Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 60 of 352
Found at i:18955587 original size:19 final size:20
Alignment explanation
Indices: 18955560--18955597 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
18955550 CAAGTAATAA
18955560 AAAAAAGAAAGAAA-AAAAC
1 AAAAAAGAAAGAAAGAAAAC
*
18955579 AAAACAGAAAGAAAGAAAA
1 AAAAAAGAAAGAAAGAAAA
18955598 AGAAAAAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAAAAGAAAGAAAGAAAAC
Found at i:18956051 original size:19 final size:20
Alignment explanation
Indices: 18956027--18956067 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
18956017 GAATTTAGGT
*
18956027 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
18956046 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
18956066 AA
1 AA
18956068 TTATGTAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:18961360 original size:24 final size:25
Alignment explanation
Indices: 18961304--18961362 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
18961294 ATTTTATGTT
18961304 TATATATTGT-ATATAGAAATAATTA
1 TATATATT-TAATATAGAAATAATTA
*
18961329 TATTTATTTAATATA-AAATAAATTA
1 TATATATTTAATATAGAAAT-AATTA
18961354 -ATATATTTA
1 TATATATTTA
18961363 TTTAAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (25 bp):
TATATATTTAATATAGAAATAATTA
Found at i:18961377 original size:28 final size:28
Alignment explanation
Indices: 18961313--18961379 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
18961303 TTATATATTG
*
18961313 TATATAGAAA-TAATTATATTTATTTAA
1 TATATATAAATTAATTATATTTATTTAA
*
18961340 TATAAAATAAATTAA-TATATTTATTTAAA
1 TAT-ATATAAATTAATTATATTTATTT-AA
18961369 TATATATAAAT
1 TATATATAAAT
18961380 AAATCAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 3 0.09
28 23 0.68
29 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (28 bp):
TATATATAAATTAATTATATTTATTTAA
Found at i:18961786 original size:12 final size:13
Alignment explanation
Indices: 18961768--18961800 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
18961758 AATCTAATTA
18961768 TTTTCTTTCCTTC
1 TTTTCTTTCCTTC
*
18961781 -TTTCTTTCTTTC
1 TTTTCTTTCCTTC
18961793 TTTTCTTT
1 TTTTCTTT
18961801 TAAATCATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCTTTCCTTC
Found at i:18963776 original size:173 final size:173
Alignment explanation
Indices: 18963480--18963829 Score: 691
Period size: 173 Copynumber: 2.0 Consensus size: 173
18963470 TTTCTTAATC
18963480 TAATATAGAATACTTCTGCAATGTACATTACCAATTGCGCTATCTGCACATGCATTGGACTAGGA
1 TAATATAGAATACTTCTGCAATGTACATTACCAATTGCGCTATCTGCACATGCATTGGACTAGGA
18963545 GAGTGAGGGAAACTTCTGTCTAATTTTATTTTGCTTGTTAAGAGTGCAAGCTTGAAAGAGGATTG
66 GAGTGAGGGAAACTTCTGTCTAATTTTATTTTGCTTGTTAAGAGTGCAAGCTTGAAAGAGGATTG
18963610 TTTCTATTTTGCAATATAGGTTTGTAGTCTAGGAACTTAGCTT
131 TTTCTATTTTGCAATATAGGTTTGTAGTCTAGGAACTTAGCTT
*
18963653 TAATATGGAATACTTCTGCAATGTACATTACCAATTGCGCTATCTGCACATGCATTGGACTAGGA
1 TAATATAGAATACTTCTGCAATGTACATTACCAATTGCGCTATCTGCACATGCATTGGACTAGGA
18963718 GAGTGAGGGAAACTTCTGTCTAATTTTATTTTGCTTGTTAAGAGTGCAAGCTTGAAAGAGGATTG
66 GAGTGAGGGAAACTTCTGTCTAATTTTATTTTGCTTGTTAAGAGTGCAAGCTTGAAAGAGGATTG
18963783 TTTCTATTTTGCAATATAGGTTTGTAGTCTAGGAACTTAGCTT
131 TTTCTATTTTGCAATATAGGTTTGTAGTCTAGGAACTTAGCTT
18963826 TAAT
1 TAAT
18963830 TACTCTTCTA
Statistics
Matches: 176, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
173 176 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (173 bp):
TAATATAGAATACTTCTGCAATGTACATTACCAATTGCGCTATCTGCACATGCATTGGACTAGGA
GAGTGAGGGAAACTTCTGTCTAATTTTATTTTGCTTGTTAAGAGTGCAAGCTTGAAAGAGGATTG
TTTCTATTTTGCAATATAGGTTTGTAGTCTAGGAACTTAGCTT
Found at i:18970688 original size:21 final size:21
Alignment explanation
Indices: 18970662--18970703 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
18970652 GGCCAAGGGG
18970662 GCGAATGTTATACAATGTGAA
1 GCGAATGTTATACAATGTGAA
18970683 GCGAATGTTATACAATGTGAA
1 GCGAATGTTATACAATGTGAA
18970704 ATTAATTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (21 bp):
GCGAATGTTATACAATGTGAA
Found at i:18971026 original size:21 final size:21
Alignment explanation
Indices: 18971000--18971042 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
18970990 CATCCAACCT
* *
18971000 AAGAAAATAGAAAGGGATAAA
1 AAGAAAATAAAAAGGGACAAA
18971021 AAGAAAATAAAAAGGGACAAA
1 AAGAAAATAAAAAGGGACAAA
18971042 A
1 A
18971043 GGGTTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.70, C:0.02, G:0.21, T:0.07
Consensus pattern (21 bp):
AAGAAAATAAAAAGGGACAAA
Found at i:18973037 original size:25 final size:24
Alignment explanation
Indices: 18972973--18973101 Score: 88
Period size: 23 Copynumber: 5.5 Consensus size: 24
18972963 GTAGTTCACA
*
18972973 AAGAACCATATCGGGAAGCTCATG
1 AAGAGCCATATCGGGAAGCTCATG
*
18972997 AAGAGCC-TATCAGGAAGCTC-TG
1 AAGAGCCATATCGGGAAGCTCATG
* * * *
18973019 GATAGCCATATATCGGGAAGTTCAAG
1 AAGAGCC--ATATCGGGAAGCTCATG
* * **
18973045 -CGAG-CACTATCGGGAGGCTCACA
1 AAGAGCCA-TATCGGGAAGCTCATG
**
18973068 AAGAGCC-TATCGGGAAGCTCACA
1 AAGAGCCATATCGGGAAGCTCATG
18973091 AAGAGCCATAT
1 AAGAGCCATAT
18973102 ATTGGGACGC
Statistics
Matches: 82, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
22 8 0.10
23 46 0.56
24 13 0.16
25 14 0.17
26 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.17
Consensus pattern (24 bp):
AAGAGCCATATCGGGAAGCTCATG
Found at i:18975256 original size:3 final size:3
Alignment explanation
Indices: 18975242--18975290 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
18975232 TTTTATACTA
*
18975242 AAT AATT AAT AAT AA- AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18975285 AA- AAT A
1 AAT AAT A
18975291 TCTAATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:18975264 original size:11 final size:11
Alignment explanation
Indices: 18975248--18975286 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
18975238 ACTAAATAAT
18975248 TAATAATAAAA
1 TAATAATAAAA
*
18975259 TAATAATGAAA
1 TAATAATAAAA
18975270 TAATAATAAAA
1 TAATAATAAAA
18975281 TAATAA
1 TAATAA
18975287 AATATCTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:18975273 original size:19 final size:19
Alignment explanation
Indices: 18975249--18975306 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
18975239 CTAAATAATT
*
18975249 AATAATAA-AATAATAATGA
1 AATAATAATAA-AATAATAA
18975268 AATAATAATAAAATAATAA
1 AATAATAATAAAATAATAA
*
18975287 AATATCTAATTAAAATAATA
1 AATA-ATAA-TAAAATAATA
18975307 TATATCTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 19 0.56
20 5 0.15
21 10 0.29
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AATAATAATAAAATAATAA
Found at i:18975311 original size:20 final size:21
Alignment explanation
Indices: 18975260--18975335 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 21
18975250 ATAATAAAAT
* *
18975260 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
18975279 AATAATAAAATATCTAATTAA
1 AATAATAAAATATCTAATTAA
*
18975300 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
18975321 TAATCATAAAATATC
1 -AATAATAAAATATC
18975336 ATCAACATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
19 11 0.23
20 14 0.30
21 11 0.23
22 5 0.11
23 6 0.13
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:18985226 original size:29 final size:28
Alignment explanation
Indices: 18985186--18985254 Score: 77
Period size: 31 Copynumber: 2.4 Consensus size: 28
18985176 TTAAAATTCA
*
18985186 CATGTATAATTG-CATCAAATTAAAGTT
1 CATGTATAATTGACATCAAATAAAAGTT
*
18985213 CATGTATACGATTGCACATTAAATAAAAGTT
1 CATGTATA--ATTG-ACATCAAATAAAAGTT
*
18985244 CATATATAATT
1 CATGTATAATT
18985255 TTAAGATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 8 0.23
29 7 0.20
31 20 0.57
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (28 bp):
CATGTATAATTGACATCAAATAAAAGTT
Found at i:18986685 original size:20 final size:20
Alignment explanation
Indices: 18986646--18986684 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
18986636 TTTAAATTTA
18986646 AAAATTATTTTGAATTTTTT
1 AAAATTATTTTGAATTTTTT
18986666 AAAATTATTTT-AATTTTTT
1 AAAATTATTTTGAATTTTTT
18986685 TTGTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
AAAATTATTTTGAATTTTTT
Found at i:19001597 original size:2 final size:2
Alignment explanation
Indices: 19001590--19001614 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19001580 ACTTTTCGAC
19001590 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 T
19001615 TTTGTTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19004927 original size:48 final size:48
Alignment explanation
Indices: 19004814--19005100 Score: 326
Period size: 48 Copynumber: 5.9 Consensus size: 48
19004804 CACTGGAGGT
* *
19004814 GGCTTCACAACT-GGAGGACTTGGGTATACAGGAGGCGTTGGCGTTGGCGTTGGC
1 GGCTTCACAA-TGGGAGGACTTGGGTATACAGGAGGC--T----TTGGAGCTGGC
** * *
19004868 GGCTTCACAATGGGAGGACTTGGGTATACAGGAGGGGTTGGTGTTGGC
1 GGCTTCACAATGGGAGGACTTGGGTATACAGGAGGCTTTGGAGCTGGC
* *
19004916 GGCTTCACAATGGGAGGACTTGGGTATACATGAGGCTTTGGAACTGGC
1 GGCTTCACAATGGGAGGACTTGGGTATACAGGAGGCTTTGGAGCTGGC
*
19004964 GGCTTCGCAATGGGAGGACTTGGGTATACAGGAGGCTTTGGAAG-TGGC
1 GGCTTCACAATGGGAGGACTTGGGTATACAGGAGGCTTTGG-AGCTGGC
* * * *
19005012 GGCTTCACAATGGGAGGACTGGGGTAGACGGGAGGCTTTGGCGCTGGC
1 GGCTTCACAATGGGAGGACTTGGGTATACAGGAGGCTTTGGAGCTGGC
* * * * *
19005060 GGCTTTACAATAGGAGGACTGGGGTAGACGGGAGGCTTTGG
1 GGCTTCACAATGGGAGGACTTGGGTATACAGGAGGCTTTGG
19005101 TGGTGGTGAA
Statistics
Matches: 211, Mismatches: 19, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
47 1 0.00
48 175 0.83
49 1 0.00
53 1 0.00
54 33 0.16
ACGTcount: A:0.20, C:0.16, G:0.42, T:0.23
Consensus pattern (48 bp):
GGCTTCACAATGGGAGGACTTGGGTATACAGGAGGCTTTGGAGCTGGC
Found at i:19008306 original size:21 final size:21
Alignment explanation
Indices: 19008280--19008320 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19008270 AGACGAGCAA
* *
