Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 360 of 427
Found at i:104603611 original size:19 final size:20
Alignment explanation
Indices: 104603574--104603611 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
104603564 AAAAAATTAC
*
104603574 ACTTATTAAAATTAATTTAT
1 ACTTATTAAAAATAATTTAT
*
104603594 ACTT-TTAAAAATATTTTA
1 ACTTATTAAAAATAATTTA
104603612 ATTTTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
ACTTATTAAAAATAATTTAT
Found at i:104605820 original size:18 final size:18
Alignment explanation
Indices: 104605799--104605834 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
104605789 AAACCGAAAA
104605799 AATTCGGTTAACCGATCG
1 AATTCGGTTAACCGATCG
* *
104605817 AATTTGGTTAATCGATCG
1 AATTCGGTTAACCGATCG
104605835 GTTAACTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (18 bp):
AATTCGGTTAACCGATCG
Found at i:104606142 original size:9 final size:9
Alignment explanation
Indices: 104606112--104606159 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
104606102 TTTATACAAG
*
104606112 TAATTCTGT
1 TAATTCGGT
* *
104606121 TAATTTGGG
1 TAATTCGGT
104606130 TAATTCGGT
1 TAATTCGGT
**
104606139 TAATTCGAA
1 TAATTCGGT
104606148 TAATTCGGT
1 TAATTCGGT
104606157 TAA
1 TAA
104606160 CCGACCAAAT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:104606376 original size:67 final size:67
Alignment explanation
Indices: 104606290--104606418 Score: 240
Period size: 67 Copynumber: 1.9 Consensus size: 67
104606280 ACTACATATC
*
104606290 CCTAAGAGAGATTAATTGAAAGAGAGAAGTGGTGGTTGATAGATTAAGTGTCTTCTTTGTTACAC
1 CCTAAGAGAGATCAATTGAAAGAGAGAAGTGGTGGTTGATAGATTAAGTGTCTTCTTTGTTACAC
104606355 AT
66 AT
*
104606357 CCTAAGAGAGATCAGTTGAAAGAGAGAAGTGGTGGTTGATAGATTAAGTGTCTTCTTTGTTA
1 CCTAAGAGAGATCAATTGAAAGAGAGAAGTGGTGGTTGATAGATTAAGTGTCTTCTTTGTTA
104606419 TGAGGTATGG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.33
Consensus pattern (67 bp):
CCTAAGAGAGATCAATTGAAAGAGAGAAGTGGTGGTTGATAGATTAAGTGTCTTCTTTGTTACAC
AT
Found at i:104609600 original size:16 final size:18
Alignment explanation
Indices: 104609579--104609615 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
104609569 TGTTTTATTG
*
104609579 ATAAATA-AG-TATAGAT
1 ATAAATATAGATATAAAT
104609595 ATAAATATAGATATAAAT
1 ATAAATATAGATATAAAT
104609613 ATA
1 ATA
104609616 TTAATGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
ATAAATATAGATATAAAT
Found at i:104609603 original size:12 final size:12
Alignment explanation
Indices: 104609583--104609615 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
104609573 TTATTGATAA
*
104609583 ATAAGTATAGAT
1 ATAAATATAGAT
104609595 ATAAATATAGAT
1 ATAAATATAGAT
104609607 ATAAATATA
1 ATAAATATA
104609616 TTAATGTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (12 bp):
ATAAATATAGAT
Found at i:104617061 original size:24 final size:24
Alignment explanation
Indices: 104617034--104617080 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
104617024 TGCAGAATGT
104617034 TAGCAATTACAGAAAATAAACATG
1 TAGCAATTACAGAAAATAAACATG
104617058 TAGCAATTACAGAAAATAAACAT
1 TAGCAATTACAGAAAATAAACAT
104617081 ACTCCTAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.55, C:0.13, G:0.11, T:0.21
Consensus pattern (24 bp):
TAGCAATTACAGAAAATAAACATG
Found at i:104624851 original size:31 final size:31
Alignment explanation
Indices: 104624813--104624900 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 31
104624803 TAATAACATA
* *
104624813 TTTATCCTCAATATTTACACATTCTATTAAT
1 TTTATCCTCAATATTTACAAATTCTATAAAT
* *
104624844 TTTATCCT-AAT-TTTAAAAAATTCAATAAAT
1 TTTATCCTCAATATTT-ACAAATTCTATAAAT
* * *
104624874 TTAATCTTCTATATTTACAAATTCTAT
1 TTTATCCTCAATATTTACAAATTCTAT
104624901 CACTTCGATC
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
29 3 0.07
30 20 0.44
31 19 0.42
32 3 0.07
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.48
Consensus pattern (31 bp):
TTTATCCTCAATATTTACAAATTCTATAAAT
Found at i:104625074 original size:15 final size:16
Alignment explanation
Indices: 104625049--104625107 Score: 68
Period size: 15 Copynumber: 3.8 Consensus size: 16
104625039 TTGATAAACT
*
104625049 AAAAAATTAAGTGCTG
1 AAAAAATTAAGTGCTA
*
104625065 AAAAAA-TAAGTGTTA
1 AAAAAATTAAGTGCTA
* *
104625080 AAAAAA-TAATTACTA
1 AAAAAATTAAGTGCTA
104625095 AAAAAATTAAGTG
1 AAAAAATTAAGTG
104625108 TTGAGTTTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
15 25 0.71
16 10 0.29
ACGTcount: A:0.59, C:0.03, G:0.12, T:0.25
Consensus pattern (16 bp):
AAAAAATTAAGTGCTA
Found at i:104626480 original size:14 final size:13
Alignment explanation
Indices: 104626458--104626500 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
104626448 TTAGGTTAGG
*
104626458 TTTTCTTTCTCTTT
1 TTTTTTTTCT-TTT
104626472 TTTTTTTTCTTTT
1 TTTTTTTTCTTTT
104626485 TTTTCTTTTCATTTT
1 TTTT-TTTTC-TTTT
104626500 T
1 T
104626501 AGTTTAGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 7 0.27
14 14 0.54
15 5 0.19
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTTTCTTTT
Found at i:104626537 original size:25 final size:26
Alignment explanation
Indices: 104626483--104626537 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
104626473 TTTTTTTCTT
* ** *
104626483 TTTTTTCTTTTCATTTTTAGTTTAGG
1 TTTTCTCTTTTCATTTTTAGAGTAGA
104626509 TTTTCTCTTTTC-TTTTTAGAGTAGA
1 TTTTCTCTTTTCATTTTTAGAGTAGA
104626534 TTTT
1 TTTT
104626538 ATTCTTGTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.13, C:0.09, G:0.11, T:0.67
Consensus pattern (26 bp):
TTTTCTCTTTTCATTTTTAGAGTAGA
Found at i:104626543 original size:26 final size:26
Alignment explanation
Indices: 104626483--104626543 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
104626473 TTTTTTTCTT
** *
104626483 TTTTTTCTTTTCATTTTTAGTTTAGG
1 TTTTTTCTTTTCATTTTTAGAGTAGA
*
104626509 TTTTCTCTTTTC-TTTTTAGAGTAGA
1 TTTTTTCTTTTCATTTTTAGAGTAGA
104626534 TTTTATTCTT
1 TTTT-TTCTT
104626544 GTAGTTTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.13, C:0.10, G:0.10, T:0.67
Consensus pattern (26 bp):
TTTTTTCTTTTCATTTTTAGAGTAGA
Found at i:104628901 original size:46 final size:47
Alignment explanation
Indices: 104628867--104628970 Score: 122
Period size: 47 Copynumber: 2.2 Consensus size: 47
104628857 TTACACGGAT
*
104628867 CACATATCA-CATTGATGCCATATCCCAGATATGGTCTTACACAGAAG
1 CACATAT-ATCATCGATGCCATATCCCAGATATGGTCTTACACAGAAG
* * * * **
104628914 CACATATATTATCGATGCTATATCTCAGATATGGTCTTATATGGAAG
1 CACATATATCATCGATGCCATATCCCAGATATGGTCTTACACAGAAG
104628961 CACATA-ATCA
1 CACATATATCA
104628971 CATCTCACCG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
46 4 0.08
47 44 0.92
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (47 bp):
CACATATATCATCGATGCCATATCCCAGATATGGTCTTACACAGAAG
Found at i:104628984 original size:53 final size:52
Alignment explanation
Indices: 104628926--104629077 Score: 157
Period size: 52 Copynumber: 2.9 Consensus size: 52
104628916 CATATATTAT
* * *
104628926 CGATGCTATATCTCAGATATGGTCTTATATGGAAGCACATAATCACATCTCAC
1 CGATGCTATAACCCAGATATGGTCTTATATGGAAGCACAT-ATCACATCACAC
* * *
104628979 CGATGCCATAACCCTA-TTATGGTCTTATACAGG-AGCACATATCACATCACAC
1 CGATGCTATAACCC-AGATATGGTCTTATA-TGGAAGCACATATCACATCACAC
* * * *
