACATAAACATAAATATAATTAATTAAATACAAACAT
* *
19868057 AAATACAAACATAAACATAAATATAATTAATTAAATACAAACAT
1 AAACATAAACATAAACATAAATATAATTAATTAAATACAAACAT
19868101 AAACATA
1 AAACATA
19868108 TTTTTTTGTG
Statistics
Matches: 104, Mismatches: 23, Indels: 12
0.75 0.17 0.09
Matches are distributed among these distances:
38 16 0.15
39 3 0.03
40 6 0.06
41 9 0.09
42 7 0.07
43 3 0.03
44 60 0.58
ACGTcount: A:0.63, C:0.11, G:0.01, T:0.25
Consensus pattern (44 bp):
AAACATAAACATAAACATAAATATAATTAATTAAATACAAACAT
Found at i:19867992 original size:32 final size:32
Alignment explanation
Indices: 19867941--19868107 Score: 157
Period size: 32 Copynumber: 5.3 Consensus size: 32
19867931 AAACATAAAA
* **
19867941 ATAAGCATAAATACGATTAATTAAATACAAAC
1 ATAAACATAAATATAATTAATTAAATACAAAC
*
19867973 ATAAACATAAATATAATTAATTAAATATAAAC
1 ATAAACATAAATATAATTAATTAAATACAAAC
* * * *
19868005 ATAAATATAAACATAA--ACA-TAAACATAAAC
1 ATAAACATAAATATAATTA-ATTAAATACAAAC
* * *
19868035 ATAATTA-ATTAAATACAAAT-A-CAAATACAAAC
1 ATAA--ACA-TAAATATAATTAATTAAATACAAAC
19868067 ATAAACATAAATATAATTAATTAAATACAAAC
1 ATAAACATAAATATAATTAATTAAATACAAAC
19868099 ATAAACATA
1 ATAAACATA
19868108 TTTTTTTGTG
Statistics
Matches: 111, Mismatches: 15, Indels: 18
0.77 0.10 0.12
Matches are distributed among these distances:
30 25 0.23
31 4 0.04
32 82 0.74
ACGTcount: A:0.62, C:0.11, G:0.01, T:0.26
Consensus pattern (32 bp):
ATAAACATAAATATAATTAATTAAATACAAAC
Found at i:19868027 original size:50 final size:44
Alignment explanation
Indices: 19867963--19868103 Score: 185
Period size: 44 Copynumber: 3.0 Consensus size: 44
19867953 ACGATTAATT
19867963 AAATACAAACATAAACATAAATATAATTAATTAAATATAAACATA
1 AAATACAAACATAAACATAAATATAATTAATTAAATA-AAACATA
* *
19868008 AATATAAACATAAACATAAACATAAACATAATTAATTAAATACAA-ATA
1 AA-AT--AC--AAACATAAACATAAATATAATTAATTAAATAAAACATA
19868056 CAAATACAAACATAAACATAAATATAATTAATTAAATACAAACATA
1 -AAATACAAACATAAACATAAATATAATTAATTAAATA-AAACATA
19868102 AA
1 AA
19868104 CATATTTTTT
Statistics
Matches: 84, Mismatches: 4, Indels: 16
0.81 0.04 0.15
Matches are distributed among these distances:
44 30 0.36
45 6 0.07
46 7 0.08
48 7 0.08
49 4 0.05
50 30 0.36
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.25
Consensus pattern (44 bp):
AAATACAAACATAAACATAAATATAATTAATTAAATAAAACATA
Found at i:19871157 original size:19 final size:19
Alignment explanation
Indices: 19871115--19871159 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
19871105 TACGTTTTTT
*
19871115 AAAATATTGTAAATTACCA
1 AAAATATTGTAAATTACAA
19871134 AAAATATTGTAAA-TACAA
1 AAAATATTGTAAATTACAA
19871152 ATAAATAT
1 A-AAATAT
19871160 ATTAATAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAATATTGTAAATTACAA
Found at i:19872177 original size:25 final size:24
Alignment explanation
Indices: 19872149--19872197 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 24
19872139 CTCTATCACC
19872149 AAAAATA-GAACTGAAATTTTGAGAG
1 AAAAATATGAAC--AAATTTTGAGAG
19872174 -AAAATATGAACAAATTTTGAGAG
1 AAAAATATGAACAAATTTTGAGAG
19872197 A
1 A
19872198 GAGAGCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
23 12 0.55
24 6 0.27
25 4 0.18
ACGTcount: A:0.53, C:0.04, G:0.18, T:0.24
Consensus pattern (24 bp):
AAAAATATGAACAAATTTTGAGAG
Found at i:19875919 original size:20 final size:21
Alignment explanation
Indices: 19875863--19875921 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
19875853 AATAGTGCAG
19875863 ACTTCTACCGATACAAGTGAC
1 ACTTCTACCGATACAAGTGAC
* * *
19875884 AGTTGTACCCATACAAGT-AC
1 ACTTCTACCGATACAAGTGAC
* *
19875904 TCTTCTACCGAAACAAGT
1 ACTTCTACCGATACAAGT
19875922 CTTACTTCTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTGAC
Found at i:19878794 original size:14 final size:14
Alignment explanation
Indices: 19878740--19878794 Score: 51
Period size: 13 Copynumber: 4.1 Consensus size: 14
19878730 TGAGTAGACA
*
19878740 TATTTTTATT-ATT
1 TATTTTGATTAATT
* *
19878753 TATTTTGATTTATA
1 TATTTTGATTAATT
* *
19878767 TACTTT-AATAATT
1 TATTTTGATTAATT
19878780 TATTTTGATTAATT
1 TATTTTGATTAATT
19878794 T
1 T
19878795 TAAATATTAA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
13 18 0.56
14 14 0.44
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (14 bp):
TATTTTGATTAATT
Found at i:19880601 original size:20 final size:19
Alignment explanation
Indices: 19880576--19880614 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
19880566 ATATAATTGA
19880576 ATTTGTAAACATGTATATTC
1 ATTTGTAAACATGTA-ATTC
*
19880596 ATTTGTAAACTTGTAATTC
1 ATTTGTAAACATGTAATTC
19880615 TTTTATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (19 bp):
ATTTGTAAACATGTAATTC
Found at i:19882189 original size:42 final size:42
Alignment explanation
Indices: 19882140--19882222 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
19882130 TTTGAGCTTA
*
19882140 AAATTTTGTTCAAATCCGTCCATATTTACAAAATACTAACTT
1 AAATTTTGTTCAAATCCGTCCATATTTACAAAACACTAACTT
19882182 AAATTTTGTTCAAATCCGTCCATATTTACAAAACACTAACT
1 AAATTTTGTTCAAATCCGTCCATATTTACAAAACACTAACT
19882223 CAAACCCATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (42 bp):
AAATTTTGTTCAAATCCGTCCATATTTACAAAACACTAACTT
Found at i:19883147 original size:21 final size:22
Alignment explanation
Indices: 19883111--19883152 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
19883101 TTTTTTTAAA
*
19883111 AATATTTATATTATTTTATATT
1 AATATTTATATAATTTTATATT
19883133 AATATTTA-ATAATTTTATAT
1 AATATTTATATAATTTTATAT
19883153 ATTTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
AATATTTATATAATTTTATATT
Found at i:19890654 original size:5 final size:5
Alignment explanation
Indices: 19890639--19890685 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
19890629 TATAACAATA
* *
19890639 TTTCTT TTTCT TTTCT CTT-T TCTCT TTTCT TTT-T TTTCT TTTCT TTT
1 TTTC-T TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
19890686 TCTCATTCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
4 6 0.17
5 25 0.71
6 4 0.11
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:19890659 original size:7 final size:7
Alignment explanation
Indices: 19890641--19890689 Score: 66
Period size: 7 Copynumber: 7.3 Consensus size: 7
19890631 TAACAATATT
19890641 TCTTTT-
1 TCTTTTC
19890647 TCTTTTC
1 TCTTTTC
19890654 TCTTTTC
1 TCTTTTC
19890661 TCTTTTC
1 TCTTTTC
* *
19890668 TTTTTTT
1 TCTTTTC
19890675 TCTTTTC
1 TCTTTTC
19890682 T-TTTTC
1 TCTTTTC
19890688 TC
1 TC
19890690 ATTCAACATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
6 12 0.32
7 25 0.68
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (7 bp):
TCTTTTC
Found at i:19890677 original size:9 final size:10
Alignment explanation
Indices: 19890639--19890685 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