19008280 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
19008301 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
19008321 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:19012238 original size:17 final size:17
Alignment explanation
Indices: 19012216--19012248 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19012206 TTCAAACAAA
19012216 AAATTTAATTT-TAAATC
1 AAATTT-ATTTATAAATC
19012233 AAATTTATTTATAAAT
1 AAATTTATTTATAAAT
19012249 AACAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
AAATTTATTTATAAATC
Found at i:19018560 original size:27 final size:28
Alignment explanation
Indices: 19018492--19018560 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
19018482 TAAAAATTAT
* * *
19018492 AAAAAAT-TTAAAATAATTTTTAAAATA
1 AAAAAATCTTAAAAAAAGTTCTAAAATA
*
19018519 AAAAAATC-TAGAAAAAAGTTCTAGAA-A
1 AAAAAATCTTA-AAAAAAGTTCTAAAATA
19018546 AAAAAATCTTAAAAA
1 AAAAAATCTTAAAAA
19018561 TGTTGTTGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 22 0.63
28 13 0.37
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (28 bp):
AAAAAATCTTAAAAAAAGTTCTAAAATA
Found at i:19019964 original size:50 final size:50
Alignment explanation
Indices: 19019878--19019975 Score: 133
Period size: 50 Copynumber: 2.0 Consensus size: 50
19019868 CCAATGCTCT
* * **
19019878 AGGGAAACTATTTAATAATTTATATCCAATGCTAAAGTGCTACGTTCTTA
1 AGGGAAACTATTTAATAATTTACACCCAACACTAAAGTGCTACGTTCTTA
* * *
19019928 AGGGAAACTATTTGATGATTTACACCCAACATTAAAGTGCTACGTTCT
1 AGGGAAACTATTTAATAATTTACACCCAACACTAAAGTGCTACGTTCT
19019976 CAGTGCTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (50 bp):
AGGGAAACTATTTAATAATTTACACCCAACACTAAAGTGCTACGTTCTTA
Found at i:19020792 original size:22 final size:22
Alignment explanation
Indices: 19020762--19020805 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
19020752 ACACCAAAAC
* *
19020762 AGGCTTTTAGCGGCGTTTTTTA
1 AGGCCTTTAGCGGCGCTTTTTA
19020784 AGGCCTTTAGCGGCGCTTTTTA
1 AGGCCTTTAGCGGCGCTTTTTA
19020806 GCGCCGCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.18, G:0.27, T:0.41
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTA
Found at i:19021075 original size:44 final size:42
Alignment explanation
Indices: 19020895--19021052 Score: 226
Period size: 42 Copynumber: 3.7 Consensus size: 42
19020885 GTTTATGTGA
*
19020895 AAAAACGCCGCTAAAGATCATGAACTTTAGCGGCGCCTTTAC
1 AAAAACGCCGCTAAAGATCATGAACTTTAGCGGCGCTTTTAC
* * *
19020937 AAAAACGCCGCTAAAGAACACGACCTTTAGCGGCGCTTTTAC
1 AAAAACGCCGCTAAAGATCATGAACTTTAGCGGCGCTTTTAC
*
19020979 AAAAACGCCGCTAAAGATCATGAACTTTAGCGGTGCTTTTTATC
1 AAAAACGCCGCTAAAGATCATGAACTTTAGCGGCGC-TTTTA-C
* * *
19021023 ACAAACGCCGCTAAAGGTCATGATCTTTAG
1 AAAAACGCCGCTAAAGATCATGAACTTTAG
19021053 TGACACTTTT
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 70 0.68
43 5 0.05
44 28 0.27
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGAACTTTAGCGGCGCTTTTAC
Found at i:19021165 original size:18 final size:19
Alignment explanation
Indices: 19021142--19021179 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
19021132 ATTTAAAAAA
*
19021142 TTTTATTTAAATATT-TAT
1 TTTTATATAAATATTATAT
19021160 TTTTATATAAATATTATAT
1 TTTTATATAAATATTATAT
19021179 T
1 T
19021180 ATGTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATATAAATATTATAT
Found at i:19022174 original size:16 final size:16
Alignment explanation
Indices: 19022153--19022183 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
19022143 AGTCCCAAAC
19022153 TATTGTAAACATCAGT
1 TATTGTAAACATCAGT
19022169 TATTGTAAACATCAG
1 TATTGTAAACATCAG
19022184 ATAAGTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (16 bp):
TATTGTAAACATCAGT
Found at i:19023190 original size:20 final size:21
Alignment explanation
Indices: 19023165--19023204 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19023155 AAAATTTTAT
*
19023165 TTATTTT-TATTTGTTAAAAA
1 TTATTTTATATATGTTAAAAA
19023185 TTATTTTATATATGTTAAAA
1 TTATTTTATATATGTTAAAA
19023205 TGAGATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
TTATTTTATATATGTTAAAAA
Found at i:19024480 original size:7 final size:8
Alignment explanation
Indices: 19024454--19024479 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
19024444 ATAAATACTG
19024454 AAATCAGA
1 AAATCAGA
19024462 AAATCAGA
1 AAATCAGA
19024470 AAATCAGA
1 AAATCAGA
19024478 AA
1 AA
19024480 TGACAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (8 bp):
AAATCAGA
Found at i:19025380 original size:41 final size:41
Alignment explanation
Indices: 19025322--19025471 Score: 178
Period size: 41 Copynumber: 3.7 Consensus size: 41
19025312 AGGACCCGAT
* * * *
19025322 CATTAGTGGCACTTTTTAAAAAATGCCGCTAAAACCCTAAG
1 CATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAACCCTGAG
* * *
19025363 CATTAGTGGCGCATTTTAAAAAACGCCGCTAAATA-CTTGAG
1 CATTAGCGGCGCTTTTTAAAAAACGCCGCTAAA-ACCCTGAG
* *
19025404 CATTAGCGGCG-TTTTACAAAAAACGCCACTAAAACCCTGAG
1 CATTAGCGGCGCTTTT-TAAAAAACGCCGCTAAAACCCTGAG
*
19025445 TATTAGCGGCGCTTTTTAAAAAACGCC
1 CATTAGCGGCGCTTTTTAAAAAACGCC
19025472 ACAAAATCCC
Statistics
Matches: 93, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
40 4 0.04
41 84 0.90
42 5 0.05
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (41 bp):
CATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAACCCTGAG
Found at i:19026681 original size:22 final size:23
Alignment explanation
Indices: 19026656--19026702 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
19026646 AACCCAACCC
19026656 ATTTTCAATTTTATA-ATATGTT
1 ATTTTCAATTTTATATATATGTT
** *
19026678 ATTTTTTATTTTATATATATTTT
1 ATTTTCAATTTTATATATATGTT
19026701 AT
1 AT
19026703 ATCATACAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (23 bp):
ATTTTCAATTTTATATATATGTT
Found at i:19028220 original size:17 final size:17
Alignment explanation
Indices: 19028195--19028227 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19028185 ATATATATTA
*
19028195 ATTATTTCAATTAATTG
1 ATTAATTCAATTAATTG
19028212 ATTAATTCAATTAATT
1 ATTAATTCAATTAATT
19028228 ATCAGATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (17 bp):
ATTAATTCAATTAATTG
Found at i:19028924 original size:29 final size:30
Alignment explanation
Indices: 19028874--19028930 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
19028864 ACAATTAGGT
*
19028874 TAAAATATTTTAAAAATAAAAAT-TATAAA
1 TAAAATATTTAAAAAATAAAAATATATAAA
*
19028903 TAAAAT-TTTAAAAAATTCAAAATATATA
1 TAAAATATTTAAAAAA-TAAAAATATATA
19028931 TGTACAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.33
29 12 0.50
30 4 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (30 bp):
TAAAATATTTAAAAAATAAAAATATATAAA
Found at i:19053470 original size:38 final size:38
Alignment explanation
Indices: 19053400--19053472 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
19053390 ATTTAATAAA
* *
19053400 AAATAATAATTTAATTATATTTTAACACAATTATTATT
1 AAATAATAATTTAATAACATTTTAACACAATTATTATT
* *
19053438 AAAT-ATAATTTAATAACATTCTTAATATAATTATT
1 AAATAATAATTTAATAACATT-TTAACACAATTATT
19053473 TTTATATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 14 0.47
38 16 0.53
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (38 bp):
AAATAATAATTTAATAACATTTTAACACAATTATTATT
Found at i:19053492 original size:15 final size:15
Alignment explanation
Indices: 19053472--19053527 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
19053462 ATATAATTAT
19053472 TTTTATATTAAAATA
1 TTTTATATTAAAATA
*
19053487 TTTTATTTTAAATTATA
1 TTTTATATTAAA--ATA
*
19053504 TTTTGA-AATAAAATA
1 TTTT-ATATTAAAATA
19053519 TTTTATATT
1 TTTTATATT
19053528 GAGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 1 0.03
15 20 0.61
17 11 0.33
18 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TTTTATATTAAAATA
Found at i:19055954 original size:17 final size:18
Alignment explanation
Indices: 19055923--19055956 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19055913 AATTTAACTT
19055923 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
19055941 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
19055957 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:19056139 original size:47 final size:47
Alignment explanation
Indices: 19056086--19056175 Score: 164
Period size: 47 Copynumber: 1.9 Consensus size: 47
19056076 TTTTACCTTG
19056086 AACCTTAAACATTAAATCCC-GAGATTTAGGGTTTGGATTTGAGCTTA
1 AACCTTAAACATTAAA-CCCTGAGATTTAGGGTTTGGATTTGAGCTTA
19056133 AACCTTAAACATTAAACCCTGAGATTTAGGGTTTGGATTTGAG
1 AACCTTAAACATTAAACCCTGAGATTTAGGGTTTGGATTTGAG
19056176 ATTTAAGGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
46 3 0.07
47 39 0.93
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.33
Consensus pattern (47 bp):
AACCTTAAACATTAAACCCTGAGATTTAGGGTTTGGATTTGAGCTTA
Found at i:19056276 original size:28 final size:28
Alignment explanation
Indices: 19056224--19056319 Score: 79
Period size: 28 Copynumber: 3.5 Consensus size: 28
19056214 CATGAATTTG
** * *
19056224 GAGTTTAGGGTTCAAGTTTATGGTTTAA
1 GAGTTTAGGGTTTGAGTTCAAGGTTTAA
*
19056252 GAGTTTAGGGTTTGAGTTCAAGGTTCAA
1 GAGTTTAGGGTTTGAGTTCAAGGTTTAA
* * * * *
19056280 GGGTTTTGGATTATGAGTTCGACGTTT-A
1 GAGTTTAGGGTT-TGAGTTCAAGGTTTAA
19056308 G-GTTTAGGGTTT
1 GAGTTTAGGGTTT
19056320 TATATTTTTG
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 1 0.02
27 8 0.15
28 34 0.63
29 11 0.20
ACGTcount: A:0.21, C:0.05, G:0.32, T:0.42
Consensus pattern (28 bp):
GAGTTTAGGGTTTGAGTTCAAGGTTTAA
Found at i:19058349 original size:31 final size:28
Alignment explanation
Indices: 19058290--19058363 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 28
19058280 ATATATAAAT
19058290 TTTAATTTGGTGTAATTATAAACGTGAAA
1 TTTAATTTGGT-TAATTATAAACGTGAAA
* *
19058319 TTCTAATTATGGTTCAATTATATACTTGAAA
1 TT-TAATT-TGGTT-AATTATAAACGTGAAA
19058350 CTTTAATTTTGGTT
1 -TTTAA-TTTGGTT
19058364 TAATCATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
29 2 0.05