104629031 CCATG-TCATAGCCCTGCTATGGTCTTATATGGAAGCACATATCACAT
1 CGATGCT-ATAACCCAGATATGGTCTTATATGGAAGCACATATCACAT
104629078 GTTGCCATGG
Statistics
Matches: 82, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
51 2 0.02
52 47 0.57
53 30 0.37
54 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (52 bp):
CGATGCTATAACCCAGATATGGTCTTATATGGAAGCACATATCACATCACAC
Found at i:104629055 original size:52 final size:52
Alignment explanation
Indices: 104628943--104629077 Score: 182
Period size: 52 Copynumber: 2.6 Consensus size: 52
104628933 ATATCTCAGA
* * *
104628943 TATGGTCTTATATGGAAGCACATAATCACATCTCACCGATGCCATAACCCTAT
1 TATGGTCTTATATGGAAGCACAT-ATCACATCACACCCATGCCATAACCCTAC
* * * *
104628996 TATGGTCTTATACAGG-AGCACATATCACATCACACCCATGTCATAGCCCTGC
1 TATGGTCTTATA-TGGAAGCACATATCACATCACACCCATGCCATAACCCTAC
104629048 TATGGTCTTATATGGAAGCACATATCACAT
1 TATGGTCTTATATGGAAGCACATATCACAT
104629078 GTTGCCATGG
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
51 2 0.03
52 49 0.68
53 19 0.26
54 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (52 bp):
TATGGTCTTATATGGAAGCACATATCACATCACACCCATGCCATAACCCTAC
Found at i:104631889 original size:35 final size:34
Alignment explanation
Indices: 104631827--104631908 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 34
104631817 ACTTTTGGTA
104631827 TTCCTATTTCAATTTGGAATTTGATTATTCTCTCTT
1 TTCCTATTTCAATTTGGAATTTGATTATT-T-TCTT
*
104631863 TTCCTATTTCTA-TTGGAA-TTGAATTATTTTCTT
1 TTCCTATTTCAATTTGGAATTTG-ATTATTTTCTT
*
104631896 TT-CTCTTTCAATT
1 TTCCTATTTCAATT
104631909 ACGTGGGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
32 7 0.17
33 7 0.17
34 4 0.10
35 12 0.29
36 11 0.27
ACGTcount: A:0.20, C:0.16, G:0.07, T:0.57
Consensus pattern (34 bp):
TTCCTATTTCAATTTGGAATTTGATTATTTTCTT
Found at i:104632328 original size:15 final size:14
Alignment explanation
Indices: 104632260--104632388 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 14
104632250 TTATTGCTAT
104632260 TATTTTTATGTT-TC
1 TATTTTTAT-TTATC
*
104632274 TATTTATATTTAT-
1 TATTTTTATTTATC
*
104632287 T-TTGTTATTCTAATAC
1 TATTTTTATT-T-AT-C
*
104632303 TATTATTATTTATC
1 TATTTTTATTTATC
104632317 TAATTTTTATTTATC
1 T-ATTTTTATTTATC
* *
104632332 TATTTATATTTCTAC
1 TATTTTTATTTAT-C
*
104632347 TATTATTATATT-TC
1 TATTTTTAT-TTATC
*
104632361 TATTTATTATATT-TT
1 TATTT-TTAT-TTATC
*
104632376 TATTTCTATTTAT
1 TATTTTTATTTAT
104632389 ATACTAATAT
Statistics
Matches: 92, Mismatches: 12, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
12 6 0.07
13 6 0.07
14 32 0.35
15 37 0.40
16 4 0.04
17 7 0.08
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.66
Consensus pattern (14 bp):
TATTTTTATTTATC
Found at i:104632341 original size:29 final size:28
Alignment explanation
Indices: 104632260--104632367 Score: 78
Period size: 29 Copynumber: 3.8 Consensus size: 28
104632250 TTATTGCTAT
*
104632260 TATTTTTATGTTTCTATTTATATTTAT-
1 TATTTTTATATTTCTATTTATATTTATC
* * * *
104632287 TTTGTTATTCTAATACTA-TTATTATTTATC
1 TAT-TT-TTATATTTCTATTTA-TATTTATC
*
104632317 TAATTTTTAT-TTATCTATTTATATTTCTAC
1 T-ATTTTTATATT-TCTATTTATATTTAT-C
*
104632347 TATTATTATATTTCTATTTAT
1 TATTTTTATATTTCTATTTAT
104632368 TATATTTTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
27 2 0.03
28 6 0.10
29 42 0.69
30 10 0.16
31 1 0.02
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (28 bp):
TATTTTTATATTTCTATTTATATTTATC
Found at i:104632580 original size:25 final size:24
Alignment explanation
Indices: 104632519--104632580 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
104632509 TATAACGCTC
*
104632519 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTTATACATTATAT
* *
104632543 ACTTT-AATATTTTCATATATTATAT
1 A-TTTCAA-ATTTTTATACATTATAT
104632568 ATTTCAAATTTTT
1 ATTTCAAATTTTT
104632581 TTTTACACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (24 bp):
ATTTCAAATTTTTATACATTATAT
Found at i:104640779 original size:31 final size:31
Alignment explanation
Indices: 104640742--104640802 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
104640732 ATTTCTTTAA
* *
104640742 ATATATATGA-TTGAATCAAAATTAAAGTTTT
1 ATATATAT-ATTTGAACCAAAATCAAAGTTTT
*
104640773 ATATATATATTTGAACCACAATCAAAGTTT
1 ATATATATATTTGAACCAAAATCAAAGTTT
104640803 CATGTGTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (31 bp):
ATATATATATTTGAACCAAAATCAAAGTTTT
Found at i:104641325 original size:29 final size:29
Alignment explanation
Indices: 104641292--104641350 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
104641282 TCATGTGCCG
104641292 TTTTAGGATTTAAGTAATATACATGTTGA
1 TTTTAGGATTTAAGTAATATACATGTTGA
104641321 TTTTAGGATTTAAGTAATATACATGTTGA
1 TTTTAGGATTTAAGTAATATACATGTTGA
104641350 T
1 T
104641351 GAAAGGGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (29 bp):
TTTTAGGATTTAAGTAATATACATGTTGA
Found at i:104641711 original size:19 final size:20
Alignment explanation
Indices: 104641671--104641716 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
104641661 ATTATTTGTA
* *
104641671 AAATT-TAATTTAATTGTAT
1 AAATTATAATTTAAATATAT
104641690 AAATTATAATTTAAATAT-T
1 AAATTATAATTTAAATATAT
*
104641709 AAAATATA
1 AAATTATA
104641717 GTCATTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
AAATTATAATTTAAATATAT
Found at i:104641713 original size:20 final size:18
Alignment explanation
Indices: 104641666--104641703 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
104641656 TATTAATTAT
104641666 TTGTAAAATTTAATTTAA
1 TTGTAAAATTTAATTTAA
104641684 TTGTATAAATTATAATTTAA
1 TTGTA-AAATT-TAATTTAA
104641704 ATATTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
TTGTAAAATTTAATTTAA
Found at i:104642170 original size:11 final size:11
Alignment explanation
Indices: 104642156--104642196 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
104642146 GTCCTCTCAT
104642156 AATTCTCTTTA
1 AATTCTCTTTA
104642167 AATTCTCTTTA
1 AATTCTCTTTA
**
104642178 AATTCTCTCCA
1 AATTCTCTTTA
104642189 AATTCTCT
1 AATTCTCT
104642197 CAAGTTTCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.27, C:0.24, G:0.00, T:0.49
Consensus pattern (11 bp):
AATTCTCTTTA
Found at i:104642174 original size:22 final size:23
Alignment explanation
Indices: 104642149--104642198 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
104642139 CATAAGAGTC
**
104642149 CTCTCAT-AATTCTCTTTAAATT
1 CTCTCATAAATTCTCTCCAAATT
*
104642171 CTCT-TTAAATTCTCTCCAAATT
1 CTCTCATAAATTCTCTCCAAATT
104642193 CTCTCA
1 CTCTCA
104642199 AGTTTCTCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.46
Consensus pattern (23 bp):
CTCTCATAAATTCTCTCCAAATT
Found at i:104643830 original size:46 final size:46
Alignment explanation
Indices: 104643770--104644135 Score: 525
Period size: 46 Copynumber: 8.0 Consensus size: 46
104643760 TTTGACATGA
* * * * ** * *
104643770 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** * * *
104643816 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*** *** *
104643862 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
104643908 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
104643954 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
104644000 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