19890629 TATAACAATA
19890639 TTTCTTTTTCT
1 TTTC-TTTTCT
*
19890650 TTTCTCTT-T
1 TTTCTTTTCT
*
19890659 TCTCTTTTCT
1 TTTCTTTTCT
19890669 TTT-TTTTCT
1 TTTCTTTTCT
19890678 TTTCTTTT
1 TTTCTTTT
19890686 TCTCATTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
9 16 0.53
10 10 0.33
11 4 0.13
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTCTTTTCT
Found at i:19893307 original size:19 final size:20
Alignment explanation
Indices: 19893271--19893309 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19893261 GAAGAAGGTT
*
19893271 AAAAGAAACTTGTAGAGAAA
1 AAAAGAAACTCGTAGAGAAA
*
19893291 AAAATAAACTCGT-GAGAAA
1 AAAAGAAACTCGTAGAGAAA
19893310 GTAAGAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (20 bp):
AAAAGAAACTCGTAGAGAAA
Found at i:19900589 original size:6 final size:6
Alignment explanation
Indices: 19900578--19900634 Score: 87
Period size: 6 Copynumber: 9.5 Consensus size: 6
19900568 TGATCAAAAT
* * *
19900578 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG
19900626 TGAAAG TGA
1 TGAAAG TGA
19900635 TATGAATTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.47, C:0.00, G:0.32, T:0.21
Consensus pattern (6 bp):
TGAAAG
Found at i:19908741 original size:22 final size:23
Alignment explanation
Indices: 19908716--19908760 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
19908706 AAATTAAATC
*
19908716 AACTAGG-TAATTTTTTTTTAAT
1 AACTAGGTTAATTTTTTTATAAT
19908738 AACTAGGTTAATTTTTTTATAAT
1 AACTAGGTTAATTTTTTTATAAT
19908761 TTACCATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.53
Consensus pattern (23 bp):
AACTAGGTTAATTTTTTTATAAT
Found at i:19915130 original size:13 final size:13
Alignment explanation
Indices: 19915091--19915133 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
19915081 TCAAGCAAAG
*
19915091 AAAACAAGAAAAAC
1 AAAACAA-AAAAAT
*
19915105 AAAATAAAAAAAT
1 AAAACAAAAAAAT
*
19915118 AAAACAAACAAAT
1 AAAACAAAAAAAT
19915131 AAA
1 AAA
19915134 GAAAATGAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.81, C:0.09, G:0.02, T:0.07
Consensus pattern (13 bp):
AAAACAAAAAAAT
Found at i:19922754 original size:37 final size:38
Alignment explanation
Indices: 19922665--19922836 Score: 195
Period size: 37 Copynumber: 4.4 Consensus size: 38
19922655 GTAATAAAAC
* * *
19922665 ACATAACAAACATACAATTATACATACATAACAGTACATA
1 ACATAACATACATACAAATATACAAACATAACAGTA-A-A
* *
19922705 ACATAACATACATACAAATATACAAACATGATAGT-AA
1 ACATAACATACATACAAATATACAAACATAACAGTAAA
* *
19922742 ACATAACATACATACAAATATACTAACATAATAGTAACCAA
1 ACATAACATACATACAAATATACAAACATAACAGT-A--AA
* *
19922783 CACATAACAAACATACAATTATACAAACATAACAGT-AA
1 -ACATAACATACATACAAATATACAAACATAACAGTAAA
19922821 ACATAACATACATACA
1 ACATAACATACATACA
19922837 TACATAATAG
Statistics
Matches: 115, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
37 49 0.43
38 3 0.03
40 30 0.26
41 2 0.02
42 31 0.27
ACGTcount: A:0.56, C:0.20, G:0.03, T:0.21
Consensus pattern (38 bp):
ACATAACATACATACAAATATACAAACATAACAGTAAA
Found at i:19922764 original size:12 final size:13
Alignment explanation
Indices: 19922674--19922774 Score: 70
Period size: 12 Copynumber: 7.9 Consensus size: 13
19922664 CACATAACAA
*
19922674 ACATACA-ATTAT
1 ACATACATAATAT
*
19922686 ACATACATAACAGT
1 ACATACATAATA-T
*
19922700 ACATAACATAACAT
1 ACAT-ACATAATAT
19922714 ACATACA-AATAT
1 ACATACATAATAT
* *
19922726 ACAAACATGATAGT
1 ACATACATAATA-T
*
19922740 A-A-ACATAACAT
1 ACATACATAATAT
19922751 ACATACA-AATAT
1 ACATACATAATAT
19922763 AC-TAACATAATA
1 ACAT-ACATAATA
19922775 GTAACCAACA
Statistics
Matches: 72, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
11 3 0.04
12 33 0.46
13 16 0.22
14 12 0.17
15 8 0.11
ACGTcount: A:0.55, C:0.18, G:0.03, T:0.24
Consensus pattern (13 bp):
ACATACATAATAT
Found at i:19922807 original size:79 final size:77
Alignment explanation
Indices: 19922665--19922836 Score: 231
Period size: 79 Copynumber: 2.2 Consensus size: 77
19922655 GTAATAAAAC
* * *
19922665 ACATAACAAACATACAATTATACATACATAACAGTACATAACATAACATACATACAAATATACAA
1 ACATAACATACATACAAATATACATACATAACAGTACATAACATAACAAACATACAAATATACAA
* *
19922730 ACATGATAGTAA
66 ACATAACAGTAA
* *
19922742 ACATAACATACATACAAATATAC-TAACATAATAGTAACCA-ACACATAACAAACATACAATTAT
1 ACATAACATACATACAAATATACAT-ACATAACAGT-A-CATA-ACATAACAAACATACAAATAT
19922805 ACAAACATAACAGTAA
62 ACAAACATAACAGTAA
19922821 ACATAACATACATACA
1 ACATAACATACATACA
19922837 TACATAATAG
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
76 1 0.01
77 30 0.36
78 2 0.02
79 51 0.61
ACGTcount: A:0.56, C:0.20, G:0.03, T:0.21
Consensus pattern (77 bp):
ACATAACATACATACAAATATACATACATAACAGTACATAACATAACAAACATACAAATATACAA
ACATAACAGTAA
Found at i:19928246 original size:20 final size:21
Alignment explanation
Indices: 19928218--19928261 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
19928208 TATGATACTC
*
19928218 AAAATATGA-TTTG-GCATAAA
1 AAAAAATGAGTTTGAGCA-AAA
19928238 AAAAAATGAGTTTGAGCAAAA
1 AAAAAATGAGTTTGAGCAAAA
19928259 AAA
1 AAA
19928262 TCAATGTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 10 0.48
22 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.23
Consensus pattern (21 bp):
AAAAAATGAGTTTGAGCAAAA
Found at i:19928260 original size:22 final size:20
Alignment explanation
Indices: 19928218--19928261 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
19928208 TATGATACTC
* *
19928218 AAAATATGATTTGGCATAAA
1 AAAAAATGATTTGGCAAAAA
19928238 AAAAAATGAGTTTGAGCAAAAA
1 AAAAAATGA-TTTG-GCAAAAA
19928260 AA
1 AA
19928262 TCAATGTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 4 0.20
22 8 0.40
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.23
Consensus pattern (20 bp):
AAAAAATGATTTGGCAAAAA
Found at i:19929017 original size:120 final size:118
Alignment explanation
Indices: 19928723--19929050 Score: 353
Period size: 120 Copynumber: 2.7 Consensus size: 118
19928713 AGAAAAACTT
* * *
19928723 GGGTATTTATAGGGAAAACAAATTTATCTTTTTAATTTCTTTTATTATTT--TTTTTTAGAATTA
1 GGGTTTTTATAGGAAAAACAATTTTATCTTTTTAATTTCTTTTATT-TTTCCTTTTTTAGAATTA
* * * * * *
19928786 GTTTTAG-TTTTTCT-AGTAAAAGGAAAAAATGGGATTTTATAGAGAATTGTTT
65 ATTTTAGTTTTTTCTCAATAAAAGGAAAAAATGGAATATTATAGAAAATTGTTC
* * * * *
19928838 GGGTTTTTTTTTTTTAGGAAAACCTATTTTTATCCTTTTAATTT-TCTTTATTTTCCCTTTTTTA
1 GGG-----TTTTTATAGGAAAAAC-AATTTTATCTTTTTAATTTCT-TTTATTTTTCCTTTTTTA
*
19928902 GATTTAATTTTAGTTTTTTCTCAATAAAAGAGAAAAATATGGAATATTATAGAAAATTGTTC
59 GAATTAATTTTAGTTTTTTCTCAATAAAAG-GAAAAA-ATGGAATATTATAGAAAATTGTTC
* * *
19928964 GGGTTTTTATAAGAAAAACAATTTTATCTTTTTAATTTCTTTTATTTTTCCTTTTCTAAAATTAA
1 GGGTTTTTATAGGAAAAACAATTTTATCTTTTTAATTTCTTTTATTTTTCCTTTTTTAGAATTAA
19929029 TTTTTAGTTTTTT-TCAATAAAA