30 6 0.16
31 26 0.68
32 4 0.11
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (28 bp):
TTTAATTTGGTTAATTATAAACGTGAAA
Found at i:19059176 original size:17 final size:17
Alignment explanation
Indices: 19059141--19059175 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19059131 CTTTATTCAA
*
19059141 TTATTTTATAAATATTT
1 TTATTATATAAATATTT
19059158 TTATTATATAAAT-TTT
1 TTATTATATAAATATTT
19059174 TT
1 TT
19059176 TCACTCACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTATATAAATATTT
Found at i:19070401 original size:43 final size:43
Alignment explanation
Indices: 19070298--19070528 Score: 291
Period size: 43 Copynumber: 5.0 Consensus size: 43
19070288 TTATATAAGG
*
19070298 TATGTATTATGTAAGTTTTGTAAGTTATTGTATGATATATATTATT
1 TATGTATTATGTAAGTTTTGTAAGTTATTATATG--ATATA-TATT
*
19070344 TATGTATTATGTAAGTCTTGTAAGTTATTATATGATATATATT
1 TATGTATTATGTAAGTTTTGTAAGTTATTATATGATATATATT
19070387 TATGTATTATGTAAGTTTTGTAAGTTATGTAAGTTATTATATGATATATATATT
1 TATGTATTATGTAA-----GT---TT-TGTAAGTTATTATATG--ATATATATT
*
19070441 TATGTATTATGTAAATTTTGTAAGTTATTATATGATATATATT
1 TATGTATTATGTAAGTTTTGTAAGTTATTATATGATATATATT
* *
19070484 TATGTATTATGTTAGTTTTGTAAATTATTATATGATATATATT
1 TATGTATTATGTAAGTTTTGTAAGTTATTATATGATATATATT
19070527 TA
1 TA
19070529 ACATTAAGAT
Statistics
Matches: 167, Mismatches: 7, Indels: 25
0.84 0.04 0.13
Matches are distributed among these distances:
43 69 0.41
44 5 0.03
45 16 0.10
46 34 0.20
48 2 0.01
49 1 0.01
51 1 0.01
52 16 0.10
54 23 0.14
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (43 bp):
TATGTATTATGTAAGTTTTGTAAGTTATTATATGATATATATT
Found at i:19070410 original size:9 final size:9
Alignment explanation
Indices: 19070393--19070423 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19070383 TATTTATGTA
19070393 TTATGTAAG
1 TTATGTAAG
*
19070402 TTTTGTAAG
1 TTATGTAAG
19070411 TTATGTAAG
1 TTATGTAAG
19070420 TTAT
1 TTAT
19070424 TATATGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (9 bp):
TTATGTAAG
Found at i:19070480 original size:97 final size:97
Alignment explanation
Indices: 19070267--19070511 Score: 350
Period size: 97 Copynumber: 2.5 Consensus size: 97
19070257 TATGTTATGC
* * * * * * *
19070267 AAGTTATGATATGATATAAATTTATATAAGGTATGTA-TTATGTAAGTTTTGTAAGTTATTGTAT
1 AAGTTATTATATGATATATATTTATGT-A-TTATGTAGTTTTGTAAGTTATGTAAGTTATTATAT
*
19070331 GATATATATTATTTATGTATTATGTAAGTCTTGT
64 GATATATATTATTTATGTATTATGTAAATCTTGT
19070365 AAGTTATTATATGATATATATTTATGTATTATGTAAGTTTTGTAAGTTATGTAAGTTATTATATG
1 AAGTTATTATATGATATATATTTATGTATTATGT-AGTTTTGTAAGTTATGTAAGTTATTATATG
*
19070430 ATATATA-TATTTATGTATTATGTAAATTTTGT
65 ATATATATTATTTATGTATTATGTAAATCTTGT
*
19070462 AAGTTATTATATGATATATATTTATGTATTATGTTAGTTTTGTAAATTAT
1 AAGTTATTATATGATATATATTTATGTATTATG-TAGTTTTGTAAGTTAT
19070512 TATATGATAT
Statistics
Matches: 134, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
96 5 0.04
97 72 0.54
98 57 0.43
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (97 bp):
AAGTTATTATATGATATATATTTATGTATTATGTAGTTTTGTAAGTTATGTAAGTTATTATATGA
TATATATTATTTATGTATTATGTAAATCTTGT
Found at i:19070482 original size:54 final size:54
Alignment explanation
Indices: 19070247--19070468 Score: 177
Period size: 52 Copynumber: 4.3 Consensus size: 54
19070237 CGTAAGTTAA
* * * * * * *
19070247 GTAAGTTTTGTATGTTATGCAAGTTATGATATGATATA-A-ATTTATATAAGGTAT
1 GTAAATTTTGTAAGTTATGTAAGATATTATATGATATATATATTTATGT-A-TTAT
* * * *
19070301 GT--ATTATGTAAGTTTTGTAAGTTATTGTATGATATATATTATTTATGTATTAT
1 GTAAATTTTGTAAGTTATGTAAGATATTATATGATATATA-TATTTATGTATTAT
* *
19070354 GT-AA----GT---CT-TGTAAGTTATTATATG--ATATATATTTATGTATTAT
1 GTAAATTTTGTAAGTTATGTAAGATATTATATGATATATATATTTATGTATTAT
* *
19070397 GTAAGTTTTGTAAGTTATGTAAGTTATTATATGATATATATATTTATGTATTAT
1 GTAAATTTTGTAAGTTATGTAAGATATTATATGATATATATATTTATGTATTAT
19070451 GTAAATTTTGTAAGTTAT
1 GTAAATTTTGTAAGTTAT
19070469 TATATGATAT
Statistics
Matches: 139, Mismatches: 14, Indels: 30
0.76 0.08 0.16
Matches are distributed among these distances:
43 16 0.12
44 6 0.04
46 15 0.11
47 1 0.01
48 2 0.01
50 2 0.01
51 1 0.01
52 43 0.31
53 6 0.04
54 40 0.29
55 7 0.05
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (54 bp):
GTAAATTTTGTAAGTTATGTAAGATATTATATGATATATATATTTATGTATTAT
Found at i:19070546 original size:97 final size:97
Alignment explanation
Indices: 19070348--19070547 Score: 244
Period size: 97 Copynumber: 2.1 Consensus size: 97
19070338 ATTATTTATG
* *
19070348 TATTATGTAAGTCTTGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTTTGTAAGTT
1 TATTATGTAAATCTTGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTTTGTAAATT
* * * ** **
19070413 ATGTAAGTTATTATATGATATATATATTTATG
66 ATGTAAGATATTATATAACATATATAGATAAA
* *
19070445 TATTATGTAAATTTTGTAAGTTATTATATGATATATATTTATGTATTATGTTAGTTTTGTAAATT
1 TATTATGTAAATCTTGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTTTGTAAATT
*
19070510 AT-TATATGATATATATTTAACAT-TA-AGATAAA
66 ATGTA-A-GATAT-TATATAACATATATAGATAAA
19070542 TATTAT
1 TATTAT
19070548 TTCCCTTTAA
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
96 2 0.02
97 73 0.83
98 6 0.07
99 7 0.08
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.52
Consensus pattern (97 bp):
TATTATGTAAATCTTGTAAGTTATTATATGATATATATTTATGTATTATGTAAGTTTTGTAAATT
ATGTAAGATATTATATAACATATATAGATAAA
Found at i:19071124 original size:21 final size:21
Alignment explanation
Indices: 19071100--19071139 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19071090 AGATACAGGC
19071100 AAAAT-TTCTACTATTTAATCG
1 AAAATATTCT-CTATTTAATCG
*
19071121 AAAATATTCTTTATTTAAT
1 AAAATATTCTCTATTTAAT
19071140 ATTTGTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (21 bp):
AAAATATTCTCTATTTAATCG
Found at i:19071178 original size:20 final size:20
Alignment explanation
Indices: 19071155--19071196 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
19071145 TTATATTCAA
19071155 TACTCATTTAATATTAAAAT
1 TACTCATTTAATATTAAAAT
* * *
19071175 TACTTATTTTATATTTAAAT
1 TACTCATTTAATATTAAAAT
19071195 TA
1 TA
19071197 TTATTAACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
TACTCATTTAATATTAAAAT
Found at i:19072042 original size:20 final size:20
Alignment explanation
Indices: 19072017--19072065 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
19072007 ACAAAACTCA
19072017 AAAATAAAAAAATGTCAACC
1 AAAATAAAAAAATGTCAACC
19072037 AAAATAAAAAAATGTCAACC
1 AAAATAAAAAAATGTCAACC
*
19072057 ATAATAAAA
1 AAAATAAAA
19072066 TCTTAAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.67, C:0.12, G:0.04, T:0.16
Consensus pattern (20 bp):
AAAATAAAAAAATGTCAACC
Found at i:19078485 original size:114 final size:116
Alignment explanation
Indices: 19078319--19078617 Score: 441
Period size: 114 Copynumber: 2.6 Consensus size: 116
19078309 TAATTTAACA
* *
19078319 TTAGCGGCGTTTATAACCTAGTGCCGCTAAAAAC-CACCTATTGTGGCGTTTAGCCTCAAAACGC
1 TTAGCGGCGTTTATAACCTAGGGCCGCTAAAAACGCACCTATTGCGGCGTTTAGCCTCAAAACGC
* *
19078383 CACTAATAATATAATAAAACGACGCCGTTTTTGTTTTAACCGAAATCACC-
66 CACTAATAATATAACAAAACGACGCCATTTTTGTTTTAACCGAAATCACCT
* *
19078433 TTAGCGGCGTTTATACCCTAGGGCCGCT-AAAACGCACCTATTGCGGCGTTTAGCCCCAAAACGC
1 TTAGCGGCGTTTATAACCTAGGGCCGCTAAAAACGCACCTATTGCGGCGTTTAGCCTCAAAACGC
19078497 CACTAATAATATAACAAAACGACGCCATTTTTGTTTTAACCGAAATCACCT
66 CACTAATAATATAACAAAACGACGCCATTTTTGTTTTAACCGAAATCACCT
* * *
19078548 TTAGCGGAGTTTATAGA-CT-GGTGCCACTAAAAACGCACCTATTGCGGCGTTTTG--TGCAAAA
1 TTAGCGGCGTTTATA-ACCTAGG-GCCGCTAAAAACGCACCTATTGCGGCGTTTAGCCT-CAAAA
19078609 CGCCACTAA
63 CGCCACTAA
19078618 CAAATCCAAT
Statistics
Matches: 168, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
113 5 0.03
114 104 0.62
115 35 0.21
116 24 0.14
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (116 bp):
TTAGCGGCGTTTATAACCTAGGGCCGCTAAAAACGCACCTATTGCGGCGTTTAGCCTCAAAACGC
CACTAATAATATAACAAAACGACGCCATTTTTGTTTTAACCGAAATCACCT
Found at i:19078782 original size:16 final size:17
Alignment explanation
Indices: 19078761--19078795 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
19078751 ACTATTTAAT
19078761 ATATAAATT-AAAAACA
1 ATATAAATTAAAAAACA
19078777 ATATAAATTAAAAAACA
1 ATATAAATTAAAAAACA
19078794 AT
1 AT
19078796 CACTTATATA
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:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
ATATAAATTAAAAAACA
Found at i:19078964 original size:17 final size:17
Alignment explanation
Indices: 19078908--19078965 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
19078898 ATTACATAAA
*
19078908 ATTTGAAAACTTGAAAATT
1 ATTT-AAAATTTG-AAATT
* *
19078927 TTTTAAAATTT-TAATT
1 ATTTAAAATTTGAAATT
*
19078943 CTTTAAAATTTGAAATT
1 ATTTAAAATTTGAAATT
19078960 ATTTAA
1 ATTTAA
19078966 TATATAGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
16 14 0.44
17 9 0.28
18 6 0.19
19 3 0.09
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (17 bp):
ATTTAAAATTTGAAATT
Found at i:19079149 original size:30 final size:30
Alignment explanation
Indices: 19079094--19079151 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
19079084 TATGTCCCTT
*
19079094 AACCCTAAAACTCCTAACACCTAAATTCTA
1 AACCCTAAAACCCCTAACACCTAAATTCTA
19079124 AACCCT-AAACCCCATAAC-CCATAAATTC
1 AACCCTAAAACCCC-TAACACC-TAAATTC
19079152 ATAACTCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (30 bp):
AACCCTAAAACCCCTAACACCTAAATTCTA
Found at i:19079926 original size:40 final size:40
Alignment explanation
Indices: 19079796--19079944 Score: 167
Period size: 41 Copynumber: 3.6 Consensus size: 40
19079786 CGCTTTTGGT
* *
19079796 AAAGCGCTGCTAATGCTCTGATTTTTAGTAGCGTTTTACCA
1 AAAGCGCCGCTAATGCTCTG-TTTTTAGCAGCGTTTTACCA
* * *
19079837 AAAGCACCGCTAATGCTCCGTTTTTTAGCGGCGTTTTACCA
1 AAAGCGCCGCTAATGCTCTG-TTTTTAGCAGCGTTTTACCA
* *
19079878 AAAGCGCCGCTAATGCTCTGTTTTTAGCAGCATTTTTGA-TA
1 AAAGCGCCGCTAATGCTCTGTTTTTAGCAGC-GTTTT-ACCA
*
19079919 AAA-CGCCGCTATTGCTCTGTGTTTTA