104644046 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
104644092 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
104644136 AGAGCACACT
Statistics
Matches: 296, Mismatches: 24, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 296 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:104646305 original size:18 final size:20
Alignment explanation
Indices: 104646290--104646326 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
104646280 TAATAATAAA
*
104646290 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
104646310 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
104646327 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:104648248 original size:46 final size:46
Alignment explanation
Indices: 104648139--104648305 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
104648129 TTATCTTTGA
* * * * * *
104648139 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTT-TTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
104648184 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * * **
104648230 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
104648276 TATGTTGCCATGGTATCTTTCAACCATGGT
1 CATGTTGCCATGGTATCTTTCAACCATGGT
104648306 ATCTTTCAAC
Statistics
Matches: 107, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
45 36 0.34
46 71 0.66
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:104648304 original size:16 final size:16
Alignment explanation
Indices: 104648283--104648321 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
104648273 CGTTATGTTG
104648283 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
104648299 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
*
104648315 CAATGGT
1 CCATGGT
104648322 CTTACACATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (16 bp):
CCATGGTATCTTTCAA
Found at i:104648311 original size:62 final size:62
Alignment explanation
Indices: 104648237--104648367 Score: 172
Period size: 62 Copynumber: 2.1 Consensus size: 62
104648227 TGTCACGCTG
* *** * * * * *
104648237 CCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTTATGTTGCCATGGTATCTTTCAA
1 CCATGGTATCTTTCAACAATGGTCTTACACATTTCACATCAGGCTGCCATGGTATCTTTCAA
*
104648299 CCATGGTATCTTTCAACAATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAA
1 CCATGGTATCTTTCAACAATGGTCTTACACATTTCACATCAGGCTGCCATGGTATCTTTCAA
104648361 CCATGGT
1 CCATGGT
104648368 CTTACACGTT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (62 bp):
CCATGGTATCTTTCAACAATGGTCTTACACATTTCACATCAGGCTGCCATGGTATCTTTCAA
Found at i:104648349 original size:46 final size:46
Alignment explanation
Indices: 104648299--104648478 Score: 333
Period size: 46 Copynumber: 3.9 Consensus size: 46
104648289 TATCTTTCAA
*
104648299 CCATGGTATCTTTCAACAATGGTCTTACACATTTCATATCAGGCTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
*
104648345 CCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGCTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
*
104648391 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
104648437 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
104648479 AGAGCACACT
Statistics
Matches: 130, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 130 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (46 bp):
CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
Found at i:104648393 original size:108 final size:108
Alignment explanation
Indices: 104648191--104648413 Score: 311
Period size: 108 Copynumber: 2.1 Consensus size: 108
104648181 TGTCATGTTG
* ** *
104648191 CCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCA
1 CCATGGTATCTTTCAACAATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCA
*** * * * * *
104648256 TGGTCTTATTTATTTCCCGTTATGTTGCCATGGTATCTTTCAA
66 TGGTCTTACACATTTCACATCAGGCTGCCATGGTATCTTTCAA
*
104648299 CCATGGTATCTTTCAACAATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCA
1 CCATGGTATCTTTCAACAATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCA
* *
104648364 TGGTCTTACACGTTTCATATCAGGCTGCCATGGTATCTTTCAA
66 TGGTCTTACACATTTCACATCAGGCTGCCATGGTATCTTTCAA
104648407 CCATGGT
1 CCATGGT
104648414 CTTACACATT
Statistics
Matches: 100, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
108 100 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (108 bp):
CCATGGTATCTTTCAACAATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCA
TGGTCTTACACATTTCACATCAGGCTGCCATGGTATCTTTCAA
Found at i:104650651 original size:18 final size:20
Alignment explanation
Indices: 104650636--104650672 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
104650626 TAATAATAAA
*
104650636 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
104650656 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
104650673 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:104652509 original size:24 final size:22
Alignment explanation
Indices: 104652467--104652510 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
104652457 TTAAAGTGTA
104652467 AATATGAAAAATTTGAAGGGCT
1 AATATGAAAAATTTGAAGGGCT
*
104652489 AATAGTGAAAATATTTTAAGGG
1 AATA-TGAAAA-ATTTGAAGGG
104652511 TGGAAAGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 6 0.32
24 9 0.47
ACGTcount: A:0.45, C:0.02, G:0.23, T:0.30
Consensus pattern (22 bp):
AATATGAAAAATTTGAAGGGCT
Found at i:104652792 original size:11 final size:11
Alignment explanation
Indices: 104652776--104652800 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
104652766 ATATGATATT
104652776 TTATTATTTTA
1 TTATTATTTTA
104652787 TTATTATTTTA
1 TTATTATTTTA
104652798 TTA
1 TTA
104652801 GTATATATAA
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:104655139 original size:30 final size:30
Alignment explanation
Indices: 104655071--104655139 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
104655061 GGATGACGAC
*
104655071 GCGGGCCCATCAACAGCGCCTACACAATCA
1 GCGGGCCCATCAACAGCGCCCACACAATCA
* * * *
104655101 CCGAGCCCATCAACAGTGCCCACACAGTCA
1 GCGGGCCCATCAACAGCGCCCACACAATCA
104655131 GCGGGCCCA
1 GCGGGCCCA
104655140 ACACTTCAAC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.28, C:0.42, G:0.22, T:0.09
Consensus pattern (30 bp):
GCGGGCCCATCAACAGCGCCCACACAATCA
Found at i:104663051 original size:126 final size:126
Alignment explanation
Indices: 104662822--104663263 Score: 690
Period size: 126 Copynumber: 3.5 Consensus size: 126
104662812 CTAAATAGAA
* * *
104662822 ACTACTGTAGCAAAACAACGTCCACGTAGG-AGC-TTTTTCAGTAATTTTGCTGACAGTGTATCC
1 ACTACTGTAGCAAAAGAGCGTCCACGT-GGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
*
104662885 TGCTTAAAGCGTTTTAGACACTATTTGTTCAAAAAAGTCTTCTCAAAATTATTTTTTCAGAT
65 TGCTTAAAGCGTTTTGGACACTATTTGTTCAAAAAAGTCTTCTCAAAATTATTTTTTCAGAT
* *
104662947 ACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * * * * *
104663012 GCTTGAAGCATTTTGGACACTATTTATTCATAAACGTCTTCTCAAAATTATTTTTTTAGAT
66 GCTTAAAGCGTTTTGGACACTATTTGTTCAAAAAAGTCTTCTCAAAATTATTTTTTCAGAT
* * *
104663073 ACTACTGTAGCAAAAGAGTGTCCACGTGGAAGCTTTTTTCAGTAATTTTGTTGACAGTGCATCAT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
*
104663138 GCTTAAAGCGTTTTGGACACTATTTGTTCAAAAATGTCTTCTCAAAATTATTTTTTCAGAT
66 GCTTAAAGCGTTTTGGACACTATTTGTTCAAAAAAGTCTTCTCAAAATTATTTTTTCAGAT