66 -TTTTAGTTTTTTCTCAATAAAA
19929051 AAAAGAAAAA
Statistics
Matches: 174, Mismatches: 24, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
115 3 0.02
120 62 0.36
121 48 0.28
122 18 0.10
123 7 0.04
124 7 0.04
125 6 0.03
126 23 0.13
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.52
Consensus pattern (118 bp):
GGGTTTTTATAGGAAAAACAATTTTATCTTTTTAATTTCTTTTATTTTTCCTTTTTTAGAATTAA
TTTTAGTTTTTTCTCAATAAAAGGAAAAAATGGAATATTATAGAAAATTGTTC
Found at i:19934569 original size:17 final size:18
Alignment explanation
Indices: 19934541--19934635 Score: 108
Period size: 17 Copynumber: 5.4 Consensus size: 18
19934531 TGAACCCACT
19934541 TTTAAGATTTATTTTAAGA
1 TTTAA-ATTTATTTTAAGA
19934560 -TTAAATTTATTTTGAA-A
1 TTTAAATTTATTTT-AAGA
*
19934577 TTTAAATTTATCTTAAG-
1 TTTAAATTTATTTTAAGA
* *
19934594 TTTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAAGA
*
19934612 TTTAAATTTAATTTAA-A
1 TTTAAATTTATTTTAAGA
19934629 TTTAAAT
1 TTTAAAT
19934636 ATAAATTTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
17 34 0.52
18 32 0.48
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (18 bp):
TTTAAATTTATTTTAAGA
Found at i:19934585 original size:6 final size:6
Alignment explanation
Indices: 19934560--19934676 Score: 102
Period size: 6 Copynumber: 19.8 Consensus size: 6
19934550 TATTTTAAGA
* * **
19934560 TTAAAT TT-ATT TTGAAAT TTAAAT TT--AT CTTAAGT TTAAAT TT-GTT
1 TTAAAT TTAAAT TT-AAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTAAAT
*
19934606 TTAAAAT TTAAAT TT-AAT TTAAAT TTAAAT ATAAAT TTAAAT TT-AAT
1 TT-AAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
19934653 TTAAAT TTAAAT ATAAAT ATTAAA
1 TTAAAT TTAAAT TTAAAT -TTAAA
19934677 GTCCATTGCA
Statistics
Matches: 89, Mismatches: 12, Indels: 19
0.74 0.10 0.16
Matches are distributed among these distances:
4 2 0.02
5 19 0.21
6 56 0.63
7 12 0.13
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (6 bp):
TTAAAT
Found at i:19934593 original size:35 final size:35
Alignment explanation
Indices: 19934541--19934664 Score: 61
Period size: 35 Copynumber: 3.7 Consensus size: 35
19934531 TGAACCCACT
**
19934541 TTTAAGATTTATTTT-AAGA-TTAAATTTATTTTGAAA
1 TTTAA-ATTTATTTTGAA-ATTTAAATTTAACTT-AAA
* * ***
19934577 TTTAAATTTATCTT-AAGTTTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTGAAATTTAAATTTAACTT-AAA
*
19934612 TTTAAATTTAATTT-AAATTTAAA--T-A--TAAA
1 TTTAAATTTATTTTGAAATTTAAATTTAACTTAAA
*
19934641 TTTAAATTTAATTT-AAATTTAAAT
1 TTTAAATTTATTTTGAAATTTAAAT
19934665 ATAAATATTA
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
29 26 0.33
30 1 0.01
33 1 0.01
35 45 0.58
36 5 0.06
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (35 bp):
TTTAAATTTATTTTGAAATTTAAATTTAACTTAAA
Found at i:19934641 original size:29 final size:29
Alignment explanation
Indices: 19934609--19934676 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
19934599 ATTTGTTTTA
19934609 AAATTTAAATTTAATTTAAATTTAAATAT
1 AAATTTAAATTTAATTTAAATTTAAATAT
19934638 AAATTTAAATTTAATTTAAATTTAAATAT
1 AAATTTAAATTTAATTTAAATTTAAATAT
19934667 AAATATTAAA
1 AAAT-TTAAA
19934677 GTCCATTGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 33 0.87
30 5 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
AAATTTAAATTTAATTTAAATTTAAATAT
Found at i:19934669 original size:23 final size:22
Alignment explanation
Indices: 19934595--19934675 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 22
19934585 TATCTTAAGT
**
19934595 TTAAATTTGTTTTAAAATTTAAA
1 TTAAATTTAATTT-AAATTTAAA
* *
19934618 TTTAATTTAAATTTAAATATAAA
1 TTAAATTT-AATTTAAATTTAAA
19934641 TTTAAATTTAATTTAAATTTAAA
1 -TTAAATTTAATTTAAATTTAAA
19934664 TATAAATATTAA
1 T-TAAAT-TTAA
19934676 AGTCCATTGC
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
22 1 0.02
23 33 0.69
24 14 0.29
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (22 bp):
TTAAATTTAATTTAAATTTAAA
Found at i:19935474 original size:25 final size:25
Alignment explanation
Indices: 19935440--19935511 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
19935430 ATATTTTCAT
19935440 TATTAATAATATTAATTAATATTAG
1 TATTAATAATATTAATTAATATTAG
*
19935465 TATTAATAATATTAATTAACATTAG
1 TATTAATAATATTAATTAATATTAG
* *
19935490 TATTAATAATAATAAATAATAT
1 TATTAATAATATTAATTAATAT
19935512 AATTAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (25 bp):
TATTAATAATATTAATTAATATTAG
Found at i:19936622 original size:30 final size:29
Alignment explanation
Indices: 19936588--19936822 Score: 151
Period size: 29 Copynumber: 8.0 Consensus size: 29
19936578 GAAAGTCCTT
19936588 AAACTGTCCAAAAATTACATTTTTACCTCC
1 AAACT-TCCAAAAATTACATTTTTACCTCC
*
19936618 AAACTT-CAAAAAATACATTTTTAACC-CC
1 AAACTTCCAAAAATTACATTTTT-ACCTCC
* *
19936646 GAAACTTCAAAAAATTACATTTTTGGCCT-C
1 -AAACTTCCAAAAATTACATTTTT-ACCTCC
* * ** * *
19936676 GAAGTTTTAAAAATTATATTTTTTCC-CTC
1 AAACTTCCAAAAATTACATTTTTACCTC-C
* * * *
19936705 AAACTTTCAAAAATTCCAATTTTGACCTCA
1 AAACTTCCAAAAATTAC-ATTTTTACCTCC
* *
19936735 AAACTTCCAAAAATTATATTTTTACCCCC
1 AAACTTCCAAAAATTACATTTTTACCTCC
* * *
19936764 GAA-TGCCCAAAAATT-CAATTTTTAACCTCG
1 AAACT-TCCAAAAATTAC-ATTTTT-ACCTCC
*
19936794 AAACTTTTCAAAAATTACCA-TTTTACCTC
1 AAAC-TTCCAAAAATTA-CATTTTTACCTC
19936823 GAATGCCCAA
Statistics
Matches: 157, Mismatches: 33, Indels: 30
0.71 0.15 0.14
Matches are distributed among these distances:
28 20 0.13
29 67 0.43
30 54 0.34
31 13 0.08
32 2 0.01
33 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTTACCTCC
Found at i:19936717 original size:59 final size:58
Alignment explanation
Indices: 19936596--19936757 Score: 152
Period size: 59 Copynumber: 2.8 Consensus size: 58
19936586 TTAAACTGTC
* * * * *
19936596 CAAAAATTAC-ATTTTTACCTCCAAACTT-CAAAAAATACATTTTTAACCC-CGAAACTT
1 CAAAAATTACAATTTTGACCTCAAAACTTCCAAAAATTATATTTTT-TCCCTC-AAACTT
* * * * **
19936653 CAAAAAATTACATTTTTGGCCTC-GAAGTTTTAAAAATTATATTTTTTCCCTCAAACTTT
1 C-AAAAATTACAATTTTGACCTCAAAACTTCCAAAAATTATATTTTTTCCCTCAAAC-TT
*
19936712 CAAAAATTCCAATTTTGACCTCAAAACTTCCAAAAATTATATTTTT
1 CAAAAATTACAATTTTGACCTCAAAACTTCCAAAAATTATATTTTT
19936758 ACCCCCGAAT
Statistics
Matches: 83, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
57 1 0.01
58 38 0.46
59 44 0.53
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (58 bp):
CAAAAATTACAATTTTGACCTCAAAACTTCCAAAAATTATATTTTTTCCCTCAAACTT
Found at i:19936773 original size:29 final size:28
Alignment explanation
Indices: 19936741--19936845 Score: 88
Period size: 29 Copynumber: 3.6 Consensus size: 28
19936731 CTCAAAACTT
*
19936741 CCAAAAATTATATTTTTACCCCCGAATGC
1 CCAAAAATTATATTTTTA-CCTCGAATGC
**
19936770 CCAAAAATTCA-ATTTTTAACCTCGAAACTTT
1 CCAAAAATT-ATATTTTT-ACCTCG-AA-TGC
* *
19936801 TCAAAAATTACCA-TTTTACCTCGAATGC
