Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 8 of 343
Found at i:2831563 original size:8 final size:8
Alignment explanation
Indices: 2831550--2831580 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
2831540 GCCAAGGGAC
2831550 AAAAAATAA
1 AAAAAAT-A
2831559 AAAAAATA
1 AAAAAATA
2831567 AAAAAATA
1 AAAAAATA
2831575 AAAAAA
1 AAAAAA
2831581 AAGCTGCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 15 0.68
9 7 0.32
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAATA
Found at i:2831564 original size:9 final size:9
Alignment explanation
Indices: 2831550--2831581 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
2831540 GCCAAGGGAC
2831550 AAAAAATAA
1 AAAAAATAA
2831559 AAAAAAT-A
1 AAAAAATAA
2831567 AAAAAATAA
1 AAAAAATAA
2831576 AAAAAA
1 AAAAAA
2831582 AGCTGCTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAATAA
Found at i:2831736 original size:3 final size:3
Alignment explanation
Indices: 2831728--2831757 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
2831718 GAACTCTTAA
*
2831728 ATT ATT ATT TTT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2831758 TAACATAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:2834185 original size:19 final size:19
Alignment explanation
Indices: 2834160--2834211 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
2834150 GAAATGGATT
2834160 ACTTGTTAAACAAAACTCT-
1 ACTTGTTAAACAAAACT-TA
* *
2834179 GCTTGTT-TACAAAACTTA
1 ACTTGTTAAACAAAACTTA
2834197 ACTTGTTAAACAAAA
1 ACTTGTTAAACAAAA
2834212 ATGGTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 1 0.04
18 14 0.52
19 12 0.44
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (19 bp):
ACTTGTTAAACAAAACTTA
Found at i:2839467 original size:132 final size:131
Alignment explanation
Indices: 2839074--2839470 Score: 374
Period size: 131 Copynumber: 3.0 Consensus size: 131
2839064 AGTATTCATT
* * * ** * *
2839074 TAAAAATTCTTTAAAACGAATGCAATACTCGGTGTTTGACAATTCGGGAATCA-TGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGAAT-AGTGCCCTATCGT
* * * *
2839138 GCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATAT-TCCTATAGG-TTTTCACTCATGT
65 GCTGGGTTGCGATTTCTCGTTTGTTCAAAACAATCGAATATCT-CT-TCGGAATTTCACTCATGT
2839201 TTAT-
128 TT-TC
* * * * * *
2839205 TAAAAAC-CTTTCAAAACG-AAGATGATGTTCGATGATTGGCGATTTGAGAATCGTGCCCTATCG
1 TAAAAACTCTTT-AAAACGAAAGA-AATGTTCGATGTTTGGCAATTCGGGAATAGTGCCCTATCG
* * * * * * * * * * *
2839268 TGCTAGGTTGCGCTTTTTCATTTGTTCTAAACGATCGAAGATCCCTTCGGAACTTCATTCACGTT
64 TGCTGGGTTGCGATTTCTCGTTTGTTCAAAACAATCGAATATCTCTTCGGAATTTCACTCATGTT
2839333 TTC
129 TTC
*
2839336 TAAAAACTCTTTAAAATGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATAGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTC-GGGAATAGTGCCCTATCGT
* * * * * *
2839401 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATCTCTTCGGAATTTCACTCGTATTT
65 GCTGGGTTGCGATTTCTCGTTTGTTCAAAACAATCGAATATCTCTTCGGAATTTCACTCATGTTT
2839466 TC
130 TC
2839468 TAA
1 TAA
2839471 GGCAAGGCAA
Statistics
Matches: 205, Mismatches: 52, Indels: 17
0.75 0.19 0.06
Matches are distributed among these distances:
130 10 0.05
131 117 0.57
132 78 0.38
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (131 bp):
TAAAAACTCTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGAATAGTGCCCTATCGTG
CTGGGTTGCGATTTCTCGTTTGTTCAAAACAATCGAATATCTCTTCGGAATTTCACTCATGTTTT
C
Found at i:2860842 original size:14 final size:16
Alignment explanation
Indices: 2860812--2860843 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2860802 CTTCTAGTTA
2860812 AATAGATTTTTTATTT
1 AATAGATTTTTTATTT
2860828 AATA-ATTTTTT-TTT
1 AATAGATTTTTTATTT
2860842 AA
1 AA
2860844 AAAAATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 7 0.44
16 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
AATAGATTTTTTATTT
Found at i:2865424 original size:11 final size:11
Alignment explanation
Indices: 2865408--2865443 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
2865398 TGCTCTCCGG
2865408 CACGGCGGAGC
1 CACGGCGGAGC
2865419 CACGGCGGAGC
1 CACGGCGGAGC
* *
2865430 TACGGCAGAGC
1 CACGGCGGAGC
2865441 CAC
1 CAC
2865444 CGCGCGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.22, C:0.36, G:0.39, T:0.03
Consensus pattern (11 bp):
CACGGCGGAGC
Found at i:2865440 original size:22 final size:23
Alignment explanation
Indices: 2865409--2865453 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
2865399 GCTCTCCGGC
* *
2865409 ACGGCGGAGCCACGGCG-GAGCT
1 ACGGCAGAGCCACCGCGCGAGCT
2865431 ACGGCAGAGCCACCGCGCGAGCT
1 ACGGCAGAGCCACCGCGCGAGCT
2865454 CGCTGGTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.20, C:0.36, G:0.40, T:0.04
Consensus pattern (23 bp):
ACGGCAGAGCCACCGCGCGAGCT
Found at i:2866169 original size:29 final size:28
Alignment explanation
Indices: 2866108--2866171 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
2866098 ATTTTGAATA
* * * *
2866108 GTTTTATATTCATTTTGTTTTAAATATT
1 GTTTTATATACATTATATTTTAAAAATT
*
2866136 TTTTTATATACATATATATTTTAAAAATT
1 GTTTTATATACAT-TATATTTTAAAAATT
2866165 GTTTTAT
1 GTTTTAT
2866172 TATTTGTTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (28 bp):
GTTTTATATACATTATATTTTAAAAATT
Found at i:2866245 original size:34 final size:33
Alignment explanation
Indices: 2866198--2866264 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
2866188 TGTTATTTGT
*
2866198 ATATTATTATTTTAAAC-TTTTATGTATATATTA
1 ATATTATTATTTTAAACGTTTT-TATATATATTA
2866231 ATATTATCTATTTTAAACGTTTTTATATATATTA
1 ATATTAT-TATTTTAAACGTTTTTATATATATTA
2866265 TTTATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 7 0.23
34 20 0.65
35 4 0.13
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (33 bp):
ATATTATTATTTTAAACGTTTTTATATATATTA
Found at i:2866288 original size:14 final size:15
Alignment explanation
Indices: 2866250--2866296 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
2866240 ATTTTAAACG
*
2866250 TTTTTATATATATTA
1 TTTTTATATATATCA
* *
2866265 TTTATATATA-ATCC
1 TTTTTATATATATCA
2866279 TTTTTATATATATACA
1 TTTTTATATATAT-CA
2866295 TT
1 TT
2866297 ATTCTATTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 11 0.44
15 11 0.44
16 3 0.12
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTTATATATATCA
Found at i:2866362 original size:32 final size:32
Alignment explanation
Indices: 2866325--2866395 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
2866315 TTTTATATAT
2866325 TATATTTTG-AACTATT-TATATTTTATTTTAAA
1 TATATTTTGAAACT-TTATATA-TTTATTTTAAA
* *
2866357 TATATTTTTAAACTTTATTTATTTATTTTAAA
1 TATATTTTGAAACTTTATATATTTATTTTAAA
2866389 -ATATTTT
1 TATATTTT
2866396 ATTTATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 7 0.20
32 21 0.60
33 7 0.20
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (32 bp):
TATATTTTGAAACTTTATATATTTATTTTAAA
Found at i:2866545 original size:21 final size:25
Alignment explanation
Indices: 2866501--2866546 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 25
2866491 ATTTACCACT
2866501 TATTTCTTATATATATCTTATCATA
1 TATTTCTTATATATATCTTATCATA
2866526 TATTT-TTAT-TAT-TCTT-TCATA
1 TATTTCTTATATATATCTTATCATA
2866547 ATAAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 5 0.24
22 4 0.19
23 3 0.14
24 4 0.19
25 5 0.24
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (25 bp):
TATTTCTTATATATATCTTATCATA
Found at i:2867125 original size:76 final size:76
Alignment explanation
Indices: 2866999--2867150 Score: 277
Period size: 76 Copynumber: 2.0 Consensus size: 76
2866989 GTACATTATC
* *
2866999 CCATATCATTGTTTTTCACTTGGTTTACGAAATGTTGTTTTATAAGGTCCAAATCTTTAAGATTA
1 CCATATCATTGTTTTCCACTTGGTTTACGAAATGTGGTTTTATAAGGTCCAAATCTTTAAGATTA
2867064 ATTTCGTTTTA
66 ATTTCGTTTTA
*
2867075 CCATATCATTGTTTTCCACTTGGTTTATGAAATGTGGTTTTATAAGGTCCAAATCTTTAAGATTA
1 CCATATCATTGTTTTCCACTTGGTTTACGAAATGTGGTTTTATAAGGTCCAAATCTTTAAGATTA
2867140 ATTTCGTTTTA
66 ATTTCGTTTTA
2867151 TTTCAAGTCG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.47
Consensus pattern (76 bp):
CCATATCATTGTTTTCCACTTGGTTTACGAAATGTGGTTTTATAAGGTCCAAATCTTTAAGATTA
ATTTCGTTTTA
Found at i:2867434 original size:131 final size:131
Alignment explanation
Indices: 2867197--2867455 Score: 365
Period size: 131 Copynumber: 2.0 Consensus size: 131
2867187 TAATTATTTA
* * * *
2867197 TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGAAATTGTGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTAGGGAAATCGTGCCCTATC
* * * * *
2867262 GTGCTGAGTTGCAATTTTCCGTTTGTTCAAAATAATTGAATATTCCTCTAGAATTTCACTCATGT
66 GTGCTGAGTTACAATTTTCCGTTTGTCCAAAATAATCGAATATCCCTCTAAAATTTCACTCATGT
2867327 C
131 C
** * *
2867328 TTTAAAAATTCTTTAAGGCGAAAGAAATGTTCGATGTTTGGCAATTAGGGGAATCGTGCCTTATC
