Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold153
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: 3137677
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 22 of 24
Found at i:2856901 original size:15 final size:16
Alignment explanation
Indices: 2856860--2856930 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 16
2856850 TTAAAATTAA
*
2856860 AAATTTAATATTTTAT
1 AAATATAATATTTTAT
* *
2856876 TAATAAAAATATTTT-T
1 AAAT-ATAATATTTTAT
*
2856892 AAATATAATA---TAA
1 AAATATAATATTTTAT
2856905 AAATATAATATATTTAAT
1 AAATATAATAT-TTT-AT
2856923 AAATATAA
1 AAATATAA
2856931 AAAAATAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
12 1 0.02
13 10 0.24
15 5 0.12
16 7 0.17
17 9 0.22
18 9 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATATAATATTTTAT
Found at i:2856910 original size:13 final size:13
Alignment explanation
Indices: 2856892--2856938 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
2856882 AAATATTTTT
2856892 AAATATAATATAA
1 AAATATAATATAA
*
2856905 AAATATAATATATT
1 AAATATAATATA-A
*
2856919 TAATA-AATATAA
1 AAATATAATATAA
*
2856931 AAAAATAA
1 AAATATAA
2856939 ATTTAATATG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
12 3 0.11
13 20 0.74
14 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATATAATATAA
Found at i:2856914 original size:18 final size:18
Alignment explanation
Indices: 2856893--2856930 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2856883 AATATTTTTA
2856893 AATATAATATAA-AAATAT
1 AATAT-ATATAATAAATAT
*
2856911 AATATATTTAATAAATAT
1 AATATATATAATAAATAT
2856929 AA
1 AA
2856931 AAAAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AATATATATAATAAATAT
Found at i:2856915 original size:28 final size:26
Alignment explanation
Indices: 2856883--2856942 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
2856873 TATTAATAAA
*
2856883 AATATTTTTAAATATAATATAAAAATAT
1 AATATTTTT-AATA-AATATAAAAAAAT
*
2856911 AATATATTTAATAAATATAAAAAAAT
1 AATATTTTTAATAAATATAAAAAAAT
2856937 AA-ATTT
1 AATATTT
2856943 AATATGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 3 0.10
26 14 0.48
27 4 0.14
28 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
AATATTTTTAATAAATATAAAAAAAT
Found at i:2856922 original size:22 final size:22
Alignment explanation
Indices: 2856848--2856923 Score: 55
Period size: 22 Copynumber: 3.4 Consensus size: 22
2856838 CTGATTTGAC
* *
2856848 ATTTAAAATTAAAAATTTAATAT
1 ATTTAATA-TAAAAATATAATAT
* ** *
2856871 -TTTATTAATAAAAATATTTTTAA
1 ATTTAAT-ATAAAAATA-TAATAT
*
2856894 ATATAATATAAAAATATAATAT
1 ATTTAATATAAAAATATAATAT
2856916 ATTTAATA
1 ATTTAATA
2856924 AATATAAAAA
Statistics
Matches: 38, Mismatches: 12, Indels: 7
0.67 0.21 0.12
Matches are distributed among these distances:
22 21 0.55
23 13 0.34
24 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTTAATATAAAAATATAATAT
Found at i:2857499 original size:27 final size:25
Alignment explanation
Indices: 2857456--2857508 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
2857446 ATTTAATAAA
* *
2857456 TAAAAAAATTATTTAAATTTAATTT
1 TAAAAAAATTATATAAAATTAATTT
2857481 TAAAAAATATATATATAAAATTAATTT
1 TAAAAAA-AT-TATATAAAATTAATTT
2857508 T
1 T
2857509 TTAATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 2 0.08
27 15 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TAAAAAAATTATATAAAATTAATTT
Found at i:2862347 original size:176 final size:174
Alignment explanation
Indices: 2862006--2862363 Score: 465
Period size: 176 Copynumber: 2.0 Consensus size: 174
2861996 GCTTAAGTTG
* *
2862006 ATAAGAAATGATTAAATTATTATTTCATTAAATGCTTCTCAAGTGCAATTTGATTGAATGATAAC
1 ATAAAAAATGATTAAATTATTATTTCATTAAATGCTTCTCAAGTGCAAGTTGATTGAATGATAAC
* * * *
2862071 TTGCATGTGGACGTAGATATAGGGAAAAAAAAAGTATAAATTGAAGAAAGATTAAAGTGGTGATG
66 TTGCATATGGACGTAAATATA-GGAAAAAAAAAGTATAAATTAAAGAAAGATTAAAGAGGTGATG
* ** * *
2862136 GCAGTCTGATGGGTAATAATATGTTGGGGTGAAGAAATATTAAAGA
130 GCAGTCTAATGAATAATAATAGGTTGGGCTGAAGAAATATTAAA-A
* *
2862182 CTAAAAAATGATTAAATTATTATTTCATTAAATGCTTCTCAAGTGCAAGTTGATTGAATTATAAC
1 ATAAAAAATGATTAAATTATTATTTCATTAAATGCTTCTCAAGTGCAAGTTGATTGAATGATAAC
* *
2862247 TTGCGTATGGATGTAAATATA-GAAAAAAATATA-TATACAAATTAAAGAAAGATTAAAGCAGG-
66 TTGCATATGGACGTAAATATAGGAAAAAAA-A-AGTAT--AAATTAAAGAAAGATTAAAG-AGGT
*
2862309 GATGGCAGTTTAATGAATAATAA-AGGATT-GGCTGAAGAAATATTAAAA
126 GATGGCAGTCTAATGAATAATAATAGG-TTGGGCTGAAGAAATATTAAAA
2862357 ATAAAAA
1 ATAAAAA
2862364 TAGTTATCAA
Statistics
Matches: 159, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
174 8 0.05
175 11 0.07
176 98 0.62
177 40 0.25
178 2 0.01
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.30
Consensus pattern (174 bp):
ATAAAAAATGATTAAATTATTATTTCATTAAATGCTTCTCAAGTGCAAGTTGATTGAATGATAAC
TTGCATATGGACGTAAATATAGGAAAAAAAAAGTATAAATTAAAGAAAGATTAAAGAGGTGATGG
CAGTCTAATGAATAATAATAGGTTGGGCTGAAGAAATATTAAAA
Found at i:2867447 original size:3 final size:3
Alignment explanation
Indices: 2867439--2867476 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
2867429 GTTAGATCAA
*
2867439 AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2867477 ACTTTCTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:2868048 original size:21 final size:21
Alignment explanation
Indices: 2868024--2868063 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2868014 TTTTATATAT
2868024 ATTTAATAAT-TAAAATTTAAA
1 ATTTAA-AATATAAAATTTAAA
*
2868045 ATTTAAAATATATAATTTA
1 ATTTAAAATATAAAATTTA
2868064 TATGAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTTAAAATATAAAATTTAAA
Found at i:2870031 original size:14 final size:15
Alignment explanation
Indices: 2870007--2870035 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2869997 AGAAAATATT
2870007 TATATAATATTAAAA
1 TATATAATATTAAAA
2870022 TATA-AATATTAAAA
1 TATATAATATTAAAA
2870036 AATTGTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TATATAATATTAAAA
Found at i:2870135 original size:16 final size:18
Alignment explanation
Indices: 2870114--2870147 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
2870104 TATATATTTT
2870114 AAAAATA-ATAAA-ATAA
1 AAAAATAGATAAATATAA
2870130 AAAAATAGATAAATATAA
1 AAAAATAGATAAATATAA
2870148 TCGAACTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 5 0.31
18 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (18 bp):
AAAAATAGATAAATATAA
Found at i:2872360 original size:21 final size:23
Alignment explanation
Indices: 2872318--2872364 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2872308 TATTTTTAAT
2872318 TTTTTTATAATTAAATTAAATAA
1 TTTTTTATAATTAAATTAAATAA
**
2872341 TTTTTTATTGTTAAA-T-AATAA
1 TTTTTTATAATTAAATTAAATAA
2872362 TTT
1 TTT
2872365 AAATTGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.36
22 1 0.05
23 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTTTATAATTAAATTAAATAA
Found at i:2874116 original size:16 final size:17
Alignment explanation
Indices: 2874095--2874130 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2874085 CATGTTATAA
*
2874095 TTATATTTA-ATATATT
1 TTATATTTATATAAATT
2874111 TTATATTTATATAAATT
1 TTATATTTATATAAATT
2874128 TTA
1 TTA
2874131 ATATATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATATTTATATAAATT
Found at i:2874141 original size:18 final size:17
Alignment explanation
Indices: 2874096--2874142 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
2874086 ATGTTATAAT
*
2874096 TATATTTAATATATTTTA
1 TATATTT-ATAAATTTTA
2874114 TAT-TTATATAAATTTTAA
1 TATATT-TATAAATTTT-A
2874132 TATATTTATAA
1 TATATTTATAA
2874143 TTCGTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 10 0.40
18 13 0.52
19 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATTTATAAATTTTA
Found at i:2876243 original size:18 final size:19
Alignment explanation
Indices: 2876214--2876249 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2876204 AAGGTTCGTA
2876214 ATTATATATTAAAATTTAT
1 ATTATATATTAAAATTTAT
*
2876233 ATTAT-TATTAATATTTA
1 ATTATATATTAAAATTTA
2876250 AAAATCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTATATATTAAAATTTAT
Found at i:2877895 original size:51 final size:50
Alignment explanation
Indices: 2877773--2877908 Score: 148
Period size: 51 Copynumber: 2.6 Consensus size: 50
2877763 AAAATTAGTA
* * *
2877773 TTTTAGAGATAACAACGGGGCTAGAGTATCCCCGATTATGGAAAAACGGTG
1 TTTTAGAAATAA-AACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
* * * *
2877824 TTCTAAAAAATAAAATCGGGGTTAGAGTATCCTCGATTAT-GAAAAATTGATG
1 TT-TTAGAAATAAAA-CGGGGTTAGAGTATCCCCGATTATGGAAAAA-CGATG
*
2877876 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 TTTTAGAAATAAAA-CGGGGTTAGAGTATCCCC
2877909 TCAGAAATAA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
51 36 0.51
52 34 0.49
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (50 bp):
TTTTAGAAATAAAACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
Found at i:2877971 original size:79 final size:79
Alignment explanation
Indices: 2877840--2878334 Score: 873
Period size: 79 Copynumber: 6.3 Consensus size: 79
2877830 AAAATAAAAT
* *
2877840 CGGGGTTAGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
2877905 CCCCTCAGAAATAA
66 CCCCTCGGAAATAA
*
2877919 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
2877984 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
*
2877998 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
2878063 CCCCTTGGAAATAA
66 CCCCTCGGAAATAA
* *
2878077 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTATAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
2878142 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
*
2878156 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
2878221 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
* *
2878235 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
2878300 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
2878314 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2878335 GATTAACGGG
Statistics
Matches: 398, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 398 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:2878349 original size:27 final size:28
Alignment explanation
Indices: 2878286--2878361 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
2878276 GAAATAAAGC
***
2878286 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
2878314 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
2878341 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2878362 TGTGAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:2879648 original size:35 final size:35
Alignment explanation
Indices: 2879574--2879815 Score: 423
Period size: 35 Copynumber: 6.9 Consensus size: 35
2879564 TTTCATTTTT
2879574 ATGCCCATCATTCCATGCCTTCATTTTT-TATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
2879608 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