1 CCAAAAATTA-TATTTTTACCTCGAATGC
*
19936829 CCAAAAATTCTATTTTT
1 CCAAAAATTATATTTTT
19936846 GATCTTGATT
Statistics
Matches: 60, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
27 1 0.02
28 13 0.22
29 21 0.35
30 11 0.18
31 13 0.22
32 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (28 bp):
CCAAAAATTATATTTTTACCTCGAATGC
Found at i:19936775 original size:59 final size:59
Alignment explanation
Indices: 19936712--19936847 Score: 161
Period size: 59 Copynumber: 2.3 Consensus size: 59
19936702 CTCAAACTTT
*
19936712 CAAAAATTCCAATTTTGACCTCAAAAC-TTCCAAAAATTA-TATTTTTACCCCCGAATGCC
1 CAAAAATTCCAATTTTGACCTCAAAACTTTCCAAAAATTACCA-TTTTA-CCCCGAATGCC
* * * *
19936771 CAAAAATT-CAATTTTTAACCTCGAAACTTTTCAAAAATTACCATTTTACCTCGAATGCC
1 CAAAAATTCCAA-TTTTGACCTCAAAACTTTCCAAAAATTACCATTTTACCCCGAATGCC
* *
19936830 CAAAAATTCTATTTTTGA
1 CAAAAATTCCAATTTTGA
19936848 TCTTGATTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
58 3 0.05
59 44 0.68
60 17 0.26
61 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.34
Consensus pattern (59 bp):
CAAAAATTCCAATTTTGACCTCAAAACTTTCCAAAAATTACCATTTTACCCCGAATGCC
Found at i:19946048 original size:3 final size:3
Alignment explanation
Indices: 19946042--19946087 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
19946032 TAGGGTTTTA
19946042 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
19946088 TTGAAGTTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:19946623 original size:20 final size:20
Alignment explanation
Indices: 19946598--19946635 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19946588 AATCTCAAAC
19946598 CCTTAAA-CCCTAAACTTGAA
1 CCTTAAATCCC-AAACTTGAA
19946618 CCTTAAATCCCAAACTTG
1 CCTTAAATCCCAAACTTG
19946636 TAACATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.37, C:0.32, G:0.05, T:0.26
Consensus pattern (20 bp):
CCTTAAATCCCAAACTTGAA
Found at i:19948046 original size:17 final size:18
Alignment explanation
Indices: 19948008--19948054 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
19947998 ATATAATCCG
19948008 ATATTTTTATAATATTAT
1 ATATTTTTATAATATTAT
*
19948026 ATATTTTTGT-ATGATTA-
1 ATATTTTTATAAT-ATTAT
*
19948043 ATATTTTAATAA
1 ATATTTTTATAA
19948055 AAATATTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (18 bp):
ATATTTTTATAATATTAT
Found at i:19949493 original size:18 final size:18
Alignment explanation
Indices: 19949470--19949506 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
19949460 TGAATTAAGG
19949470 ATAAAAAATCTTATTTAA
1 ATAAAAAATCTTATTTAA
19949488 ATAAAAAATCTTATTTAA
1 ATAAAAAATCTTATTTAA
19949506 A
1 A
19949507 GGACCTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAAAAATCTTATTTAA
Found at i:19957312 original size:10 final size:10
Alignment explanation
Indices: 19957297--19957330 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
19957287 TTTCTACTAG
19957297 AATAATAATA
1 AATAATAATA
19957307 AATAATAATA
1 AATAATAATA
* *
19957317 TATAATAATT
1 AATAATAATA
19957327 AATA
1 AATA
19957331 TGTAATGTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AATAATAATA
Found at i:19959681 original size:26 final size:26
Alignment explanation
Indices: 19959631--19959684 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
19959621 TTGAAATTTT
* *
19959631 TTCGAATCGAATCGAGTGAAATGAAA
1 TTCGAATCGAATCGAATCAAATGAAA
* *
19959657 TTCGAATCGAGTCGAATCAAGTGAAA
1 TTCGAATCGAATCGAATCAAATGAAA
19959683 TT
1 TT
19959685 TTTTGAGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (26 bp):
TTCGAATCGAATCGAATCAAATGAAA
Found at i:19959916 original size:11 final size:11
Alignment explanation
Indices: 19959902--19959947 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
19959892 AATTTAGTTT
19959902 TTTTTTATATA
1 TTTTTTATATA
*
19959913 TTTTTTAGA-A
1 TTTTTTATATA
*
19959923 -TTTTTATAAA
1 TTTTTTATATA
*
19959933 TTTTTTAAATA
1 TTTTTTATATA
19959944 TTTT
1 TTTT
19959948 GATTTTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 7 0.24
10 2 0.07
11 20 0.69
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (11 bp):
TTTTTTATATA
Found at i:19961231 original size:19 final size:19
Alignment explanation
Indices: 19961167--19961236 Score: 86
Period size: 20 Copynumber: 3.6 Consensus size: 19
19961157 AAAAATAGAA
19961167 ATTTTGAAATTTTTATAAAT
1 ATTTTGAAATTTTTA-AAAT
**
19961187 ATTTTGAAATTTAAAAAATT
1 ATTTTGAAATTTTTAAAA-T
*
19961207 ATTTTGAATTTTTTAAAAT
1 ATTTTGAAATTTTTAAAAT
*
19961226 AATTTGAAATT
1 ATTTTGAAATT
19961237 AATTTTGTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
19 13 0.31
20 29 0.69
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (19 bp):
ATTTTGAAATTTTTAAAAT
Found at i:19975856 original size:22 final size:22
Alignment explanation
Indices: 19975812--19975856 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
19975802 TTTACTTTAC
* *
19975812 ATAATAATATTTTATAAGTAAT
1 ATAATAATATTATATAAGAAAT
19975834 ATAATAATATATATATAA-AAAT
1 ATAATAATAT-TATATAAGAAAT
19975856 A
1 A
19975857 AAAAAATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
ATAATAATATTATATAAGAAAT
Found at i:19977778 original size:20 final size:20
Alignment explanation
Indices: 19977741--19977778 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19977731 AATTTAATTA
*
19977741 AAACAATTTGAAGACTTTAG
1 AAACAATTTGAAAACTTTAG
19977761 AAACAATTT-AAAATCTTT
1 AAACAATTTGAAAA-CTTT
19977779 TAGGAGTAGT
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:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (20 bp):
AAACAATTTGAAAACTTTAG
Found at i:19980071 original size:21 final size:20
Alignment explanation
Indices: 19980047--19980088 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
19980037 AAAGGAAGAA
19980047 ATTTAAGA-AATAAGAATAAAT
1 ATTTAAGATAAT-A-AATAAAT
19980068 ATTTAAGATAATAAATAAAT
1 ATTTAAGATAATAAATAAAT
19980088 A
1 A
19980089 AATAAATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 9 0.45
22 3 0.15
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (20 bp):
ATTTAAGATAATAAATAAAT
Found at i:19981517 original size:53 final size:53
Alignment explanation
Indices: 19981441--19981633 Score: 287
Period size: 53 Copynumber: 3.6 Consensus size: 53
19981431 TTCACATTTG
* * *
19981441 ATAACTCATGATGACATAAAGTCATCGGACCTTTAATCCGTAATAGAATTCAT
1 ATAACTCACGATGACATAAAGTCATCGGACCTTTAATCCGAAATAGGATTCAT
* * *
19981494 ATAACTCACGATGGCATAGAGTCATCGGACCTTTAATTCGAAATAGGATTCAT
1 ATAACTCACGATGACATAAAGTCATCGGACCTTTAATCCGAAATAGGATTCAT
* * *
19981547 ATATCTCATGATGACATAGAGTCATCGGACCTTTAATCCGAAATAGGATTCAT
1 ATAACTCACGATGACATAAAGTCATCGGACCTTTAATCCGAAATAGGATTCAT
* *
19981600 ATAACTCACGATGACACAAAGTCATCAGACCTTT
1 ATAACTCACGATGACATAAAGTCATCGGACCTTT
19981634 TTGCATTTAC