1 TTTAAAAATTCTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTAGGGAAATCGTGCCCTATC
* * * *
2867393 GTGCTGGGTTACAATTTTCCGTTTGTCCAAAATAGTCGAATATCCCTTTAAAATTTTACTCAT
66 GTGCTGAGTTACAATTTTCCGTTTGTCCAAAATAATCGAATATCCCTCTAAAATTTCACTCAT
2867456 AATTTCTAAT
Statistics
Matches: 111, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
131 111 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (131 bp):
TTTAAAAATTCTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTAGGGAAATCGTGCCCTATC
GTGCTGAGTTACAATTTTCCGTTTGTCCAAAATAATCGAATATCCCTCTAAAATTTCACTCATGT
C
Found at i:2874282 original size:74 final size:74
Alignment explanation
Indices: 2874155--2874302 Score: 235
Period size: 74 Copynumber: 2.0 Consensus size: 74
2874145 GCCTTGTGTT
* *
2874155 GAAGATGTCAAGTGAAGTGTCACCAAGGAAGCATAAGCCCCATCGGTTATATTCATCAACGCATC
1 GAAGATGTCAAGTGAAGTGCCACCAAGGAAGCATAAGCCCCATCAGTTATATTCATCAACGCATC
*
2874220 GTTTCTACC
66 GTGTCTACC
* *
2874229 GAAGATGTCAAGTGAAGTGCCACCAAGGAAGCATAAGCCCCATCAG-TAGTATTCATCAATGTAT
1 GAAGATGTCAAGTGAAGTGCCACCAAGGAAGCATAAGCCCCATCAGTTA-TATTCATCAACGCAT
2874293 CGTGTCTACC
65 CGTGTCTACC
2874303 TTTCTCAACA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
73 2 0.03
74 66 0.97
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (74 bp):
GAAGATGTCAAGTGAAGTGCCACCAAGGAAGCATAAGCCCCATCAGTTATATTCATCAACGCATC
GTGTCTACC
Found at i:2877606 original size:26 final size:26
Alignment explanation
Indices: 2877570--2877622 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
2877560 AAACAAGAAA
2877570 AACTTGGCAAACATACATATAAATTT
1 AACTTGGCAAACATACATATAAATTT
2877596 AACTTGGCAAACATACATATAAATTT
1 AACTTGGCAAACATACATATAAATTT
2877622 A
1 A
2877623 CTTACATTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.30
Consensus pattern (26 bp):
AACTTGGCAAACATACATATAAATTT
Found at i:2878933 original size:25 final size:25
Alignment explanation
Indices: 2878896--2878956 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
2878886 CGAAGCAGAA
2878896 ATTGAATAAGAAGTCAAATACAATCT
1 ATTGAA-AAGAAGTCAAATACAATCT
2878922 ATTGAAAAGAAGTCAAATACAATCT
1 ATTGAAAAGAAGTCAAATACAATCT
2878947 ATTGAAAAGA
1 ATTGAAAAGA
2878957 CCCTCAATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 29 0.83
26 6 0.17
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.25
Consensus pattern (25 bp):
ATTGAAAAGAAGTCAAATACAATCT
Found at i:2879876 original size:26 final size:26
Alignment explanation
Indices: 2879809--2879881 Score: 62
Period size: 26 Copynumber: 2.8 Consensus size: 26
2879799 TTTTTTTTAA
*
2879809 TTTAATATGTTA-AATATATATATTCC
1 TTTAATATCTTATAATAT-TATATTCC
* *
2879835 TTTAA-ATTTTATTAATATTATATGT-T
1 TTTAATATCTTA-TAATATTATAT-TCC
*
2879861 TTTAATATCTTATAATTTTAT
1 TTTAATATCTTATAATATTAT
2879882 TTAGGTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
25 5 0.13
26 23 0.59
27 11 0.28
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.58
Consensus pattern (26 bp):
TTTAATATCTTATAATATTATATTCC
Found at i:2886295 original size:17 final size:18
Alignment explanation
Indices: 2886270--2886306 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
2886260 ATTTTTAAAA
2886270 ATTATAAATACAT-AAATT
1 ATTATAAATA-ATAAAATT
2886288 ATTA-AAATAATAAAATT
1 ATTATAAATAATAAAATT
2886305 AT
1 AT
2886307 ATTTTAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 12 0.67
18 4 0.22
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTATAAATAATAAAATT
Found at i:2886814 original size:33 final size:33
Alignment explanation
Indices: 2886776--2886848 Score: 116
Period size: 33 Copynumber: 2.3 Consensus size: 33
2886766 TATTTTCATG
2886776 ATTTTTTTA-ATTATTTAATA-AT-ATTTTAGTA
1 ATTTTTTTATATTA-TTAATACATAATTTTAGTA
2886807 ATTTTTTTATATTATTAATACATAATTTTAGTA
1 ATTTTTTTATATTATTAATACATAATTTTAGTA
2886840 ATTTTTTTA
1 ATTTTTTTA
2886849 CCCGAATCTG
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
31 15 0.38
32 6 0.15
33 18 0.46
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (33 bp):
ATTTTTTTATATTATTAATACATAATTTTAGTA
Found at i:2897540 original size:30 final size:31
Alignment explanation
Indices: 2897506--2897569 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
2897496 ATTTATTTTA
*
2897506 TTGTTAA-TTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTTATTATTATTTTAGAA-GCAT
2897536 TTGTTAATTTTTATTATTATTTTAGAAGCAT
1 TTGTTAATTTTTATTATTATTTTAGAAGCAT
2897567 TTG
1 TTG
2897570 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 7 0.23
31 22 0.71
32 2 0.06
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.58
Consensus pattern (31 bp):
TTGTTAATTTTTATTATTATTTTAGAAGCAT
Found at i:2901145 original size:18 final size:19
Alignment explanation
Indices: 2901108--2901154 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
2901098 TTATGTGTAA
2901108 TTTTATTGCTAGCATGAAAG
1 TTTTA-TGCTAGCATGAAAG
*
2901128 TTTTATGCTA-CTTGAAAG
1 TTTTATGCTAGCATGAAAG
2901146 TTTTATGCT
1 TTTTATGCT
2901155 TAATTACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 16 0.62
19 5 0.19
20 5 0.19
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.47
Consensus pattern (19 bp):
TTTTATGCTAGCATGAAAG
Found at i:2904106 original size:17 final size:17
Alignment explanation
Indices: 2904084--2904118 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2904074 TATTTTGTTT
2904084 TATAATTATTTACACAA
1 TATAATTATTTACACAA
*
2904101 TATAATTATTTATACAA
1 TATAATTATTTACACAA
2904118 T
1 T
2904119 CTTATTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (17 bp):
TATAATTATTTACACAA
Found at i:2908524 original size:16 final size:15
Alignment explanation
Indices: 2908477--2908523 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
2908467 ATAACTTAAA
*
2908477 TTCAACACTTATTTT
1 TTCAATACTTATTTT
2908492 TTCAATACTTATTTT
1 TTCAATACTTATTTT
*
2908507 TTCAATATTTATTTT
1 TTCAATACTTATTTT
2908522 TT
1 TT
2908524 TAACACTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.62
Consensus pattern (15 bp):
TTCAATACTTATTTT
Found at i:2916658 original size:27 final size:25
Alignment explanation
Indices: 2916609--2916667 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
2916599 ATATTTACAT
* *
2916609 TATAATATTATAAATTACTATAAATTA
1 TATAATATTAAAAATAACTAT-AA-TA
2916636 TATAATATATAAAAATAAC-ATAATA
1 TATAATAT-TAAAAATAACTATAATA
2916661 TATAATA
1 TATAATA
2916668 AATACAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 9 0.31
26 2 0.07
27 10 0.34
28 8 0.28
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (25 bp):
TATAATATTAAAAATAACTATAATA
Found at i:2917503 original size:31 final size:31
Alignment explanation
Indices: 2917433--2917503 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 31
2917423 AAAAGATTAG
* * *
2917433 ATACTAAATTAAGAAAAAAAGTAAAATTTAG
1 ATACCAAATTAAGAAAAAAAGTAAAATTCAA
* * *
2917464 GTATCAAATTAA-AAAAAAGAGTCAAATTCAA
1 ATACCAAATTAAGAAAAAA-AGTAAAATTCAA
2917495 ATACCAAAT
1 ATACCAAAT
2917504 ATTATATTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.24
Consensus pattern (31 bp):
ATACCAAATTAAGAAAAAAAGTAAAATTCAA
Found at i:2945314 original size:19 final size:20
Alignment explanation
Indices: 2945283--2945320 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2945273 AAAAATTTAA
*
2945283 TTTAAATATATAAACTATAT
1 TTTAAATATATAAAATATAT
2945303 TTTAAATA-ATAAAATATA
1 TTTAAATATATAAAATATA
2945321 ACCAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTAAATATATAAAATATAT
Found at i:2958394 original size:48 final size:48
Alignment explanation
Indices: 2958300--2958395 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
2958290 GACAGTACAT
*
2958300 ACACAAGTTGACTGTGGACCGACAAGCCAGCTTCTATTCAATTTTGAG
1 ACACAAGTTGACTGTGGACCGACAAGCCAGCTTCTATTCAACTTTGAG
*
2958348 ACACAAGTTGACTGTGGACCGACAAGCCAGCTTCTATTCAGCTTTGAG
1 ACACAAGTTGACTGTGGACCGACAAGCCAGCTTCTATTCAACTTTGAG
2958396 TAAAATCTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (48 bp):
ACACAAGTTGACTGTGGACCGACAAGCCAGCTTCTATTCAACTTTGAG
Found at i:2961980 original size:16 final size:17
Alignment explanation
Indices: 2961959--2961994 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2961949 AGAAAATTGC
2961959 ATTTATTTT-TAAAACA
1 ATTTATTTTATAAAACA
*
2961975 ATTTATTTTATAAAATA
1 ATTTATTTTATAAAACA
2961992 ATT
1 ATT
2961995 CTTTTAAAAA
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:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTATTTTATAAAACA
Found at i:2964687 original size:16 final size:17
Alignment explanation
Indices: 2964666--2964703 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
2964656 TAGCACGTAA
2964666 AAAAAATTATC-ATGAT