2879643 ATGCCCATCATTCCATGCCTTCATTTTTATATTAC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
2879678 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
2879713 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
2879748 ATGCCCATCATTCCATGCCTTTATTTTTTATTATTCC
1 ATGCCCATCATTCCATGCCTTCA-TTTTTA-TATTCC
*
2879785 ATGCCCATCATTCCATGCCTTTATTTATTAT
1 ATGCCCATCATTCCATGCCTTCATTT-TTAT
2879816 TATTATTATT
Statistics
Matches: 201, Mismatches: 3, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
34 28 0.14
35 131 0.65
36 10 0.05
37 32 0.16
ACGTcount: A:0.20, C:0.30, G:0.06, T:0.44
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
Found at i:2879863 original size:6 final size:6
Alignment explanation
Indices: 2879829--2879855 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2879819 TATTATTATT
2879829 TTTGAA TTTGAA TTTGAA TTTGAA TTT
1 TTTGAA TTTGAA TTTGAA TTTGAA TTT
2879856 TTGATTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTGAA
Found at i:2880480 original size:36 final size:36
Alignment explanation
Indices: 2880440--2880539 Score: 137
Period size: 36 Copynumber: 2.8 Consensus size: 36
2880430 ACGAAATACT
* *
2880440 TCCTGCTCTCTAAGGACAAAAGAAAAATAAAGTGCA
1 TCCTGCTCTTTGAGGACAAAAGAAAAATAAAGTGCA
* *
2880476 TCCTGCTCTTTGAGGACAAAAGAGAAATAAAGTGCG
1 TCCTGCTCTTTGAGGACAAAAGAAAAATAAAGTGCA
* *
2880512 TCATGCTTTTTGAGGACAAAAGAGAAAA
1 TCCTGCTCTTTGAGGACAAAAGA-AAAA
2880540 GAAGGGAAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
36 53 0.95
37 3 0.05
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (36 bp):
TCCTGCTCTTTGAGGACAAAAGAAAAATAAAGTGCA
Found at i:2880569 original size:45 final size:45
Alignment explanation
Indices: 2880505--2880618 Score: 185
Period size: 45 Copynumber: 2.5 Consensus size: 45
2880495 AAGAGAAATA
* * *
2880505 AAGTGCGTCATGCTTTTTGAGGACAAAAGAGAAA-AGAAGGGAAAG
1 AAGTGTGTCCTGCTCTTTGAGGACAAAAGAGAAATA-AAGGGAAAG
2880550 AAGTGTGTCCTGCTCTTTGAGGACAAAAGAGAAATAAAGGGAAAG
1 AAGTGTGTCCTGCTCTTTGAGGACAAAAGAGAAATAAAGGGAAAG
2880595 AAGTGTGTCCTGCTCTTTGAGGAC
1 AAGTGTGTCCTGCTCTTTGAGGAC
2880619 TGAAAAGTGC
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
45 64 0.98
46 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.22
Consensus pattern (45 bp):
AAGTGTGTCCTGCTCTTTGAGGACAAAAGAGAAATAAAGGGAAAG
Found at i:2880696 original size:61 final size:61
Alignment explanation
Indices: 2880601--2881848 Score: 567
Period size: 55 Copynumber: 21.3 Consensus size: 61
2880591 AAAGAAGTGT
* **
2880601 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTGAAAAGAAAAGGC
* * *
2880662 GTCCTACGCTTTGAGGACTG-GAAGATGCCACCAACTAGTGTGGGATTTGCAAAA-AGAAA-GC
1 GTCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTAGTGTGGGATTTG-AAAAGA-AAAGGC
*
2880723 ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTA-TGTGGGATTT-AAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAAC-TAGTGTGGGATTTGAAAAGAAAAGGC
* * * *
2880783 GTCCTGTTCTTTGAGGACTG-GAAGATGTCACCAACTAGTGTGAGATTTGCAAAA-AGAAA-GC
1 GTCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTAGTGTGGGATTTG-AAAAGA-AAAGGC
* * * * *
2880844 ATCTTGCTCTTTGAGGACTGAAAAGTGCCACTAACTTGTGTGGGCTTT------AAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTGAAAAGAAAAGGC
* * * ** * *** * **
2880899 GTCCTGCTCTTTGAGGACT--AAAGGGCGA-AAGGAGAAAGCGTCTTACTCTTTG--AGGACTAG
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCA--A-CTAGTGTGGGA---TTTGAAAAGAAAAG
*
2880959 GAA
60 G-C
* * * * ** * * * * *
2880962 GTGCC-ACAAACTTGTGTGGGATTTGCAAAAAAAAAG-CATCATGCT-CTTTGAGGACTAAATGA
1 GT-CCTGC--TCTT-TG-AGGA-CTG----AAAAGTGCCACCA-ACTAGTGTG-GGA-T--TTGA
* *
2881024 CGAAAGGAGAGAGC
51 --AAAGAAAAG-GC
* * * *
2881038 GTTCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGC
1 GTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTAGTGTGGGATTTGAAAAGAAAAGGC
* * * * *
2881093 GTCCTGCTCTTTGAGGACTGAAAGGTGCCTACCAACTTGTATGGGCTTT-----G-AAATGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCC-ACCAACTAGTGTGGGATTTGAAAAGAAAAGGC
* * * * * * *
2881149 GTCCTGCTCTTTGAAGACTGAAAGGTGCTACCAACTTGTGTGGGCTTTGAAAGGCAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTGAAAAGAAAAGGC
* * *
2881210 GTCCTGCTCTTTGAGGATTAGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGC
1 GTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTAGTGTGGGATTTGAAAAGAAAAGGC
* * *
2881266 GTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT----A-AAAA-GC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTGAAAAGAAAAGGC
* *
2881321 GTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-----G-AAAGGC
1 GTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTAGTGTGGGATTTGAAAAGAAAAGGC
* * * * * *
2881376 GTCCTGCTCTTTAAGGACTAGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA-GC
1 GTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTAGTGTGGGATTTGAAAAGA-AAAGGC
* * *
2881438 ATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT---AAG---AGGC
1 GTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTAGTGTGGGATTTGAAAAGAAAAGGC
* * * *
2881493 ATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT---AAG---TGGC
1 GTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTAGTGTGGGATTTGAAAAGAAAAGGC
* * * * *
2881548 ATCCTGCTCTTTGAGGACTGAAAAATCCCACCAACTTGTGTGGGCTTTG---AG---AGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTGAAAAGAAAAGGC
* ** * *
2881603 GTCCTGCTTTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTG---AG---AGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTGAAAAGAAAAGGC
* ** * *
2881658 ATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG--AA---
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTGAAAAGAAAAGGC
* * *
2881713 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTGAAAAGAAAAGGC
* * * *
2881768 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTGAAAAGAAAAGGC
*
2881829 GTCTTGCTCTTTGAGGACTG
1 GTCCTGCTCTTTGAGGACTG
2881849 GAAGAGCTAA
Statistics
Matches: 976, Mismatches: 121, Indels: 180
0.76 0.09 0.14
Matches are distributed among these distances:
52 3 0.00
53 7 0.01
54 13 0.01
55 451 0.46
56 110 0.11
57 2 0.00
58 7 0.01
59 12 0.01
60 43 0.04
61 189 0.19
62 75 0.08
63 6 0.01
64 3 0.00
65 3 0.00
66 4 0.00
67 10 0.01
68 8 0.01
70 2 0.00
71 2 0.00
72 6 0.01
73 3 0.00
74 8 0.01
75 1 0.00
76 7 0.01
77 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTGAAAAGAAAAGGC
Found at i:2881308 original size:55 final size:55
Alignment explanation
Indices: 2881036--2881848 Score: 1022
Period size: 55 Copynumber: 14.4 Consensus size: 55
2881026 AAAGGAGAGA
* *
2881036 GCGTTCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
2881091 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCTACCAACTTGTATGGGCTTTGAAAT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCC-ACCAACTTGTGTGGGCTTTAAAAG
* * *
2881147 GCGTCCTGCTCTTTGAAGACTGAAAGGTGCTACCAACTTGTGTGGGCTTTGAAAGGCAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT---A---AAAG
*
2881208 GCGTCCTGCTCTTTGAGGATTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
2881264 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAA
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
2881319 GCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
2881374 GCGTCCTGCTCTTTAAGGACTAGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT--AAA-AG
* *
2881433 AAAGCATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAGAG
1 ---GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* **
2881491 GCATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAGTG
1 GCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * * *
2881546 GCATCCTGCTCTTTGAGGACTGAAAAATCCCACCAACTTGTGTGGGCTTTGAGAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* ** * *
2881601 GCGTCCTGCTTTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAGAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* **
2881656 GCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
** *
2881711 AAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
2881766 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAG
*
2881827 GCGTCTTGCTCTTTGAGGACTG
1 GCGTCCTGCTCTTTGAGGACTG
2881849 GAAGAGCTAA
Statistics
Matches: 680, Mismatches: 54, Indels: 42
0.88 0.07 0.05
Matches are distributed among these distances:
54 5 0.01
55 443 0.65
56 103 0.15
58 4 0.01
59 5 0.01
61 71 0.10
62 49 0.07
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:2881333 original size:172 final size:167
Alignment explanation
Indices: 2881036--2881821 Score: 1048
Period size: 172 Copynumber: 4.7 Consensus size: 167
2881026 AAAGGAGAGA
* *
2881036 GCGTTCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
* * * * * *
2881100 TCTTTGAGGACTGAAAGGTGCCTACCAACTTGTATGGGCTTTGAAATGCGTCCTGCTCTTTGAAG
66 TCTTTGAGGACTGAAAAGTGCC-ACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGG
* *
2881165 ACT-GAAAGGTGCTACCAACTTGTGTGGGCTTTGAAAGGCAAAG
130 ACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT--AA-G--AAG
*
2881208 GCGTCCTGCTCTTTGAGGATTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
* * *
2881273 TCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTCTTTGAGGA
66 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGA
*
2881338 CTGGAAAATGCCACCAACTTGTGTGGGCTTTGA-AAG
131 CTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAAG
* * * *
2881374 GCGTCCTGCTCTTTAAGGACTAGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCA
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT--AAA-AG---GCG
*
2881439 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAGAGGCATCCTGCTCT
60 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
*
2881503 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAG-TG
124 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAAG
* * * * *
2881546 GCATCCTGCTCTTTGAGGACT-GAAAAATCCCACCAACTTGTGTGGGCTTTGAGAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
* ** * *
2881610 TTTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAGAGGCATCCTGCTCTTTGAGGA
66 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGA
* *
2881675 CTGGGAAGTGCCACCAACTTGTGTGGGCTTTAA-AAG
131 CTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAAG
** *
2881711 AAGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
* *
2881775 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
66 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
2881822 AAAAGGCGTC
Statistics
Matches: 551, Mismatches: 51, Indels: 31
0.87 0.08 0.05
Matches are distributed among these distances:
164 3 0.01
165 195 0.35
166 50 0.09
168 5 0.01
169 3 0.01
170 1 0.00
171 25 0.05
172 200 0.36
173 69 0.13
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (167 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGA
CTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAAG
Found at i:2882871 original size:13 final size:13
Alignment explanation
Indices: 2882853--2882909 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
2882843 CATAAAGTGT
2882853 TGTATCGATACAA
1 TGTATCGATACAA
2882866 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
2882881 GTGTTGTATCGATATAA
1 ----TGTATCGATACAA
2882898 TGTATCGATACA
1 TGTATCGATACA
2882910 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2882888 original size:32 final size:32
Alignment explanation
Indices: 2882833--2882933 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
2882823 TTCAACGATT
2882833 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
2882866 TGTATCGATACATAAGTGTTGTATCGATATAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2882898 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2882930 TGTA
1 TGTA
2882934 AGCTACTGCC
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 52 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2882890 original size:19 final size:18
Alignment explanation
Indices: 2882831--2882928 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
2882821 ATTTCAACGA
2882831 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
2882850 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
2882866 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2882882 TGTTGTATCGAT--ATAA-
1 T-TTGTATCGATACATAAG
2882898 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2882914 TTTTGTATCGATACA
1 -TTTGTATCGATACA
2882929 ATGTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 20 0.30
15 6 0.09
17 6 0.09
19 22 0.33
20 12 0.18
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:2882989 original size:13 final size:13
Alignment explanation
Indices: 2882971--2882995 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2882961 ATTACTCAAA
2882971 TGTATCGATACAT
1 TGTATCGATACAT
2882984 TGTATCGATACA
1 TGTATCGATACA
2882996 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2883047 original size:52 final size:52
Alignment explanation
Indices: 2883004--2883132 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
2882994 CACTGATCTT
2883004 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2883056 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2883108 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2883133 TCATATTTCG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2891509 original size:79 final size:78
Alignment explanation
Indices: 2891418--2891908 Score: 802
Period size: 79 Copynumber: 6.2 Consensus size: 78
2891408 AAAATAAAAT
* *
2891418 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGTGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACAG-GGTTGGAGTAT
*
2891483 CCCCTCGAAAATAA
65 CCCCTCGGAAATAA
*
2891497 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAA-CAGGGTTGGAGTAT
2891562 CCCCTCGGAAATAA
65 CCCCTCGGAAATAA
* *
2891576 CAGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAA-CAGGGTTGGAGTAT
*
2891641 CCCCTCGAAAATAA
65 CCCCTCGGAAATAA
2891655 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC-AGGGTTGGAGTAT
2891720 CCCCTCGGAAATAA
65 CCCCTCGGAAATAA
* * *
2891734 CGGGGTTGGAGTATCCCCGATTATGAGAAATTGATGTTTTAGAAATAAAGCCAGTGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAA-ACAGGGTTGGAGTAT
2891799 CCCCTCGGAAATAA
65 CCCCTCGGAAATAA
* * *
2891813 CAGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAGCCAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAA-ACAGGGTTGGAGTAT
2891878 CCCCTCGGAAATAA
65 CCCCTCGGAAATAA
*
2891892 CGGGGTTAGAGTATCCC
1 CGGGGTTGGAGTATCCC
2891909 GATGATTAAC
Statistics
Matches: 392, Mismatches: 17, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
78 1 0.00
79 388 0.99
80 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACAGGGTTGGAGTATC
CCCTCGGAAATAA
Found at i:2893238 original size:35 final size:35
Alignment explanation
Indices: 2893154--2893361 Score: 330
Period size: 35 Copynumber: 5.9 Consensus size: 35
2893144 TTTTATTTTT
*
2893154 ATGCCCATCATTTCATGCCTTCATTTTT-TATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
* *
2893188 ATGTCCATCATTCCATGCCTTCATTTTTATATTTC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
2893223 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
2893258 ATGCCCATCATTCCATGCCTTCATTTTTATATTTC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
2893293 ATGCCCATCATTCCATACCTTCATTTTTTATTATTCC
1 ATGCCCATCATTCCATGCCTTCA-TTTTTA-TATTCC
*
2893330 ATGTCCATCATTCCATGCCTTCATTTTT-TATT
1 ATGCCCATCATTCCATGCCTTCATTTTTATATT
2893362 ATTATTATTT
Statistics
Matches: 161, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
34 30 0.19
35 94 0.58
36 11 0.07
37 26 0.16
ACGTcount: A:0.20, C:0.28, G:0.05, T:0.47
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
Found at i:2893393 original size:12 final size:13
Alignment explanation
Indices: 2893371--2893399 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2893361 TATTATTATT
2893371 TTTTGAATTTTAA
1 TTTTGAATTTTAA
2893384 TTTT-AATTTTAA
1 TTTTGAATTTTAA
2893396 TTTT
1 TTTT
2893400 TGATTTTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTGAATTTTAA
Found at i:2893949 original size:3 final size:3
Alignment explanation
Indices: 2893941--2893987 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
2893931 TATATATTTT
*
2893941 ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2893988 TTTATTTTAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2895226 original size:3 final size:3
Alignment explanation
Indices: 2895218--2895243 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2895208 ATCTGGAAAT
2895218 TGC TGC TGC TGC TGC TGC TGC TGC TG
1 TGC TGC TGC TGC TGC TGC TGC TGC TG
2895244 ATGATGATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.35, T:0.35
Consensus pattern (3 bp):
TGC
Found at i:2895751 original size:123 final size:123
Alignment explanation
Indices: 2895591--2895812 Score: 356
Period size: 123 Copynumber: 1.8 Consensus size: 123
2895581 ATCCAATATC
* *
2895591 CTTGATTCTGTGTTTCGGTTTGAGGAAAAATCCCATGTTCTTGATGATCCTGGGCTTGC-GTTAG
1 CTTGATTCTGGGTTTCAGTTTGAGGAAAAATCCCATGTTCTTGATGATCCTGGGCTT-CAGTTAG
*
2895655 AGGTTGAATCCTTGATTCTTGATTCTGGGTTTCAGCTCGATTACATGGAAAACAGTATT
65 AGGTTGAATCCTAGATTCTTGATTCTGGGTTTCAGCTCGATTACATGGAAAACAGTATT
* * * * *
2895714 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCTCATGTTCTTGATGATTCTGTGCTTCAGTTTGA
1 CTTGATTCTGGGTTTCAGTTTGAGGAAAAATCCCATGTTCTTGATGATCCTGGGCTTCAGTTAGA
2895779 GGTTGAATCCTAGATTCTTGATTCTGGGTTTCAG
66 GGTTGAATCCTAGATTCTTGATTCTGGGTTTCAG
2895813 TTTGAGCTGG
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
122 1 0.01
123 89 0.99
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (123 bp):
CTTGATTCTGGGTTTCAGTTTGAGGAAAAATCCCATGTTCTTGATGATCCTGGGCTTCAGTTAGA
GGTTGAATCCTAGATTCTTGATTCTGGGTTTCAGCTCGATTACATGGAAAACAGTATT
Found at i:2897132 original size:46 final size:46
Alignment explanation
Indices: 2897071--2897159 Score: 128
Period size: 46 Copynumber: 1.9 Consensus size: 46
2897061 TTTATTTTGA
* *
2897071 TAGTGTTTATAATAAAATAAAATTAGAGTTTTAA-TAGATTTTGGTC
1 TAGTGTTTATAATAAAA-AAAATTAAAATTTTAAGTAGATTTTGGTC
2897117 TAGTGTTTA-AGATAAAAAAAATTAAAATTTTAAGTAGATTTTG
1 TAGTGTTTATA-ATAAAAAAAATTAAAATTTTAAGTAGATTTTG
2897160 ATTACTTCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 15 0.38
46 24 0.62
ACGTcount: A:0.43, C:0.01, G:0.15, T:0.42
Consensus pattern (46 bp):
TAGTGTTTATAATAAAAAAAATTAAAATTTTAAGTAGATTTTGGTC
Found at i:2898160 original size:25 final size:24
Alignment explanation
Indices: 2898132--2898209 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 24
2898122 ATGTTATGTC
*
2898132 TATTTATTTTATCATATTATAATTA
1 TATTTATTTTAT-ATTTTATAATTA
* *
2898157 TATTTA--ATATATTTTATATTTA
1 TATTTATTTTATATTTTATAATTA
*
2898179 TATATATTTTGATAATTTTATAATTCA
1 TATTTATTTT-AT-ATTTTATAATT-A
2898206 TATT
1 TATT
2898210 ATATAGTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
22 15 0.37
23 3 0.07
24 1 0.02
25 8 0.20
26 10 0.24
27 4 0.10
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (24 bp):
TATTTATTTTATATTTTATAATTA
Found at i:2898175 original size:16 final size:17
Alignment explanation
Indices: 2898154--2898188 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
2898144 CATATTATAA
2898154 TTATATTTA-ATATATT
1 TTATATTTATATATATT
2898170 TTATATTTATATATATT
1 TTATATTTATATATATT
2898187 TT
1 TT
2898189 GATAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATATTTATATATATT
Found at i:2901044 original size:2 final size:2
Alignment explanation
Indices: 2901037--2901075 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2901027 ATCCTTCTTT
2901037 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2901076 GTACGTATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2901406 original size:15 final size:15
Alignment explanation
Indices: 2901381--2901438 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
2901371 CATACATTTT
2901381 TTAAAAA-ATATTAA
1 TTAAAAATATATTAA
*
2901395 TAAAAAATATATTTAA
1 TTAAAAATATA-TTAA
**
2901411 TTATTAATA-ATTAAA
1 TTAAAAATATATT-AA
2901426 TTAAAAATATATT
1 TTAAAAATATATT
2901439 TAAAAAGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 8 0.24
15 13 0.38
16 13 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAAATATATTAA
Found at i:2901506 original size:41 final size:38
Alignment explanation
Indices: 2901468--2901547 Score: 106
Period size: 38 Copynumber: 2.0 Consensus size: 38
2901458 AGATTTAAAT
2901468 AAAATTAAATTATTTTTTATAAATATAAATAAATTTTAATAA
1 AAAATT-AATTATTTT-T-TAAAT-TAAATAAATTTTAATAA
*
2901510 AAAATTACTTATTTTTTAAATTAAATAAATTTATAATA
1 AAAATTAATTATTTTTTAAATTAAATAAATTT-TAATA
2901548 CGTTAATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
38 11 0.31
39 10 0.28
40 1 0.03
41 8 0.22
42 6 0.17
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (38 bp):
AAAATTAATTATTTTTTAAATTAAATAAATTTTAATAA
Found at i:2901547 original size:39 final size:37
Alignment explanation
Indices: 2901474--2901547 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 37
2901464 AAATAAAATT
2901474 AAATTATTTTTTATAAATATAAATAAATTTTAATAAA
1 AAATTATTTTTTATAAATATAAATAAATTTTAATAAA
*
2901511 AAATTACTTATTTTTTAAAT-TAAATAAATTTATAATA
1 AAATTA-TT-TTTTATAAATATAAATAAATTT-TAATA
2901548 CGTTAATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
37 6 0.18
38 13 0.39
39 14 0.42
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (37 bp):
AAATTATTTTTTATAAATATAAATAAATTTTAATAAA
Found at i:2902422 original size:42 final size:39
Alignment explanation
Indices: 2902362--2902589 Score: 171
Period size: 42 Copynumber: 5.6 Consensus size: 39
2902352 ATCCAATATC
*
2902362 CTTGATTCTGGGTTTCAGTTTGAGGTAAAATCCCATGTT
1 CTTGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATGTT
**
2902401 CTTGATGATGCTGGGCTTCAGTTTGAGGTTGAAT--CATGGGTT