1 AAAGCGCCGCTAATGCTCTGT-TTTTA
19079945 CAATTTTTGC
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
40 26 0.28
41 66 0.71
42 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (40 bp):
AAAGCGCCGCTAATGCTCTGTTTTTAGCAGCGTTTTACCA
Found at i:19085809 original size:39 final size:39
Alignment explanation
Indices: 19085755--19085833 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
19085745 AAAACTCTTT
19085755 GGTTTATAAGTTTTGTTAAAAACTTTGCTAAATCGAATC
1 GGTTTATAAGTTTTGTTAAAAACTTTGCTAAATCGAATC
19085794 GGTTTATAAGTTTTGTTAAAAACTTTGCTAAATCGAATC
1 GGTTTATAAGTTTTGTTAAAAACTTTGCTAAATCGAATC
19085833 G
1 G
19085834 TAAACATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (39 bp):
GGTTTATAAGTTTTGTTAAAAACTTTGCTAAATCGAATC
Found at i:19088448 original size:111 final size:110
Alignment explanation
Indices: 19088295--19088778 Score: 467
Period size: 111 Copynumber: 4.3 Consensus size: 110
19088285 CTTACTGAAG
*
19088295 GGTTGGGAAAGACCTAGTC-AAGGCCAACCTTTAAAAAGGGTTGGGATAAACCTAGTCAAGGCCA
1 GGTTGGGATAGACC-AGTCTAAGG-CAACCTTTAAAAA-GGTTGGGATAAACCTAGTCAAGG-CA
* * *
19088359 ACCTTTGAAAAAGGTTGTGATAGACC-TGTCTAAGGCAACCTT-AAAAA
62 ACCTTTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTTAAAAAA
* ** * * *
19088406 GGTTGGGCTAGACCAGTTCTAAGATAACCTTTTAAAAAGGTTGGGATAAACCTTACTTAAGACAA
1 GGTTGGGATAGACCAG-TCTAAGGCAACC-TTTAAAAAGGTTGGGATAAACC-TAGTCAAGGCAA
* * * * * *
19088471 CATTTAAAAAAAGTTGGGACAGACATTGTCTAAGGCAACCTTTAAAAAA
63 CCTTTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACC-TTAAAAAA
** * * * * * *
19088520 TATTGGGATAGAATCA-TCTAAGGCAACC-TTAAATAGGTTGGTATAGACATTGTCTAAGGCAAC
1 GGTTGGGATAG-ACCAGTCTAAGGCAACCTTTAAAAAGGTTGGGATAAACCTAGTC-AAGGCAAC
*
19088583 CTTTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACTTTTAAAAAA
64 CTTTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAAC-CTTAAAAAA
* * * * *
19088631 GGTTGGGATAGACCTGTCTAAGGCAACCTTTGAAAAATGTTGGGATAGACC-AGTTTAAGGAAAC
1 GGTTGGGATAGACCAGTCTAAGGCAACCTTT-AAAAAGGTTGGGATAAACCTAG-TCAAGGCAAC
* * *
19088695 CTTTTAAAAATGTTAGGATAGACCTTGTCTAAAACAACCTTAAAAAAA
64 CTTTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTT-AAAAAA
** * *
19088743 GGTTGGGATAGACTTGTTTAAGGCAACCTTCAAAAA
1 GGTTGGGATAGACCAGTCTAAGGCAACCTTTAAAAA
19088779 AGGCTAGGAT
Statistics
Matches: 306, Mismatches: 52, Indels: 30
0.79 0.13 0.08
Matches are distributed among these distances:
110 6 0.02
111 146 0.48
112 110 0.36
113 28 0.09
114 13 0.04
115 3 0.01
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.26
Consensus pattern (110 bp):
GGTTGGGATAGACCAGTCTAAGGCAACCTTTAAAAAGGTTGGGATAAACCTAGTCAAGGCAACCT
TTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTTAAAAAA
Found at i:19088530 original size:149 final size:149
Alignment explanation
Indices: 19088319--19088752 Score: 475
Period size: 149 Copynumber: 2.9 Consensus size: 149
19088309 TAGTCAAGGC
* ** * * * *
19088319 CAACCTTTAAAAAGGGTTGGGATAAACCTAGTC-AAGGCCAACCTTTGAAAAAGGTTGTGATAGA
1 CAACATTTAAAAAAAGTTGGGACAGACCT-GTCTAAGG-CAACCTTTGAAAAATGTTGGGATAGA
* * *
19088383 CCTGTCTAAGGCAACCTTAAAAAGGTTGGGCTAGACCAGT-TCTAAGATAACCTTTTAAAAAGGT
64 CCTGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCATTGTCTAAGACAACCTTTTAAAAAGGT
*
19088447 TGGGATAAACCTT-ACTTAAG
129 TGGGATAAACCTTGACTAAAG
* * *
19088467 ACAACATTTAAAAAAAGTTGGGACAGACATTGTCTAAGGCAACCTTTAAAAAATATTGGGATAGA
1 -CAACATTTAAAAAAAGTTGGGACAGAC-CTGTCTAAGGCAACCTTTGAAAAATGTTGGGATAGA
* * * * *
19088532 -ATCATCTAAGGCAACCTTAAATAGGTTGGTATAGA-CATTGTCTAAGGCAACCTTTTAAAAAGG
64 CCT-GTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCATTGTCTAAGACAACCTTTTAAAAAGG
* *
19088595 TTGGGATAGACCTTGTCTAAAG
128 TTGGGATAAACCTTGACTAAAG
* * *
19088617 CAACTTTTAAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTTGAAAAATGTTGGGATAGACC
1 CAACATTTAAAAAAAGTTGGGACAGACCTGTCTAAGGCAACCTTTGAAAAATGTTGGGATAGACC
* * * * * * **
19088682 AGTTTAAGGAAACCTTTTAAAAATGTTAGGATAGACC-TTGTCTAAAACAACCTTAAAAAAAGGT
66 TGTCTAAGGCAACC--TTAAAAAGGTTGGGATAGACCATTGTCTAAGACAACCTTTTAAAAAGGT
19088746 TGGGATA
129 TGGGATA
19088753 GACTTGTTTA
Statistics
Matches: 236, Mismatches: 40, Indels: 17
0.81 0.14 0.06
Matches are distributed among these distances:
148 47 0.20
149 133 0.56
150 55 0.23
151 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (149 bp):
CAACATTTAAAAAAAGTTGGGACAGACCTGTCTAAGGCAACCTTTGAAAAATGTTGGGATAGACC
TGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCATTGTCTAAGACAACCTTTTAAAAAGGTTG
GGATAAACCTTGACTAAAG
Found at i:19088779 original size:38 final size:37
Alignment explanation
Indices: 19088295--19088985 Score: 448
Period size: 38 Copynumber: 19.1 Consensus size: 37
19088285 CTTACTGAAG
* * *
19088295 GGTTGGGAAAGACCTAGTC-AAGGCCAACCTTTAAAAAG
1 GGTTGGGATAGA-CTTGTCTAAGG-CAACCTTTAAAAAA
* * *
19088333 GGTTGGGATAAACCTAGTC-AAGGCCAACCTTTGAAAAA
1 GGTTGGGATAGA-CTTGTCTAAGG-CAACCTTTAAAAAA
* *
19088371 GGTTGTGATAGACCTGTCTAAGGCAACC-TT-AAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* ** ** *
19088406 GGTTGGGCTAGACCAGTTCTAAGATAACCTTTTAAAAA
1 GGTTGGGATAGACTTG-TCTAAGGCAACCTTTAAAAAA
* * * *
19088444 GGTTGGGATAAACCTT-ACTTAAGACAACATTTAAAAAA
1 GGTTGGGATAGA-CTTGTC-TAAGGCAACCTTTAAAAAA
* *
19088482 AGTTGGGACAGACATTGTCTAAGGCAACCTTTAAAAAA
1 GGTTGGGATAGAC-TTGTCTAAGGCAACCTTTAAAAAA
** * ** *
19088520 TATTGGGATAGAATCATCTAAGGCAACC-TT-AAATA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* *
19088555 GGTTGGTATAGACATTGTCTAAGGCAACCTTTTAAAAA
1 GGTTGGGATAGAC-TTGTCTAAGGCAACCTTTAAAAAA
* *
19088593 GGTTGGGATAGACCTTGTCTAAAGCAACTTTTAAAAAA
1 GGTTGGGATAGA-CTTGTCTAAGGCAACCTTTAAAAAA
* *
19088631 GGTTGGGATAGACCTGTCTAAGGCAACCTTTGAAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* ** * * *
19088668 TGTTGGGATAGACCAGTTTAAGGAAACCTTTTAAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* * ** *
19088705 TGTTAGGATAGACCTTGTCTAAAACAACCTTAAAAAAA
1 GGTTGGGATAGA-CTTGTCTAAGGCAACCTTTAAAAAA
* *
19088743 GGTTGGGATAGACTTGTTTAAGGCAACCTTCAAAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* * * * * *
19088780 GGCTAGGATAGAATCGTCTAGGGTAACC-TT--AAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* *
19088814 -------A-AG--TTGTCTAAGGCAACTTTTAGAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* * * *
19088841 TGTTAGGATTGACTTGTCTAAGACAACC-TT-AAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* * * ** * *
19088876 TGTTGGAATAGGCCCGTTTAAAGCAACC-TT-AAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
* * * *
19088911 GGTTGGAATAGACTTTTTTCAAGGCAA-C-ATAAAAAA
1 GGTTGGGATAGACTTGTCT-AAGGCAACCTTTAAAAAA
* *
19088947 AGTTGGGATAAACTTGTCTAAGGCAACC-TT-AAAAA
1 GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
19088982 GGTT
1 GGTT
19088986 ACAGTAAACC
Statistics
Matches: 516, Mismatches: 108, Indels: 61
0.75 0.16 0.09
Matches are distributed among these distances:
24 11 0.02
25 2 0.00
26 2 0.00
27 5 0.01
34 5 0.01
35 93 0.18
36 57 0.11
37 147 0.28
38 191 0.37
39 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (37 bp):
GGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA
Found at i:19088808 original size:112 final size:109
Alignment explanation
Indices: 19088358--19088819 Score: 364
Period size: 112 Copynumber: 4.2 Consensus size: 109
19088348 AGTCAAGGCC
* * * * * *
19088358 AACCTTTGAAAAAGGTTGTGATAGACC-TGTCTAAGGCAACC-TT-AAAAAGGTTGGGCTAGACC
1 AACCTTTTAAAAAAGTTGGGATAGACCTTGTCTAAAGCAACCTTTAAAAAAGGTTGGGATAGACT
* ** * * *
19088420 AGTTCTAAGATAACCTTTTAAAAAGGTTGGGATA-AACCTTACTTAA-GA
66 TG-TCTAAGGCAACC--TTAAAAAGG-TAGGATAGAATCGT-C-TAAGGA
* * * * * ** *
19088468 CAACATTTAAAAAAAGTTGGGACAGACATTGTCTAAGGCAACCTTTAAAAAATATTGGGATAGAA
1 -AACCTTTTAAAAAAGTTGGGATAGACCTTGTCTAAAGCAACCTTTAAAAAAGGTTGGGATAGAC
** * * * *
19088533 TCATCTAAGGCAACCTTAAATAGGTTGGTATAGACATTGTCTAAGGC
65 TTGTCTAAGGCAACCTTAAAAAGGTAGG-ATAGA-ATCGTCTAAGGA
* * *
19088580 AACCTTTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACTTTTAAAAAAGGTTGGGATAGACC
1 AACCTTTTAAAAAAGTTGGGATAGACCTTGTCTAAAGCAACCTTTAAAAAAGGTTGGGATAGACT
* * * *
19088645 TGTCTAAGGCAACCTTTGAAAAATGTTGGGATAG-ACCAGTTTAAGGA
66 TGTCTAAGGCAACC-TT-AAAAA-GGTAGGATAGAATC-GTCTAAGGA
* * * *
19088692 AACCTTTTAAAAATGTTAGGATAGACCTTGTCTAAAACAACCTTAAAAAAAGGTTGGGATAGACT
1 AACCTTTTAAAAAAGTTGGGATAGACCTTGTCTAAAGCAACCTTTAAAAAAGGTTGGGATAGACT
* * *
19088757 TGTTTAAGGCAACCTTCAAAAAAGGCTAGGATAGAATCGTCTAGGGT
66 TGTCTAAGGCAACCTT--AAAAAGG-TAGGATAGAATCGTCTAAGGA
19088804 AACC--TTAAAAAAGTTG
1 AACCTTTTAAAAAAGTTG
19088820 TCTAAGGCAA
Statistics
Matches: 280, Mismatches: 57, Indels: 29
0.77 0.16 0.08
Matches are distributed among these distances:
110 13 0.05
111 105 0.38
112 120 0.43
113 24 0.09
114 18 0.06
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (109 bp):
AACCTTTTAAAAAAGTTGGGATAGACCTTGTCTAAAGCAACCTTTAAAAAAGGTTGGGATAGACT
TGTCTAAGGCAACCTTAAAAAGGTAGGATAGAATCGTCTAAGGA
Found at i:19088815 original size:75 final size:74
Alignment explanation
Indices: 19088314--19088815 Score: 320
Period size: 75 Copynumber: 6.7 Consensus size: 74
19088304 AGACCTAGTC
* * * ** *
19088314 AAGGCCAACCTTTAAAAAGGGTTGGGATA-AACCTAGTC-AAGGCCAACCTTTGAAAAAGGTTGT
1 AAGG-CAACCTTTAAAAAAGGTTAGGATAGAA--TCGTCTAAGG-CAACCTTAAAAAAAGGTTGG
* *
19088377 GATAGACCTGTCT
62 GATAGACTTGTTT
* * * ** **
19088390 AAGGCAACC-TT-AAAAAGGTTGGGCTAG-ACCAGTTCTAAGATAACCTTTTAAAAAGGTTGGGA
1 AAGGCAACCTTTAAAAAAGGTTAGGATAGAATC-G-TCTAAGGCAACCTTAAAAAAAGGTTGGGA
* **
19088452 TAAACCTTACTT
64 TAGA-CTTGTTT
* * * * * * * **
19088464 AAGACAACATTTAAAAAAAGTTGGGACAGACATTGTCTAAGGCAACCTTTAAAAAATATTGGGAT
1 AAGGCAACCTTTAAAAAAGGTTAGGATAGA-ATCGTCTAAGGCAACCTTAAAAAAAGGTTGGGAT
* ** *
19088529 AGAATCATCT
65 AGACTTGTTT
* * **
19088539 AAGGCAACC-TT-AAATAGGTT-GGTATAGACATTGTCTAAGGCAACCTTTTAAAAAGGTTGGGA
1 AAGGCAACCTTTAAAAAAGGTTAGG-ATAGA-ATCGTCTAAGGCAACCTTAAAAAAAGGTTGGGA
*
19088601 TAGACCTTGTCT
64 TAGA-CTTGTTT