1 AAAAAATTATCAATGAT
* *
2964682 AAAAAATTTTCAATGTT
1 AAAAAATTATCAATGAT
2964699 AAAAA
1 AAAAA
2964704 TCAAATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (17 bp):
AAAAAATTATCAATGAT
Found at i:2975731 original size:20 final size:20
Alignment explanation
Indices: 2975706--2975755 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
2975696 TGGCTTAAAA
2975706 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
2975726 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
2975743 GTGGTAGTGGATT
1 TTGGTAGTGGATT
2975756 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:2980359 original size:20 final size:20
Alignment explanation
Indices: 2980334--2980383 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
2980324 TGGCTTAAAA
2980334 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
2980354 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
2980371 GTGGTAGTGGATT
1 TTGGTAGTGGATT
2980384 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:2981922 original size:2 final size:2
Alignment explanation
Indices: 2981915--2981951 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2981905 AAGCCAATAA
2981915 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2981952 TTTAATTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2987453 original size:12 final size:13
Alignment explanation
Indices: 2987423--2987460 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
2987413 TATCACGTTC
*
2987423 TATCTTTTTCATT
1 TATCTTTTTTATT
2987436 TATCTTTTTTATT
1 TATCTTTTTTATT
*
2987449 T-TCTTCTTTATT
1 TATCTTTTTTATT
2987461 GTTCCAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (13 bp):
TATCTTTTTTATT
Found at i:2996526 original size:22 final size:22
Alignment explanation
Indices: 2996493--2996555 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
2996483 GCAACCATGA
*
2996493 AGCAGCCTCATACCTCCACTAC
1 AGCAGCCCCATACCTCCACTAC
* *
2996515 AGCGGCCCCATACCCCCACTAC
1 AGCAGCCCCATACCTCCACTAC
*
2996537 AGCAGTCCCATACCTCCAC
1 AGCAGCCCCATACCTCCAC
2996556 AGCCCTCGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.25, C:0.49, G:0.11, T:0.14
Consensus pattern (22 bp):
AGCAGCCCCATACCTCCACTAC
Found at i:3009955 original size:71 final size:70
Alignment explanation
Indices: 3009833--3010008 Score: 221
Period size: 71 Copynumber: 2.5 Consensus size: 70
3009823 CTTTCCAAGG
* **
3009833 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
*
3009897 TTTTT
66 GTTTT
** * *
3009902 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTT
1 --AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTT
3009967 ATGTTTT
64 ATGTTTT
** *
3009974 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
3010009 TTTAATTTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
69 32 0.34
71 56 0.60
72 5 0.05
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:3010134 original size:76 final size:75
Alignment explanation
Indices: 3010026--3010364 Score: 472
Period size: 76 Copynumber: 4.5 Consensus size: 75
3010016 TTTGTTTTTC
* *
3010026 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
3010091 GTTTTCAAAAA
66 GTTTTC-AAAA
**
3010102 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
3010167 GTTTTC---A
66 GTTTTCAAAA
* ** * * *
3010174 AAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
3010239 GTTTTCAAAAA
66 GTTTTC-AAAA
* *
3010250 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
*
3010314 TCTGTTTT-TAAA
63 TCTGTTTTCAAAA
*
3010326 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
3010365 ATTACACACT
Statistics
Matches: 239, Mismatches: 16, Indels: 15
0.89 0.06 0.06
Matches are distributed among these distances:
72 68 0.28
75 1 0.00
76 141 0.59
77 1 0.00
78 28 0.12
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (75 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTCAAAA
Found at i:3010280 original size:148 final size:149
Alignment explanation
Indices: 3010012--3010490 Score: 516
Period size: 148 Copynumber: 3.3 Consensus size: 149
3010002 TAAGCCTTTT
* * * *
3010012 AATTTTTGTTTTTC-AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACATGCTGAG
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
3010076 GTAATTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG
66 GTAATTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-G
3010141 G-ACACGCTGAGGTAATTTC
130 GTACACGCTGAGGTAATTTC
* ** *
3010160 AATTTCTG-TTTTCAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
* **
3010224 GTATTTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
66 GTAATTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGG
* *
3010289 TTCACATGCTGAGGTATTTTC
131 -T-ACACGCTGAGGTAATTTC
* * * *
3010310 AATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACT
1 AATTTCTGTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-A-GACACGCT
** **
3010375 GTTGT-A-TT---TTT-T-TTTTC-------AAT----TCATATTGCGAGAGGTGAGTTGAGCCT
63 GAGGTAATTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
*
3010422 CAGG-ACACGATGAGGTAATTTC
128 C-GGTACACGCTGAGGTAATTTC
* * *
3010444 AATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
3010491 ACCTTTTAAT
Statistics
Matches: 291, Mismatches: 31, Indels: 33
0.82 0.09 0.09
Matches are distributed among these distances:
133 31 0.11
134 27 0.09
136 28 0.10
137 2 0.01
140 3 0.01
147 12 0.04
148 111 0.38
149 3 0.01
150 24 0.08
151 4 0.01
152 37 0.13
153 1 0.00
154 8 0.03
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.34
Consensus pattern (149 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
GTAATTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGG
TACACGCTGAGGTAATTTC
Found at i:3010563 original size:127 final size:128
Alignment explanation
Indices: 3010250--3010616 Score: 377
Period size: 127 Copynumber: 2.8 Consensus size: 128
3010240 TTTTCAAAAA
* *
3010250 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATTT
* *
3010315 CTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCTTCAGATTACACACTGTTG
64 CTG-TTTT--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTT---ATTA-ACACTGTTC
3010379 TATTTTT
122 TATTTTT
**** * * * *
3010386 TTTTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
* *
3010451 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTT-TT-A-A-T-TTCTACTTTT
66 GTTT-T-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTATTAACACTGTTCTA-TTTT
3010511 T
128 T
* * * *
3010512 CAAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTT
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
* **
3010577 TGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGA
65 TGT-TTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
3010617 GCCTCAGGAC
Statistics
Matches: 194, Mismatches: 32, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
125 4 0.02
126 34 0.18
127 57 0.29
128 3 0.02
130 2 0.01
133 33 0.17
134 28 0.14
136 33 0.17
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (128 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
GTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTATTAACACTGTTCTATTTTT
Found at i:3010813 original size:87 final size:89
Alignment explanation
Indices: 3010589--3010834 Score: 309
Period size: 87 Copynumber: 2.8 Consensus size: 89
3010579 TGTTTTAATT
** **
3010589 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCTGAGGTATTTTCAATTAAGCC
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACA--CTGAGGTATTTTCAATTCTGTT
*
3010654 TTC-TGATTTCTGTTTTTCAAAAAAA
64 TTCATGATTTATGTTTTTCAAAAAAA
* *
3010679 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTCTGTTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTCTGTTTT
* * *
3010744 CATTA-TTATGTTTTT-GAAAGAA
66 CATGATTTATGTTTTTCAAAAAAA
** * *
3010766 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTTCAATTTCTGTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGT-ATTTTCAA-TTCTGTT
3010831 TTCA
64 TTCA
3010835 AAATTCAACT
Statistics
Matches: 137, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
87 47 0.34
88 37 0.27
89 13 0.09
90 40 0.29
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (89 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTCTGTTTT
CATGATTTATGTTTTTCAAAAAAA
Found at i:3010885 original size:73 final size:72
Alignment explanation
Indices: 3010755--3011515 Score: 779
Period size: 73 Copynumber: 10.1 Consensus size: 72
3010745 ATTATTATGT
* ** * **
3010755 TTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTT
1 TTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTT
3010820 CAATTTCTG
64 CAATTTCTG
* ** * *
3010829 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
3010894 ATTTCTG