* * *
104663199 ACTATTGTATCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGATAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
104663264 AATTTAATTA
Statistics
Matches: 287, Mismatches: 28, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
124 2 0.01
125 27 0.09
126 258 0.90
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.37
Consensus pattern (126 bp):
ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
GCTTAAAGCGTTTTGGACACTATTTGTTCAAAAAAGTCTTCTCAAAATTATTTTTTCAGAT
Found at i:104663540 original size:166 final size:166
Alignment explanation
Indices: 104663261--104663573 Score: 486
Period size: 166 Copynumber: 1.9 Consensus size: 166
104663251 GATAGTGCAT
104663261 CCTAATTTAATTAATTAACCCTAAAAATCCTAAACCCTAATTTAATTAATTTTTTAAATTAATAG
1 CCTAATTTAATTAATTAACCCTAAAAATCCTAAACCCTAATTTAATTAATTTTTTAAATTAATAG
* *
104663326 TTAATTTAATTAATTAACCCTAAACCTTAATTTAATTAATAATAAAACCCTAAACACGATAAAAC
66 TTAATTTAATTAATTAACCCTAAACCTTAATTTAATTAACAATAAAACCCTAAACACAATAAAAC
* *
104663391 TCTAAACTCTTTAAACCTTAACCCTAAACCATAAAC
131 TATAAACTCTTAAAACCTTAACCCTAAACCATAAAC
* * * *
104663427 CCTACTTTAATTAATTAATCCTAAAAA-CTTTAAACCCTAATTTAATTGATTTTTTAAATTAATA
1 CCTAATTTAATTAATTAACCCTAAAAATC-CTAAACCCTAATTTAATTAATTTTTTAAATTAATA
** *
104663491 GTTAATTTAATTAATTAACCCTAAA-CTCTAATTTAATTAACCCTAAAACCCTAAACATAATAAA
65 GTTAATTTAATTAATTAACCCTAAACCT-TAATTTAATTAACAATAAAACCCTAAACACAATAAA
*
104663555 ATTATAAACTCTTAAAACC
129 ACTATAAACTCTTAAAACC
104663574 CTAAACCTTA
Statistics
Matches: 133, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
165 3 0.02
166 130 0.98
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (166 bp):
CCTAATTTAATTAATTAACCCTAAAAATCCTAAACCCTAATTTAATTAATTTTTTAAATTAATAG
TTAATTTAATTAATTAACCCTAAACCTTAATTTAATTAACAATAAAACCCTAAACACAATAAAAC
TATAAACTCTTAAAACCTTAACCCTAAACCATAAAC
Found at i:104663544 original size:23 final size:22
Alignment explanation
Indices: 104663501--104663544 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
104663491 GTTAATTTAA
*
104663501 TTAATTAACCCTAAACTCTAAT
1 TTAATTAACCCTAAACCCTAAT
104663523 TTAATTAACCCTAAAACCCTAA
1 TTAATTAACCCT-AAACCCTAA
104663545 ACATAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (22 bp):
TTAATTAACCCTAAACCCTAAT
Found at i:104669504 original size:17 final size:15
Alignment explanation
Indices: 104669464--104669507 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
104669454 AATTTGAATT
*
104669464 TGATTTAAGTTTTTC
1 TGATTTAAGTTTATC
104669479 TGTATTTAAGTTTGATC
1 TG-ATTTAAGTTT-ATC
104669496 TAGATTTAAGTT
1 T-GATTTAAGTT
104669508 GGACTTTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 10 0.40
17 12 0.48
18 1 0.04
ACGTcount: A:0.25, C:0.05, G:0.16, T:0.55
Consensus pattern (15 bp):
TGATTTAAGTTTATC
Found at i:104673725 original size:46 final size:47
Alignment explanation
Indices: 104673675--104673772 Score: 135
Period size: 46 Copynumber: 2.1 Consensus size: 47
104673665 TGATAATAAC
* * * *
104673675 TTTTACTACAATAACTTATCATTCTGG-TTGCTCGATTTTGATGGCT
1 TTTTACTACAATAAATTATCATTCTGGTTTACCCGATTTTGATGGAT
* *
104673721 TTTTACTACAATAAATTATTATTCTGGTTTACCCGGTTTTGATGGAT
1 TTTTACTACAATAAATTATCATTCTGGTTTACCCGATTTTGATGGAT
104673768 TTTTA
1 TTTTA
104673773 AACTACCATA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
46 25 0.56
47 20 0.44
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.48
Consensus pattern (47 bp):
TTTTACTACAATAAATTATCATTCTGGTTTACCCGATTTTGATGGAT
Found at i:104674233 original size:15 final size:16
Alignment explanation
Indices: 104674191--104674235 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 16
104674181 TCGTTAGGGA
104674191 TCACACCTGAGGGTTCG
1 TCACACCT-AGGGTTCG
*
104674208 T-ACA-TTAGGGTTC-
1 TCACACCTAGGGTTCG
104674221 TCACACCTAGGGTTC
1 TCACACCTAGGGTTC
104674236 ATACACCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
13 1 0.04
14 10 0.42
15 9 0.38
16 3 0.12
17 1 0.04
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (16 bp):
TCACACCTAGGGTTCG
Found at i:104674241 original size:15 final size:15
Alignment explanation
Indices: 104674193--104674252 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
104674183 GTTAGGGATC
*
104674193 ACACCTGAGGGTTCGT
1 ACACCT-AGGGTTCAT
*
104674209 ACA-TTAGGGTTC-T
1 ACACCTAGGGTTCAT
104674222 CACACCTAGGGTTCAT
1 -ACACCTAGGGTTCAT
*
104674238 ACACCCAAGGGTTCA
1 ACA-CCTAGGGTTCA
104674253 GATGGATGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 1 0.03
14 10 0.27
15 12 0.32
16 14 0.38
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (15 bp):
ACACCTAGGGTTCAT
Found at i:104674277 original size:27 final size:27
Alignment explanation
Indices: 104674245--104674296 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
104674235 CATACACCCA
* * *
104674245 AGGGTTCAGATGGATGGGTTCGCACTT
1 AGGGTTCACATAGATGAGTTCGCACTT
104674272 AGGGTTCACATAGATGAGTTCGCAC
1 AGGGTTCACATAGATGAGTTCGCAC
104674297 ATATGAGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.27
Consensus pattern (27 bp):
AGGGTTCACATAGATGAGTTCGCACTT
Found at i:104674419 original size:15 final size:15
Alignment explanation
Indices: 104674386--104674433 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
104674376 TCACATTTAG
* *
104674386 AGGGTTCGCATA-TT
1 AGGGTTCGCACACCT
*
104674400 AGGGTTCTCACACCT
1 AGGGTTCGCACACCT
*
104674415 AGGGTTCGCACACCA
1 AGGGTTCGCACACCT
104674430 AGGG
1 AGGG
104674434 GTTTATACGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (15 bp):
AGGGTTCGCACACCT
Found at i:104688394 original size:20 final size:22
Alignment explanation
Indices: 104688371--104688415 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
104688361 AACTCAAGAA
*
104688371 AATTAAGT-TATTTTTTTTC-T
1 AATTAAGTATATTTATTTTCAT
*
104688391 AATTATGTATATTTATTTTCAT
1 AATTAAGTATATTTATTTTCAT
104688413 AAT
1 AAT
104688416 ATATATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 10 0.48
22 4 0.19
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (22 bp):
AATTAAGTATATTTATTTTCAT
Found at i:104688422 original size:19 final size:21
Alignment explanation
Indices: 104688402--104688442 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
104688392 ATTATGTATA
104688402 TTTAT-TTTCATAATATATAT
1 TTTATATTTCATAATATATAT
104688422 TTTATACATTTCATAATATAT
1 TTTAT--ATTTCATAATATAT
104688443 TCTTAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
23 13 0.72
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTATATTTCATAATATATAT
Found at i:104692538 original size:19 final size:19
Alignment explanation
Indices: 104692510--104692560 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
104692500 CCTTACACCC
* **
104692510 TTTTACTTTTTTTTTCTTT
1 TTTTAATTTTTTTCCCTTT
*
104692529 TTTTAATTTTTGTCCCTTT
1 TTTTAATTTTTTTCCCTTT
104692548 TTTTAAATTTTTT
1 TTTT-AATTTTTT
104692561 AACTTTTGAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTAATTTTTTTCCCTTT
Found at i:104692566 original size:19 final size:19
Alignment explanation
Indices: 104692525--104692567 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
104692515 CTTTTTTTTT
**
104692525 CTTTTTTTAATTTTTGTCC
1 CTTTTTTTAATTTTTGTAA
104692544 CTTTTTTTAAATTTTT-TAA