Statistics
Matches: 125, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 125 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (53 bp):
ATAACTCACGATGACATAAAGTCATCGGACCTTTAATCCGAAATAGGATTCAT
Found at i:19984457 original size:24 final size:26
Alignment explanation
Indices: 19984420--19984467 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
19984410 AACCATTTAC
*
19984420 TTTATTAATATTTA-AATAAATATAA
1 TTTATTAATATTTATAAAAAATATAA
19984445 TTTATT-ATATTTATAAAAAATAT
1 TTTATTAATATTTATAAAAAATAT
19984468 TTGTATTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTATTAATATTTATAAAAAATATAA
Found at i:19986584 original size:14 final size:13
Alignment explanation
Indices: 19986565--19986619 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
19986555 TATTTTTCAA
*
19986565 AATAAATATTATTT
1 AATAAAT-TAATTT
19986579 AATAAATTAATTT
1 AATAAATTAATTT
* *
19986592 AATTAATTAAATT
1 AATAAATTAATTT
*
19986605 AGTTAAATTAATTT
1 A-ATAAATTAATTT
19986619 A
1 A
19986620 TCAATTGAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 17 0.50
14 17 0.50
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (13 bp):
AATAAATTAATTT
Found at i:19986597 original size:9 final size:9
Alignment explanation
Indices: 19986577--19986617 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
19986567 TAAATATTAT
19986577 TTAA-TAAA
1 TTAATTAAA
*
19986585 TTAATTTAA
1 TTAATTAAA
19986594 TTAATTAAA
1 TTAATTAAA
*
19986603 TTAGTTAAA
1 TTAATTAAA
19986612 TTAATT
1 TTAATT
19986618 TATCAATTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
8 4 0.14
9 24 0.86
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (9 bp):
TTAATTAAA
Found at i:19988283 original size:18 final size:18
Alignment explanation
Indices: 19988237--19988289 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
19988227 AAAAAAGCTC
*
19988237 GAACAATAAATACTAAAAT
1 GAACTATAAAT-CTAAAAT
*
19988256 GAACTTTAAATCTAAAAT
1 GAACTATAAATCTAAAAT
19988274 -AACGTATAAAT-TAAAA
1 GAAC-TATAAATCTAAAA
19988290 ATAATTCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 8 0.27
18 13 0.43
19 9 0.30
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.26
Consensus pattern (18 bp):
GAACTATAAATCTAAAAT
Found at i:19989753 original size:28 final size:28
Alignment explanation
Indices: 19989707--19989794 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
19989697 TGAGAGGTGG
* *
19989707 CACCTAGTGGAAGGATCCTAACAGGCGA
1 CACCTAGTGGAGGGTTCCTAACAGGCGA
* * *
19989735 CACCTAGTGGAGGGTTCCTGATAGGCGG
1 CACCTAGTGGAGGGTTCCTAACAGGCGA
* *
19989763 CACAC-AGTGGAGGGTACC-AGACAGACGA
1 CAC-CTAGTGGAGGGTTCCTA-ACAGGCGA
19989791 CACC
1 CACC
19989795 CGATTTTGTA
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
27 1 0.02
28 46 0.96
29 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.32, T:0.14
Consensus pattern (28 bp):
CACCTAGTGGAGGGTTCCTAACAGGCGA
Found at i:19992837 original size:24 final size:26
Alignment explanation
Indices: 19992810--19992857 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
19992800 AATAAAATAT
19992810 AAAAA-AAAACCAAAAGTT-TGTTAA
1 AAAAATAAAACCAAAAGTTGTGTTAA
* *
19992834 AAAAATTAACCCAAAAGTTGTGTT
1 AAAAATAAAACCAAAAGTTGTGTT
19992858 TTGAAATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 11 0.55
26 4 0.20
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.25
Consensus pattern (26 bp):
AAAAATAAAACCAAAAGTTGTGTTAA
Found at i:19994642 original size:31 final size:30
Alignment explanation
Indices: 19994604--19994703 Score: 146
Period size: 31 Copynumber: 3.2 Consensus size: 30
19994594 CCCTGACCAT
19994604 ATTAAATTACCGCAATAGTTAATACATCCTA
1 ATTAAATTACCGCAATAGTTAATACATCC-A
19994635 ATTAAATTACCGCAATAGTTAATACATCCCA
1 ATTAAATTACCGCAATAGTTAATACAT-CCA
* * *
19994666 ATTAAATTACCTCATTAGTTAATAAATCACA
1 ATTAAATTACCGCAATAGTTAATACATC-CA
19994697 ATTAAAT
1 ATTAAAT
19994704 AAAAGAATTA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
30 1 0.02
31 61 0.95
32 2 0.03
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (30 bp):
ATTAAATTACCGCAATAGTTAATACATCCA
Found at i:19995484 original size:17 final size:18
Alignment explanation
Indices: 19995455--19995490 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
19995445 CTTTCTTTTT
19995455 TTCTTCTTTCTTTCCATC
1 TTCTTCTTTCTTTCCATC
19995473 TTCTTC-TTCTTTCCATC
1 TTCTTCTTTCTTTCCATC
19995490 T
1 T
19995491 GTTACCGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.06, C:0.33, G:0.00, T:0.61
Consensus pattern (18 bp):
TTCTTCTTTCTTTCCATC
Found at i:19996449 original size:17 final size:16
Alignment explanation
Indices: 19996427--19996459 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
19996417 AGGCAATAAC
19996427 AGATGGAAAGAAGAAAA
1 AGATGGAAAGAA-AAAA
19996444 AGATGGAAAGAAAAAA
1 AGATGGAAAGAAAAAA
19996460 GAAGAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.06
Consensus pattern (16 bp):
AGATGGAAAGAAAAAA
Found at i:19997906 original size:39 final size:39
Alignment explanation
Indices: 19997863--19997938 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
19997853 TTTTCTTTTA
*
19997863 TTTTATATTATTGATATATTTCTATTTTATTTATTTCCT
1 TTTTATATTATTGATATATTTCTATTTCATTTATTTCCT
* *
19997902 TTTTATATTATTTATCTATTTCTATTTCATTTATTTC
1 TTTTATATTATTGATATATTTCTATTTCATTTATTTC
19997939 ATTTGCATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.22, C:0.09, G:0.01, T:0.67
Consensus pattern (39 bp):
TTTTATATTATTGATATATTTCTATTTCATTTATTTCCT
Found at i:19998521 original size:21 final size:21
Alignment explanation
Indices: 19998432--19998520 Score: 99
Period size: 21 Copynumber: 4.1 Consensus size: 21
19998422 ACAAAAAAGA
19998432 TTTGTCTAAGTCACTTCGCTTCTT
1 TTTGTCTAAGTCACTT--C-TCTT
*
19998456 TTTGTCTAAGTTACTTCTCTT
1 TTTGTCTAAGTCACTTCTCTT
* **
19998477 TTTGTCCAAGTTGCTTCTCTT
1 TTTGTCTAAGTCACTTCTCTT
*
19998498 TTTGTCTAACTCACTTC-CTT
1 TTTGTCTAAGTCACTTCTCTT
19998518 TTT
1 TTT
19998521 TCTTTGTGAG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
22 1 0.02
24 15 0.26
ACGTcount: A:0.12, C:0.24, G:0.10, T:0.54
Consensus pattern (21 bp):
TTTGTCTAAGTCACTTCTCTT
Found at i:20009002 original size:18 final size:18
Alignment explanation
Indices: 20008979--20009015 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
20008969 AGTTCTTTTC
20008979 TTTCTATTATATTAGTAT
1 TTTCTATTATATTAGTAT
*
20008997 TTTCTATTTTATTAGTAT
1 TTTCTATTATATTAGTAT
20009015 T
1 T
20009016 AGATTAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTCTATTATATTAGTAT
Found at i:20009036 original size:27 final size:27
Alignment explanation
Indices: 20008983--20009053 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
20008973 CTTTTCTTTC
* *
20008983 TATTATATTAGTATTTTCTATTTTATTAG