66 ATTTCTG
* * *
3010901 CTTTTCAAAATTCAACTCATATTGCGAGA-ATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 -TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
3010965 AATTTCTG
65 AATTTCTG
* * **
3010973 TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTT
1 TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
3011038 CAATTTCTG
64 CAATTTCTG
* *
3011047 CTTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATT
1 --TTTTC-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
*
3011112 TTCAATTCCTGTTCAATTTATA
62 TTCAA----T-TTC------TG
*
3011134 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
3011199 ATTTCTG
66 ATTTCTG
* * *
3011206 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTC
1 -TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
* *
3011271 AAATTCTA
65 AATTTCTG
*** * * * *
3011279 TTCAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCC-CTTGGCTCACGTGTTGAGGTCA
1 TT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGG-ACAC--GCTGAGGT-A
*
3011343 CTTTCAATTTCTG
60 TTTTCAATTTCTG
** * *
3011356 TTTTTATGTCTGTTTTCTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
1 ---TT-T-TC------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
3011421 AGGTATTTTCAATTTCTG
55 AGGTATTTTCAATTTCTG
* * *
3011439 TTTTTCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTC
1 -TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
3011504 AATTTCTG
65 AATTTCTG
3011512 TTTT
1 TTTT
3011516 TCAATTTATT
Statistics
Matches: 596, Mismatches: 55, Indels: 74
0.82 0.08 0.10
Matches are distributed among these distances:
71 4 0.01
72 62 0.10
73 261 0.44
74 48 0.08
75 2 0.00
76 69 0.12
77 11 0.02
78 3 0.01
79 3 0.01
80 4 0.01
81 6 0.01
83 70 0.12
84 8 0.01
85 5 0.01
86 3 0.01
87 36 0.06
88 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (72 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
ATTTCTG
Found at i:3011197 original size:233 final size:225
Alignment explanation
Indices: 3010752--3011515 Score: 929
Period size: 233 Copynumber: 3.4 Consensus size: 225
3010742 TTCATTATTA
* ** *
3010752 TGTTTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAAT
1 TGTTTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGT-AT
* **
3010817 TTTCAATTTCTGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
64 TTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
* *
3010881 TGAGGTATTTTCAATTTCTG--C----TTTTCAAAATTCAACTCATATTGCGAGA-ATGAGTTGA
129 TGAGGTATTTTCAATTTCTGTTCATTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
3010939 GCCTCAGGACACGCTGAGGTAATTTCAATTTC
194 GCCTCAGGACACGCTGAGGTAATTTCAATTTC
* *
3010971 TG-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTAT
1 TGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAT
3011035 TTTCAATTTCTGCTTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
64 TTTCAATTTCTG--TTTTCAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
3011100 CGTTGAGGTATTTTCAATTCCTGTTCAATTTATATTTTCAAAAATCAACTCATATTGCGAGAGGT
126 CGTTGAGGTATTTTCAATTTCTGTTC-A-TT-T-TTTTCAAAAATCAACTCATATTGCGAGAGGT
3011165 GAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
187 GAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
** * * *
3011204 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTT
* * *** * ** *
3011269 TCAAATTCTATTCAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCC-CTTGGCTCACGT
66 TCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AAG-ACAC--
* * *
3011333 GTTGAGGTCACTTTCAATTTCTGTTTTTATGTCTGTTTTC-TAAATCAACTCATATTGCGAGAGG
127 GTTGAGGT-ATTTTCAATTTCTG--TTCAT-T-T-TTTTCAAAAATCAACTCATATTGCGAGAGG
* * *
3011397 TGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTC
186 TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * * **
3011437 TGTTTTTCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTT
3011502 TCAATTTCTGTTTT
66 TCAATTTCTGTTTT
3011516 TCAATTTATT
Statistics
Matches: 474, Mismatches: 45, Indels: 38
0.85 0.08 0.07
Matches are distributed among these distances:
218 17 0.04
219 50 0.11
220 8 0.02
221 1 0.00
222 62 0.13
224 1 0.00
228 1 0.00
229 35 0.07
230 7 0.01
232 94 0.20
233 184 0.39
234 12 0.03
235 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (225 bp):
TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTT
TCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
AGGTATTTTCAATTTCTGTTCATTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCAGGACACGCTGAGGTAATTTCAATTTC
Found at i:3011405 original size:160 final size:158
Alignment explanation
Indices: 3011208--3011593 Score: 474
Period size: 160 Copynumber: 2.4 Consensus size: 158
3011198 AATTTCTGTT
*
3011208 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
* * * * *
3011273 ATTCTATTCAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCC-CTTGGCTCACGTGTTG
66 ATTCTATTCAAAAAAAACCAACTCATACTGCGAAAGGTGAGTTGAGCCTC-AGG---ACATGCTG
*
3011337 AGGTCACTTTCAATTTCTGTTTTT-ATGT-CTG
127 AGGT-ACTTTCAATTTCTGTTTTTAATGTATTG
*
3011368 TTTTC-TAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
1 -TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
* * **** *
3011432 ATTTCTGTTTTTCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGG
65 AATTCTATTCAAAAAAAACCAACTCATACTGCGAAAGGTGAGTTGAGCCTCAGGACATGCTGAGG
* *
3011497 TATTTTCAATTTCTGTTTTTCAATTTATTG
130 TACTTTCAATTTCTGTTTTT-AATGTATTG
* * * *
3011527 TTTCAAAAATCAATTCATATTGCTAAAGGTGAGTTGAGCCTCGGCTTGCACGCTGAGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GGCACGCTGAGGTATTTTC
3011592 AA
64 AA
3011594 TTTTTCATTT
Statistics
Matches: 196, Mismatches: 22, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
156 18 0.09
157 10 0.05
158 7 0.04
159 37 0.19
160 99 0.51
161 25 0.13
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (158 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
ATTCTATTCAAAAAAAACCAACTCATACTGCGAAAGGTGAGTTGAGCCTCAGGACATGCTGAGGT
ACTTTCAATTTCTGTTTTTAATGTATTG
Found at i:3012494 original size:21 final size:22
Alignment explanation
Indices: 3012464--3012525 Score: 90
Period size: 21 Copynumber: 2.9 Consensus size: 22
3012454 GCAACCATGA
*
3012464 AGCAGCCCCATACCTCCACTAC
1 AGCAGGCCCATACCTCCACTAC
*
3012486 AGC-GGCCCATACCCCCACTAC
1 AGCAGGCCCATACCTCCACTAC
*
3012507 AGCAGTCCCATACCTCCAC
1 AGCAGGCCCATACCTCCAC
3012526 AGCCCTCGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 19 0.54
22 16 0.46
ACGTcount: A:0.26, C:0.50, G:0.11, T:0.13
Consensus pattern (22 bp):
AGCAGGCCCATACCTCCACTAC
Found at i:3018600 original size:11 final size:11
Alignment explanation
Indices: 3018584--3018609 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3018574 TTATTTGAGT
3018584 TTTTATTTTTA
1 TTTTATTTTTA
3018595 TTTTATTTTTA
1 TTTTATTTTTA
3018606 TTTT
1 TTTT
3018610 TTGGCTATTG
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:3018611 original size:18 final size:18
Alignment explanation
Indices: 3018573--3018610 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
3018563 TCTACTATAA
3018573 TTTATTTGAGTTTTTATT
1 TTTATTTGAGTTTTTATT
*
3018591 TTTATTTTA-TTTTTATT
1 TTTATTTGAGTTTTTATT
3018608 TTT
1 TTT
3018611 TGGCTATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTATTTGAGTTTTTATT
Found at i:3018773 original size:29 final size:30
Alignment explanation
Indices: 3018710--3018773 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
3018700 ATTTCAAAAC
3018710 TATACATAAACTTTAATTTAATATACAATTG
1 TATACATAAACTTTAATTT-ATATACAATTG
* * *
3018741 TATACATGAACTTTGATTT-TATACAATTT
1 TATACATAAACTTTAATTTATATACAATTG
3018770 TATA
1 TATA
3018774 TATCAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 13 0.43
31 17 0.57
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (30 bp):
TATACATAAACTTTAATTTATATACAATTG
Found at i:3019652 original size:32 final size:32
Alignment explanation
Indices: 3019616--3019682 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
3019606 TGGGTTGGGT
3019616 TTAGATAAAGAGGTTTCATTCATGGTCCAATC
1 TTAGATAAAGAGGTTTCATTCATGGTCCAATC
*
3019648 TTAGATAAAGAGGTTTTATTCATGGTCCAATC
1 TTAGATAAAGAGGTTTCATTCATGGTCCAATC
3019680 TTA
1 TTA
3019683 CTCGAACGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
TTAGATAAAGAGGTTTCATTCATGGTCCAATC
Found at i:3020933 original size:20 final size:20
Alignment explanation
Indices: 3020910--3020951 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
3020900 TGCTGATGAG
*
3020910 TTTTATATAA-ATTATTTTTA
1 TTTT-TATAACATTAATTTTA
*
3020930 TTTTTTTAACATTAATTTTA
1 TTTTTATAACATTAATTTTA
3020950 TT
1 TT
3020952 ATAGATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTATAACATTAATTTTA
Found at i:3021888 original size:21 final size:20