* * * * ** *
19088613 AAAGCAACTTTTAAAAAAGGTTGGGATAG-ACCTGTCTAAGGCAACCTTTGAAAAATGTTGGGAT
1 AAGGCAACCTTTAAAAAAGGTTAGGATAGAATC-GTCTAAGGCAACCTTAAAAAAAGGTTGGGAT
**
19088677 AGACCAGTTT
65 AGACTTGTTT
* * * * * **
19088687 AAGGAAACCTTTTAAAAATGTTAGGATAGACCTTGTCTAAAACAACCTTAAAAAAAGGTTGGGAT
1 AAGGCAACCTTTAAAAAAGGTTAGGATAGA-ATCGTCTAAGGCAACCTTAAAAAAAGGTTGGGAT
19088752 AGACTTGTTT
65 AGACTTGTTT
* * * *
19088762 AAGGCAACCTTCAAAAAAGGCTAGGATAGAATCGTCTAGGGTAACCTTAAAAAA
1 AAGGCAACCTTTAAAAAAGGTTAGGATAGAATCGTCTAAGGCAACCTTAAAAAA
19088816 GTTGTCTAAG
Statistics
Matches: 331, Mismatches: 78, Indels: 36
0.74 0.18 0.08
Matches are distributed among these distances:
72 3 0.01
73 84 0.25
74 74 0.22
75 110 0.33
76 56 0.17
77 3 0.01
78 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (74 bp):
AAGGCAACCTTTAAAAAAGGTTAGGATAGAATCGTCTAAGGCAACCTTAAAAAAAGGTTGGGATA
GACTTGTTT
Found at i:19088946 original size:36 final size:35
Alignment explanation
Indices: 19088852--19088985 Score: 88
Period size: 35 Copynumber: 3.8 Consensus size: 35
19088842 GTTAGGATTG
* * * * *
19088852 ACTTGTCTAAGACAACCTTAAAAATGTTGGAATAG
1 ACTTGTCTAAGGCAACATAAAAAAGGTTGGAATAA
* ** * * * * *
19088887 GCCCGTTTAAAGCAACCTTAAAAAGGTTGGAATAG
1 ACTTGTCTAAGGCAACATAAAAAAGGTTGGAATAA
* * * *
19088922 ACTTTTTTCAAGGCAACATAAAAAAAGTTGGGATAA
1 ACTTGTCT-AAGGCAACATAAAAAAGGTTGGAATAA
* *
19088958 ACTTGTCTAAGGCAACCTTAAAAAGGTT
1 ACTTGTCTAAGGCAACATAAAAAAGGTT
19088986 ACAGTAAACC
Statistics
Matches: 76, Mismatches: 22, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
35 49 0.64
36 27 0.36
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (35 bp):
ACTTGTCTAAGGCAACATAAAAAAGGTTGGAATAA
Found at i:19089360 original size:75 final size:75
Alignment explanation
Indices: 19089220--19089372 Score: 202
Period size: 75 Copynumber: 2.0 Consensus size: 75
19089210 TAGTAATTTA
* * *
19089220 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCGAACATGTTGTCAACCTAATTCACATGAC
1 TATACAAAATCCTAACAGAAGCAATCAACAAGTTGCAAACATGTTGTCAACCTAATTCACATGAC
*
19089285 ATCAAAAAAT
66 ATAAAAAAAT
* ** *
19089295 TATACAAAATCCTAACAGAAGCAATCAACACA-TTGCAAACATGTTGTCAACTTGTTTTC-CGTG
1 TATACAAAATCCTAACAGAAGCAATCAACA-AGTTGCAAACATGTTGTCAACCT-AATTCACATG
19089358 ACATAAAAAAAT
64 ACATAAAAAAAT
19089370 TAT
1 TAT
19089373 GGGACAACTG
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
75 64 0.94
76 4 0.06
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (75 bp):
TATACAAAATCCTAACAGAAGCAATCAACAAGTTGCAAACATGTTGTCAACCTAATTCACATGAC
ATAAAAAAAT
Found at i:19093589 original size:3 final size:3
Alignment explanation
Indices: 19093581--19093616 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
19093571 TGCATTTTAA
*
19093581 TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
19093617 GTGTATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:19093724 original size:3 final size:3
Alignment explanation
Indices: 19093716--19093745 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
19093706 TGTATTTCTA
19093716 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19093746 ATAGTAGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:19098758 original size:6 final size:5
Alignment explanation
Indices: 19098732--19098776 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
19098722 ACCTAGGATG
* *
19098732 TGAAT TGAAT TGAAT TGAAT ATGAAT ATGAAT TGCAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT -TGAAT -TGAAT TGAAT TGAAT TGA
19098777 GGTAAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 24 0.69
6 11 0.31
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (5 bp):
TGAAT
Found at i:19099172 original size:24 final size:23
Alignment explanation
Indices: 19099101--19099178 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 23
19099091 CAAAAGATTG
* *
19099101 TCCCGTTATTAGCCCTCTCGAGCT
1 TCCCGTTAATAGCTCT-TCGAGCT
* * *
19099125 TCCCATTATATGGTTCTTACGAGCT
1 TCCCGTTA-ATAGCTCTT-CGAGCT
*
19099150 TCCCGTTAATAGCTCTTCGGAGCA
1 TCCCGTTAATAGCTCTTC-GAGCT
19099174 TCCCG
1 TCCCG
19099179 ATTGGTTGTG
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
23 1 0.02
24 24 0.57
25 17 0.40
ACGTcount: A:0.17, C:0.32, G:0.18, T:0.33
Consensus pattern (23 bp):
TCCCGTTAATAGCTCTTCGAGCT
Found at i:19099430 original size:49 final size:49
Alignment explanation
Indices: 19099354--19099455 Score: 150
Period size: 49 Copynumber: 2.1 Consensus size: 49
19099344 CTATCCAGAA
* * * * * *
19099354 CTTCCTGATTAATGGCTCTTCGGAGCTACCCGTTTTTAGCTCGCATGGG
1 CTTCCTAATTAATGGCTCTTCGAAGCTACCCATTATTAGCTCACATGAG
19099403 CTTCCTAATTAATGGCTCTTCGAAGCTACCCATTATTAGCTCACATGAG
1 CTTCCTAATTAATGGCTCTTCGAAGCTACCCATTATTAGCTCACATGAG
19099452 CTTC
1 CTTC
19099456 TCGATTATGA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.34
Consensus pattern (49 bp):
CTTCCTAATTAATGGCTCTTCGAAGCTACCCATTATTAGCTCACATGAG
Found at i:19101390 original size:8 final size:8
Alignment explanation
Indices: 19101366--19101428 Score: 56
Period size: 8 Copynumber: 7.4 Consensus size: 8
19101356 ATTATTTTAA
19101366 AAATATAT
1 AAATATAT
19101374 AAA-ATAT
1 AAATATAT
19101381 AAATATAT
1 AAATATAT
*
19101389 AAAATCCTAT
1 -AAAT-ATAT
*
19101399 AACATATGTAA
1 AA-ATA--TAT
19101410 AAATATAT
1 AAATATAT
19101418 AAATATAT
1 AAATATAT
19101426 AAA
1 AAA
19101429 AGCGTATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
7 7 0.16
8 20 0.44
9 6 0.13
10 8 0.18
11 4 0.09
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (8 bp):
AAATATAT
Found at i:19103090 original size:42 final size:43
Alignment explanation
Indices: 19103030--19103186 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
19103020 GTTATCGAGA
19103030 TGTGATTATCATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTA-CATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
19103074 TGTGATTAC-TGTAAGACCATGTCTAGGACATTGGCATCAT-TAA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTAT
* * * * *
19103117 T-CGATTACGTGTAAGACCCTGTCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
19103158 GTGTGATAACATGTAAGACCATATCTGGG
1 -TGTGATTACATGTAAGACCATGTCTGGG
19103187 CTATGACATT
Statistics
Matches: 94, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
41 1 0.01
42 34 0.36
43 50 0.53
44 9 0.10
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:19103146 original size:43 final size:43
Alignment explanation
Indices: 19103041--19103154 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 43
19103031 GTGATTATCA
* *
19103041 TGTAAGACCATGTCTGGGACATTGGCAT-TGTATTGTGATTAC
1 TGTAAGACCATGTCTGGGACATTGGCATCTGTAATGCGATTAC
*
19103083 TGTAAGACCATGTCTAGGACATTGGCATCAT-TAAT-CGATTAC
1 TGTAAGACCATGTCTGGGACATTGGCATC-TGTAATGCGATTAC
* *
19103125 GTGTAAGACCCTGTCTGGGACAGTGGCATC
1 -TGTAAGACCATGTCTGGGACATTGGCATC
19103155 GATGTGTGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 33 0.52
43 29 0.46
44 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCTGTAATGCGATTAC
Found at i:19108774 original size:6 final size:6
Alignment explanation
Indices: 19108758--19108791 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
19108748 CTGTGTACCA
*
19108758 TTACTG CTACTG TTACTG TTACTG TTACTG TTAC
1 TTACTG TTACTG TTACTG TTACTG TTACTG TTAC
19108792 GGTGTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.47
Consensus pattern (6 bp):
TTACTG
Found at i:19110949 original size:18 final size:18
Alignment explanation
Indices: 19110926--19111208 Score: 151
Period size: 18 Copynumber: 15.3 Consensus size: 18
19110916 GAATAATTAT
19110926 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
19110944 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * * *
19110962 TTGTTCAATAATAATCAG
1 TTATTCAGTAACAGTCAG
* *
19110980 TTATTTAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
19111006 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
*
19111024 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * * *
19111041 ATATTCAGTAACTATTAAA
1 TTATTCAGTAAC-AGTCAG
*
19111060 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* *
19111077 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
19111096 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
19111114 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
19111132 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
19111150 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
19111168 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
19111186 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
19111204 TTATT
1 TTATT
19111209 TTATACCTTT
Statistics
Matches: 199, Mismatches: 50, Indels: 32
0.71 0.18 0.11
Matches are distributed among these distances:
17 17 0.09
18 149 0.75
19 17 0.09
21 2 0.01
22 1 0.01
23 2 0.01
26 11 0.06
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:19111141 original size:72 final size:71
Alignment explanation
Indices: 19111007--19111208 Score: 219
Period size: 72 Copynumber: 2.8 Consensus size: 71
19110997 ATTGATCGGT
* * * *
19111007 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACTATTAAATTATTCAGTAG
1 TATCCAGTAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
*
19111071 CAGTC-AT
64 CAGTCTAA
* * * *
19111078 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
19111143 CAGTCTAA
64 CAGTCTAA
* * * * *
19111151 TATCCAGTAACAGTCAATTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
19111209 TTATACCTTT
Statistics
Matches: 108, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
71 1 0.01
72 91 0.84
73 16 0.15
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:19111555 original size:45 final size:45
Alignment explanation
Indices: 19111372--19111564 Score: 253
Period size: 45 Copynumber: 4.3 Consensus size: 45
19111362 ACAAATCCGA
* * *
19111372 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGGT
1 AACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