1 TATTAGATTAGTA--TTCTATTCTATTAG
20009012 TATTAGATTAGTATTCTATTCTATTAG
1 TATTAGATTAGTATTCTATTCTATTAG
*
20009039 TATTAGACTAGTATT
1 TATTAGATTAGTATT
20009054 AGTTAATGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
27 27 0.69
29 12 0.31
ACGTcount: A:0.30, C:0.06, G:0.10, T:0.55
Consensus pattern (27 bp):
TATTAGATTAGTATTCTATTCTATTAG
Found at i:20011572 original size:278 final size:276
Alignment explanation
Indices: 20011064--20011614 Score: 815
Period size: 278 Copynumber: 2.0 Consensus size: 276
20011054 TCCTTGGTAT
*
20011064 TTATCCACAACTACAATTTAGTCTAGTAAGTTCGTAATGTAAATTTGTATCTAAATATTTCTTAT
1 TTATCCACAACTACAATTTAGTCCAGTAAGTTCGTAATGTAAATTTGTATCTAAATATTTCTTAT
* * *
20011129 ATATATCTTATCATTTTTCAACAAATGGAAGGACTTGGATTTAAAGAGATTTGAAGACATGAAAC
66 ATATATCTTATCATTGTTCAACAAATGGAAGCACTTAGATTTAAAGAGATTTGAAGACATGAAAC
* * *
20011194 GAAAGAGAAAGTAGGCTATAAGCCGTTGAAAGATACCGACGCGATGGTTGAGGTATCGCATATGT
131 GAAAGAGAAAGTAGGCTATAAGCCGTTGAAAGATACCAAAGC-ATGG-TGAGGTATCACATATGT
* *
20011259 TGTGAGTCCTCGATAGCTCGTGTGAGCAAAATCGTGAGTCGAAAAATAGATATGAATCCTAAAAT
194 TGTGAGTCCTCGACAGCTCGTGTGAGCAAAATCGTGAGTCGAAAAAGAGATATGAATCCT-AAAT
20011324 -GATTATAAGCCCTGGTGC
258 GGATTATAAGCCCTGGTGC
**
20011342 TTATCCACAACTGTAATTTAGTCCAGTAAGTTCGTAATGTAAATTTGTATCTAAATATTTCTTAT
1 TTATCCACAACTACAATTTAGTCCAGTAAGTTCGTAATGTAAATTTGTATCTAAATATTTC----
*
20011407 ATATATATATATCTTATCATTGTTCAATAAATGGAAGCACTTAGATTTAAAGAGATTTGAAGACA
62 -T-TATATATATCTTATCATTGTTCAACAAATGGAAGCACTTAGATTTAAAGAGATTTGAAGACA
*
20011472 TGAAACGAAAGAGAAAGTAGGCTATTAGCCGTTGAAAGATACCAAAGC-T-G-G-GGTATCACAT
125 TGAAACGAAAGAGAAAGTAGGCTATAAGCCGTTGAAAGATACCAAAGCATGGTGAGGTATCACAT
* * * * *
20011533 ATGTTGTGAGTCCTCGACAGCTTGTTTGAGTAGAATCGTGAGTCGAAAAAGAGATATGAGTCCTA
190 ATGTTGTGAGTCCTCGACAGCTCGTGTGAGCAAAATCGTGAGTCGAAAAAGAGATATGAATCCTA
*
20011598 AATGGATTATAGGCCCT
255 AATGGATTATAAGCCCT
20011615 ATGATGGCTG
Statistics
Matches: 247, Mismatches: 19, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
277 4 0.02
278 136 0.55
279 1 0.00
281 1 0.00
282 1 0.00
283 1 0.00
284 103 0.42
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (276 bp):
TTATCCACAACTACAATTTAGTCCAGTAAGTTCGTAATGTAAATTTGTATCTAAATATTTCTTAT
ATATATCTTATCATTGTTCAACAAATGGAAGCACTTAGATTTAAAGAGATTTGAAGACATGAAAC
GAAAGAGAAAGTAGGCTATAAGCCGTTGAAAGATACCAAAGCATGGTGAGGTATCACATATGTTG
TGAGTCCTCGACAGCTCGTGTGAGCAAAATCGTGAGTCGAAAAAGAGATATGAATCCTAAATGGA
TTATAAGCCCTGGTGC
Found at i:20014671 original size:31 final size:33
Alignment explanation
Indices: 20014602--20014672 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
20014592 ATTCTAAATT
*
20014602 ATTAAATTGATAATTTATTTTAATTATACTTAA
1 ATTAAATTGATAATTTATTCTAATTATACTTAA
* *
20014635 GTTAAATT-ATTAATTT-TTCTATTTA-ACTTAA
1 ATTAAATTGA-TAATTTATTCTAATTATACTTAA
20014666 ATTAAAT
1 ATTAAAT
20014673 AATAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 12 0.36
32 8 0.24
33 13 0.39
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (33 bp):
ATTAAATTGATAATTTATTCTAATTATACTTAA
Found at i:20023661 original size:11 final size:11
Alignment explanation
Indices: 20023635--20023702 Score: 61
Period size: 11 Copynumber: 6.3 Consensus size: 11
20023625 TTTACTTTGA
20023635 AATTTAA-TTT
1 AATTTAATTTT
*
20023645 ATTTTAATTTT
1 AATTTAATTTT
20023656 AATTT-ATTTT
1 AATTTAATTTT
*
20023666 AAATTCAATTTT
1 -AATTTAATTTT
*
20023678 AATCTGAA-TTT
1 AAT-TTAATTTT
*
20023689 AATTTAAATTT
1 AATTTAATTTT
20023700 AAT
1 AAT
20023703 ATTATTATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
10 14 0.29
11 26 0.54
12 8 0.17
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.57
Consensus pattern (11 bp):
AATTTAATTTT
Found at i:20023664 original size:4 final size:5
Alignment explanation
Indices: 20023635--20023702 Score: 55
Period size: 5 Copynumber: 12.6 Consensus size: 5
20023625 TTTACTTTGA
* * * *
20023635 AATTT AATTT ATTTT AATTTT AATTT ATTTT AAATTC AATTTT AATCTG
1 AATTT AATTT AATTT AA-TTT AATTT AATTT -AATTT AA-TTT AAT-TT
20023684 AATTT AATTT AAATTT AAT
1 AATTT AATTT -AATTT AAT
20023703 ATTATTATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
5 29 0.58
6 21 0.42
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.57
Consensus pattern (5 bp):
AATTT
Found at i:20023675 original size:16 final size:16
Alignment explanation
Indices: 20023634--20023676 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
20023624 TTTTACTTTG
20023634 AAATTTAATTTATTTT
1 AAATTTAATTTATTTT
*
20023650 AATTTTAATTTATTTT
1 AAATTTAATTTATTTT
*
20023666 AAATTCAATTT
1 AAATTTAATTT
20023677 TAATCTGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
AAATTTAATTTATTTT
Found at i:20023676 original size:28 final size:28
Alignment explanation
Indices: 20023645--20023698 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
20023635 AATTTAATTT
* * *
20023645 ATTTTAATTTTAATTTATTTTAAATTCA
1 ATTTTAATCTGAATTTAATTTAAATTCA
20023673 ATTTTAATCTGAATTTAATTTAAATT
1 ATTTTAATCTGAATTTAATTTAAATT
20023699 TAATATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (28 bp):
ATTTTAATCTGAATTTAATTTAAATTCA
Found at i:20023678 original size:22 final size:23
Alignment explanation
Indices: 20023650--20023715 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 23
20023640 AATTTATTTT
20023650 AATTTTAAT-TTATTTTAAATTC
1 AATTTTAATATTATTTTAAATTC
* * * *
20023672 AATTTTAATCTGAATTT-AATTT
1 AATTTTAATATTATTTTAAATTC
* *
20023694 AAATTTAATATTATTATAAATT
1 AATTTTAATATTATTTTAAATT
20023716 AAAAAAAAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
22 25 0.74
23 9 0.26
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.55
Consensus pattern (23 bp):
AATTTTAATATTATTTTAAATTC
Found at i:20023694 original size:16 final size:16
Alignment explanation
Indices: 20023634--20023701 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
20023624 TTTTACTTTG
*
20023634 AAATTTAATTTATTTT
1 AAATTTAATTTAATTT
* *
20023650 AATTTTAATTTATTTT
1 AAATTTAATTTAATTT
* *
20023666 AAATTCAATTTTAATCT
1 AAATTTAA-TTTAATTT
*
20023683 GAATTTAATTTAAATTT
1 AAATTTAATTT-AATTT
20023700 AA
1 AA
20023702 TATTATTATA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
16 24 0.59
17 17 0.41
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (16 bp):
AAATTTAATTTAATTT
Found at i:20023715 original size:28 final size:28
Alignment explanation
Indices: 20023656--20023715 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
20023646 TTTTAATTTT
* * * *
20023656 AATTTATTTTAAATTCAATTTTAATCTG
1 AATTTAATTTAAATTCAATATTAATATA
* *
20023684 AATTTAATTTAAATTTAATATTATTATA
1 AATTTAATTTAAATTCAATATTAATATA
20023712 AATT
1 AATT
20023716 AAAAAAAAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (28 bp):
AATTTAATTTAAATTCAATATTAATATA