Alignment explanation
Indices: 3021846--3021889 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
3021836 TTTATTCGTG
*
3021846 AAATAATTTTTATAATTTTT
1 AAATAATTTTTATAATTATT
3021866 AAATATATTTTTATTAA-TATT
1 AAATA-ATTTTTA-TAATTATT
3021887 AAA
1 AAA
3021890 CATCAATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 13 0.62
22 3 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AAATAATTTTTATAATTATT
Found at i:3022007 original size:42 final size:42
Alignment explanation
Indices: 3021948--3022031 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
3021938 GTTAAATAGT
* *
3021948 GATTAAATTAAAGAAATAAAAATAGTAATTAAATACAAATGA
1 GATTAAATTAAAGAAATAAAAATACTAATTAAACACAAATGA
*
3021990 GATTAAATTAAAGAAATATAAATACTAATTAAACACAAATGA
1 GATTAAATTAAAGAAATAAAAATACTAATTAAACACAAATGA
3022032 CCAAGTTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.26
Consensus pattern (42 bp):
GATTAAATTAAAGAAATAAAAATACTAATTAAACACAAATGA
Found at i:3022019 original size:21 final size:20
Alignment explanation
Indices: 3021953--3022022 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 20
3021943 ATAGTGATTA
*
3021953 AATTAAAGAAATAAAAATAGT
1 AATTAAAGAAATATAAATA-T
* *
3021974 AATTAAATACAA-ATGAGAT-T
1 AATTAAAGA-AATAT-AAATAT
3021994 AAATTAAAGAAATATAAATACT
1 -AATTAAAGAAATATAAATA-T
3022016 AATTAAA
1 AATTAAA
3022023 CACAAATGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
20 6 0.16
21 26 0.68
22 6 0.16
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (20 bp):
AATTAAAGAAATATAAATAT
Found at i:3022334 original size:43 final size:43
Alignment explanation
Indices: 3022262--3022446 Score: 255
Period size: 43 Copynumber: 4.3 Consensus size: 43
3022252 GCGTCGCTAA
**
3022262 CTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGGTCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
*
3022304 CTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * *
3022347 CTTTAGCGGCGCTTTTTCGACAAACGCCGCTAAAGACGATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * * * *
3022390 TTTTAGCGACGCTTTTCCGACAAATGCCGCTAAAGACCCTGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
*
3022433 CTTTAGCGACGCTT
1 CTTTAGCGGCGCTT
3022447 AAAAAACAAA
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
42 12 0.09
43 116 0.91
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
Found at i:3022456 original size:86 final size:86
Alignment explanation
Indices: 3022280--3022507 Score: 255
Period size: 86 Copynumber: 2.7 Consensus size: 86
3022270 GCGCTTTCCC
* * * *
3022280 ACAAACGCCGCTAAAGGTC-ATGACCTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAGACCAT
1 ACAAACGCCGCTAAA-GACGATGACTTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGACCAT
* *****
3022344 GACCTTTAGCGGCGCTTTTTCG
65 GACCTTTAGCGACGCTTAAAAA
* * * *
3022366 ACAAACGCCGCTAAAGACGATGACTTTTAGCGACGCTTTTCCGACAAATGCCGCTAAAGACCCTG
1 ACAAACGCCGCTAAAGACGATGACTTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGACCATG
3022431 ACCTTTAGCGACGCTTAAAAA
66 ACCTTTAGCGACGCTTAAAAA
* * * * *
3022452 ACAAACGCCAC-AATGAAGATGAGTTTTAGCGGCGCTTTT-TAACAAACGCCGCTAAA
1 ACAAACGCCGCTAAAGACGATGACTTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAA
3022508 ACATGGCTTT
Statistics
Matches: 120, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
84 14 0.12
85 26 0.22
86 80 0.67
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (86 bp):
ACAAACGCCGCTAAAGACGATGACTTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGACCATG
ACCTTTAGCGACGCTTAAAAA
Found at i:3026112 original size:37 final size:39
Alignment explanation
Indices: 3026033--3026115 Score: 107
Period size: 37 Copynumber: 2.2 Consensus size: 39
3026023 TGGGCCTAGT
* *
3026033 TTTTTTGCGGCGCTTTTCTAAAAACGCCACTAATGCTCA
1 TTTTTAGCGGCGCTTTTCCAAAAACGCCACTAATGCTCA
* * *
3026072 TTTTTAGCGGCG-TTTTCCGAAAA-GCCGCTAATGCTTA
1 TTTTTAGCGGCGCTTTTCCAAAAACGCCACTAATGCTCA
3026109 TTTTTAG
1 TTTTTAG
3026116 TGATTTTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 19 0.49
38 9 0.23
39 11 0.28
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (39 bp):
TTTTTAGCGGCGCTTTTCCAAAAACGCCACTAATGCTCA
Found at i:3026144 original size:23 final size:23
Alignment explanation
Indices: 3026118--3026164 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
3026108 ATTTTTAGTG
3026118 ATTTTATTTA-TTTATTTGTTAAA
1 ATTTT-TTTATTTTATTTGTTAAA
3026141 ATTTTTTTATTTTATTTGTTAAA
1 ATTTTTTTATTTTATTTGTTAAA
3026164 A
1 A
3026165 ATTATTAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (23 bp):
ATTTTTTTATTTTATTTGTTAAA
Found at i:3026429 original size:21 final size:22
Alignment explanation
Indices: 3026390--3026430 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3026380 TCTAAAACCC
3026390 TAAATCCCTAACCCCTAAACTT
1 TAAATCCCTAACCCCTAAACTT
*
3026412 TAAATCCC-AACCCTTAAAC
1 TAAATCCCTAACCCCTAAAC
3026431 AATAAACCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (22 bp):
TAAATCCCTAACCCCTAAACTT
Found at i:3026436 original size:21 final size:22
Alignment explanation
Indices: 3026390--3026436 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
3026380 TCTAAAACCC
**
3026390 TAAATCCCTAACCCCTAAACTT
1 TAAATCCCTAACCCCTAAACAA
*
3026412 TAAATCCC-AACCCTTAAACAA
1 TAAATCCCTAACCCCTAAACAA
3026433 TAAA
1 TAAA
3026437 CCATAAACCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (22 bp):
TAAATCCCTAACCCCTAAACAA
Found at i:3026659 original size:16 final size:17
Alignment explanation
Indices: 3026623--3026664 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
3026613 CACTATAATC
3026623 ATTATTTTAATATATTAA
1 ATTA-TTTAATATATTAA
3026641 ATTATTTAATATA-TAA
1 ATTATTTAATATATTAA
3026657 ATTATTTA
1 ATTATTTA
3026665 TAAAGAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.46
17 9 0.38
18 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTTAATATATTAA
Found at i:3026936 original size:22 final size:23
Alignment explanation
Indices: 3026911--3026961 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
3026901 CTATAACCCC
3026911 TAAACTCA-TAA-TCCATAAACCT
1 TAAACTCAGTAACTCC-TAAACCT
*
3026933 TAAAAT-AGTAACTCCTAAACCT
1 TAAACTCAGTAACTCCTAAACCT
3026955 TAAACTC
1 TAAACTC
3026962 TAAATCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 1 0.04
22 20 0.83
23 3 0.12
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (23 bp):
TAAACTCAGTAACTCCTAAACCT
Found at i:3027276 original size:19 final size:20
Alignment explanation
Indices: 3027250--3027295 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
3027240 ATAGAATTTT
3027250 AATT-AATA-TAAATAAACA
1 AATTAAATAGTAAATAAACA
* *
3027268 AATTAAATAGTAATTAGACA
1 AATTAAATAGTAAATAAACA
*
3027288 AATAAAAT
1 AATTAAAT
3027296 GTTTTTGCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AATTAAATAGTAAATAAACA
Found at i:3027407 original size:41 final size:41
Alignment explanation
Indices: 3027302--3027493 Score: 305
Period size: 41 Copynumber: 4.7 Consensus size: 41
3027292 AAATGTTTTT
3027302 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
3027343 GCGGCGC-TTTCCAAAAACGCCGCTAAAGACCTGAGCTTTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
3027383 GCGGCACTTTTCCAGAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
*
3027424 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* **
3027465 GCGGTGCTTTTATAAAAACGCCGCTAAAG
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAG
3027494 CCCCGAAAGG
Statistics
Matches: 137, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 37 0.27
41 100 0.73
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:3030630 original size:27 final size:28
Alignment explanation
Indices: 3030581--3030636 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
3030571 AATTTTGAAG
*
3030581 ATTATTTTGGTTTTTTTTGAAAGGGGAC
1 ATTATTTTGGATTTTTTTGAAAGGGGAC
3030609 ATTATTTT-GATTTTTTTGAAAGGGGAC
1 ATTATTTTGGATTTTTTTGAAAGGGGAC
3030636 A
1 A
3030637 CTTTGCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.48
Consensus pattern (28 bp):
ATTATTTTGGATTTTTTTGAAAGGGGAC
Found at i:3030647 original size:26 final size:27
Alignment explanation
Indices: 3030592--3030650 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
3030582 TTATTTTGGT
* ***
3030592 TTTTTTTGAAAGGGGACATTATTTTGA
1 TTTTTTTGAAAGGGGACACTATTGCAA
3030619 TTTTTTTGAAAGGGGACACT-TTGCAA
1 TTTTTTTGAAAGGGGACACTATTGCAA
3030645 TTTTTT
1 TTTTTT
3030651 GAACTATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (27 bp):
TTTTTTTGAAAGGGGACACTATTGCAA
Found at i:3032372 original size:3 final size:3
Alignment explanation
Indices: 3032364--3032408 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
3032354 TTCATCAACC