1 CTTGAT--T-CTGGGCTTCAGTTTGAGGTAAAATCCCAT--GTT
* *
2902443 CTTGATTCTGGGCTTCAGCTTGAGGAGATGGAAAA---CAGTATT
1 CTTGATTCTGGGCTTCAGTTTGA-G-G-T--AAAATCCCA-TGTT
* *
2902485 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTT
1 CTTGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATGTT
* ** *
2902524 CTTGATGATTCTGTGCTTCAGTTTGAGGTTGAATCCTA-GATT
1 C-T--TGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATG-TT
*
2902566 CTTGATTCTGGGTTTCAGTTTGAG
1 CTTGATTCTGGGCTTCAGTTTGAG
2902590 CTGGAAATAT
Statistics
Matches: 152, Mismatches: 19, Indels: 36
0.73 0.09 0.17
Matches are distributed among these distances:
37 4 0.03
39 45 0.30
40 9 0.06
41 5 0.03
42 84 0.55
43 2 0.01
44 3 0.02
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (39 bp):
CTTGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATGTT
Found at i:2902525 original size:123 final size:123
Alignment explanation
Indices: 2902362--2902589 Score: 384
Period size: 123 Copynumber: 1.9 Consensus size: 123
2902352 ATCCAATATC
*
2902362 CTTGATTCTGGGTTTCAGTTTGAGGTAAAATCCCATGTTCTTGATGATGCTGGGCTTCAGTTTGA
1 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATGCTGGGCTTCAGTTTGA
* *
2902427 GGTTGAATCATGGGTTCTTGATTCTGGGCTTCAGCTTGAGGAGATGGAAAACAGTATT
66 GGTTGAATCATAGATTCTTGATTCTGGGCTTCAGCTTGAGGAGATGGAAAACAGTATT
* *
2902485 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATTCTGTGCTTCAGTTTGA
1 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATGCTGGGCTTCAGTTTGA
* * *
2902550 GGTTGAATCCTAGATTCTTGATTCTGGGTTTCAGTTTGAG
66 GGTTGAATCATAGATTCTTGATTCTGGGCTTCAGCTTGAG
2902590 CTGGAAATAT
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
123 97 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (123 bp):
CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATGCTGGGCTTCAGTTTGA
GGTTGAATCATAGATTCTTGATTCTGGGCTTCAGCTTGAGGAGATGGAAAACAGTATT
Found at i:2904245 original size:46 final size:46
Alignment explanation
Indices: 2904178--2904266 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 46
2904168 TTTATTTTGA
*
2904178 TAGTGTTTACAATAAAATAAAATTAGAGTTTTAATAGATTTTGGTC
1 TAGTGTTTACAATAAAATAAAATTAGAGTTTCAATAGATTTTGGTC
** *
2904224 TAGTGTTTA-AGATAATTTAAAATTAGAGTTTCAGTAGATTTTG
1 TAGTGTTTACA-ATAAAATAAAATTAGAGTTTCAATAGATTTTG
2904267 ATTACTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 1 0.03
46 37 0.97
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.43
Consensus pattern (46 bp):
TAGTGTTTACAATAAAATAAAATTAGAGTTTCAATAGATTTTGGTC
Found at i:2904654 original size:21 final size:19
Alignment explanation
Indices: 2904629--2904668 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
2904619 GATATTTATA
2904629 TTATAATTTTATCAAAAATAT
1 TTAT-ATTTTAT-AAAAATAT
*
2904650 TTATATTTTATAATAATAT
1 TTATATTTTATAAAAATAT
2904669 CATTTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 7 0.39
21 4 0.22
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATATTTTATAAAAATAT
Found at i:2906228 original size:30 final size:29
Alignment explanation
Indices: 2906175--2906231 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
2906165 ATAACTTGTG
2906175 TATCTAAGTTATGTTAATATATTTTATCA
1 TATCTAAGTTATGTTAATATATTTTATCA
*
2906204 TATCATAA-TTATGTTTAATGTATTTTAT
1 TATC-TAAGTTATG-TTAATATATTTTAT
2906232 ATTTATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.54
Consensus pattern (29 bp):
TATCTAAGTTATGTTAATATATTTTATCA
Found at i:2906307 original size:28 final size:25
Alignment explanation
Indices: 2906248--2906309 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
2906238 ATAAATTTTG
2906248 ATATGTTTAAAATTCATATTATATAA
1 ATAT-TTTAAAATTCATATTATATAA
* *
2906274 AT-TTTTAAACATTCATATATTTATATC
1 ATATTTTAAA-ATTCATAT-TATATA-A
2906301 ATATTTTAA
1 ATATTTTAA
2906310 TTATTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
24 6 0.20
25 9 0.30
26 7 0.23
27 2 0.07
28 6 0.20
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (25 bp):
ATATTTTAAAATTCATATTATATAA
Found at i:2907476 original size:18 final size:18
Alignment explanation
Indices: 2907455--2907493 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2907445 GTGTAAATCC
2907455 ATTT-AAAAAAATAAAAAT
1 ATTTGAAAAAAAT-AAAAT
*
2907473 ATTTGAAAAACATAAAAT
1 ATTTGAAAAAAATAAAAT
2907491 ATT
1 ATT
2907494 ACTATTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
ATTTGAAAAAAATAAAAT
Found at i:2909385 original size:25 final size:24
Alignment explanation
Indices: 2909357--2909415 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
2909347 AAAATTTTAT
2909357 ATAAATTTAATTATAAAAATAAAAA
1 ATAAATTTAATTA-AAAAATAAAAA
* * * * *
2909382 ATAATTTTTATTAATACATAAACA
1 ATAAATTTAATTAAAAAATAAAAA
2909406 ATAAATTTAA
1 ATAAATTTAA
2909416 GTTTTAAATC
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (24 bp):
ATAAATTTAATTAAAAAATAAAAA
Found at i:2911873 original size:6 final size:7
Alignment explanation
Indices: 2911856--2911880 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2911846 GGTAACCCCA
2911856 TTTTTTC
1 TTTTTTC
2911863 TTTTTTC
1 TTTTTTC
2911870 TTTTTTC
1 TTTTTTC
2911877 TTTT
1 TTTT
2911881 ACTCGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:2912347 original size:42 final size:41
Alignment explanation
Indices: 2912263--2912484 Score: 169
Period size: 42 Copynumber: 5.4 Consensus size: 41
2912253 ATATTTCCAG
* **
2912263 CTCAAACTGAAACCCAGA--ATCAAGAATCTA--GGATTCAAC
1 CTCAAACTGAAGCCCAGATCATCAAGAA-C-ACGGGATTTTAC
* * *
2912302 CTCAAACTGAAGCACAGAATCATCAAGAACATGGGATTTTCC
1 CTCAAACTGAAGCCCAG-ATCATCAAGAACACGGGATTTTAC
* * *
2912344 CTCAAACTGAAACCCAGA--ATCAAGAATAC-TG-TTTTCCATCTC
1 CTCAAACTGAAGCCCAGATCATCAAGAACACGGGATTTT--A---C
* **
2912386 CTCAAGCTGAAGCCCAGAT--TCAAGAATC-CGGGATTCAAC
1 CTCAAACTGAAGCCCAGATCATCAAGAA-CACGGGATTTTAC
2912425 CTCAAACTGAAGCCCAGCATCATCAAGAACACGGGATTTTAC
1 CTCAAACTGAAGCCCAG-ATCATCAAGAACACGGGATTTTAC
2912467 CTCAAACTGAAGCCCAGA
1 CTCAAACTGAAGCCCAGA
2912485 ATCAAGGATA
Statistics
Matches: 145, Mismatches: 20, Indels: 34
0.73 0.10 0.17
Matches are distributed among these distances:
37 4 0.03
38 1 0.01
39 41 0.28
40 4 0.03
41 4 0.03
42 88 0.61
43 1 0.01
44 2 0.01
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.20
Consensus pattern (41 bp):
CTCAAACTGAAGCCCAGATCATCAAGAACACGGGATTTTAC
Found at i:2912409 original size:81 final size:80
Alignment explanation
Indices: 2912263--2912486 Score: 190
Period size: 81 Copynumber: 2.7 Consensus size: 80
2912253 ATATTTCCAG
2912263 CTCAAACTGAAACCCAGAATCAAGAATCTAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
1 CTCAAACTGAAACCCAGAATCAAGAATCTAGGATTCAACCTCAAACTGAAGCACAGAAT-ATCAA
* ***
2912328 GAA-CATGGGATTTTCC
65 GAATC-CGGGATTCAAC
** * * *
2912344 CTCAAACTGAAACCCAGAATCAAGAATACT-GTTTTCCATCTCCTCAAGCTGAAGCCCAG-AT-T
1 CTCAAACTGAAACCCAGAATCAAGAAT-CTAGGATT-CA--ACCTCAAACTGAAGCACAGAATAT
2912406 CAAGAATCCGGGATTCAAC
62 CAAGAATCCGGGATTCAAC
* ** *
2912425 CTCAAACTGAAGCCCAGCATCATCAAGAA-C-ACGGGATTTTACCTCAAACTGAAGCCCAGAAT
1 CTCAAACTGAAACCCAG-A--ATCAAGAATCTA--GGATTCAACCTCAAACTGAAGCACAGAAT
2912487 CAAGGATATT
Statistics
Matches: 115, Mismatches: 16, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
81 77 0.67
82 9 0.08
83 2 0.02
84 27 0.23
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.20
Consensus pattern (80 bp):
CTCAAACTGAAACCCAGAATCAAGAATCTAGGATTCAACCTCAAACTGAAGCACAGAATATCAAG
AATCCGGGATTCAAC
Found at i:2912483 original size:123 final size:123
Alignment explanation
Indices: 2912263--2912490 Score: 366
Period size: 123 Copynumber: 1.9 Consensus size: 123
2912253 ATATTTCCAG
*
2912263 CTCAAACTGAAACCCAGAATCAAGAATCTAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
1 CTCAAACTGAAACCCAGAATCAAGAATCCAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
* *
2912328 GAACATGGGATTTTCCCTCAAACTGAAACCCAGAATCAAGAATACTGTTTTCCATCTC
66 GAACACGGGATTTTACCTCAAACTGAAACCCAGAATCAAGAATACTGTTTTCCATCTC
* * * * * *
2912386 CTCAAGCTGAAGCCCAGATTCAAGAATCCGGGATTCAACCTCAAACTGAAGCCCAGCATCATCAA
1 CTCAAACTGAAACCCAGAATCAAGAATCCAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
*
2912451 GAACACGGGATTTTACCTCAAACTGAAGCCCAGAATCAAG
66 GAACACGGGATTTTACCTCAAACTGAAACCCAGAATCAAG
2912491 GATATTGGAT
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
123 95 1.00
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.20
Consensus pattern (123 bp):
CTCAAACTGAAACCCAGAATCAAGAATCCAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
GAACACGGGATTTTACCTCAAACTGAAACCCAGAATCAAGAATACTGTTTTCCATCTC
Found at i:2913531 original size:20 final size:21
Alignment explanation
Indices: 2913492--2913538 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
2913482 CTAGTAAAAT
*
2913492 AAAT-TATAATTATTATTATA
1 AAATATATAATTATTACTATA
2913512 AAATATATAATTA-TACTATA
1 AAATATATAATTATTACTATA
2913532 AAA-ATAT
1 AAATATAT
2913539 TATTTTGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 4 0.16
20 13 0.52
21 8 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATATATAATTATTACTATA
Found at i:2914887 original size:2 final size:2
Alignment explanation
Indices: 2914880--2914909 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2914870 AGAACCAGAA
2914880 AT 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 AT
2914910 TTCATTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2917306 original size:42 final size:39
Alignment explanation
Indices: 2917246--2917473 Score: 171
Period size: 42 Copynumber: 5.6 Consensus size: 39
2917236 ATCCAATATC
*
2917246 CTTGATTCTGGGTTTCAGTTTGAGGTAAAATCCCATGTT
1 CTTGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATGTT
**
2917285 CTTGATGATGCTGGGCTTCAGTTTGAGGTTGAAT--CATGGGTT
1 CTTGAT--T-CTGGGCTTCAGTTTGAGGTAAAATCCCAT--GTT
* *
2917327 CTTGATTCTGGGCTTCAGCTTGAGGAGATGGAAAA---CAGTATT
1 CTTGATTCTGGGCTTCAGTTTGA-G-G-T--AAAATCCCA-TGTT
* *
2917369 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTT
1 CTTGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATGTT
* ** *
2917408 CTTGATGATTCTGTGCTTCAGTTTGAGGTTGAATCCTA-GATT
1 C-T--TGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATG-TT
*
2917450 CTTGATTCTGGGTTTCAGTTTGAG
1 CTTGATTCTGGGCTTCAGTTTGAG
2917474 CTGGAAATAT
Statistics
Matches: 152, Mismatches: 19, Indels: 36
0.73 0.09 0.17
Matches are distributed among these distances:
37 4 0.03
39 45 0.30
40 9 0.06
41 5 0.03
42 84 0.55
43 2 0.01
44 3 0.02
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (39 bp):
CTTGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATGTT
Found at i:2917409 original size:123 final size:123
Alignment explanation
Indices: 2917246--2917473 Score: 384
Period size: 123 Copynumber: 1.9 Consensus size: 123
2917236 ATCCAATATC
*
2917246 CTTGATTCTGGGTTTCAGTTTGAGGTAAAATCCCATGTTCTTGATGATGCTGGGCTTCAGTTTGA
1 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATGCTGGGCTTCAGTTTGA
* *
2917311 GGTTGAATCATGGGTTCTTGATTCTGGGCTTCAGCTTGAGGAGATGGAAAACAGTATT
66 GGTTGAATCATAGATTCTTGATTCTGGGCTTCAGCTTGAGGAGATGGAAAACAGTATT
* *
2917369 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATTCTGTGCTTCAGTTTGA
1 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATGCTGGGCTTCAGTTTGA
* * *
2917434 GGTTGAATCCTAGATTCTTGATTCTGGGTTTCAGTTTGAG
66 GGTTGAATCATAGATTCTTGATTCTGGGCTTCAGCTTGAG
2917474 CTGGAAATAT
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
123 97 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (123 bp):
CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATGCTGGGCTTCAGTTTGA
GGTTGAATCATAGATTCTTGATTCTGGGCTTCAGCTTGAGGAGATGGAAAACAGTATT
Found at i:2919121 original size:46 final size:46
Alignment explanation
Indices: 2919061--2919148 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
2919051 TTTATTTTGA
* *
2919061 TAGTGTTTACAATAAAATAAAATTAGAGTTTTAATAGATTTTAGTC
1 TAGTGTTTAAAATAAAATAAAATTAGAGTTTCAATAGATTTTAGTC
** *
2919107 TAGTGTTTAAAATAATTTAAAATTAGAGTTTCATTAGATTTT
1 TAGTGTTTAAAATAAAATAAAATTAGAGTTTCAATAGATTTT
2919149 GATTACTTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.44
Consensus pattern (46 bp):
TAGTGTTTAAAATAAAATAAAATTAGAGTTTCAATAGATTTTAGTC
Found at i:2921061 original size:30 final size:29
Alignment explanation
Indices: 2921003--2921058 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
2920993 TGTATCTAAG
2921003 TTATGTTAATACATTTTATCATATTATAA
1 TTATGTTAATACATTTTATCATATTATAA
*
2921032 TTATGTTTAATGCATTTTAT-AT-TTATA
1 TTATG-TTAATACATTTTATCATATTATA
2921059 TAAGTTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 5 0.20
29 7 0.28
30 13 0.52
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (29 bp):
TTATGTTAATACATTTTATCATATTATAA
Found at i:2921127 original size:28 final size:25
Alignment explanation
Indices: 2921068--2921129 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
2921058 ATAAGTTTTG
2921068 ATATGTTTAAAATTCGTATTATATAA
1 ATAT-TTTAAAATTCGTATTATATAA
* *
2921094 AT-TTTTAAACATTCGTATATTTATATC
1 ATATTTTAAA-ATTCGTAT-TATATA-A
2921121 ATATTTTAA
1 ATATTTTAA
2921130 TTATTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
24 6 0.20
25 9 0.30
26 7 0.23
27 2 0.07
28 6 0.20
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (25 bp):
ATATTTTAAAATTCGTATTATATAA
Found at i:2923046 original size:42 final size:38
Alignment explanation
Indices: 2922859--2923086 Score: 163
Period size: 42 Copynumber: 5.6 Consensus size: 38
2922849 ATATTTCCAG
2922859 CTCAAACTGAAACCCAGAATCAAGAATCTAGGATTCAAC
1 CTCAAACTGAAACCCAGAATCAAGAATC-AGGATTCAAC
* * * ***
2922898 CTCAAACTGAAGCACAGAATCATCAAGGACAT-GGGATTTTCC
1 CTCAAACTGAAACCCAG-A--ATCAA-GA-ATCAGGATTCAAC
* ** *
2922940 CTCAAACTGAAACCCAGAATCAAGAATACTGTTTTCCATCTC
1 CTCAAACTGAAACCCAGAATCAAGAAT-CAGGATT-CA--AC
* *
2922982 CTCAAGCTGAAGCCCAGAATCAAGAATCCAGGATTCAAC
1 CTCAAACTGAAACCCAGAATCAAGAAT-CAGGATTCAAC
* **
2923021 CTCAAACTGAAGCCCAGCATCATCAAGAA-CATGGGATTTTAC
1 CTCAAACTGAAACCCAG-A--ATCAAGAATCA--GGATTCAAC
2923063 CTCAAACTGAAACCCAGAATCAAG
1 CTCAAACTGAAACCCAGAATCAAG
2923087 GATATTGGAT
Statistics
Matches: 149, Mismatches: 25, Indels: 30
0.73 0.12 0.15
Matches are distributed among these distances:
37 2 0.01
38 2 0.01
39 46 0.31
40 4 0.03
41 4 0.03
42 87 0.58
43 2 0.01
44 2 0.01
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.20
Consensus pattern (38 bp):
CTCAAACTGAAACCCAGAATCAAGAATCAGGATTCAAC
Found at i:2923078 original size:123 final size:123
Alignment explanation
Indices: 2922859--2923086 Score: 393
Period size: 123 Copynumber: 1.9 Consensus size: 123
2922849 ATATTTCCAG
*
2922859 CTCAAACTGAAACCCAGAATCAAGAATCTAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
1 CTCAAACTGAAACCCAGAATCAAGAATCCAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
* *
2922924 GGACATGGGATTTTCCCTCAAACTGAAACCCAGAATCAAGAATACTGTTTTCCATCTC
66 GAACATGGGATTTTACCTCAAACTGAAACCCAGAATCAAGAATACTGTTTTCCATCTC
* * * *
2922982 CTCAAGCTGAAGCCCAGAATCAAGAATCCAGGATTCAACCTCAAACTGAAGCCCAGCATCATCAA
1 CTCAAACTGAAACCCAGAATCAAGAATCCAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
2923047 GAACATGGGATTTTACCTCAAACTGAAACCCAGAATCAAG
66 GAACATGGGATTTTACCTCAAACTGAAACCCAGAATCAAG
2923087 GATATTGGAT
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
123 98 1.00
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.20
Consensus pattern (123 bp):
CTCAAACTGAAACCCAGAATCAAGAATCCAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
GAACATGGGATTTTACCTCAAACTGAAACCCAGAATCAAGAATACTGTTTTCCATCTC
Found at i:2926775 original size:39 final size:38
Alignment explanation
Indices: 2926671--2926898 Score: 149
Period size: 42 Copynumber: 5.6 Consensus size: 38
2926661 ATCCAATATC
*
2926671 CTTGATTCTGGGTTTCAGTTTGAGGTAAAATCTCATGTT
1 CTTGATTCTGGGCTTCAGTTTGAGGTAAAA-CTCATGTT
**
2926710 CTTGATGATGCTGGGCTTCAGTTTGAGGTTGAA-TCATGGGTT
1 CTTGAT--T-CTGGGCTTCAGTTTGAGGTAAAACTCAT--GTT
* *
2926752 CTTGATTCTGGGCTTCAGCTTGAGGAGATGGAAAA--CAGTATT
1 CTTGATTCTGGGCTTCAGTTTGA-G-G-T--AAAACTCA-TGTT
* * *
2926794 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTT
1 CTTGATTCTGGGCTTCAGTTTGAGGTAAAA-CTCATGTT
* ** *
2926833 CTTGATGATTCTGTGCTTCAGTTTGAGGTTGAA-TCCTAGATT
1 C-T--TGATTCTGGGCTTCAGTTTGAGGTAAAACTCAT-G-TT
*
2926875 CTTGATTCTGGGTTTCAGTTTGAG
1 CTTGATTCTGGGCTTCAGTTTGAG
2926899 CTGGAAATAT
Statistics
Matches: 150, Mismatches: 20, Indels: 38
0.72 0.10 0.18
Matches are distributed among these distances:
37 4 0.03
39 45 0.30
40 12 0.08
41 5 0.03
42 79 0.53
43 2 0.01
44 3 0.02
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (38 bp):
CTTGATTCTGGGCTTCAGTTTGAGGTAAAACTCATGTT
Found at i:2926835 original size:123 final size:123
Alignment explanation
Indices: 2926671--2926898 Score: 375
Period size: 123 Copynumber: 1.9 Consensus size: 123
2926661 ATCCAATATC
* *
2926671 CTTGATTCTGGGTTTCAGTTTGAGGTAAAATCTCATGTTCTTGATGATGCTGGGCTTCAGTTTGA
1 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATGCTGGGCTTCAGTTTGA
* *
2926736 GGTTGAATCATGGGTTCTTGATTCTGGGCTTCAGCTTGAGGAGATGGAAAACAGTATT
66 GGTTGAATCATAGATTCTTGATTCTGGGCTTCAGCTTGAGGAGATGGAAAACAGTATT
* *
2926794 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATTCTGTGCTTCAGTTTGA
1 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATGCTGGGCTTCAGTTTGA
* * *
2926859 GGTTGAATCCTAGATTCTTGATTCTGGGTTTCAGTTTGAG
66 GGTTGAATCATAGATTCTTGATTCTGGGCTTCAGCTTGAG
2926899 CTGGAAATAT
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
123 96 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (123 bp):
CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATGCTGGGCTTCAGTTTGA
GGTTGAATCATAGATTCTTGATTCTGGGCTTCAGCTTGAGGAGATGGAAAACAGTATT
Found at i:2927805 original size:20 final size:18
Alignment explanation
Indices: 2927768--2927806 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2927758 TATAAATATC
*
2927768 AATATAATTAGAATTTAA
1 AATATAATTAAAATTTAA
2927786 AATATAATCTAAAGATTTAA
1 AATATAAT-TAAA-ATTTAA
2927806 A
1 A
2927807 TTATGATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 3 0.17
20 7 0.39
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (18 bp):
AATATAATTAAAATTTAA
Found at i:2929111 original size:266 final size:262
Alignment explanation
Indices: 2928612--2929137 Score: 712
Period size: 266 Copynumber: 2.0 Consensus size: 262
2928602 TACATCTAAC
* * * *
2928612 ATTATTAATTTCTTTTATATTTTTATTTAATAATACTCTCTTTACTCCCAATTAAATTATCACAG
1 ATTATTAATATCTTTTATACTTTTATTTAATAATACTCCCTTTACACCCAATTAAATTATCACAG
* *
2928677 TTTACATTTTCTCAATTATTCAATTTTTTTTTTAAATTTCAACAAAAATAAAAATGTTTGGAACA
66 TTAACATTTTCTCAATTATTCAATATTTTTTTTAAATTTCAACAAAAATAAAAATGTTTGGAACA
* * * *
2928742 GAGAAAGTATATTAAAAATTTATCGACACCTGTCTAGGTACACTTTGAGCGTACTTTATACTGCT
131 GAGAAAGTATATTAAAAAGTTATCCACACCTATCTAGGTACACTTTGAGCGTACTTCATACTGCT
* * ** *
2928807 TTTAATTAGGTTGTAATCAATTATTTTTAGTTTTTTTATTTTTCTTATGAGTTTAATTTTACGGT
196 TTCAATTAGGCTGTAATCAATTATTTTTAGGGTTTTTATTTTTCTTACGAGTTTAATTTTACGGT
2928872 AG
261 AG
* *
2928874 ATTATTAGTATCTTTTATACTTTTATTTAATAATACTCCCTTTACACCCAATTAAATTATCATAG
1 ATTATTAATATCTTTTATACTTTTATTTAATAATACTCCCTTTACACCCAATTAAATTATCACAG
* * * **
2928939 TTAATATTTTCTTTTTAATTTTTTTATAATTTTTTTTAAATTTCAACAAAAATAAAAATGTTTGG
66 TTAACATTTTC---TCAATTATTCAAT-ATTTTTTTTAAATTTCAACAAAAATAAAAATGTTTGG
* * * * *
2929004 AATAGAGAAAGTATATTAAAAACGTTATCCACACTTATCTAGGTATATTTTGAGCGTGCTTCATA
127 AACAGAGAAAGTATATTAAAAA-GTTATCCACACCTATCTAGGTACACTTTGAGCGTACTTCATA
* * * * *
2929069 GTGCTTTCAGTTGGGCTGTAATCAATTATTTTT-GGGTTTTTATTTTTTTTACGAGTTTGATTTT
191 CTGCTTTCAATTAGGCTGTAATCAATTATTTTTAGGGTTTTTATTTTTCTTACGAGTTTAATTTT
2929133 ACGGT
256 ACGGT
2929138 TGGATGCATC
Statistics
Matches: 227, Mismatches: 32, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
262 68 0.30
265 9 0.04
266 88 0.39
267 62 0.27
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.47
Consensus pattern (262 bp):
ATTATTAATATCTTTTATACTTTTATTTAATAATACTCCCTTTACACCCAATTAAATTATCACAG
TTAACATTTTCTCAATTATTCAATATTTTTTTTAAATTTCAACAAAAATAAAAATGTTTGGAACA
GAGAAAGTATATTAAAAAGTTATCCACACCTATCTAGGTACACTTTGAGCGTACTTCATACTGCT
TTCAATTAGGCTGTAATCAATTATTTTTAGGGTTTTTATTTTTCTTACGAGTTTAATTTTACGGT
AG
Found at i:2930307 original size:14 final size:14
Alignment explanation
Indices: 2930272--2930313 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
2930262 TATGTTGGTG
*
2930272 TATTTTATA-ATAT
1 TATTTTATATTTAT
*
2930285 TATAATTATATTTAT
1 TAT-TTTATATTTAT
2930300 TATTTTATATTTAT
1 TATTTTATATTTAT
2930314 ATAAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 3 0.12
14 15 0.62
15 6 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TATTTTATATTTAT
Found at i:2930350 original size:32 final size:33
Alignment explanation
Indices: 2930270--2930362 Score: 107
Period size: 32 Copynumber: 2.8 Consensus size: 33
2930260 GTTATGTTGG
* * *
2930270 TGTATTTTATAATATTATAATTATATTTATTATTT
1 TGTATTATATAA-ATTTTAA-TATATTTATTAATT
*
2930305 TATATTTATATAAATTTTAATATATTTA-TAATT
1 TGTA-TTATATAAATTTTAATATATTTATTAATT
*
2930338 TGTATTATATAAATTTTAAAATATT
1 TGTATTATATAAATTTTAATATATT
2930363 CGTATATTGA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
32 20 0.39
33 7 0.14
34 8 0.16
35 9 0.18
36 7 0.14
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (33 bp):
TGTATTATATAAATTTTAATATATTTATTAATT
Found at i:2935882 original size:20 final size:21
Alignment explanation
Indices: 2935828--2935874 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
2935818 ATCACTAAAA
2935828 ATAATATTTTTATAATATAATT
1 ATAA-ATTTTTATAATATAATT
2935850 ATAAATTTTTTATAATAATAATT
1 ATAAA-TTTTTATAAT-ATAATT
2935873 AT
1 AT
2935875 GATTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 1 0.04
22 14 0.61
23 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAAATTTTTATAATATAATT
Found at i:2936261 original size:22 final size:22