* *
19111417 AAC-GATAACAATAATAATATTCGACACACAAAGTGCCGAATCGGT
1 AACAG-TAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
* * * *
19111462 AACGGTAACAGAAACAATATTCGACACACACAGTGCCGAATCAGT
1 AACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
* * *
19111507 AACAGTAGCAGTAACAATATTCGACATACAAAGTGCCGAATCTGT
1 AACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
*
19111552 AACAGTAGCAGTA
1 AACAGTAACAGTA
19111565 GCGGTAACAG
Statistics
Matches: 130, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
44 1 0.01
45 128 0.98
46 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (45 bp):
AACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
Found at i:19112382 original size:21 final size:21
Alignment explanation
Indices: 19112357--19112417 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
19112347 TTCAATTTCA
19112357 ATTCAATAA-CAATTCACATAT
1 ATTCAATAATCAATTCA-ATAT
19112378 ATTC-ATAAATCAATTCAATAT
1 ATTCAAT-AATCAATTCAATAT
* * *
19112399 AATCAATATTCAATCCAAT
1 ATTCAATAATCAATTCAAT
19112418 TCATATAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.06
21 23 0.68
22 9 0.26
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTCAATAATCAATTCAATAT
Found at i:19115266 original size:14 final size:14
Alignment explanation
Indices: 19115228--19115270 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
19115218 ATAGTTTAAT
19115228 AATAAAATAAA-GA
1 AATAAAATAAATGA
*
19115241 AATGAAATAAATGA
1 AATAAAATAAATGA
*
19115255 AATAAAAGAAATGA
1 AATAAAATAAATGA
19115269 AA
1 AA
19115271 AAGAAAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (14 bp):
AATAAAATAAATGA
Found at i:19116059 original size:53 final size:53
Alignment explanation
Indices: 19115995--19116120 Score: 180
Period size: 53 Copynumber: 2.4 Consensus size: 53
19115985 ATATTGTTAC
* *
19115995 TGTTACCGTTACTGTTTCGGATTTGTTCCGATGAGATACTCTGAGTACCGTAA
1 TGTTACTGTTACTGTTCCGGATTTGTTCCGATGAGATACTCTGAGTACCGTAA
* * * *
19116048 TGTTACTGTTACTATTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTAC
1 TGTTACTGTTACTGTTCCGGATTTGTTCCGATGAGATACTCTGAGTACCGTAA
* *
19116101 TGCTATTGTTACTGTTCCGG
1 TGTTACTGTTACTGTTCCGG
19116121 CTTCGGCCGA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 64 1.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (53 bp):
TGTTACTGTTACTGTTCCGGATTTGTTCCGATGAGATACTCTGAGTACCGTAA
Found at i:19116327 original size:79 final size:79
Alignment explanation
Indices: 19116228--19116376 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 79
19116218 ATTACTGAAT
* * *
19116228 AATTGATCATTACTGAATAACTTAATTGTTACTGAAT-ATCTGATT-TTACTGAATAATTGACTG
1 AATTGATCATTACTGAATAAC-TAATTATTACTGAATAAT-TGATTGTTACCGAATAACTGACTG
19116291 TTACTGATAACCAATC
64 TTACTGATAACCAATC
** *
19116307 AATTGATCGA-TACTGAATAACTGGTTATTATTGAATAATTGATTGTTACCGAATAACTGACTGT
1 AATTGATC-ATTACTGAATAACTAATTATTACTGAATAATTGATTGTTACCGAATAACTGACTGT
19116371 TACTGA
65 TACTGA
19116377 ATAAATAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
78 16 0.26
79 44 0.72
80 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (79 bp):
AATTGATCATTACTGAATAACTAATTATTACTGAATAATTGATTGTTACCGAATAACTGACTGTT
ACTGATAACCAATC
Found at i:19116389 original size:18 final size:18
Alignment explanation
Indices: 19116191--19116393 Score: 133
Period size: 18 Copynumber: 10.9 Consensus size: 18
19116181 TAGGTCCGAG
*
19116191 TAACTGATTATTACTGAA
1 TAACTGATTGTTACTGAA
* *
19116209 TAACTGAATATTACTGAA
1 TAACTGATTGTTACTGAA
* **
19116227 TAATTGATCATTACTGAA
1 TAACTGATTGTTACTGAA
*
19116245 TAACTTAATTGTTACTGAA
1 TAAC-TGATTGTTACTGAA
*
19116264 TATCTGATT-TTACTGAA
1 TAACTGATTGTTACTGAA
* *
19116281 TAATTGACTGTTACTG-A
1 TAACTGATTGTTACTGAA
*
19116298 TAACCAATCAATTGATCGATACTGAA
1 TAA-C--T-GATTG-T---TACTGAA
* * *
19116324 TAACTGGTTATTATTGAA
1 TAACTGATTGTTACTGAA
* *
19116342 TAATTGATTGTTACCGAA
1 TAACTGATTGTTACTGAA
*
19116360 TAACTGACTGTTACTGAA
1 TAACTGATTGTTACTGAA
* *
19116378 TAAATAATTGTT-CTGA
1 TAACTGATTGTTACTGA
19116394 TTGTTAATAA
Statistics
Matches: 143, Mismatches: 31, Indels: 23
0.73 0.16 0.12
Matches are distributed among these distances:
17 22 0.15
18 88 0.62
19 14 0.10
20 1 0.01
21 4 0.03
22 3 0.02
23 1 0.01
25 6 0.04
26 4 0.03
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (18 bp):
TAACTGATTGTTACTGAA
Found at i:19118076 original size:26 final size:26
Alignment explanation
Indices: 19118035--19118091 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
19118025 TTAAAATATT
**
19118035 AAAA-TAAATAACATTTATCTTTATG
1 AAAATTAAATAACATTTAAATTTATG
*
19118060 AAAATTAAATAATATTTAAATTTATG
1 AAAATTAAATAACATTTAAATTTATG
19118086 ATAAAT
1 A-AAAT
19118092 AATATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 4 0.15
26 19 0.70
27 4 0.15
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (26 bp):
AAAATTAAATAACATTTAAATTTATG
Found at i:19118108 original size:19 final size:21
Alignment explanation
Indices: 19118065--19118112 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
19118055 TTATGAAAAT
*
19118065 TAAATAATATTTAAATTTATGA
1 TAAATAATATTTAAA-TTATCA
19118087 TAAATAATATTTAAA-T-TCA
1 TAAATAATATTTAAATTATCA
19118106 TAAATAA
1 TAAATAA
19118113 AATAGTCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 9 0.36
20 1 0.04
22 15 0.60
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TAAATAATATTTAAATTATCA
Found at i:19121737 original size:31 final size:31
Alignment explanation
Indices: 19121677--19121742 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
19121667 AATAATAATG
* * *
19121677 ATTTGACTTTTTTTAAAAGTATAATAATTAA
1 ATTTCACTCTTTTTAAAAGTATAAGAATTAA
*
19121708 ATTTCACTCTTTTTAAAAG-ATTAAGAATTAG
1 ATTTCACTCTTTTTAAAAGTA-TAAGAATTAA
19121739 ATTT
1 ATTT
19121743 AATTAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (31 bp):
ATTTCACTCTTTTTAAAAGTATAAGAATTAA
Found at i:19121860 original size:10 final size:10
Alignment explanation
Indices: 19121845--19121869 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19121835 ATCTTCAAGC
19121845 AAATACACAG
1 AAATACACAG
19121855 AAATACACAG
1 AAATACACAG
19121865 AAATA
1 AAATA
19121870 TGAAGATTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.16, G:0.08, T:0.12
Consensus pattern (10 bp):
AAATACACAG
Found at i:19122996 original size:140 final size:138
Alignment explanation
Indices: 19122775--19123438 Score: 733
Period size: 140 Copynumber: 4.8 Consensus size: 138
19122765 GACAAATCCG
* * *
19122775 ACTCTTATTAAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACCAAGAGTTGGCCAAAGT
1 ACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
* * *
19122840 GTATGTTAGCAAGTCTATCCCAACACTTAGGAAAATGTCAGCCCAAAAGTGTAGGCATAGTGTTG
66 GTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTC-GCCCAAAAGTGTAGGCATAG-GCTG
* * *
19122905 GATAAAGTCG
129 GAAAAAGCCA
* * * * *
19122915 ACTCTTATTTAAGCGTTGCCTTAAGCATTCATATTCCAACCCTTATACAAAAAGTTGACCAAAGC
1 ACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
* * * *
19122980 GTATGTCGGTAAGTCTATCCCAACACTTAGGAAAATGTCG-TC-----T-TA-G----GGCTGGA
66 GTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGCCCAAAAGTGTAGGCATAGGCTGGA
19123033 AAAAGCCA
131 AAAAGCCA
* * * *
19123041 ACTCTTATTTAAGCGTTGCCTTAGGCATGCATACCCCAGCCCTTATACAAATAGTTGGCCAAAAC
1 ACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
* * * * * * * * * *
19123106 GTATGTTGACAAGTTTATCCTAACACTTAGGAACGTGTAGCCCCAGAAGTGTCGTCTTAGGACTA
66 GTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCG-CCCAAAAGTGTAGGCATAGG-CTG
*
19123171 CACAAAAGCCA
129 GA-AAAAGCCA
* * *
19123182 ACTCTTATTTAAGCATTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGACCAAAGC
1 ACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
* * * * * *
19123247 GTATGTTGGCAAGTTTATCCTAACACTTAGGAAAGTGTCGCCCCAAAAGTGTCGTCTTAGGACTA
66 GTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCG-CCCAAAAGTGTAGGCATAGG-CTG
*
19123312 GATAAAGCCA
129 GAAAAAGCCA
* *
19123322 ACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACCAAGAGTTGGCCAAATC
1 ACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
* *
19123387 GTCTGTTGATC-AGTCTATCCCAACACTTAGGAAAGTGTCGCCCTAAAAGTGT
66 GTATGTTG-GCAAGTCTATCCCAACACTTAGGAAAGTGTCGCCC-AAAAGTGT
19123439 TGTCTTAGGA
Statistics
Matches: 448, Mismatches: 59, Indels: 34
0.83 0.11 0.06
Matches are distributed among these distances:
126 99 0.22
127 1 0.00
128 1 0.00
131 1 0.00
132 2 0.00
133 2 0.00
134 1 0.00
138 1 0.00
139 6 0.01
140 205 0.46
141 129 0.29
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (138 bp):
ACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
GTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGCCCAAAAGTGTAGGCATAGGCTGGA
AAAAGCCA
Found at i:19125067 original size:7 final size:7
Alignment explanation
Indices: 19125057--19125090 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
19125047 TTCAAATTTC
19125057 AAAATTA
1 AAAATTA
19125064 AAAATTA
1 AAAATTA
*
19125071 AAAATTC
1 AAAATTA
19125078 AAAATTA
1 AAAATTA
19125085 AAAATT
1 AAAATT
19125091 TTAGATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAATTA
Found at i:19126687 original size:15 final size:15
Alignment explanation
Indices: 19126669--19126698 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19126659 TGTCACACGA
*
19126669 AAAATAAATTTATTT
1 AAAATAAATATATTT
19126684 AAAATAAATATATTT
1 AAAATAAATATATTT
19126699 TGACCAACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAATAAATATATTT
Found at i:19127927 original size:21 final size:22
Alignment explanation
Indices: 19127893--19127934 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
19127883 TTTATAATGT
*
19127893 TAATACATTTTATTTTAAAAAA
1 TAATACATTGTATTTTAAAAAA
*
19127915 TAAT-CATTGTATTTTTAAAA
1 TAATACATTGTATTTTAAAAA
19127935 TTCTTGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (22 bp):
TAATACATTGTATTTTAAAAAA