3032364 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3032409 GATTTTTAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3040288 original size:18 final size:18
Alignment explanation
Indices: 3040265--3040357 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
3040255 CCCAACTACT
*
3040265 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
3040283 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
3040301 GTATACGTAAATAGTACT
1 GTATACGTGAATAGTACC
* *
3040319 GTATATGTGAATAGTGCC
1 GTATACGTGAATAGTACC
3040337 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
3040355 GTA
1 GTA
3040358 AACGGTCGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:3040317 original size:36 final size:36
Alignment explanation
Indices: 3040265--3040357 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
3040255 CCCAACTACT
*
3040265 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
* * *
3040301 GTATACGTAAATAGTACTGTATATGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
3040337 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
3040358 AACGGTCGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:3045550 original size:32 final size:31
Alignment explanation
Indices: 3045493--3045560 Score: 91
Period size: 32 Copynumber: 2.2 Consensus size: 31
3045483 TAACAAGTTC
* *
3045493 AATTAATTAGTATAAGTTATCAAATTGAATT
1 AATTAATTAATATAAGTTATCAAATTGAAGT
* *
3045524 AATTAATTAATAATAAGTTATTAAATTTAAGT
1 AATTAATTAAT-ATAAGTTATCAAATTGAAGT
3045556 AATTA
1 AATTA
3045561 GTTTTTAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 10 0.31
32 22 0.69
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.43
Consensus pattern (31 bp):
AATTAATTAATATAAGTTATCAAATTGAAGT
Found at i:3045563 original size:21 final size:20
Alignment explanation
Indices: 3045530--3045573 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
3045520 AATTAATTAA
3045530 TTAATAATAAGTTATTAAAT
1 TTAATAATAAGTTATTAAAT
* * *
3045550 TTAAGTAATTAGTTTTTAAGT
1 TTAA-TAATAAGTTATTAAAT
3045571 TTA
1 TTA
3045574 TAAGGTTCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (20 bp):
TTAATAATAAGTTATTAAAT
Found at i:3054042 original size:4 final size:4
Alignment explanation
Indices: 3054033--3054058 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
3054023 TCGTGATATT
3054033 TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TA
3054059 GAGTTACCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:3054798 original size:21 final size:20
Alignment explanation
Indices: 3054770--3054808 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
3054760 TGCCATCCTC
* *
3054770 TAAAATGGGTCAAGTTTTCT
1 TAAAATGGGCCAAATTTTCT
3054790 TAAATATGGGCCAAATTTT
1 TAAA-ATGGGCCAAATTTT
3054809 GTTATTGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (20 bp):
TAAAATGGGCCAAATTTTCT
Found at i:3062316 original size:16 final size:17
Alignment explanation
Indices: 3062283--3062316 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
3062273 TTATTCTCTT
*
3062283 TTCTTTTATCTCTTCTC
1 TTCTTTTATCTATTCTC
3062300 TTCTTTT-TCTATTCTC
1 TTCTTTTATCTATTCTC
3062316 T
1 T
3062317 GTTCTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.68
Consensus pattern (17 bp):
TTCTTTTATCTATTCTC
Found at i:3062321 original size:23 final size:24
Alignment explanation
Indices: 3062276--3062321 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
3062266 TTATTCATTA
*
3062276 TTCTCTTTTCTTTTATCTCTTCTC
1 TTCTCTTTTCTATTATCTCTTCTC
* *
3062300 TTCT-TTTTCTATTCTCTGTTCT
1 TTCTCTTTTCTATTATCTCTTCT
3062322 TTAATATTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.04, C:0.26, G:0.02, T:0.67
Consensus pattern (24 bp):
TTCTCTTTTCTATTATCTCTTCTC
Found at i:3074749 original size:21 final size:21
Alignment explanation
Indices: 3074723--3074763 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3074713 AGACGAGCAA
* *
3074723 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
3074744 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
3074764 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:3092120 original size:14 final size:15
Alignment explanation
Indices: 3092096--3092128 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
3092086 CATGCAAGTT
*
3092096 TAAAAACTAAATAGA
1 TAAAAACTAAATAAA
3092111 TAAAAA-TAAATAAA
1 TAAAAACTAAATAAA
3092125 TAAA
1 TAAA
3092129 TAAATAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (15 bp):
TAAAAACTAAATAAA
Found at i:3094000 original size:28 final size:28
Alignment explanation
Indices: 3093969--3094038 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
3093959 ATATTTTCCT
*
3093969 TCGCACACTTAGTGCTCGA-TAATCAAAC
1 TCGCACACTTAGTGCTC-ATTAACCAAAC
3093997 TCGCACACTTAGTGCTCATTAACCAAAC
1 TCGCACACTTAGTGCTCATTAACCAAAC
**
3094025 TCGCATGCTTAGTG
1 TCGCACACTTAGTG
3094039 AAATTTTCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (28 bp):
TCGCACACTTAGTGCTCATTAACCAAAC
Found at i:3100282 original size:13 final size:13
Alignment explanation
Indices: 3100261--3100293 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
3100251 TAATAAAATC
3100261 AAAATAAAATTAA
1 AAAATAAAATTAA
*
3100274 AAGATAAAATTAA
1 AAAATAAAATTAA
3100287 AAAATAA
1 AAAATAA
3100294 TATCAAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
AAAATAAAATTAA
Found at i:3110877 original size:21 final size:21
Alignment explanation
Indices: 3110845--3110886 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3110835 TCCTCCGTTG
*
3110845 AAAGAAGAAAACATGGTCGGA
1 AAAGAAGAAAACAAGGTCGGA
3110866 AAAGCAAG-AAACAAGGTCGGA
1 AAAG-AAGAAAACAAGGTCGGA
3110887 CGACAAGGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.52, C:0.12, G:0.29, T:0.07
Consensus pattern (21 bp):
AAAGAAGAAAACAAGGTCGGA
Found at i:3125055 original size:25 final size:25
Alignment explanation
Indices: 3125034--3125087 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
3125024 TTTTTTTGTT
3125034 TATATATTAGGGTTAATATTTTTAA
1 TATATATTAGGGTTAATATTTTTAA
*
3125059 TATTTATTAGGGTTAATA--TTTAA
1 TATATATTAGGGTTAATATTTTTAA
3125082 TATATA
1 TATATA
3125088 ATATTACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 10 0.37
25 17 0.63
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (25 bp):
TATATATTAGGGTTAATATTTTTAA
Found at i:3125989 original size:25 final size:24
Alignment explanation
Indices: 3125932--3125987 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
3125922 CTCACAAAAG
*
3125932 ATTTATTT-TTGTTATAATTATTT
1 ATTTATTTATTGTAATAATTATTT
*
3125955 ATTCAGTTTATTGTAATGAATTA-TT
1 ATTTA-TTTATTGTAAT-AATTATTT
3125980 ATTTATTT
1 ATTTATTT
3125988 TAACCAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 4 0.15
24 6 0.22
25 12 0.44
26 5 0.19
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (24 bp):
ATTTATTTATTGTAATAATTATTT
Found at i:3133116 original size:13 final size:13
Alignment explanation
Indices: 3133098--3133122 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3133088 ACAGAGAAAA
3133098 ATAAATTAATTCG
1 ATAAATTAATTCG
3133111 ATAAATTAATTC
1 ATAAATTAATTC
3133123 ATTTTACCGT
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:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
ATAAATTAATTCG
Found at i:3134688 original size:39 final size:39
Alignment explanation
Indices: 3134619--3134718 Score: 168
Period size: 39 Copynumber: 2.6 Consensus size: 39
3134609 TCAACCATAA
3134619 ATGCCGAATGCATAC--ATATATACACTTATTTTCACCT
1 ATGCCGAATGCATACATATATATACACTTATTTTCACCT
* *
3134656 ATGCCAAATGCATACATATATATACCCTTATTTTCACCT
1 ATGCCGAATGCATACATATATATACACTTATTTTCACCT
3134695 ATGCCGAATGCATACATATATATA
1 ATGCCGAATGCATACATATATATA
3134719 TCCACCTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
37 14 0.24
39 44 0.76
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (39 bp):
ATGCCGAATGCATACATATATATACACTTATTTTCACCT
Found at i:3141549 original size:24 final size:24
Alignment explanation
Indices: 3141518--3141566 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
3141508 GTGAACAAAA
3141518 TTAGTAGGAGATAGTTGTTGTATT
1 TTAGTAGGAGATAGTTGTTGTATT
3141542 TTAGTAGGAGATAGTTGTTGTATT
1 TTAGTAGGAGATAGTTGTTGTATT
3141566 T
1 T
3141567 CGTCAGCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (24 bp):
TTAGTAGGAGATAGTTGTTGTATT
Found at i:3155255 original size:16 final size:16
Alignment explanation
Indices: 3155234--3155267 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3155224 TGTAATTGAT
*
3155234 TATATTAAATTATTTA
1 TATATTAAATAATTTA
*
3155250 TATATTATATAATTTA
1 TATATTAAATAATTTA
3155266 TA
1 TA
3155268 GCACATTGAA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATATTAAATAATTTA
Found at i:3156621 original size:17 final size:18
Alignment explanation
Indices: 3156599--3156639 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
3156589 AATTGCTCGG
3156599 AATTGATAA-AAAACAAA-
1 AATTGATAACAAAA-AAAT
3156616 AATTGA-AACAAAAAAAT
1 AATTGATAACAAAAAAAT
3156633 AATTGAT
1 AATTGAT
3156640 TTAGTTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.22
Consensus pattern (18 bp):
AATTGATAACAAAAAAAT
Found at i:3156955 original size:31 final size:31
Alignment explanation
Indices: 3156900--3156958 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
3156890 AAATGATCGT
3156900 TGAACTATTCAAAAATTTTCATTTAAGTTAC
1 TGAACTATTCAAAAATTTTCATTTAAGTTAC
* * * *
3156931 TGAATTATTCGAAAGTTTTTATTTAAGT
1 TGAACTATTCAAAAATTTTCATTTAAGT
3156959 CATTGAGTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (31 bp):
TGAACTATTCAAAAATTTTCATTTAAGTTAC
Found at i:3158199 original size:51 final size:51
Alignment explanation
Indices: 3158118--3158234 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
3158108 CAGATCACAT
3158118 TTATCACTTGTCACTTGTCACTGATCAGATAAGTATAGCT-A-AAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTATAGCTGAGAA--TACCAC
* *
3158169 TTATCACTTGTCACTTGTCACTGATTAGATAAGTGTAGCTGAGAATACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTATAGCTGAGAATACCAC
3158220 TTATCACTTGTCACT
1 TTATCACTTGTCACT
3158235 GATCAGAAGT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
51 59 0.95
52 1 0.02
53 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTATAGCTGAGAATACCAC
Found at i:3160663 original size:19 final size:20
Alignment explanation
Indices: 3160627--3160682 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 20
3160617 AAAAGATATG
**
3160627 TAAAAGATATTTTTAAAAAT-
1 TAAAA-ATATTTAAAAAAATA
*
3160647 TAAAAATATTTAAAAAAGTA
1 TAAAAATATTTAAAAAAATA
*
3160667 TAAAAAT-TATAAAAAA
1 TAAAAATATTTAAAAAA
3160683 GATTTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 19 0.61
20 12 0.39
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (20 bp):
TAAAAATATTTAAAAAAATA
Found at i:3165903 original size:14 final size:16
Alignment explanation
Indices: 3165884--3165920 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3165874 GCATAATAAC
3165884 TTAAA-TAAA-AATTT
1 TTAAATTAAACAATTT
3165898 TTAAATTAAACAATTT
1 TTAAATTAAACAATTT
*
3165914 TTTAATT
1 TTAAATT
3165921 TTTTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 5 0.25
15 4 0.20
16 11 0.55
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAATTAAACAATTT
Found at i:3166229 original size:16 final size:16
Alignment explanation
Indices: 3166195--3166228 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
3166185 AAAAAAGGCA
*
3166195 TTATATCAGATTAATT
1 TTATATCAAATTAATT
3166211 TTATCATCAAATTAATT
1 TTAT-ATCAAATTAATT
3166228 T
1 T
3166229 ACTTTATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (16 bp):
TTATATCAAATTAATT
Found at i:3170259 original size:31 final size:34
Alignment explanation
Indices: 3170224--3170296 Score: 82
Period size: 36 Copynumber: 2.2 Consensus size: 34
3170214 ATGAATGAAC
3170224 GTTAAT-TT-GTTCATGTAA-CAAAAGA-AAAAGA
1 GTTAATATTGGTTCATGTAACCAAAA-ACAAAAGA
*
3170255 GTTAATTAATTGGTTCATGTAACCAAAAACAAAATA
1 GTTAA-T-ATTGGTTCATGTAACCAAAAACAAAAGA
3170291 GTTAAT
1 GTTAAT
3170297 GGTTTCAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
31 5 0.14
32 1 0.03
34 2 0.06
35 12 0.34
36 15 0.43
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.32
Consensus pattern (34 bp):
GTTAATATTGGTTCATGTAACCAAAAACAAAAGA
Found at i:3170271 original size:35 final size:36
Alignment explanation
Indices: 3170225--3170296 Score: 103
Period size: 35 Copynumber: 2.0 Consensus size: 36
3170215 TGAATGAACG
*
3170225 TTAATTTGTTCATGTAA-CAAAAGA-AAAAGAGTTAA
1 TTAATTGGTTCATGTAACCAAAA-ACAAAAGAGTTAA
*
3170260 TTAATTGGTTCATGTAACCAAAAACAAAATAGTTAA
1 TTAATTGGTTCATGTAACCAAAAACAAAAGAGTTAA
3170296 T
1 T
3170297 GGTTTCAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 17 0.52
36 16 0.48
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.32
Consensus pattern (36 bp):
TTAATTGGTTCATGTAACCAAAAACAAAAGAGTTAA
Found at i:3171873 original size:15 final size:16
Alignment explanation
Indices: 3171853--3171882 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3171843 ATATTTTAGC
3171853 AAAGAATAA-AATTGA
1 AAAGAATAAGAATTGA
3171868 AAAGAATAAGAATTG
1 AAAGAATAAGAATTG
3171883 TCTAGAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (16 bp):
AAAGAATAAGAATTGA
Found at i:3178810 original size:11 final size:11
Alignment explanation
Indices: 3178794--3178818 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3178784 ATATCTAGAA
3178794 TTCTCTTCATT
1 TTCTCTTCATT
3178805 TTCTCTTCATT
1 TTCTCTTCATT
3178816 TTC
1 TTC
3178819 ATAAGCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:3179128 original size:18 final size:19
Alignment explanation
Indices: 3179105--3179143 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
3179095 TGGAATTATG
*
3179105 AATTGAAATGTGA-ATTGA
1 AATTGAAATATGAGATTGA
*
3179123 AATTGAGATATGAGATTGA
1 AATTGAAATATGAGATTGA
3179142 AA
1 AA
3179144 GCTTGAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (19 bp):
AATTGAAATATGAGATTGA
Found at i:3180217 original size:11 final size:11
Alignment explanation
Indices: 3180201--3180226 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3180191 TTTCAGCTGA
3180201 AGAAAATGAAG
1 AGAAAATGAAG
3180212 AGAAAATGAAG
1 AGAAAATGAAG
3180223 AGAA
1 AGAA
3180227 TTCTAGATAT
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:0.65, C:0.00, G:0.27, T:0.08
Consensus pattern (11 bp):
AGAAAATGAAG
Found at i:3181270 original size:21 final size:21
Alignment explanation
Indices: 3181233--3181328 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
3181223 AGGCACTTTA
3181233 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
*
3181256 CGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
3181277 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
3181298 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
3181319 TGTGTCGTAT
1 TGTGTCGTAT
3181329 ACTGATCAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
21 57 0.88
23 8 0.12
ACGTcount: A:0.14, C:0.24, G:0.27, T:0.35
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:3186355 original size:2 final size:2
Alignment explanation
Indices: 3186348--3186374 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3186338 CACATGCTTT
3186348 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 T
3186375 TTTCTAGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3193814 original size:3 final size:3
Alignment explanation
Indices: 3193806--3193831 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3193796 AATATACGAT
3193806 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
3193832 TTGAAACCCT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:3193886 original size:28 final size:28
Alignment explanation
Indices: 3193850--3193905 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
3193840 CTATCTTTGC
3193850 ACTTGTTTTTGTTTGTGCATCTTCCTAG
1 ACTTGTTTTTGTTTGTGCATCTTCCTAG
3193878 ACTTGTTTTTGTTTGTGCATCTTCCTAG
1 ACTTGTTTTTGTTTGTGCATCTTCCTAG
3193906 CAATTTGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.11, C:0.18, G:0.18, T:0.54
Consensus pattern (28 bp):
ACTTGTTTTTGTTTGTGCATCTTCCTAG
Found at i:3193912 original size:24 final size:26
Alignment explanation
Indices: 3193857--3193912 Score: 62
Period size: 28 Copynumber: 2.2 Consensus size: 26
3193847 TGCACTTGTT
**
3193857 TTTGTTTGTGCATCTTCCTAGACTTGTT
1 TTTGTTTGTGCATCTTCCTAGAC-T-AA
3193885 TTTGTTTGTGCATCTTCCTAG-C-AA
1 TTTGTTTGTGCATCTTCCTAGACTAA
3193909 TTTG
1 TTTG
3193913 CTTTTTTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 4 0.15
27 1 0.04
28 21 0.81
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.52
Consensus pattern (26 bp):
TTTGTTTGTGCATCTTCCTAGACTAA
Found at i:3206584 original size:24 final size:24
Alignment explanation
Indices: 3206557--3206603 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
3206547 TATACTTCAT
3206557 CTCTTTCCCTTCACTTTCTCATTA
1 CTCTTTCCCTTCACTTTCTCATTA
* * *
3206581 CTCTTTTCCTTCTCTTTTTCATT
1 CTCTTTCCCTTCACTTTCTCATT
3206604 TGTTTTCTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.09, C:0.34, G:0.00, T:0.57
Consensus pattern (24 bp):
CTCTTTCCCTTCACTTTCTCATTA
Found at i:3207390 original size:30 final size:31
Alignment explanation
Indices: 3207292--3207390 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 31
3207282 GGGGCTAACT
* * *
3207292 AAAATTTTTAAAAACTTT-ATAGGTTTTAGTG