Alignment explanation
Indices: 2936233--2936278 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
2936223 CAAAAAAAAG
2936233 ATACATTCAAATTTGTGCATGA
1 ATACATTCAAATTTGTGCATGA
2936255 ATACATTCAAATTTGTGCATGA
1 ATACATTCAAATTTGTGCATGA
2936277 AT
1 AT
2936279 TATCTTAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (22 bp):
ATACATTCAAATTTGTGCATGA
Found at i:2936930 original size:42 final size:42
Alignment explanation
Indices: 2936873--2937103 Score: 185
Period size: 42 Copynumber: 5.6 Consensus size: 42
2936863 CCAATATCCT
2936873 TGATTCTGGGTTTCAGTTTGAGGTAAAATCCCATGTTCTTGA
1 TGATTCTGGGTTTCAGTTTGAGGTAAAATCCCATGTTCTTGA
* ** *
2936915 TGATCCTGGGTTTCAGTTTGAGGTTGAATCCTA-GATTC-T--
1 TGATTCTGGGTTTCAGTTTGAGGTAAAATCCCATG-TTCTTGA
* *
2936954 TGATTCTGGATTTCAGTTTGAGGAGATGGAAAA---CAGTATTC-T--
1 TGATTCTGGGTTTCAGTTTGA-G-G-T--AAAATCCCA-TGTTCTTGA
* *
2936996 TGATTCTGGGTTTCAGTTTGAGGGAACATCCCATGTTCTTGA
1 TGATTCTGGGTTTCAGTTTGAGGTAAAATCCCATGTTCTTGA
** * * *
2937038 TGATTCTCTGCTTCAGTTTGAGGGAACATCCCATGTTCTTGA
1 TGATTCTGGGTTTCAGTTTGAGGTAAAATCCCATGTTCTTGA
** *
2937080 TGATTCTCTGCTTCAGTTTGAGGT
1 TGATTCTGGGTTTCAGTTTGAGGT
2937104 TGAAACCTAG
Statistics
Matches: 157, Mismatches: 18, Indels: 28
0.77 0.09 0.14
Matches are distributed among these distances:
37 3 0.02
39 23 0.15
40 5 0.03
41 5 0.03
42 119 0.76
44 2 0.01
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (42 bp):
TGATTCTGGGTTTCAGTTTGAGGTAAAATCCCATGTTCTTGA
Found at i:2937119 original size:42 final size:42
Alignment explanation
Indices: 2937007--2937102 Score: 192
Period size: 42 Copynumber: 2.3 Consensus size: 42
2936997 GATTCTGGGT
2937007 TTCAGTTTGAGGGAACATCCCATGTTCTTGATGATTCTCTGC
1 TTCAGTTTGAGGGAACATCCCATGTTCTTGATGATTCTCTGC
2937049 TTCAGTTTGAGGGAACATCCCATGTTCTTGATGATTCTCTGC
1 TTCAGTTTGAGGGAACATCCCATGTTCTTGATGATTCTCTGC
2937091 TTCAGTTTGAGG
1 TTCAGTTTGAGG
2937103 TTGAAACCTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.39
Consensus pattern (42 bp):
TTCAGTTTGAGGGAACATCCCATGTTCTTGATGATTCTCTGC
Found at i:2937125 original size:123 final size:122
Alignment explanation
Indices: 2936875--2937138 Score: 290
Period size: 123 Copynumber: 2.1 Consensus size: 122
2936865 AATATCCTTG
* * *
2936875 ATTCTGGGTTTCAGTTTGAGGTAAAATCCCATGTTCTTGATGATCCTGGGTTTCAGTTTGAGGTT
1 ATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATCCTCGGCTTCAGTTTGAGG-T
* * *
2936940 GAATCCTAGATTCTTGATTCTGGATTTCAGTTTGAGGAGATGGAAAACAGTATTCTTG
65 GAATCCCAGATTCTTGATTCTGGACTTCAGTTTGAGGAGATGGAAAACAGTATTCTTC
* * *
2936998 ATTCTGGGTTTCAGTTTGAGGGAACATCCCATGTTCTTGATGATTCTCTGCTTCAGTTTGAGG-G
1 ATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATCCTCGGCTTCAGTTTGAGGTG
* * *
2937062 AACATCCCATG-TTCTTGATGATTCTCTG-CTTCAGTTTGA-G-G-TTGAAACCTAG-ATTCTTC
66 -A-ATCCCA-GATTC-T--TGATTCT-GGACTTCAGTTTGAGGAGATGGAAAAC-AGTATTCTTC
2937121 ATTCTGGGTTTCAGTTTG
1 ATTCTGGGTTTCAGTTTG
2937139 TGGTGGAAAT
Statistics
Matches: 121, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
121 1 0.01
122 1 0.01
123 95 0.79
124 5 0.04
125 1 0.01
126 17 0.14
127 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (122 bp):
ATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATCCTCGGCTTCAGTTTGAGGTG
AATCCCAGATTCTTGATTCTGGACTTCAGTTTGAGGAGATGGAAAACAGTATTCTTC
Found at i:2939598 original size:17 final size:17
Alignment explanation
Indices: 2939556--2939598 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
2939546 AGTTTTAAAA
2939556 CTAACACAAACTTTTCT
1 CTAACACAAACTTTTCT
*
2939573 CGAAC-CAAACTTTT-T
1 CTAACACAAACTTTTCT
2939588 CTAACAACAAA
1 CTAAC-ACAAA
2939599 ATTAAGCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 5 0.23
16 9 0.41
17 8 0.36
ACGTcount: A:0.42, C:0.28, G:0.02, T:0.28
Consensus pattern (17 bp):
CTAACACAAACTTTTCT
Found at i:2941050 original size:18 final size:19
Alignment explanation
Indices: 2941027--2941071 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
2941017 TATATCCAAG
2941027 TTATATTAA-CATATTTTA
1 TTATATTAATCATATTTTA
2941045 TTATATTATAATCATATTTTA
1 TTATA-T-TAATCATATTTTA
2941066 -TATATT
1 TTATATT
2941072 TTATATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 6 0.25
19 2 0.08
20 7 0.29
21 9 0.38
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
TTATATTAATCATATTTTA
Found at i:2941089 original size:17 final size:16
Alignment explanation
Indices: 2941058--2941103 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
2941048 TATTATAATC
*
2941058 ATATTTTATATATTTT
1 ATATTTTATAAATTTT
2941074 ATATTTATATAAATTTT
1 ATATTT-TATAAATTTT
2941091 AATATATTTATAA
1 -ATAT-TTTATAA
2941104 TTCGTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 6 0.23
17 9 0.35
18 9 0.35
19 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATTTTATAAATTTT
Found at i:2941183 original size:14 final size:14
Alignment explanation
Indices: 2941151--2941186 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
2941141 TATCATATTT
*
2941151 TAATTATTTTTTTA
1 TAATTATATTTTTA
2941165 T-ATTATATTTTTA
1 TAATTATATTTTTA
2941178 TAATTATAT
1 TAATTATAT
2941187 AAAATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TAATTATATTTTTA
Found at i:2942274 original size:16 final size:16
Alignment explanation
Indices: 2942253--2942286 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2942243 ATCTAAATCT
2942253 ATTTAAAAAATAAAAA
1 ATTTAAAAAATAAAAA
* *
2942269 ATTTAAATAATATAAA
1 ATTTAAAAAATAAAAA
2942285 AT
1 AT
2942287 ATTACTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTTAAAAAATAAAAA
Found at i:2942680 original size:6 final size:7
Alignment explanation
Indices: 2942663--2942687 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2942653 GGTAACCCCA
2942663 TTTTTTC
1 TTTTTTC
2942670 TTTTTTC
1 TTTTTTC
2942677 TTTTTTC
1 TTTTTTC
2942684 TTTT
1 TTTT
2942688 ACTCGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:2943155 original size:42 final size:41
Alignment explanation
Indices: 2943071--2943292 Score: 169
Period size: 42 Copynumber: 5.4 Consensus size: 41
2943061 ATATTTCCAG
* **
2943071 CTCAAACTGAAACCCAGA--ATCAAGAATCTA--GGATTCAAC
1 CTCAAACTGAAGCCCAGATCATCAAGAA-C-ACGGGATTTTAC
* * *
2943110 CTCAAACTGAAGCACAGAATCATCAAGAACATGGGATTTTCC
1 CTCAAACTGAAGCCCAG-ATCATCAAGAACACGGGATTTTAC
* * *
2943152 CTCAAACTGAAACCCAGA--ATCAAGAATAC-TG-TTTTCCATCTC
1 CTCAAACTGAAGCCCAGATCATCAAGAACACGGGATTTT--A---C
* **
2943194 CTCAAGCTGAAGCCCAGAT--TCAAGAATC-CGGGATTCAAC
1 CTCAAACTGAAGCCCAGATCATCAAGAA-CACGGGATTTTAC
2943233 CTCAAACTGAAGCCCAGCATCATCAAGAACACGGGATTTTAC
1 CTCAAACTGAAGCCCAG-ATCATCAAGAACACGGGATTTTAC
2943275 CTCAAACTGAAGCCCAGA
1 CTCAAACTGAAGCCCAGA
2943293 ATCAAGGATA
Statistics
Matches: 145, Mismatches: 20, Indels: 34
0.73 0.10 0.17
Matches are distributed among these distances:
37 4 0.03
38 1 0.01
39 41 0.28
40 4 0.03
41 4 0.03
42 88 0.61
43 1 0.01
44 2 0.01
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.20
Consensus pattern (41 bp):
CTCAAACTGAAGCCCAGATCATCAAGAACACGGGATTTTAC
Found at i:2943217 original size:81 final size:80
Alignment explanation
Indices: 2943071--2943294 Score: 190
Period size: 81 Copynumber: 2.7 Consensus size: 80
2943061 ATATTTCCAG
2943071 CTCAAACTGAAACCCAGAATCAAGAATCTAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
1 CTCAAACTGAAACCCAGAATCAAGAATCTAGGATTCAACCTCAAACTGAAGCACAGAAT-ATCAA
* ***
2943136 GAA-CATGGGATTTTCC
65 GAATC-CGGGATTCAAC
** * * *
2943152 CTCAAACTGAAACCCAGAATCAAGAATACT-GTTTTCCATCTCCTCAAGCTGAAGCCCAG-AT-T
1 CTCAAACTGAAACCCAGAATCAAGAAT-CTAGGATT-CA--ACCTCAAACTGAAGCACAGAATAT
2943214 CAAGAATCCGGGATTCAAC
62 CAAGAATCCGGGATTCAAC
* ** *
2943233 CTCAAACTGAAGCCCAGCATCATCAAGAA-C-ACGGGATTTTACCTCAAACTGAAGCCCAGAAT
1 CTCAAACTGAAACCCAG-A--ATCAAGAATCTA--GGATTCAACCTCAAACTGAAGCACAGAAT
2943295 CAAGGATATT
Statistics
Matches: 115, Mismatches: 16, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
81 77 0.67
82 9 0.08
83 2 0.02
84 27 0.23
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.20
Consensus pattern (80 bp):
CTCAAACTGAAACCCAGAATCAAGAATCTAGGATTCAACCTCAAACTGAAGCACAGAATATCAAG
AATCCGGGATTCAAC
Found at i:2943291 original size:123 final size:123
Alignment explanation
Indices: 2943071--2943298 Score: 366
Period size: 123 Copynumber: 1.9 Consensus size: 123
2943061 ATATTTCCAG
*
2943071 CTCAAACTGAAACCCAGAATCAAGAATCTAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
1 CTCAAACTGAAACCCAGAATCAAGAATCCAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
* *
2943136 GAACATGGGATTTTCCCTCAAACTGAAACCCAGAATCAAGAATACTGTTTTCCATCTC
66 GAACACGGGATTTTACCTCAAACTGAAACCCAGAATCAAGAATACTGTTTTCCATCTC
* * * * * *
2943194 CTCAAGCTGAAGCCCAGATTCAAGAATCCGGGATTCAACCTCAAACTGAAGCCCAGCATCATCAA
1 CTCAAACTGAAACCCAGAATCAAGAATCCAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
*
2943259 GAACACGGGATTTTACCTCAAACTGAAGCCCAGAATCAAG
66 GAACACGGGATTTTACCTCAAACTGAAACCCAGAATCAAG
2943299 GATATTGGAT
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
123 95 1.00
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.20
Consensus pattern (123 bp):
CTCAAACTGAAACCCAGAATCAAGAATCCAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
GAACACGGGATTTTACCTCAAACTGAAACCCAGAATCAAGAATACTGTTTTCCATCTC
Found at i:2943830 original size:5 final size:6
Alignment explanation
Indices: 2943811--2943847 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
2943801 AACTTTAGGC
*
2943811 TTTGAT TTTGTT TTTGTT TTTGTT TTT-TT TTT-TT TTT
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTT
2943848 CTCTCGATGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.86
Consensus pattern (6 bp):
TTTGTT
Found at i:2944330 original size:21 final size:20
Alignment explanation
Indices: 2944297--2944346 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
2944287 GACTAGTAAA
*
2944297 ATAAAAT-TATAATTATTATT
1 ATAAAATATATAATTA-TACT
2944317 ATAAAATATATAATTATACT
1 ATAAAATATATAATTATACT
2944337 ATAAAA-ATAT
1 ATAAAATATAT
2944347 TATTTTGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 4 0.14
20 16 0.57
21 8 0.29
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAAAATATATAATTATACT
Found at i:2945700 original size:2 final size:2
Alignment explanation
Indices: 2945693--2945718 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2945683 AGAACCAGAA
2945693 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
2945719 TTCATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2947242 original size:21 final size:20
Alignment explanation
Indices: 2947183--2947242 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
2947173 ATTTAAAAAA
*
2947183 TAAAATATACAA-AAATTTAAT
1 TAAAATATA-AATAAATTT-TT
* *
2947204 TAAAATA-AAATTATTTTTT
1 TAAAATATAAATAAATTTTT
2947223 TACAAATATAAATAAATTTT
1 TA-AAATATAAATAAATTTT
2947243 AATAAAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 5 0.16