Found at i:19128686 original size:20 final size:20
Alignment explanation
Indices: 19128638--19128686 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
19128628 TGTAAATTTG
*
19128638 ATTTTTATAATTTTTTTACA
1 ATTTTTATAATTTTTCTACA
** *
19128658 ATTCATATAATTTTTCTAGA
1 ATTTTTATAATTTTTCTACA
*
19128678 TTTTTTATA
1 ATTTTTATA
19128687 TCTTTTAGTG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTTTATAATTTTTCTACA
Found at i:19129506 original size:26 final size:24
Alignment explanation
Indices: 19129477--19129524 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
19129467 ATGCCCTAAC
19129477 TTTGTTTAACTTTTACATTATTTACA
1 TTTGTTTAA-TTTTACATT-TTTACA
*
19129503 TTTGTTTAATTTTATATTTTTA
1 TTTGTTTAATTTTACATTTTTA
19129525 TTAGTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 8 0.38
26 9 0.43
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTGTTTAATTTTACATTTTTACA
Found at i:19129927 original size:54 final size:54
Alignment explanation
Indices: 19129863--19129972 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
19129853 TATCAATGTA
19129863 TAACATATAATATGCATATCTTAAAAAGAAAGTGGGTTGGGGAAAGACTAAACC
1 TAACATATAATATGCATATCTTAAAAAGAAAGTGGGTTGGGGAAAGACTAAACC
19129917 TAACATATAATATGCATATCTTAAAAAGAAAGTGGGTTGGGGAAAGACTAAACC
1 TAACATATAATATGCATATCTTAAAAAGAAAGTGGGTTGGGGAAAGACTAAACC
19129971 TA
1 TA
19129973 GGAAAGTTAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.25
Consensus pattern (54 bp):
TAACATATAATATGCATATCTTAAAAAGAAAGTGGGTTGGGGAAAGACTAAACC
Found at i:19132019 original size:46 final size:46
Alignment explanation
Indices: 19131948--19132045 Score: 142
Period size: 46 Copynumber: 2.1 Consensus size: 46
19131938 ATTCCAACCA
* * *
19131948 ACAACAGATTGGCCCCTATGAATTCTCAAGAGCAACAATAATAGAG
1 ACAACACATTAGCCCCTATGAATTCTCAAGAGCAACAACAATAGAG
* * *
19131994 ACAACACATTAGCCCTTATGCATTCTCAAGAGTAACAACAATAGAG
1 ACAACACATTAGCCCCTATGAATTCTCAAGAGCAACAACAATAGAG
19132040 ACAACA
1 ACAACA
19132046 ATGGGAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.19
Consensus pattern (46 bp):
ACAACACATTAGCCCCTATGAATTCTCAAGAGCAACAACAATAGAG
Found at i:19134567 original size:174 final size:173
Alignment explanation
Indices: 19134275--19134624 Score: 547
Period size: 174 Copynumber: 2.0 Consensus size: 173
19134265 ATTTCATTAC
* * * * * *
19134275 AAATGATATCTTGAGTAAGCAATTTAATATAATGCCTTTCTTCATATCTAATCTAATCTCAACCC
1 AAATGATATCCTAAGTAAGCAACTTAATACAATGCCCTTCTTCATATCTAATCCAATCTCAACCC
** * * *
19134340 TATTGTTGATGTGGATTCTCATTATAGAAATTAATTCTTTGATTTTATCCTATTTCTTAAATTGT
66 TATTGTTGATGCAGACTCTCATTATAGAAATTAATTCTTTCATATTATCCTATTTCTTAAATTGT
*
19134405 AAATTTCACATTTCACATGCTTTATATTACCCGATGAACACTGT
131 AAATTTCACATTTCACATGCTTTATATTA-CCGATGAACACTAT
19134449 AAATGATATCCTAAGTAAGCAACTTAATACAATGCCCTTCTTCATATCTAATCCAATCTCAACCC
1 AAATGATATCCTAAGTAAGCAACTTAATACAATGCCCTTCTTCATATCTAATCCAATCTCAACCC
* * *
19134514 TGTTGTTGATGCAGACTCTCATTATAGAAATTAATTCTTTCATATTCTCCTATTTCTTAACTTGT
66 TATTGTTGATGCAGACTCTCATTATAGAAATTAATTCTTTCATATTATCCTATTTCTTAAATTGT
*
19134579 AAATTTCACATTTCTCATGCTTTATATTACCGATGAACACTAT
131 AAATTTCACATTTCACATGCTTTATATTACCGATGAACACTAT
19134622 AAA
1 AAA
19134625 AGAACTGAAA
Statistics
Matches: 160, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
173 16 0.10
174 144 0.90
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (173 bp):
AAATGATATCCTAAGTAAGCAACTTAATACAATGCCCTTCTTCATATCTAATCCAATCTCAACCC
TATTGTTGATGCAGACTCTCATTATAGAAATTAATTCTTTCATATTATCCTATTTCTTAAATTGT
AAATTTCACATTTCACATGCTTTATATTACCGATGAACACTAT
Found at i:19138707 original size:18 final size:18
Alignment explanation
Indices: 19138664--19138712 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
19138654 TCAAGGATAA
19138664 TAAAAAAATTATAAAATTT
1 TAAAAAAATTA-AAAATTT
* *
19138683 TATAAAAGTTAAAAATTT
1 TAAAAAAATTAAAAATTT
19138701 TAAAAAAATTAA
1 TAAAAAAATTAA
19138713 GGCTAAAAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
TAAAAAAATTAAAAATTT
Found at i:19139988 original size:21 final size:21
Alignment explanation
Indices: 19139964--19140003 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19139954 CTCATTTTAT
19139964 TATTAAAATATATATTTTAGC
1 TATTAAAATATATATTTTAGC
***
19139985 TATTATTTTATATATTTTA
1 TATTAAAATATATATTTTA
19140004 AGTTTTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TATTAAAATATATATTTTAGC
Found at i:19143326 original size:31 final size:31
Alignment explanation
Indices: 19143288--19143352 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
19143278 AAGTCTTAGA
19143288 TGTGCAATGTAAAACAAATATAGAGTAGTTT
1 TGTGCAATGTAAAACAAATATAGAGTAGTTT
19143319 TGTGCAATGTAAAACAAATATAGAGTAGTTT
1 TGTGCAATGTAAAACAAATATAGAGTAGTTT
19143350 TGT
1 TGT
19143353 TTCTATATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (31 bp):
TGTGCAATGTAAAACAAATATAGAGTAGTTT
Found at i:19148034 original size:19 final size:19
Alignment explanation
Indices: 19147990--19148053 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
19147980 TATATCATAA
19147990 TTTTTTATAAATTTATATT
1 TTTTTTATAAATTTATATT
* *
19148009 TTATTTATCAATTT-TATT
1 TTTTTTATAAATTTATATT
* *
19148027 TATTTTTA-AGATTTTCTATT
1 T-TTTTTATA-AATTTATATT
19148047 TTTTTTA
1 TTTTTTA
19148054 ATTTATGTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
18 5 0.14
19 27 0.73
20 5 0.14
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTTTATAAATTTATATT
Found at i:19149364 original size:13 final size:14
Alignment explanation
Indices: 19149346--19149375 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
19149336 CTTGGGGCGT
19149346 CGCTTTCTA-AAAA
1 CGCTTTCTATAAAA
19149359 CGCTTTCTATAAAA
1 CGCTTTCTATAAAA
19149373 CGC
1 CGC
19149376 GTTTTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (14 bp):
CGCTTTCTATAAAA
Found at i:19149732 original size:27 final size:25
Alignment explanation
Indices: 19149697--19149751 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
19149687 TAATAACACT
*
19149697 TTTATTTATAAAATCAAATAATAAATA
1 TTTAATTATAAAAT-AAA-AATAAATA
* *
19149724 TTTAATTATATAATAAAAATAATTA
1 TTTAATTATAAAATAAAAATAAATA
19149749 TTT
1 TTT
19149752 TATACTTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.40
26 3 0.12
27 12 0.48
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTAATTATAAAATAAAAATAAATA
Found at i:19149831 original size:15 final size:15
Alignment explanation
Indices: 19149816--19149848 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
19149806 TTTATATATT
19149816 TTTATATAT--AATA
1 TTTATATATCAAATA
19149829 TTTATATATCAAATA
1 TTTATATATCAAATA
19149844 TTTAT
1 TTTAT
19149849 TTTTTCCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
15 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTATATATCAAATA
Found at i:19149927 original size:21 final size:23
Alignment explanation
Indices: 19149903--19149948 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
19149893 AATCAAATAA
19149903 TTATAT-T-AAAT-ATTATTATTT
1 TTATATGTAAAATAATTA-TATTT
19149924 TTATATGTAAAATAATTATATTT
1 TTATATGTAAAATAATTATATTT
19149947 TT
1 TT
19149949 TATCTACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.27
22 1 0.05
23 11 0.50
24 4 0.18
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TTATATGTAAAATAATTATATTT
Found at i:19149959 original size:22 final size:24
Alignment explanation
Indices: 19149903--19149959 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 24
19149893 AATCAAATAA
19149903 TTATAT-T-AAAT-ATTATTATTT
1 TTATATCTAAAATAATTATTATTT
*
19149924 TTATATGTAAAATAATTA-TATTT
1 TTATATCTAAAATAATTATTATTT
*
19149947 TT-TATCTACAATA
1 TTATATCTAAAATA
19149960 TGTATATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 6 0.19
22 10 0.32
23 11 0.35
24 4 0.13
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (24 bp):
TTATATCTAAAATAATTATTATTT
Found at i:19150029 original size:23 final size:25
Alignment explanation
Indices: 19150003--19150051 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
19149993 AATACTTCAA
19150003 TTAATTA-TTTTAAAA-TAAAATAT
1 TTAATTACTTTTAAAATTAAAATAT
*
19150026 TTAATTACTTTTAAAATTAACATAT
1 TTAATTACTTTTAAAATTAAAATAT
19150051 T
1 T
19150052 CTTCTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.30
24 8 0.35
25 8 0.35
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (25 bp):
TTAATTACTTTTAAAATTAAAATAT
Found at i:19150588 original size:31 final size:31
Alignment explanation
Indices: 19150553--19150618 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
19150543 ACTTTAATAG
* *
19150553 TTATTGAACTATTTAAAAATTTTTATTTAAA
1 TTATTGAACCATTCAAAAATTTTTATTTAAA
* * *
19150584 TTATTGAACCATTCGAAAGTTTTTATTTAAG
1 TTATTGAACCATTCAAAAATTTTTATTTAAA
19150615 TTAT
1 TTAT
19150619 CAGATTACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (31 bp):
TTATTGAACCATTCAAAAATTTTTATTTAAA
Found at i:19154932 original size:25 final size:24
Alignment explanation
Indices: 19154899--19154946 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
19154889 TCTAACCCGA
* *
19154899 TTTATATTTCAATTTTAATTCTTTG
1 TTTAAATTTAAATTTTAA-TCTTTG
19154924 TTTAAATTTAAATTTTAATCTTT
1 TTTAAATTTAAATTTTAATCTTT
19154947 ATATTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (24 bp):
TTTAAATTTAAATTTTAATCTTTG
Found at i:19156223 original size:2 final size:2
Alignment explanation
Indices: 19156216--19156241 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19156206 CTACCATCCC
19156216 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
19156242 CCTCTCTTTG
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:19171009 original size:46 final size:46
Alignment explanation
Indices: 19170942--19171116 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
19170932 TGTAACCCGC
*
19170942 CCATAAGTGAATTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
19170988 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