1 AAAATTTTCAAAAATTTTGGTAGGTTTTA-TG
* * * *
3207323 AGAATTTTCAAAAATTTTGGTAGGTCTAATT
1 AAAATTTTCAAAAATTTTGGTAGGTTTTATG
* * *
3207354 ACAATTTTCAAAATTTTTTG-AGGTTTTATG
1 AAAATTTTCAAAAATTTTGGTAGGTTTTATG
3207384 AAAATTT
1 AAAATTT
3207391 ATAAAAAAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
30 13 0.25
31 33 0.62
32 7 0.13
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.45
Consensus pattern (31 bp):
AAAATTTTCAAAAATTTTGGTAGGTTTTATG
Found at i:3207945 original size:9 final size:9
Alignment explanation
Indices: 3207927--3207967 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
3207917 ATAAGTATAA
3207927 AATTAACCG
1 AATTAACCG
*
3207936 AATTACCCG
1 AATTAACCG
* *
3207945 AATTACCCA
1 AATTAACCG
3207954 AATTAACCG
1 AATTAACCG
3207963 AATTA
1 AATTA
3207968 TTTGTATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:3220347 original size:67 final size:67
Alignment explanation
Indices: 3220214--3220347 Score: 168
Period size: 66 Copynumber: 2.0 Consensus size: 67
3220204 TAAAATTTTT
* **
3220214 AAAAATTTTGAAGGTTTTAATGAGAATTTTCAAACAATTTTGTATGTTTAACTAAAACTTTCAAA
1 AAAAATTTTGAAGGTTTTAATGAGAATTTTCAAACAATTTTGTAGGGCTAACTAAAACTTTCAAA
3220279 AA
66 AA
* *
3220281 AAAAATTTTGAAAGG-TTTAATGAGAA-TTTCAAA-AATTTTG-AGCGGGCTAATTAAAATTTTC
1 AAAAATTTTG-AAGGTTTTAATGAGAATTTTCAAACAATTTTGTA--GGGCTAACTAAAACTTTC
3220342 AAAAA
63 AAAAA
3220347 A
1 A
3220348 TGTATAATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
64 1 0.02
65 7 0.12
66 26 0.44
67 21 0.36
68 4 0.07
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.36
Consensus pattern (67 bp):
AAAAATTTTGAAGGTTTTAATGAGAATTTTCAAACAATTTTGTAGGGCTAACTAAAACTTTCAAA
AA
Found at i:3241954 original size:30 final size:31
Alignment explanation
Indices: 3241872--3241945 Score: 148
Period size: 31 Copynumber: 2.4 Consensus size: 31
3241862 CTATAATTTC
3241872 TTTCATTTTTAAGGGATTAAAAATATTTTTT
1 TTTCATTTTTAAGGGATTAAAAATATTTTTT
3241903 TTTCATTTTTAAGGGATTAAAAATATTTTTT
1 TTTCATTTTTAAGGGATTAAAAATATTTTTT
3241934 TTTCATTTTTAA
1 TTTCATTTTTAA
3241946 AAATTAAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.57
Consensus pattern (31 bp):
TTTCATTTTTAAGGGATTAAAAATATTTTTT
Found at i:3242293 original size:16 final size:17
Alignment explanation
Indices: 3242263--3242295 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3242253 AAAATAATTT
*
3242263 AATTTATAAATATTAAA
1 AATTAATAAATATTAAA
3242280 AATTAATAAA-ATTAAA
1 AATTAATAAATATTAAA
3242296 TTAAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AATTAATAAATATTAAA
Found at i:3263086 original size:6 final size:6
Alignment explanation
Indices: 3263075--3263144 Score: 104
Period size: 6 Copynumber: 11.7 Consensus size: 6
3263065 TTGTCAAGGC
* * * *
3263075 TGATTT TGATTT TGATTT TGGTTT TGGTTT TGGTTT TGGTTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
3263123 TGATTT TGATTT TGATTT TGAT
1 TGATTT TGATTT TGATTT TGAT
3263145 AGCTGAAAGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.11, C:0.00, G:0.23, T:0.66
Consensus pattern (6 bp):
TGATTT
Found at i:3265091 original size:13 final size:13
Alignment explanation
Indices: 3265060--3265091 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3265050 AGTACTTCTG
*
3265060 AAAAGCGTTATGA
1 AAAAGTGTTATGA
3265073 AAAAGTGTTATGA
1 AAAAGTGTTATGA
3265086 AAAAGT
1 AAAAGT
3265092 ATTTTTGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.22, T:0.25
Consensus pattern (13 bp):
AAAAGTGTTATGA
Found at i:3270572 original size:22 final size:22
Alignment explanation
Indices: 3270547--3270617 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
3270537 TACCAAATTA
3270547 AAATCTTGTTAACAATATGACT
1 AAATCTTGTTAACAATATGACT
*
3270569 AAAT-TTCAAGTTAGAACAA-ATTA--
1 AAATCTT---GTT--AACAATATGACT
3270592 AAATCTTGTTAACAATATGACT
1 AAATCTTGTTAACAATATGACT
3270614 AAAT
1 AAAT
3270618 TTCAAGTTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
19 5 0.13
20 3 0.08
21 5 0.13
22 8 0.21
23 4 0.11
24 5 0.13
25 3 0.08
26 5 0.13
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.34
Consensus pattern (22 bp):
AAATCTTGTTAACAATATGACT
Found at i:3270581 original size:24 final size:24
Alignment explanation
Indices: 3270554--3270626 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
3270544 TTAAAATCTT
3270554 GTTAACAATATGACTAAATTTCAA
1 GTTAACAATATGACTAAATTTCAA
*
3270578 GTTAGAACAA-ATTA--AAATCTT---
1 GTT--AACAATATGACTAAAT-TTCAA
3270599 GTTAACAATATGACTAAATTTCAA
1 GTTAACAATATGACTAAATTTCAA
3270623 GTTA
1 GTTA
3270627 GAACACGTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
19 5 0.13
20 3 0.08
21 5 0.13
22 4 0.11
23 4 0.11
24 9 0.24
25 3 0.08
26 5 0.13
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (24 bp):
GTTAACAATATGACTAAATTTCAA
Found at i:3270604 original size:45 final size:45
Alignment explanation
Indices: 3270540--3270631 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
3270530 TTAAACATAC
3270540 CAAATTAAAATCTTGTTAACAATATGACTAAATTTCAAGTTAGAA
1 CAAATTAAAATCTTGTTAACAATATGACTAAATTTCAAGTTAGAA
3270585 CAAATTAAAATCTTGTTAACAATATGACTAAATTTCAAGTTAGAA
1 CAAATTAAAATCTTGTTAACAATATGACTAAATTTCAAGTTAGAA
3270630 CA
1 CA
3270632 CGTAAATTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (45 bp):
CAAATTAAAATCTTGTTAACAATATGACTAAATTTCAAGTTAGAA
Found at i:3270616 original size:23 final size:23
Alignment explanation
Indices: 3270545--3270616 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
3270535 CATACCAAAT
3270545 TAAAATCTTGTTAACAATATGAC
1 TAAAATCTTGTTAACAATATGAC
* **
3270568 TAAATTTCAAGTTAGAACAA-AT---
1 TAAA-ATCTTGTT--AACAATATGAC
3270590 TAAAATCTTGTTAACAATATGAC
1 TAAAATCTTGTTAACAATATGAC
3270613 TAAA
1 TAAA
3270617 TTTCAAGTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
19 5 0.14
20 2 0.06
21 5 0.14
22 4 0.11
23 8 0.22
24 5 0.14
25 2 0.06
26 5 0.14
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.33
Consensus pattern (23 bp):
TAAAATCTTGTTAACAATATGAC
Found at i:3270798 original size:10 final size:11
Alignment explanation
Indices: 3270770--3270804 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
3270760 TTTTTAATAA
*
3270770 TTTAAAGGTTT
1 TTTAAAGATTT
3270781 TTTAAAGATTT
1 TTTAAAGATTT
3270792 TTT-AAGATTT
1 TTTAAAGATTT
3270802 TTT
1 TTT
3270805 TTTCACAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (11 bp):
TTTAAAGATTT
Found at i:3271182 original size:15 final size:17
Alignment explanation
Indices: 3271161--3271201 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
3271151 AATTATTCAA
3271161 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
3271177 -AAATTACT-AAAATAAT
1 AAAATTA-TAAAAATAAT
3271193 AAAATTATA
1 AAAATTATA
3271202 TTTTGAGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
15 11 0.52
16 4 0.19
17 6 0.29
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:3271608 original size:15 final size:17
Alignment explanation
Indices: 3271576--3271616 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
3271566 TAATAAAAAT
3271576 ATAATTTTATAGTTTTA
1 ATAATTTTATAGTTTTA
3271593 ATAA-TTTATA-TTTTA
1 ATAATTTTATAGTTTTA
*
3271608 ATATTTTTA
1 ATAATTTTA
3271617 AAAATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 8 0.36
16 10 0.45
17 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
ATAATTTTATAGTTTTA
Found at i:3271613 original size:14 final size:15
Alignment explanation
Indices: 3271577--3271613 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
3271567 AATAAAAATA
3271577 TAAT-TTTATAGTTT
1 TAATATTTATAGTTT
3271591 TAATAATTTATA-TTT
1 TAAT-ATTTATAGTTT
3271606 TAATATTT
1 TAATATTT
3271614 TTAAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.38
15 7 0.33
16 6 0.29
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TAATATTTATAGTTT
Found at i:3271616 original size:16 final size:16
Alignment explanation
Indices: 3271579--3271614 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
3271569 TAAAAATATA
3271579 ATTTTATAGTTTTAAT
1 ATTTTATAGTTTTAAT
*
3271595 AATTTATA-TTTTAAT
1 ATTTTATAGTTTTAAT
3271610 ATTTT
1 ATTTT
3271615 TAAAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
ATTTTATAGTTTTAAT
Found at i:3271622 original size:24 final size:22
Alignment explanation
Indices: 3271569--3271625 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
3271559 TTTATAATAA
*
3271569 TAAAAATATAATTTTATAGTTT
1 TAAAAATTTAATTTTATAGTTT
* *
3271591 TAATAATTTATATTTTAATATTTT
1 TAAAAATTTA-ATTTT-ATAGTTT
3271615 TAAAAATTTAA
1 TAAAAATTTAA
3271626 ATTAAATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 8 0.28
23 6 0.21
24 15 0.52
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TAAAAATTTAATTTTATAGTTT
Done.