1 CTTTTTTT-AATTTTTGTAA
104692563 CTTTT
1 CTTTT
104692568 GACTTTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.16, C:0.12, G:0.02, T:0.70
Consensus pattern (19 bp):
CTTTTTTTAATTTTTGTAA
Found at i:104692633 original size:23 final size:23
Alignment explanation
Indices: 104692607--104692703 Score: 78
Period size: 23 Copynumber: 4.3 Consensus size: 23
104692597 TTCATTATTA
104692607 ATTTTAAAAAATTTAAAATATAT
1 ATTTTAAAAAATTTAAAATATAT
* *
104692630 A-TTTAAAATATTTTATAATATAT
1 ATTTTAAAA-AATTTAAAATATAT
** *
104692653 ATTTTTTAAAATTTTAAATAT-T
1 ATTTTAAAAAATTTAAAATATAT
**
104692675 ATTTT-TTAAATATT-AAATATAT
1 ATTTTAAAAAAT-TTAAAATATAT
104692697 -TTTTAAA
1 ATTTTAAA
104692704 TAAAATATTA
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
21 15 0.25
22 16 0.27
23 23 0.39
24 5 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTTAAAAAATTTAAAATATAT
Found at i:104692635 original size:13 final size:13
Alignment explanation
Indices: 104692617--104692656 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
104692607 ATTTTAAAAA
104692617 ATTTAAAATATAT
1 ATTTAAAATATAT
104692630 ATTT-AAA-ATAT
1 ATTTAAAATATAT
*
104692641 -TTTATAATATAT
1 ATTTAAAATATAT
104692653 ATTT
1 ATTT
104692657 TTTAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
10 3 0.13
11 6 0.26
12 7 0.30
13 7 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTTAAAATATAT
Found at i:104692679 original size:21 final size:21
Alignment explanation
Indices: 104692614--104692731 Score: 93
Period size: 21 Copynumber: 5.6 Consensus size: 21
104692604 TTAATTTTAA
* *
104692614 AAAATTTAAAATA-TATATTTA
1 AAAATTTTAAATATTAT-TTTT
104692635 AAATATTTTATAATATATATTTTTT
1 AAA-ATTTTA-AATAT-TA-TTTTT
104692660 AAAATTTTAAATATTATTTTT
1 AAAATTTTAAATATTATTTTT
* *
104692681 TAAATATTAAATA-TATTTTT
1 AAAATTTTAAATATTATTTTT
*
104692701 -AAA--TAAAATATTATTTTT
1 AAAATTTTAAATATTATTTTT
* *
104692719 TAACTTTTAAATA
1 AAAATTTTAAATA
104692732 GAATTTAAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
17 6 0.07
18 7 0.09
19 5 0.06
20 7 0.09
21 25 0.31
22 7 0.09
23 9 0.11
24 6 0.07
25 8 0.10
26 1 0.01
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.53
Consensus pattern (21 bp):
AAAATTTTAAATATTATTTTT
Found at i:104692701 original size:19 final size:21
Alignment explanation
Indices: 104692646--104692731 Score: 99
Period size: 19 Copynumber: 4.2 Consensus size: 21
104692636 AATATTTTAT
*
104692646 AATATATATTTTTTAAAATTTTA
1 AATAT-TATTTTTT-AAATATTA
104692669 AATATTATTTTTTAAATATTA
1 AATATTATTTTTTAAATATTA
104692690 AATA-TA-TTTTTAAATA--A
1 AATATTATTTTTTAAATATTA
* *
104692707 AATATTATTTTTTAACTTTTA
1 AATATTATTTTTTAAATATTA
104692728 AATA
1 AATA
104692732 GAATTTAAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
17 5 0.09
18 2 0.04
19 18 0.32
20 2 0.04
21 16 0.29
22 8 0.14
23 5 0.09
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (21 bp):
AATATTATTTTTTAAATATTA
Found at i:104692707 original size:23 final size:22
Alignment explanation
Indices: 104692608--104692713 Score: 74
Period size: 24 Copynumber: 4.7 Consensus size: 22
104692598 TCATTATTAA
104692608 TTTTAAAAAAT-TTAAAATATAT
1 TTTTAAAAAATATT-AAATATAT
* * *
104692630 ATTTAAAATATTTTATAATATAT
1 TTTTAAAAAATATTA-AATATAT
** *
104692653 ATTTTTTAAAATTTTAAATATTAT
1 -TTTTAAAAAATATTAAATA-TAT
*
104692677 TTTT--TAAATATTAAATATAT
1 TTTTAAAAAATATTAAATATAT
104692697 TTTTAAATAAAATATTA
1 TTTT-AA-AAAATATTA
104692714 TTTTTTAACT
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
20 7 0.10
21 11 0.16
22 10 0.15
23 17 0.25
24 22 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTAAAAAATATTAAATATAT
Found at i:104692905 original size:19 final size:20
Alignment explanation
Indices: 104692868--104692909 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
104692858 TAAAATATTT
104692868 AAATATTTTATATTATTAAA
1 AAATATTTTATATTATTAAA
104692888 AAATATATTTA-A-TATTAAA
1 AAATAT-TTTATATTATTAAA
104692907 AAA
1 AAA
104692910 ATAATTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.48
20 7 0.33
21 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATATTTTATATTATTAAA
Found at i:104692910 original size:20 final size:21
Alignment explanation
Indices: 104692870--104692916 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
104692860 AAATATTTAA
*
104692870 ATATTTTATATTATTAAAAAAT
1 ATATTTAATATTA-TAAAAAAT
104692892 ATATTTAATATTA-AAAAAAT
1 ATATTTAATATTATAAAAAAT
104692912 A-ATTT
1 ATATTT
104692917 CAAATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 8 0.33
22 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTTAATATTATAAAAAAT
Found at i:104692933 original size:23 final size:23
Alignment explanation
Indices: 104692907--104692970 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
104692897 TAATATTAAA
104692907 AAAATAATTTCAAATATATATT-T
1 AAAAT-ATTTCAAATATATATTAT
*
104692930 AAAAT-TTTAAAATATATATTAT
1 AAAATATTTCAAATATATATTAT
*
104692952 AAAATATTTCGAATATATA
1 AAAATATTTCAAATATATA
104692971 ACTCAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 14 0.39
22 6 0.17
23 16 0.44
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (23 bp):
AAAATATTTCAAATATATATTAT
Found at i:104693085 original size:13 final size:14
Alignment explanation
Indices: 104693067--104693093 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
104693057 GATAAAAGTT
104693067 AAAAAAAGTAAAAA
1 AAAAAAAGTAAAAA
104693081 AAAAAAAGTAAAA
1 AAAAAAAGTAAAA
104693094 GGGTGTCAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (14 bp):
AAAAAAAGTAAAAA
Found at i:104694687 original size:18 final size:18
Alignment explanation
Indices: 104694664--104694701 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
104694654 TACATTTAGA
*
104694664 TATAATTATGATAATAAT
1 TATAATTATGATAACAAT
104694682 TATAATTATGATAACAAT
1 TATAATTATGATAACAAT
104694700 TA
1 TA
104694702 AAGTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (18 bp):
TATAATTATGATAACAAT
Found at i:104701364 original size:22 final size:21
Alignment explanation
Indices: 104701336--104701382 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
104701326 TTAAATGGGC
104701336 CTTTTTTTTTCCCAAACTCATT
1 CTTTTTTTTT-CCAAACTCATT
104701358 CTTTTTTTTTCCAAACTCATT
1 CTTTTTTTTTCCAAACTCATT
104701379 -TTTT
1 CTTTT
104701383 GAGCCTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 4 0.16
21 11 0.44
22 10 0.40
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (21 bp):
CTTTTTTTTTCCAAACTCATT
Found at i:104701568 original size:16 final size:17
Alignment explanation
Indices: 104701533--104701568 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
104701523 TCGAACTACC
104701533 TTTTCTTATGTACAGTT
1 TTTTCTTATGTACAGTT
104701550 TTTTCTTATGTACAGTT
1 TTTTCTTATGTACAGTT
104701567 TT
1 TT
104701569 GTCAATGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.61
Consensus pattern (17 bp):
TTTTCTTATGTACAGTT
Found at i:104701975 original size:14 final size:14
Alignment explanation
Indices: 104701952--104701986 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
104701942 TACATAAAAA
*
104701952 TTTTCCTTAAATTG
1 TTTTCTTTAAATTG
104701966 TTTTCTTTAAATTG
1 TTTTCTTTAAATTG
104701980 TTTTCTT
1 TTTTCTT