Found at i:20024421 original size:3 final size:3
Alignment explanation
Indices: 20024413--20024446 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
20024403 CAATAGCCAT
*
20024413 TAA TAA TAA TAG TAA TAA TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
20024447 TTAAATAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:20025339 original size:161 final size:161
Alignment explanation
Indices: 20025172--20025509 Score: 570
Period size: 161 Copynumber: 2.1 Consensus size: 161
20025162 CGTTTTCAAT
20025172 TTAGTCCTTCGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTGATTTATGTA
1 TTAGTCCTT-GACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTGATTTATGTA
*
20025237 TCTAGTCCATGTTATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTA-AA
65 TCTAGTCCATGTTATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTGTATTTAATTACAA
* *
20025301 AATTGGCCTAAGAATTTTTAAAGATTTATAAA
130 AATTGGCCCAAGAATTTTTAAAGATTTACAAA
*
20025333 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
1 TTAGTCC-TTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTGATTTATGTA
* *
20025398 TCTAGTCCTTGTTCTTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTGTATTTAATTACAA
65 TCTAGTCCATGTTATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTGTATTTAATTACAA
* *
20025463 AATTGGCCCAAGAATTTTTCAAGATTTACAAT
130 AATTGGCCCAAGAATTTTTAAAGATTTACAAA
20025495 TTAGTCCCTTGACTG
1 TTAGT-CCTTGACTG
20025510 CTGGATGCCT
Statistics
Matches: 166, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
161 120 0.72
162 44 0.27
163 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (161 bp):
TTAGTCCTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTGATTTATGTAT
CTAGTCCATGTTATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTGTATTTAATTACAAA
ATTGGCCCAAGAATTTTTAAAGATTTACAAA
Found at i:20025678 original size:59 final size:59
Alignment explanation
Indices: 20025611--20026183 Score: 777
Period size: 59 Copynumber: 9.8 Consensus size: 59
20025601 AAAATTTCAG
20025611 AAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCC
1 AAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCC
* * * **
20025670 AAAATTCCATTTTTAACCCCGGTTTCACC-AAAATTACCATTTTATCCCTAAACTTTCC
1 AAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCC
* *
20025728 AAAATTCCATTTTTAACCCTAATTTTATCC-AAAATTACCATTTTACCCCCGAACTTTCC
1 AAAATTCCATTTTTAACCCTGATTTCA-CCAAAAATTACCATTTTACCCCCGAACTTTCC
* * * *
20025787 AAAATTCCATTTTTAACCCCGATGTCATCAAAAATTACCATTTTACCCCCAAACTTTCC
1 AAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCC
* * * *
20025846 AAAATTCCATTTTTAACCCCGATTTCATC-AAAATTACCGTTTTACCCCCGAACTTTCT
1 AAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCC
* * *
20025904 AAGATTCCATTTTTAA-CCTCAATTTCATCAAAAATTACCATTTTACCCCCGAACTTTCC
1 AAAATTCCATTTTTAACCCT-GATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCC
** * *
20025963 AAAATTCCATTTTTAA-CCTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTCTCA
1 AAAATTCCATTTTTAACCCT-GATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCC
* *
20026022 AAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCTCG-ACTTTCT
1 AAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCC
* * ** * *
20026080 AAAATTCCATTTTTAACCCCGATTTTAGTAAAAATTACCATTTTA-CCCCGAACTCTCA
1 AAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCC
20026138 AAAATTCCATTTTTAA-CCTCGATTTCACC-AAAATTACCATTTTACC
1 AAAATTCCATTTTTAACCCT-GATTTCACCAAAAATTACCATTTTACC
20026184 TCCGGGTATC
Statistics
Matches: 456, Mismatches: 50, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
57 23 0.05
58 173 0.38
59 257 0.56
60 3 0.01
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (59 bp):
AAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCC
Found at i:20025789 original size:117 final size:117
Alignment explanation
Indices: 20025597--20026183 Score: 774
Period size: 117 Copynumber: 5.0 Consensus size: 117
20025587 TGCATCTTGA
* *
20025597 CCCCAAAATTTCAGAAAATTCCATTTTTAACCCTGATTTCA-CCAAAAATTACCATTTTACCCCC
1 CCCCAAACTTTC-CAAAATTCCATTTTTAACCCTGATTTCATCC-AAAATTACCATTTTACCCCC
* * *
20025661 GAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCACCAAAATTACCATTTTAT
64 GAACTTTCAAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTAC
* * *
20025715 CCCTAAACTTTCCAAAATTCCATTTTTAACCCTAATTTTATCCAAAATTACCATTTTACCCCCGA
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCATCCAAAATTACCATTTTACCCCCGA
* * *
20025780 ACTTTCCAAAATTCCATTTTTAACCCCGATGTCATCAAAAATTACCATTTTAC
66 ACTTTCAAAAATTCCATTTTTAACCCCGATTTCA-CCAAAATTACCATTTTAC
* *
20025833 CCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAT-CAAAATTACCGTTTTACCCCCGA
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCATCCAAAATTACCATTTTACCCCCGA
* * * * *
20025897 ACTTTCTAAGATTCCATTTTTAACCTCAATTTCATCAAAAATTACCATTTTAC
66 ACTTTCAAAAATTCCATTTTTAACCCCGATTTCA-CCAAAATTACCATTTTAC
* *
20025950 CCCCGAACTTTCCAAAATTCCATTTTTAA-CCTCGATTTCA-CCAAAAATTACCATTTTACCCCT
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCT-GATTTCATCC-AAAATTACCATTTTACCCCC
* * *
20026013 AAACTCTCAAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTAC
64 GAACTTTCAAAAATTCCATTTTTAACCCCGATTTCACC-AAAATTACCATTTTAC
* * * * * *
20026068 CCTC-GACTTTCTAAAATTCCATTTTTAACCCCGATTTTAGT-AAAAATTACCATTTTA-CCCCG
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCA-TCCAAAATTACCATTTTACCCCCG
* *
20026130 AACTCTCAAAAATTCCATTTTTAACCTCGATTTCACCAAAATTACCATTTTAC
65 AACTTTCAAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTAC
20026183 C
1 C
20026184 TCCGGGTATC
Statistics
Matches: 419, Mismatches: 41, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
115 17 0.04
116 40 0.10
117 229 0.55
118 133 0.32
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (117 bp):
CCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCATCCAAAATTACCATTTTACCCCCGA
ACTTTCAAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTAC
Found at i:20025913 original size:176 final size:176
Alignment explanation
Indices: 20025611--20026183 Score: 859
Period size: 176 Copynumber: 3.3 Consensus size: 176
20025601 AAAATTTCAG
* *
20025611 AAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATT
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATT
* * ** *
20025676 CCATTTTTAACCCCGGTTTCACCAAAATTACCATTTTATCCCTAAACTTTCCAAAATTCCATTTT
66 CCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCATTTT
*
20025741 TAACCCTAATTTTATCCAAAATTACCATTTTACCCCCGAACTTTCC
131 TAACCCTAATTTTATCAAAAATTACCATTTTACCCCCGAACTTTCC
* *
20025787 AAAATTCCATTTTTAACCCCGATGTCATCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATT
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATT
* * *