20 10 0.32
21 16 0.52
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAATATAAATAAATTTTT
Found at i:2948114 original size:42 final size:39
Alignment explanation
Indices: 2948054--2948281 Score: 171
Period size: 42 Copynumber: 5.6 Consensus size: 39
2948044 ATCCAATATC
*
2948054 CTTGATTCTGGGTTTCAGTTTGAGGTAAAATCCCATGTT
1 CTTGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATGTT
**
2948093 CTTGATGATGCTGGGCTTCAGTTTGAGGTTGAAT--CATGGGTT
1 CTTGAT--T-CTGGGCTTCAGTTTGAGGTAAAATCCCAT--GTT
* *
2948135 CTTGATTCTGGGCTTCAGCTTGAGGAGATGGAAAA---CAGTATT
1 CTTGATTCTGGGCTTCAGTTTGA-G-G-T--AAAATCCCA-TGTT
* *
2948177 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTT
1 CTTGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATGTT
* ** *
2948216 CTTGATGATTCTGTGCTTCAGTTTGAGGTTGAATCCTA-GATT
1 C-T--TGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATG-TT
*
2948258 CTTGATTCTGGGTTTCAGTTTGAG
1 CTTGATTCTGGGCTTCAGTTTGAG
2948282 CTGGAAATAT
Statistics
Matches: 152, Mismatches: 19, Indels: 36
0.73 0.09 0.17
Matches are distributed among these distances:
37 4 0.03
39 45 0.30
40 9 0.06
41 5 0.03
42 84 0.55
43 2 0.01
44 3 0.02
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (39 bp):
CTTGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATGTT
Found at i:2948217 original size:123 final size:123
Alignment explanation
Indices: 2948054--2948281 Score: 384
Period size: 123 Copynumber: 1.9 Consensus size: 123
2948044 ATCCAATATC
*
2948054 CTTGATTCTGGGTTTCAGTTTGAGGTAAAATCCCATGTTCTTGATGATGCTGGGCTTCAGTTTGA
1 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATGCTGGGCTTCAGTTTGA
* *
2948119 GGTTGAATCATGGGTTCTTGATTCTGGGCTTCAGCTTGAGGAGATGGAAAACAGTATT
66 GGTTGAATCATAGATTCTTGATTCTGGGCTTCAGCTTGAGGAGATGGAAAACAGTATT
* *
2948177 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATTCTGTGCTTCAGTTTGA
1 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATGCTGGGCTTCAGTTTGA
* * *
2948242 GGTTGAATCCTAGATTCTTGATTCTGGGTTTCAGTTTGAG
66 GGTTGAATCATAGATTCTTGATTCTGGGCTTCAGCTTGAG
2948282 CTGGAAATAT
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
123 97 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (123 bp):
CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATGCTGGGCTTCAGTTTGA
GGTTGAATCATAGATTCTTGATTCTGGGCTTCAGCTTGAGGAGATGGAAAACAGTATT
Found at i:2949931 original size:46 final size:46
Alignment explanation
Indices: 2949871--2949958 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
2949861 TTTATTTTGA
* *
2949871 TAGTGTTTACAATAAAATAAAATTAGAGTTTTAATAGATTTTAGTC
1 TAGTGTTTAAAATAAAATAAAATTAGAGTTTCAATAGATTTTAGTC
** *
2949917 TAGTGTTTAAAATAATTTAAAATTAGAGTTTCATTAGATTTT
1 TAGTGTTTAAAATAAAATAAAATTAGAGTTTCAATAGATTTT
2949959 GATTACTTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.44
Consensus pattern (46 bp):
TAGTGTTTAAAATAAAATAAAATTAGAGTTTCAATAGATTTTAGTC
Found at i:2950338 original size:21 final size:19
Alignment explanation
Indices: 2950313--2950352 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
2950303 GATATTTATA
2950313 TTATAATTTTATCAAAAATAT
1 TTAT-ATTTTAT-AAAAATAT
*
2950334 TTATATTTTATAATAATAT
1 TTATATTTTATAAAAATAT
2950353 CATTTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 7 0.39
21 4 0.22
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATATTTTATAAAAATAT
Found at i:2951885 original size:30 final size:29
Alignment explanation
Indices: 2951827--2951882 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
2951817 TGTATCTAAG
2951827 TTATGTTAATACATTTTATCATATTATAA
1 TTATGTTAATACATTTTATCATATTATAA
*
2951856 TTATGTTTAATGCATTTTAT-AT-TTATA
1 TTATG-TTAATACATTTTATCATATTATA
2951883 TAAGTTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 5 0.20
29 7 0.28
30 13 0.52
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (29 bp):
TTATGTTAATACATTTTATCATATTATAA
Found at i:2951951 original size:28 final size:25
Alignment explanation
Indices: 2951892--2951953 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
2951882 ATAAGTTTTG
2951892 ATATGTTTAAAATTCGTATTATATAA
1 ATAT-TTTAAAATTCGTATTATATAA
* *
2951918 AT-TTTTAAACATTCGTATATTTATATC
1 ATATTTTAAA-ATTCGTAT-TATATA-A
2951945 ATATTTTAA
1 ATATTTTAA
2951954 TTATTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
24 6 0.20
25 9 0.30
26 7 0.23
27 2 0.07
28 6 0.20
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (25 bp):
ATATTTTAAAATTCGTATTATATAA
Found at i:2953863 original size:42 final size:38
Alignment explanation
Indices: 2953676--2953903 Score: 163
Period size: 42 Copynumber: 5.6 Consensus size: 38
2953666 ATATTTCCAG
2953676 CTCAAACTGAAACCCAGAATCAAGAATCTAGGATTCAAC
1 CTCAAACTGAAACCCAGAATCAAGAATC-AGGATTCAAC
* * * ***
2953715 CTCAAACTGAAGCACAGAATCATCAAGGACAT-GGGATTTTCC
1 CTCAAACTGAAACCCAG-A--ATCAA-GA-ATCAGGATTCAAC
* ** *
2953757 CTCAAACTGAAACCCAGAATCAAGAATACTGTTTTCCATCTC
1 CTCAAACTGAAACCCAGAATCAAGAAT-CAGGATT-CA--AC
* *
2953799 CTCAAGCTGAAGCCCAGAATCAAGAATCCAGGATTCAAC
1 CTCAAACTGAAACCCAGAATCAAGAAT-CAGGATTCAAC
* **
2953838 CTCAAACTGAAGCCCAGCATCATCAAGAA-CATGGGATTTTAC
1 CTCAAACTGAAACCCAG-A--ATCAAGAATCA--GGATTCAAC
2953880 CTCAAACTGAAACCCAGAATCAAG
1 CTCAAACTGAAACCCAGAATCAAG
2953904 GATATTGGAT
Statistics
Matches: 149, Mismatches: 25, Indels: 30
0.73 0.12 0.15
Matches are distributed among these distances:
37 2 0.01
38 2 0.01
39 46 0.31
40 4 0.03
41 4 0.03
42 87 0.58
43 2 0.01
44 2 0.01
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.20
Consensus pattern (38 bp):
CTCAAACTGAAACCCAGAATCAAGAATCAGGATTCAAC
Found at i:2953895 original size:123 final size:123
Alignment explanation
Indices: 2953676--2953903 Score: 393
Period size: 123 Copynumber: 1.9 Consensus size: 123
2953666 ATATTTCCAG
*
2953676 CTCAAACTGAAACCCAGAATCAAGAATCTAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
1 CTCAAACTGAAACCCAGAATCAAGAATCCAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
* *
2953741 GGACATGGGATTTTCCCTCAAACTGAAACCCAGAATCAAGAATACTGTTTTCCATCTC
66 GAACATGGGATTTTACCTCAAACTGAAACCCAGAATCAAGAATACTGTTTTCCATCTC
* * * *
2953799 CTCAAGCTGAAGCCCAGAATCAAGAATCCAGGATTCAACCTCAAACTGAAGCCCAGCATCATCAA
1 CTCAAACTGAAACCCAGAATCAAGAATCCAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
2953864 GAACATGGGATTTTACCTCAAACTGAAACCCAGAATCAAG
66 GAACATGGGATTTTACCTCAAACTGAAACCCAGAATCAAG
2953904 GATATTGGAT
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
123 98 1.00
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.20
Consensus pattern (123 bp):
CTCAAACTGAAACCCAGAATCAAGAATCCAGGATTCAACCTCAAACTGAAGCACAGAATCATCAA
GAACATGGGATTTTACCTCAAACTGAAACCCAGAATCAAGAATACTGTTTTCCATCTC
Found at i:2955043 original size:39 final size:41
Alignment explanation
Indices: 2955000--2955078 Score: 99
Period size: 42 Copynumber: 2.0 Consensus size: 41
2954990 TTTCCTGTTG
*
2955000 AATCCAATATCCTTGAT-T-CTGGGTTTCAGTTTGAGGTAA
1 AATCCAATATCCTTGATATGCTGGGCTTCAGTTTGAGGTAA
* * *
2955039 AATCCCATGTTCTTGATGATGCTGGGCTTCAGTTTGAGGT
1 AATCCAATATCCTTGAT-ATGCTGGGCTTCAGTTTGAGGT
2955079 TGAATCATGG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 14 0.42
41 1 0.03
42 18 0.55
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (41 bp):
AATCCAATATCCTTGATATGCTGGGCTTCAGTTTGAGGTAA
Found at i:2955115 original size:39 final size:38
Alignment explanation
Indices: 2955011--2955116 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 38
2955001 ATCCAATATC
*
2955011 CTTGATTCTGGGTTTCAGTTTGAGGTAAAATCCCATGTT
1 CTTGATTCTGGGCTTCAGTTTGAGGTAAAAT-CCATGTT
**
2955050 CTTGATGATGCTGGGCTTCAGTTTGAGGTTGAAT-CATGGGTT
1 CTTGAT--T-CTGGGCTTCAGTTTGAGGTAAAATCCAT--GTT
*
2955092 CTTGATTCTGGGCTTCAGCTTGAGG
1 CTTGATTCTGGGCTTCAGTTTGAGG
2955117 AGATGGAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
39 23 0.40
40 4 0.07
41 1 0.02
42 30 0.52
ACGTcount: A:0.17, C:0.15, G:0.29, T:0.39
Consensus pattern (38 bp):
CTTGATTCTGGGCTTCAGTTTGAGGTAAAATCCATGTT
Found at i:2959013 original size:2 final size:2
Alignment explanation
Indices: 2959008--2959043 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
2958998 TTTTACTATC
*
2959008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2959044 TGAGATTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2960179 original size:140 final size:140
Alignment explanation
Indices: 2959927--2960184 Score: 365
Period size: 140 Copynumber: 1.8 Consensus size: 140
2959917 ATTCAAATTA
* * * * *
2959927 AGCTACGATCACTTTCACCCTAGTGGTAATGTTTATATTCATAATGTAACCTCAAAAAGGATATG
1 AGCTACGACCACTTTCACCCTAGTGGCAAGGTTCATATTCATAATGTAACCTCAAAAAAGATATG
* * * * *
2959992 TAAATGCGAGCCTACAATACCGTTGTATTTATTCCTGATGGCAGGGTCTAGAACATAACCAGGTC
66 TAAATGCGAGCATACAATACCGTTATATTTATCCCTAATGGCAGGGTCCAGAACATAACCAGGTC
2960057 AAATAACACT
131 AAATAACACT
* * *
2960067 AGCTATGACCACTTTCACTCTAGTGGCAAGGTTCATATTCATAATGTATCCTCAAAAAAGATATG
1 AGCTACGACCACTTTCACCCTAGTGGCAAGGTTCATATTCATAATGTAACCTCAAAAAAGATATG
* *
2960132 TAAATGCTAGCATACAATACCAG-TATATTTATCCCTAATGGTAGGGTCCAGAA
66 TAAATGCGAGCATACAATACC-GTTATATTTATCCCTAATGGCAGGGTCCAGAA
2960185 TGTAGCCAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
140 101 0.99
141 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (140 bp):
AGCTACGACCACTTTCACCCTAGTGGCAAGGTTCATATTCATAATGTAACCTCAAAAAAGATATG
TAAATGCGAGCATACAATACCGTTATATTTATCCCTAATGGCAGGGTCCAGAACATAACCAGGTC
AAATAACACT
Found at i:2962274 original size:2 final size:2
Alignment explanation
Indices: 2962267--2962311 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
2962257 GAATTACTCC
2962267 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
2962309 AT A
1 AT A
2962312 ATTATTTGAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2963602 original size:20 final size:21
Alignment explanation
Indices: 2963548--2963594 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
2963538 ATCACTAAAA
2963548 ATAATATTTTTATAATATAATT
1 ATAA-ATTTTTATAATATAATT
2963570 ATAAATTTTTTATAATAATAATT
1 ATAAA-TTTTTATAAT-ATAATT
2963593 AT
1 AT
2963595 GATTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 1 0.04
22 14 0.61
23 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAAATTTTTATAATATAATT
Found at i:2964628 original size:42 final size:42
Alignment explanation
Indices: 2964570--2964800 Score: 176
Period size: 42 Copynumber: 5.6 Consensus size: 42
2964560 CCAATATCCT
*
2964570 TGATTCTGGGTTTCAGTTTGAGGTAAAATCCCATGTTCTTGA
1 TGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATGTTCTTGA
* ** *
2964612 TGATCCTGGGCTTCAGTTTGAGGTTGAATCCTA-GATTC-T--
1 TGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATG-TTCTTGA
** *
2964651 TGATTCTGGATTTCAGTTTGAGGAGATGGAAAA---CAGTATTC-T--
1 TGATTCTGGGCTTCAGTTTGA-G-G-T--AAAATCCCA-TGTTCTTGA
* * *
2964693 TGATTCTGGGTTTCAGTTTGAGGGAACATCCCATGTTCTTGA
1 TGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATGTTCTTGA
** * *
2964735 TGATTCTCTGCTTCAGTTTGAGGGAACATCCCATGTTCTTGA
1 TGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATGTTCTTGA
**
2964777 TGATTCTCTGCTTCAGTTTGAGGT
1 TGATTCTGGGCTTCAGTTTGAGGT
2964801 TGAAACCTAG
Statistics
Matches: 155, Mismatches: 20, Indels: 28
0.76 0.10 0.14
Matches are distributed among these distances:
37 3 0.02
39 22 0.14
40 5 0.03
41 5 0.03
42 118 0.76
44 2 0.01
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (42 bp):
TGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATGTTCTTGA
Found at i:2964815 original size:123 final size:122
Alignment explanation
Indices: 2964568--2964835 Score: 316
Period size: 123 Copynumber: 2.2 Consensus size: 122
2964558 ATCCAATATC
* *
2964568 CTTGATTCTGGGTTTCAGTTTGAGGTAAAATCCCATGTTCTTGATGATCCTGGGCTTCAGTTTGA
1 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATCCTCGGCTTCAGTTTGA
* *
2964633 GGTTGAATCCTAGATTCTTGATTCTGGATTTCAGTTTGAGGAGATGGAAAACAGTATT
66 GG-TGAATCCCAGATTCTTGATTCTGGACTTCAGTTTGAGGAGATGGAAAACAGTATT
* * *
2964691 CTTGATTCTGGGTTTCAGTTTGAGGGAACATCCCATGTTCTTGATGATTCTCTGCTTCAGTTTGA
1 CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATCCTCGGCTTCAGTTTGA
* * *
2964756 GG-GAACATCCCATG-TTCTTGATGATTCTCTG-CTTCAGTTTGA-G-G-TTGAAACCTAG-ATT
66 GGTG-A-ATCCCA-GATTC-T--TGATTCT-GGACTTCAGTTTGAGGAGATGGAAAAC-AGTATT
2964814 CTTGATTCTGGGTTTCAGTTTG
1 CTTGATTCTGGGTTTCAGTTTG
2964836 TGGTGGAAAT
Statistics
Matches: 127, Mismatches: 10, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
121 1 0.01
122 1 0.01
123 101 0.80
124 5 0.04
125 1 0.01
126 17 0.13
127 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (122 bp):
CTTGATTCTGGGTTTCAGTTTGAGGGAAAATCCCATGTTCTTGATGATCCTCGGCTTCAGTTTGA
GGTGAATCCCAGATTCTTGATTCTGGACTTCAGTTTGAGGAGATGGAAAACAGTATT
Found at i:2964819 original size:42 final size:42
Alignment explanation
Indices: 2964704--2964799 Score: 192
Period size: 42 Copynumber: 2.3 Consensus size: 42
2964694 GATTCTGGGT
2964704 TTCAGTTTGAGGGAACATCCCATGTTCTTGATGATTCTCTGC
1 TTCAGTTTGAGGGAACATCCCATGTTCTTGATGATTCTCTGC
2964746 TTCAGTTTGAGGGAACATCCCATGTTCTTGATGATTCTCTGC
1 TTCAGTTTGAGGGAACATCCCATGTTCTTGATGATTCTCTGC
2964788 TTCAGTTTGAGG
1 TTCAGTTTGAGG
2964800 TTGAAACCTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.39
Consensus pattern (42 bp):
TTCAGTTTGAGGGAACATCCCATGTTCTTGATGATTCTCTGC
Found at i:2967291 original size:17 final size:17
Alignment explanation
Indices: 2967249--2967291 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
2967239 AGTTTTAAAA
2967249 CTAACACAAACTTTTCT
1 CTAACACAAACTTTTCT
*
2967266 CGAAC-CAAACTTTT-T
1 CTAACACAAACTTTTCT
2967281 CTAACAACAAA
1 CTAAC-ACAAA
2967292 ATTAAGCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 5 0.23
16 9 0.41
17 8 0.36
ACGTcount: A:0.42, C:0.28, G:0.02, T:0.28
Consensus pattern (17 bp):
CTAACACAAACTTTTCT
Found at i:2968880 original size:14 final size:14
Alignment explanation
Indices: 2968848--2968883 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
2968838 TATCATATTT
*
2968848 TAATTATTTTTTTA
1 TAATTATATTTTTA
2968862 T-ATTATATTTTTA
1 TAATTATATTTTTA
2968875 TAATTATAT
1 TAATTATAT
2968884 AAAATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TAATTATATTTTTA
Found at i:2969971 original size:15 final size:16
Alignment explanation
Indices: 2969951--2969983 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2969941 ATCTAAATCT
2969951 ATTTAAA-AATAAAAA
1 ATTTAAATAATAAAAA
*
2969966 ATTTAAATAATATAAA
1 ATTTAAATAATAAAAA
2969982 AT
1 AT
2969984 ATTACTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTTAAATAATAAAAA
Found at i:2971891 original size:21 final size:22
Alignment explanation
Indices: 2971856--2971907 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
2971846 TAATTACAAA
2971856 ATAATATTTTAATAAT-ATAATT
1 ATAAT-TTTTAATAATAATAATT
* *
2971878 ATAATTTTTTATAATAATATTT
1 ATAATTTTTAATAATAATAATT
2971900 ATAATTTT
1 ATAATTTT
2971908 ATTTTACTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATAATTTTTAATAATAATAATT
Found at i:2973032 original size:42 final size:42
Alignment explanation
Indices: 2972975--2973079 Score: 174
Period size: 42 Copynumber: 2.5 Consensus size: 42
2972965 CCAATATCCT
* *
2972975 TGATTCTGGGTTTCAGTTTGAGATAAAATCCCATGTTCTTGA
1 TGATCCTGGGCTTCAGTTTGAGATAAAATCCCATGTTCTTGA
*
2973017 TGATCCTGGGCTTCAGTTTGAGGTAAAATCCCATGTTCTTGA
1 TGATCCTGGGCTTCAGTTTGAGATAAAATCCCATGTTCTTGA
*
2973059 AGATCCTGGGCTTCAGTTTGA
1 TGATCCTGGGCTTCAGTTTGA
2973080 AGTTGAATCC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (42 bp):
TGATCCTGGGCTTCAGTTTGAGATAAAATCCCATGTTCTTGA
Found at i:2973195 original size:123 final size:123
Alignment explanation
Indices: 2973017--2973242 Score: 355
Period size: 123 Copynumber: 1.8 Consensus size: 123
2973007 ATGTTCTTGA
* *
2973017 TGATCCTGGGCTTCAGTTTGAGGTAAAATCCCATGTTCTTGAAGATCCTGGGCTTCAGTTTGAAG
1 TGATCCTGGGCTTCAATTTGAGGGAAAATCCCATGTTCTTGAAGATCCTGGGCTTCAGTTTGAAG
*
2973082 TTGAATCCTAGATTCTTGATTCTTGGTTTCAGCTTGAGGAGGTGGAAAACAGTATTCT
66 TTGAATCCTAGATTCTTGATTCTGGGTTTCAGCTTGAGGAGGTGGAAAACAGTATTCT
* * * * *
2973140 TGATTCTGGGTTTCAATTTGAGGGAAAATCCCATGTTCTTGATGATTC-GGTGCTTCAGTTTGAG
1 TGATCCTGGGCTTCAATTTGAGGGAAAATCCCATGTTCTTGAAGATCCTGG-GCTTCAGTTTGAA
*
2973204 GTTGAATCCTAGATTCTTGATTCTGGGTTTCAGTTTGAG
65 GTTGAATCCTAGATTCTTGATTCTGGGTTTCAGCTTGAG
2973243 CTGGAAATAT
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
122 2 0.02
123 91 0.98
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (123 bp):
TGATCCTGGGCTTCAATTTGAGGGAAAATCCCATGTTCTTGAAGATCCTGGGCTTCAGTTTGAAG
TTGAATCCTAGATTCTTGATTCTGGGTTTCAGCTTGAGGAGGTGGAAAACAGTATTCT
Found at i:2973212 original size:42 final size:42
Alignment explanation
Indices: 2972975--2973242 Score: 170
Period size: 42 Copynumber: 6.5 Consensus size: 42
2972965 CCAATATCCT
* *
2972975 TGATTCTGGGTTTCAGTTTGAGATAAAATCCCATGTTCTTGA
1 TGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATGTTCTTGA
*
2973017 TGATCCTGGGCTTCAGTTTGAGGTAAAATCCCATGTTCTTGA
1 TGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATGTTCTTGA
* * * ** *
2973059 AGATCCTGGGCTTCAGTTTGAAGTTGAATCCTA-GATTC-T--
1 TGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATG-TTCTTGA
* * * *
2973098 TGATTCTTGGTTTCAGCTTGAGGAGGTGGAAAA---CAGTATTC-T--
1 TGATTCTGGGCTTCAG-TT--TGAGGT--AAAATCCCA-TGTTCTTGA
* * *
2973140 TGATTCTGGGTTTCAATTTGAGGGAAAATCCCATGTTCTTGA
1 TGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATGTTCTTGA
** *
2973182 TGATTC-GGTGCTTCAGTTTGAGGTTGAATCCTA-GATTC-T--
1 TGATTCTGG-GCTTCAGTTTGAGGTAAAATCCCATG-TTCTTGA
*
2973221 TGATTCTGGGTTTCAGTTTGAG
1 TGATTCTGGGCTTCAGTTTGAG
2973243 CTGGAAATAT
Statistics
Matches: 179, Mismatches: 30, Indels: 37
0.73 0.12 0.15
Matches are distributed among these distances:
37 4 0.02
39 38 0.21
40 7 0.04
41 9 0.05
42 119 0.66
44 2 0.01
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.38
Consensus pattern (42 bp):
TGATTCTGGGCTTCAGTTTGAGGTAAAATCCCATGTTCTTGA
Found at i:2974138 original size:20 final size:20
Alignment explanation
Indices: 2974100--2974138 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2974090 TAAAATGATC
*
2974100 AAAATTTAAAATATGATCTA
1 AAAATTTAAAATATCATCTA
*
2974120 AAAATTTAAATTATCATCT
1 AAAATTTAAAATATCATCT
2974139 TACTATTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAATTTAAAATATCATCTA
Found at i:2975750 original size:11 final size:11
Alignment explanation
Indices: 2975734--2975759 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2975724 ATATTAAAAA
2975734 ATTTATATTTT
1 ATTTATATTTT
2975745 ATTTATATTTT
1 ATTTATATTTT
2975756 ATTT
1 ATTT
2975760 TTTATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTATATTTT
Found at i:2975818 original size:22 final size:22
Alignment explanation
Indices: 2975770--2975812 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
2975760 TTTATAATTA
2975770 AATTAAAATAATATTATTTTAAT
1 AATTAAAATAATA-TATTTTAAT
2975793 AATT-AAATAATA-ATTTTAAT
1 AATTAAAATAATATATTTTAAT
2975813 CGAATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
22 8 0.40
23 4 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATTAAAATAATATATTTTAAT
Found at i:2979311 original size:16 final size:17
Alignment explanation
Indices: 2979290--2979332 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
2979280 TATTAAATTA
2979290 TTAAAAATTAAT-TTTT
1 TTAAAAATTAATATTTT
2979306 TTAAAAA--AATATTTT
1 TTAAAAATTAATATTTT
2979321 TATAAAAATTAA
1 T-TAAAAATTAA
2979333 ATTAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 3 0.13
15 5 0.22
16 13 0.57
18 2 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAAAATTAATATTTT
Found at i:2980519 original size:14 final size:13
Alignment explanation
Indices: 2980500--2980530 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
2980490 AATTATCGAA
2980500 TTATTCATTTAACT
1 TTATTCATTTAA-T
2980514 TTATTCATTTAAT
1 TTATTCATTTAAT
2980527 TTAT
1 TTAT
2980531 ATTAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTCATTTAAT
Found at i:2980575 original size:5 final size:5
Alignment explanation
Indices: 2980520--2980594 Score: 59
Period size: 5 Copynumber: 15.0 Consensus size: 5
2980510 AACTTTATTC
* * *
2980520 ATTTA ATTTA TATTAA ATTAA ATTTA A-ATA ATTT- -TTTA ATTTGA A-TTA
1 ATTTA ATTTA -ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTT-A ATTTA
2980568 ATTTA ATTTA ATTTA TATTTA TATTTA
1 ATTTA ATTTA ATTTA -ATTTA -ATTTA
2980595 TTAATAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
3 3 0.05
4 5 0.08
5 34 0.58
6 17 0.29
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (5 bp):
ATTTA
Found at i:2980652 original size:23 final size:23
Alignment explanation
Indices: 2980613--2980658 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
2980603 AATATTTTTA
* *
2980613 AAATTTTAATTATAAAATTATAT
1 AAATATTAATTATAAAATAATAT
2980636 AAATATTAA-TATAAAAATAATAT
1 AAATATTAATTAT-AAAATAATAT
2980659 TTTAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATATTAATTATAAAATAATAT
Found at i:2981582 original size:79 final size:79
Alignment explanation
Indices: 2981431--2981589 Score: 248
Period size: 79 Copynumber: 2.0 Consensus size: 79
2981421 GATTAATTAA
* * *
2981431 TGTCATTATCTAATCTCAATCTCTTTATTCTTTTCTATTTTTGTTATTATTCTAGTTAATCACAA
1 TGTCATTATCTAATCCCAATCTCTTTATTCTTTTCTATTTTTGCTATTATTCTAGTAAATCACAA
*
2981496 CTCTCTGAGATCTT
66 CTCTCTGAAATCTT
*
2981510 TGTCATTATCTAATCCCAATCTCTTTATTCTTTTCTATTTTTGCTATTATTCTAGTAAATTC-TA
1 TGTCATTATCTAATCCCAATCTCTTTATTCTTTTCTATTTTTGCTATTATTCTAGTAAA-TCACA
*
2981574 ACTGTCTGAAATCTT
65 ACTCTCTGAAATCTT
2981589 T
1 T
2981590 TCTTTTCTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
79 71 0.97
80 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.06, T:0.52
Consensus pattern (79 bp):
TGTCATTATCTAATCCCAATCTCTTTATTCTTTTCTATTTTTGCTATTATTCTAGTAAATCACAA
CTCTCTGAAATCTT
Done.