104701987 GTTTTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (14 bp):
TTTTCTTTAAATTG
Found at i:104704010 original size:19 final size:18
Alignment explanation
Indices: 104703986--104704029 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
104703976 AATAGGAATA
104703986 AAATTTATCTAACTAAAT
1 AAATTTATCTAACTAAAT
*
104704004 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTAACTAAAT
104704023 AAATTTA
1 AAATTTA
104704030 AAATATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (18 bp):
AAATTTATCTAACTAAAT
Found at i:104707776 original size:19 final size:18
Alignment explanation
Indices: 104707754--104707793 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
104707744 TGAATAAAAC
104707754 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
104707773 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
104707791 TTA
1 TTA
104707794 AAATATAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:104708558 original size:11 final size:11
Alignment explanation
Indices: 104708542--104708580 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
104708532 ATATATCCCC
104708542 TACCTTGCCCA
1 TACCTTGCCCA
*
104708553 TACCTTTCCCA
1 TACCTTGCCCA
*
104708564 TACC-TACCCA
1 TACCTTGCCCA
104708574 TACCTTG
1 TACCTTG
104708581 GAAAGGTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.21, C:0.44, G:0.05, T:0.31
Consensus pattern (11 bp):
TACCTTGCCCA
Found at i:104713211 original size:11 final size:11
Alignment explanation
Indices: 104713195--104713237 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
104713185 TAGAATATAT
104713195 CCCATACCTTG
1 CCCATACCTTG
*
104713206 CCCATACCTTT
1 CCCATACCTTG
*
104713217 CCCATACC-TA
1 CCCATACCTTG
104713227 CCCATACCTTG
1 CCCATACCTTG
104713238 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:104713222 original size:22 final size:21
Alignment explanation
Indices: 104713194--104713236 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
104713184 TTAGAATATA
*
104713194 TCCCATACCTTGCCCATACCTT
1 TCCCATACC-TACCCATACCTT
104713216 TCCCATACCTACCCATACCTT
1 TCCCATACCTACCCATACCTT
104713237 GGAAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (21 bp):
TCCCATACCTACCCATACCTT
Found at i:104723531 original size:21 final size:20
Alignment explanation
Indices: 104723506--104723545 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
104723496 TTTTTTAATA
104723506 AAAATTACAAAAAAATAATTT
1 AAAATTACAAAAAAA-AATTT
**
104723527 AAAATTTTAAAAAAAAATT
1 AAAATTACAAAAAAAAATT
104723546 AATTCTAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAATTACAAAAAAAAATTT
Found at i:104724193 original size:22 final size:22
Alignment explanation
Indices: 104724168--104724210 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
104724158 TTTGAGATCT
*
104724168 TTAAGGAAGATGT-TAATAATCG
1 TTAAGGAAAATGTATAA-AATCG
*
104724190 TTAATGAAAATGTATAAAATC
1 TTAAGGAAAATGTATAAAATC
104724211 TGTCATATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.33
Consensus pattern (22 bp):
TTAAGGAAAATGTATAAAATCG
Found at i:104726321 original size:16 final size:17
Alignment explanation
Indices: 104726290--104726322 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
104726280 TTCATAAGTA
104726290 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
104726307 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
104726323 ACTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:104726840 original size:137 final size:138
Alignment explanation
Indices: 104726603--104726926 Score: 407
Period size: 137 Copynumber: 2.4 Consensus size: 138
104726593 TTATCTTTTA
* * * * * * *
104726603 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCAGGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTT
*** * * **
104726668 TCAACCATGGTCTTGTTCATTTCATGTTACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA
66 TCAACCATGGTCTTACACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACA
* *
104726733 -TTCCCCT
131 TTTCACAT
** *
104726740 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCCTGTTGCTATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTT
**
104726805 TCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACA
* *
104726870 TTTTATAT
131 TTTCACAT
* **
104726878 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTCCATATCAG
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAG
104726927 AAAGCACACT
Statistics
Matches: 158, Mismatches: 28, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
137 111 0.70
138 47 0.30
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (138 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTT
TCAACCATGGTCTTACACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACA
TTTCACAT
Found at i:104726924 original size:46 final size:46
Alignment explanation
Indices: 104726608--104726926 Score: 390
Period size: 46 Copynumber: 7.0 Consensus size: 46
104726598 TTTTACATGA
* * * * *
104726608 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** * * **
104726654 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTTACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** *** *
104726700 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCCTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* **
104726745 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCCTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
104726791 TGCTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
104726837 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
104726883 TGCCATGGTATCTTTCAACCATGGTCTTACACATTCCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
104726927 AAAGCACACT
Statistics
Matches: 241, Mismatches: 30, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
45 41 0.17
46 200 0.83
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:104729497 original size:2 final size:2
Alignment explanation
Indices: 104729490--104729550 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
104729480 TAGAGTTATA
104729490 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
104729532 AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG A
104729551 AATGTTGAGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:104735161 original size:40 final size:40
Alignment explanation
Indices: 104735119--104735193 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
104735109 CGTACCTGGA
*
104735119 AAAAAATAAAA-ATAAACAGAATTAAAAGTCTTGATCAAG
1 AAAAAATAAAATAAAAACAGAATTAAAAGTCTTGATCAAG
* *
104735158 AAAAAATAAAATAAAAACATAATTAAAAGTTTTGAT
1 AAAAAATAAAATAAAAACAGAATTAAAAGTCTTGAT
104735194 TGAAATTCTG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 11 0.34
40 21 0.66
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (40 bp):
AAAAAATAAAATAAAAACAGAATTAAAAGTCTTGATCAAG
Found at i:104735877 original size:34 final size:33
Alignment explanation
Indices: 104735834--104735905 Score: 92
Period size: 34 Copynumber: 2.2 Consensus size: 33
104735824 CACATTGGTA
* *
104735834 ACAGTCCAGTTTCAAT-TAGGGCCTTAGCCCATT
1 ACAGTCCAGTATCAATGT-GGGCCTGAGCCCATT
104735867 ACAGTACCAGTATCAATGTGGGCCTGAGCCCATT
1 ACAGT-CCAGTATCAATGTGGGCCTGAGCCCATT
*
104735901 TCAGT
1 ACAGT