19171038 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
19171081 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
19171117 ATGCCCAAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 61 0.57
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:19171136 original size:46 final size:45
Alignment explanation
Indices: 19170993--19171136 Score: 112
Period size: 46 Copynumber: 3.1 Consensus size: 45
19170983 CGCATCCATA
* * *
19170993 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCA--AATATC-C
* * * * * *** *
19171041 A-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGCTCG--GATGCCCAAATATCC
19171086 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATTCC
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATA-TCC
19171132 AGTGA
1 AGTGA
19171137 CATGTCACTT
Statistics
Matches: 74, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
44 6 0.08
45 2 0.03
46 31 0.42
47 30 0.41
48 1 0.01
49 4 0.05
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATCC
Found at i:19182900 original size:12 final size:12
Alignment explanation
Indices: 19182883--19182907 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19182873 GAGCATTTAC
19182883 TTAAATACTTGG
1 TTAAATACTTGG
19182895 TTAAATACTTGG
1 TTAAATACTTGG
19182907 T
1 T
19182908 GTGCGCTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TTAAATACTTGG
Found at i:19188182 original size:80 final size:80
Alignment explanation
Indices: 19188076--19188235 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
19188066 TTATAGTAAG
*
19188076 TTCTCTATTAAAAGACAGTAGATAAAGTTAACACGACACAAAGAATAAAGTTAATATAGTCATTT
1 TTCTCTATCAAAAGACAGTAGATAAAGTTAACACGACACAAAGAATAAAGTTAATATAGTCATTT
19188141 TCACAGCCCAATGCA
66 TCACAGCCCAATGCA
*
19188156 TTCTTTATCAAAAGACAGTAGATAAAGTTAACACGACACAAAGAATAAAGTTAATATAGTCATTT
1 TTCTCTATCAAAAGACAGTAGATAAAGTTAACACGACACAAAGAATAAAGTTAATATAGTCATTT
19188221 TCACAGCCCAATGCA
66 TCACAGCCCAATGCA
19188236 CCATAGTATA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.26
Consensus pattern (80 bp):
TTCTCTATCAAAAGACAGTAGATAAAGTTAACACGACACAAAGAATAAAGTTAATATAGTCATTT
TCACAGCCCAATGCA
Found at i:19192059 original size:17 final size:19
Alignment explanation
Indices: 19192032--19192066 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
19192022 TTTTTACATG
19192032 AAAATGTAAAT-TAAAAAT
1 AAAATGTAAATATAAAAAT
19192050 AAAA-GTAAATATAAAAA
1 AAAATGTAAATATAAAAA
19192067 AACTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (19 bp):
AAAATGTAAATATAAAAAT
Found at i:19193321 original size:23 final size:23
Alignment explanation
Indices: 19193254--19193314 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 23
19193244 CAAAATGATC
19193254 TTAATTATATAAAAAATT--AA-AA
1 TTAATT-TAT-AAAAATTCCAACAA
*
19193276 TTAATTTATAAAAGTTCCAACAA
1 TTAATTTATAAAAATTCCAACAA
19193299 TTAATTT-TAAAAATTC
1 TTAATTTATAAAAATTC
19193315 ATAACAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 6 0.18
21 3 0.09
22 16 0.47
23 9 0.26
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (23 bp):
TTAATTTATAAAAATTCCAACAA
Found at i:19195802 original size:31 final size:32
Alignment explanation
Indices: 19195750--19195815 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 32
19195740 TAGTGTTAAA
* *
19195750 AGTGTTAAGGTTATTTTTTTAGTAGTATATTT
1 AGTGTTAAAGTTATTTTTTTAGTAGTATAATT
19195782 AGTGTTAAAGTTA-TTTTTTAGTAGTATAATT
1 AGTGTTAAAGTTATTTTTTTAGTAGTATAATT
19195813 AGT
1 AGT
19195816 TATTTTTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 20 0.62
32 12 0.38
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (32 bp):
AGTGTTAAAGTTATTTTTTTAGTAGTATAATT
Found at i:19195803 original size:19 final size:22
Alignment explanation
Indices: 19195779--19195831 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
19195769 TAGTAGTATA
19195779 TTTAGT-GT-TAA-AGTTATTT
1 TTTAGTAGTATAATAGTTATTT
19195798 TTTAGTAGTATAATTAGTTATTT
1 TTTAGTAGTATAA-TAGTTATTT
19195821 TTTCAGTAGTA
1 TTT-AGTAGTA
19195832 GTCTATTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.21
20 2 0.07
21 3 0.10
23 11 0.38
24 7 0.24
ACGTcount: A:0.28, C:0.02, G:0.15, T:0.55
Consensus pattern (22 bp):
TTTAGTAGTATAATAGTTATTT
Found at i:19200184 original size:53 final size:53
Alignment explanation
Indices: 19199988--19200191 Score: 140
Period size: 53 Copynumber: 3.8 Consensus size: 53
19199978 AGGGTTTAAG
* * * * *
19199988 GATACCAAGTAAGACCATGCCAAGGCATGGA-ATTGGTAAGTTTTACAAGGCAAA
1 GATACCACGTAAGACCATGCCAAGACAT-GACAATGGTAAG-TTCATAAGGCAAA
* * * * * ** * * * * *
19200042 TAAATCATGTAAGACCATGACAAGACATGGTATTGATAAACTACTACAAGGCAAA
1 GATACCACGTAAGACCATGCCAAGACATGACAATGGT-AAGTTC-ATAAGGCAAA
* * * * *
19200097 GATCCCATGTAAGACCATGCCAAGGCATGACAATGGTGAGTTCATAAGGCAAG
1 GATACCACGTAAGACCATGCCAAGACATGACAATGGTAAGTTCATAAGGCAAA
* * *
19200150 GATACCACGTAAGATCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCACGTAAGACCATGCCAAGACATGACAATGGTAAGTT
19200192 TAAAAAGGAA
Statistics
Matches: 114, Mismatches: 33, Indels: 7
0.74 0.21 0.05
Matches are distributed among these distances:
53 44 0.39
54 31 0.27
55 39 0.34
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
GATACCACGTAAGACCATGCCAAGACATGACAATGGTAAGTTCATAAGGCAAA
Found at i:19201526 original size:27 final size:27
Alignment explanation
Indices: 19201496--19201552 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
19201486 AACTTGTAAC
* * *
19201496 ATATTTTCATGAACTTGATTGTCACGT
1 ATATTTGCATGAACTTGATCGGCACGT
19201523 ATATTTGCATGAACTTGATCGGCACGT
1 ATATTTGCATGAACTTGATCGGCACGT
19201550 ATA
1 ATA
19201553 CTTAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.39
Consensus pattern (27 bp):
ATATTTGCATGAACTTGATCGGCACGT
Found at i:19202323 original size:31 final size:32
Alignment explanation
Indices: 19202257--19202329 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
19202247 ATTGGTAAGT
* *
19202257 AGATATTTATTATTTATTATTATTAAGTTAAA
1 AGATATTTATTAATTATAATTATTAAGTTAAA
*
19202289 AGATATTTATTAATTA-AATTATTATA-TTATA
1 AGATATTTATTAATTATAATTATTA-AGTTAAA
*
19202320 AGATTTTTAT
1 AGATATTTAT
19202330 ATGATAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 20 0.56
32 16 0.44
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.53
Consensus pattern (32 bp):
AGATATTTATTAATTATAATTATTAAGTTAAA
Found at i:19207722 original size:3 final size:3
Alignment explanation
Indices: 19207714--19207792 Score: 54
Period size: 3 Copynumber: 26.0 Consensus size: 3
19207704 ATGCATAAAC
* * * * *
19207714 AAT AAT AAT AAT GAT GAA- AAC GAT AAT -AT CAAT AAC AAT AAT GAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* *
19207759 AAT AAC AAT AAT AAT AAT GAT AAT AAT GAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
19207793 CTAAAATTTT
Statistics
Matches: 58, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
2 4 0.07
3 48 0.83
4 6 0.10
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:19207754 original size:30 final size:30
Alignment explanation
Indices: 19207713--19207771 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
19207703 TATGCATAAA
* *
19207713 CAATAATAATAATGATGAA-AACGATAATAT
1 CAATAACAATAATGAT-AATAACAATAATAT
19207743 CAATAACAATAATGATAATAACAATAATA
1 CAATAACAATAATGATAATAACAATAATA
19207772 ATAATGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.59, C:0.08, G:0.07, T:0.25
Consensus pattern (30 bp):
CAATAACAATAATGATAATAACAATAATAT
Found at i:19207759 original size:21 final size:21
Alignment explanation
Indices: 19207735--19207784 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
19207725 TGATGAAAAC
*
19207735 GATAATATCAATAACAATAAT
1 GATAATAACAATAACAATAAT
*
19207756 GATAATAACAATAATAATAAT
1 GATAATAACAATAACAATAAT
19207777 GATAATAA
1 GATAATAA
19207785 TGAATAATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (21 bp):
GATAATAACAATAACAATAAT
Found at i:19207836 original size:15 final size:15
Alignment explanation
Indices: 19207808--19207849 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 15
19207798 ATTTTGAAAG
19207808 TAAATAAA-AAGTAA
1 TAAATAAATAAGTAA
19207822 TAAATAAATAAGTAA
1 TAAATAAATAAGTAA
19207837 TGAAATAAGATAA
1 T-AAATAA-ATAA
19207850 CAATAAGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.32
15 7 0.28
16 6 0.24
17 4 0.16
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.24
Consensus pattern (15 bp):
TAAATAAATAAGTAA
Found at i:19208769 original size:14 final size:14
Alignment explanation
Indices: 19208750--19208790 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
19208740 TTATACTTTT
19208750 GAAAAAAATAAAAA
1 GAAAAAAATAAAAA
19208764 GAAAAAAATAAGAAA
1 GAAAAAAATAA-AAA
*
19208779 -ATAAAAATAAAA
1 GAAAAAAATAAAA
19208791 TGACAGACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 2 0.08
14 20 0.80
15 3 0.12
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (14 bp):
GAAAAAAATAAAAA
Found at i:19208790 original size:11 final size:11
Alignment explanation
Indices: 19208754--19208791 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
19208744 ACTTTTGAAA
19208754 AAAATAAAAAG
1 AAAATAAAAAG
19208765 AAAA-AAATAAG
1 AAAATAAA-AAG
*
19208776 AAAATAAAAAT
1 AAAATAAAAAG
19208787 AAAAT
1 AAAAT
19208792 GACAGACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 3 0.12
11 18 0.75
12 3 0.12
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (11 bp):
AAAATAAAAAG
Found at i:19208941 original size:15 final size:17
Alignment explanation
Indices: 19208921--19208961 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
19208911 TTGGTTTTTT
19208921 TTGTTTGTTTCT-TCG-
1 TTGTTTGTTTCTCTCGC
*
19208936 TTGTTTGCTTCTCTCGC
1 TTGTTTGTTTCTCTCGC
*
19208953 GTGTTTGTT
1 TTGTTTGTT
19208962 GCGTGTTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 11 0.52
16 3 0.14
17 7 0.33
ACGTcount: A:0.00, C:0.17, G:0.22, T:0.61
Consensus pattern (17 bp):
TTGTTTGTTTCTCTCGC
Done.