20025852 CCATTTTTAACCCCGATTTCATCAAAATTACCGTTTTACCCCCGAACTTTCTAAGATTCCATTTT
66 CCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCATTTT
*
20025917 TAA-CCTCAATTTCATCAAAAATTACCATTTTACCCCCGAACTTTCC
131 TAACCCT-AATTTTATCAAAAATTACCATTTTACCCCCGAACTTTCC
* * * *
20025963 AAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCTAAACTCTCAAAAATT
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATT
* *
20026028 CCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCTCG-ACTTTCTAAAATTCCATTT
66 CCATTTTTAACCCCGATTTCACC-AAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCATTT
** * *
20026092 TTAACCCCGATTTTAGT-AAAAATTACCATTTTA-CCCCGAACTCTCA
130 TTAACCCTAATTTTA-TCAAAAATTACCATTTTACCCCCGAACTTTCC
*
20026138 AAAATTCCATTTTTAACCTCGATTTCACC-AAAATTACCATTTTACC
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACC
20026184 TCCGGGTATC
Statistics
Matches: 363, Mismatches: 30, Indels: 10
0.90 0.07 0.02
Matches are distributed among these distances:
174 17 0.05
175 43 0.12
176 281 0.77
177 22 0.06
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (176 bp):
AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATT
CCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCATTTT
TAACCCTAATTTTATCAAAAATTACCATTTTACCCCCGAACTTTCC
Found at i:20038438 original size:76 final size:77
Alignment explanation
Indices: 20038311--20039067 Score: 1138
Period size: 78 Copynumber: 9.8 Consensus size: 77
20038301 CGCAGTAAGA
* * * *
20038311 TCATTCCCTATCCTCTTGAAACTGAAGTAGAGTTGGATAACACGTCTTTA-TCTCTGAAATTGAA
1 TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTACTCTCTGAAATTGAA
*
20038375 GTAAGAGCAAGG
66 GTAAGAGCAACG
* *
20038387 TCA-TTCCTTGTCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCCTTATCTCTCTGAAATTG
1 TCATTTCC-TATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTA-CTCTCTGAAATTG
20038451 AAGTAAGAGCAACG
64 AAGTAAGAGCAACG
* *
20038465 TCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACA-TCTTTAC-CTCTGAAATTGA
1 TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCA-AGTCTTTACTCTCTGAAATTGA
*
20038528 AGTAAGAGCAAGG
65 AGTAAGAGCAACG
* * *
20038541 TCATTCCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGACCTTATCTCTCTGAAATTGA
1 TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTA-CTCTCTGAAATTGA
*
20038606 AGTAAGGGCAACG
65 AGTAAGAGCAACG
* * *
20038619 TCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTA-TCTCTGAAATTGAA
1 TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTACTCTCTGAAATTGAA
20038683 GTAAGAGCAACG
66 GTAAGAGCAACG
20038695 TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTCTGAAATTGA
1 TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTA-CTCTCTGAAATTGA
20038760 AGTAAGAGCAACG
65 AGTAAGAGCAACG
*
20038773 TCATTTTCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTCTGAAATTGA
1 TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTA-CTCTCTGAAATTGA
20038838 AGTAAGAGCAACG
65 AGTAAGAGCAACG
* *
20038851 TCATTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACAGGTCTTTA-TCTCTGAAATTGAA
1 TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTACTCTCTGAAATTGAA
20038914 GTAAGAGCAA-G
66 GTAAGAGCAACG
* *
20038925 ATCATTTCCTATTCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTA-TCTTTGAAATTGA
1 -TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTACTCTCTGAAATTGA
20038989 AGTAAGAGCAA-G
65 AGTAAGAGCAACG
* * *
20039001 ATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGACTTTATCTCTCTGAAATTG
1 -TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTA-CTCTCTGAAATTG
20039066 AA
64 AA
20039068 AGCAAGATGA
Statistics
Matches: 625, Mismatches: 42, Indels: 26
0.90 0.06 0.04
Matches are distributed among these distances:
74 1 0.00
75 59 0.09
76 265 0.42
77 17 0.03
78 278 0.44
79 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (77 bp):
TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTACTCTCTGAAATTGAA
GTAAGAGCAACG
Found at i:20038591 original size:154 final size:154
Alignment explanation
Indices: 20038311--20039067 Score: 1150
Period size: 154 Copynumber: 4.9 Consensus size: 154
20038301 CGCAGTAAGA
* * *
20038311 TCATTCCCTATCCTCTTGAAACTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAG
1 TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACATCTTTATCTCTGAAATTGAAG
* * *
20038376 TAAGAGCAAGGTCATTCCTTGTCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCCTTATCTC
66 TAAGAGCAAGGTCATTCCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGACCTTATCTC
20038441 TCTGAAATTGAAGTAAGAGCAACG
131 TCTGAAATTGAAGTAAGAGCAACG
* *
20038465 TCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACATCTTTACCTCTGAAATTGAAG
1 TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACATCTTTATCTCTGAAATTGAAG
20038530 TAAGAGCAAGGTCATTCCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGACCTTATCTC
66 TAAGAGCAAGGTCATTCCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGACCTTATCTC
*
20038595 TCTGAAATTGAAGTAAGGGCAACG
131 TCTGAAATTGAAGTAAGAGCAACG
* *
20038619 TCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAG
1 TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACATCTTTATCTCTGAAATTGAAG
* * * *
20038684 TAAGAGCAACGTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTC
66 TAAGAGCAAGGTCATTCCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGACCTTATCTC
20038749 TCTGAAATTGAAGTAAGAGCAACG
131 TCTGAAATTGAAGTAAGAGCAACG
* *
20038773 TCATTTTCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCA-AGTCTTTATCTCTCTGAAATTG
1 TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACA-TCTTTA--TCTCTGAAATTG
* * * **
20038837 AAGTAAGAGCAACGTCATTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAAC-AGGTCTT-T
63 AAGTAAGAGCAAGGTCATTCCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGACCTTAT
*
20038899 ATCTCTGAAATTGAAGTAAGAGCAA-G
128 CTCTCTGAAATTGAAGTAAGAGCAACG
* * *
20038925 ATCATTTCCTATTCTCTTGAAATTGAAGTAGAGTTGGATATCA-AGTCTTTATCTTTGAAATTGA
1 -TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACA-TCTTTATCTCTGAAATTGA
* * *
20038989 AGTAAGAGCAAGATCGTTTCCC-ATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGACTTTAT
64 AGTAAGAGCAAGGTC-ATTCCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGACCTTAT
20039053 CTCTCTGAAATTGAA
128 CTCTCTGAAATTGAA
20039068 AGCAAGATGA
Statistics
Matches: 558, Mismatches: 37, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
151 48 0.09
152 12 0.02
153 77 0.14
154 356 0.64
155 7 0.01
156 58 0.10
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (154 bp):
TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACATCTTTATCTCTGAAATTGAAG
TAAGAGCAAGGTCATTCCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGACCTTATCTC
TCTGAAATTGAAGTAAGAGCAACG
Done.