104735906 GGCAGTAGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 5 0.15
34 28 0.82
35 1 0.03
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (33 bp):
ACAGTCCAGTATCAATGTGGGCCTGAGCCCATT
Found at i:104738545 original size:10 final size:10
Alignment explanation
Indices: 104738497--104738555 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
104738487 TTAAATTCTA
104738497 AAAGATAAAT
1 AAAGATAAAT
*
104738507 ACAA-TTAAAT
1 A-AAGATAAAT
* *
104738517 AAAAATAATT
1 AAAGATAAAT
*
104738527 AAAGTTAAAT
1 AAAGATAAAT
*
104738537 AAGGATAAAT
1 AAAGATAAAT
104738547 AAAGATAAA
1 AAAGATAAA
104738556 AGCTAAAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
9 2 0.05
10 34 0.89
11 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:104739219 original size:23 final size:22
Alignment explanation
Indices: 104739186--104739231 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
104739176 AATACATCAC
104739186 TTTTTTCTTTT-TCTATTATTAT
1 TTTTTTCTTTTATC-ATTATTAT
104739208 TTTTTTCTTTTTATCATTATTAT
1 TTTTTTC-TTTTATCATTATTAT
104739231 T
1 T
104739232 ATTACTGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.32
23 13 0.59
24 2 0.09
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTTTCTTTTATCATTATTAT
Found at i:104739226 original size:20 final size:22
Alignment explanation
Indices: 104739186--104739228 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
104739176 AATACATCAC
*
104739186 TTTTTTCTTTTTCTATTATTAT
1 TTTTTTCTTTTTCTATCATTAT
104739208 TTTTTTC-TTTT-TATCATTAT
1 TTTTTTCTTTTTCTATCATTAT
104739228 T
1 T
104739229 ATTATTACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 4 0.20
22 7 0.35
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTTCTTTTTCTATCATTAT
Found at i:104740547 original size:42 final size:42
Alignment explanation
Indices: 104740457--104740600 Score: 121
Period size: 42 Copynumber: 3.4 Consensus size: 42
104740447 AAGATGAGAA
* * * *
104740457 TACGTATAAGACCATATTTGGGACATGGAATCGGTATGATAT
1 TACGTGTAAGACCATATTTGGGACATGGAATCGATACGAAAT
* *
104740499 TACGTGTAAGACCATGTTTGGGACATGGCA-CTGATACGAAAT
1 TACGTGTAAGACCATATTTGGGACATGGAATC-GATACGAAAT
* ** * * * *
104740541 TTCGTGTAAGACCATAGCTGGG-CTATTCGCATCGATATGAGAT
1 TACGTGTAAGACCATATTTGGGAC-A-TGGAATCGATACGAAAT
*
104740584 TACATGTAAGACCATAT
1 TACGTGTAAGACCATAT
104740601 CGGGGATATG
Statistics
Matches: 82, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
41 2 0.02
42 53 0.65
43 26 0.32
44 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
TACGTGTAAGACCATATTTGGGACATGGAATCGATACGAAAT
Found at i:104745225 original size:14 final size:14
Alignment explanation
Indices: 104745206--104745244 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
104745196 AAAATAAAGT
104745206 AATAAATAATAATA
1 AATAAATAATAATA
104745220 AATAAAATAA-AATA
1 AAT-AAATAATAATA
104745234 AATAAA-AATAA
1 AATAAATAATAA
104745245 AGGTTGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 2 0.09
13 5 0.22
14 10 0.43
15 6 0.26
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAAATAATAATA
Found at i:104745245 original size:10 final size:10
Alignment explanation
Indices: 104745195--104745245 Score: 52
Period size: 10 Copynumber: 4.9 Consensus size: 10
104745185 TATAAATATC
104745195 AAAAATAAAGT
1 AAAAATAAA-T
104745206 AATAAAT-AAT
1 AA-AAATAAAT
104745216 AATAAATAAA-
1 AA-AAATAAAT
104745226 ATAAAATAAAT
1 A-AAAATAAAT
104745237 AAAAATAAA
1 AAAAATAAA
104745246 GGTTGGGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
10 24 0.67
11 8 0.22
12 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:104751618 original size:10 final size:10
Alignment explanation
Indices: 104751561--104751619 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
104751551 TTAAATTCTA
104751561 AAAGATAAAT
1 AAAGATAAAT
*
104751571 ACAA-TTAAAT
1 A-AAGATAAAT
* *
104751581 AAAAATAATT
1 AAAGATAAAT
104751591 AAAGATAAAT
1 AAAGATAAAT
*
104751601 AAGGATAAAT
1 AAAGATAAAT
*
104751611 AAATATAAA
1 AAAGATAAA
104751620 ACTAAAATTA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 2 0.05
10 35 0.90
11 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:104756182 original size:37 final size:37
Alignment explanation
Indices: 104756139--104756214 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
104756129 TCATGCTGTA
104756139 AACTTTAATAAAATAATAAAATAAATATATTGACTTC
1 AACTTTAATAAAATAATAAAATAAATATATTGACTTC
104756176 AACTTTAATAAAATAATAAAATAAATATATTGACTTC
1 AACTTTAATAAAATAATAAAATAAATATATTGACTTC
104756213 AA
1 AA
104756215 ATTTGTGGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (37 bp):
AACTTTAATAAAATAATAAAATAAATATATTGACTTC
Found at i:104762091 original size:21 final size:21
Alignment explanation
Indices: 104762065--104762113 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
104762055 AATGGAAGTT
104762065 GTGAATGACAGGAAATTGACA
1 GTGAATGACAGGAAATTGACA
*
104762086 GTGAATGACAGGGAATTGACA
1 GTGAATGACAGGAAATTGACA
104762107 -TGAATGA
1 GTGAATGA
104762114 TTTTATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.41, C:0.08, G:0.31, T:0.20
Consensus pattern (21 bp):
GTGAATGACAGGAAATTGACA
Found at i:104764675 original size:2 final size:2
Alignment explanation
Indices: 104764668--104764701 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
104764658 AAATTGATTA
104764668 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
104764702 GCGAGTTCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104764891 original size:14 final size:15
Alignment explanation
Indices: 104764863--104764907 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
104764853 CTTTTATATA
104764863 TTTAA-AATTTAATT
1 TTTAATAATTTAATT
104764877 TTT-ATATATTT-ATT
1 TTTAATA-ATTTAATT
104764891 TTTAATAATTTAATT
1 TTTAATAATTTAATT
104764906 TT
1 TT
104764908 GTTGAGGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.04
14 14 0.52
15 12 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTAATAATTTAATT
Found at i:104774793 original size:31 final size:31
Alignment explanation
Indices: 104774758--104774823 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
104774748 CTTGTCACTT
*
104774758 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAA
* *
104774789 GTAGCCGAAGCTACCATTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTATTCACTGATCAA
104774820 GTAG
1 GTAG
104774824 TCGATGATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTGATCAA
Found at i:104774849 original size:46 final size:46
Alignment explanation
Indices: 104774782--104774869 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
104774772 CACTATTCAC
* *
104774782 TGATCAGGTAGCCGAAGCTACCATTTTTCACTGATCAAGTAGTCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTCCACTGATCAAGTAGTCGA
* *
104774828 TGATCAGGTA-CAGGAAGCTACCACTTTCCACTGATCAGGTAG
1 TGATCAGGTAGC-CGAAGCTACCACTTTCCACTGATCAAGTAG
104774870 CCGAAGCTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 1 0.03
46 36 0.97
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (46 bp):
TGATCAGGTAGCCGAAGCTACCACTTTCCACTGATCAAGTAGTCGA
Found at i:104774960 original size:50 final size:50
Alignment explanation
Indices: 104774866--104775042 Score: 282
Period size: 50 Copynumber: 3.5 Consensus size: 50
104774856 CACTGATCAG
* * * *
104774866 GTAGCCGAAGCTACCACTTTTTATTTGTCATTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTATCCTTGATCAGATAAGT
* *
104774917 GTAGCCAAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTATCCTTGATCAGATAAGT
*
104774967 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTATCCTTGATCAGATAAGT
104775017 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
104775043 GTTGCCATAG
Statistics
Matches: 117, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 96 0.82
51 21 0.18
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTATCCTTGATCAGATAAGT
Found at i:104777770 original size:22 final size:24
Alignment explanation
Indices: 104777721--104777766 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
104777711 TTTTTTTTGT
104777721 TATTATTATATT-TTTTAATATTA
1 TATTATTATATTCTTTTAATATTA
104777744 TATTATATATATTCTTTTAATAT
1 TATTAT-TATATTCTTTTAATAT
104777767 ATTAGGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 6 0.29
24 6 0.29
25 9 0.43
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATTATATTCTTTTAATATTA
Found at i:104777814 original size:25 final size:26
Alignment explanation
Indices: 104777786--104777856 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 26
104777776 ATTCTAAATT
*
104777786 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
104777811 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
*
104777836 CTATATTATTTATATATATAT
1 CTATATTATGTATATATATAT
104777857 ATATTTTCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 2 0.05
25 35 0.92
26 1 0.03
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.54
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:104777901 original size:22 final size:23
Alignment explanation
Indices: 104777845--104777937 Score: 73
Period size: 25 Copynumber: 3.9 Consensus size: 23
104777835 ACTATATTAT
*
104777845 TTATA-TATATATATATTTTCTACA
1 TTATATTATGTATATA-TTT-TACA
*
104777869 TGTTATCTTATGTATATATTTTA-A
1 --TTATATTATGTATATATTTTACA
*
104777893 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTACA
* *
104777918 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
104777938 TTTTTATATC
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
22 11 0.20
23 6 0.11
24 9 0.16
25 14 0.25
26 7 0.12
27 9 0.16
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.57
Consensus pattern (23 bp):
TTATATTATGTATATATTTTACA
Found at i:104778030 original size:25 final size:24
Alignment explanation
Indices: 104778002--104778058 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
104777992 GTTATATTTT
*
104778002 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
104778027 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
104778050 CACTATTAT
1 CACTATTAT
104778059 TACTATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 10 0.36
24 7 0.25
25 11 0.39
ACGTcount: A:0.37, C:0.16, G:0.04, T:0.44
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:104797681 original size:18 final size:19
Alignment explanation
Indices: 104797636--104797683 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
104797626 CATGATATAC
104797636 ATAACATATATATAAAAACA
1 ATAACATA-ATATAAAAACA
* *
104797656 ATAA-ATAATATGAAAATA
1 ATAACATAATATAAAAACA
104797674 A-AACATAATA
1 ATAACATAATA
104797684 AAGATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.08
18 16 0.64
19 3 0.12
20 4 0.16
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (19 bp):
ATAACATAATATAAAAACA
Found at i:104797882 original size:20 final size:20
Alignment explanation
Indices: 104797846--104797883 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
104797836 GGAAAATAAT
*
104797846 ATATATAATAAGTAATAACA
1 ATATATAATAAGAAATAACA
104797866 ATATATAATTAA-AAATAA
1 ATATATAA-TAAGAAATAA
104797884 TACTCCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
ATATATAATAAGAAATAACA
Found at i:104803746 original size:3 final size:3
Alignment explanation
Indices: 104803738--104803795 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
104803728 TTACTAGATC
104803738 ATT 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 ATT
104803786 ATT ATT ATT A
1 ATT ATT ATT A
104803796 AATAAAATAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:104805047 original size:40 final size:41
Alignment explanation
Indices: 104804931--104805047 Score: 166
Period size: 40 Copynumber: 2.9 Consensus size: 41
104804921 CCTTCTCGAG
*
104804931 AATTAAAAGTGAATAGGATTTATTCCTGATTCACTA-AAAGA
1 AATT-AAAGTGAATAGGATTTATTCTTGATTCACTATAAAGA
*
104804972 AATTAAAGTGAATAGGATTTATTCTTGATTCACTATAAATA
1 AATTAAAGTGAATAGGATTTATTCTTGATTCACTATAAAGA
* * *
104805013 TA-TAAAGTGGATAGGATTTGTTCTTGATTCACTAT
1 AATTAAAGTGAATAGGATTTATTCTTGATTCACTAT
104805048 GGTAACTTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
40 61 0.87
41 9 0.13
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (41 bp):
AATTAAAGTGAATAGGATTTATTCTTGATTCACTATAAAGA
Found at i:104807682 original size:57 final size:58
Alignment explanation
Indices: 104807588--104807727 Score: 135
Period size: 57 Copynumber: 2.4 Consensus size: 58
104807578 TGTATACAAC
* * * * * * * *
104807588 AGGATTACCAGTTCAGGCTAAAT-CATTTTTATGACATATGCTCTA-AGGAGCTTGATCT
1 AGGATTACCCGTCCGGGCTAAATCCATATTTATAACATACGCTCGAGAGGA-CTT-ATAT
104807646 -GGATTACCCGTCCGGGCTAAATCCA-ATTTATAACATACGCTCGAGAGGACTTATAT
1 AGGATTACCCGTCCGGGCTAAATCCATATTTATAACATACGCTCGAGAGGACTTATAT
* *
104807702 AAGGATTACCCATCCGAGCTAAATCC
1 -AGGATTACCCGTCCGGGCTAAATCC
104807728 TGTCTATCAT
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
56 3 0.04
57 37 0.54
58 28 0.41
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (58 bp):
AGGATTACCCGTCCGGGCTAAATCCATATTTATAACATACGCTCGAGAGGACTTATAT
Found at i:104811772 original size:561 final size:561
Alignment explanation
Indices: 104810725--104811832 Score: 1785
Period size: 561 Copynumber: 2.0 Consensus size: 561
104810715 TAGCCCAAAA
* * * *
104810725 TTGGGTCTAGTTGGAACAGAGGTTTCGGGACAACAAAATCTAAGATATAAATAATTATTTTATGA
1 TTGGGCCTAGTCGGAACAGAGGTTTCGGGACAACAAAATCCAAGATAGAAATAATTATTTTATGA
*
104810790 TTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCGTAAAGAAATTCTATGCAT
66 TTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCATAAAGAAATTCTATGCAT
* *
104810855 AAAGTGCTTAATTCGAAGTGAGGGACTAAATTGAATAAGTTGCAAAACTTGCATTCTAGAAGTTT
131 AAAGTGCTTAATTCGAAATGAGGGACTAAATCGAATAAGTTGCAAAACTTGCATTCTAGAAGTTT
104810920 CTAGTATGAAATTGATTTGAAATATTAATTAGGAGGTCTTAAATAGAAATTTGACCAATTTCTAA
196 CTAGTATGAAATTGATTTGAAATATTAATTAGGAGGTCTTAAATAGAAATTTGACCAATTTCTAA
* *
104810985 GTTATGGACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTAAGGGTATTTTGGTT
261 GTTATGGACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTAAGGGCATTTTGGTC
**
104811050 ATTTAGGGGTAAAATGAATTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCTTCACCATA
326 ATTTAGGGGTAAAATGAATTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACACCATA
** ** *
104811115 GACGTGTATACCAAGGGAGATTCCATGTCTAGGGTTTTCAAGCTTCCCAAGCTCAATTGTAAGTC
391 GACGAATATACCAAGGGAGAAACCATGGCTAGGGTTTTCAAGCTTCCCAAGCTCAATTGTAAGTC
* * *
104811180 CGTTTTAACCCCGTTTTTCAAGTTCTTTACGTTTTTGGAGTCCCAGTAACTTGATTTAGCTTATG
456 CGTTCTAACCCCGTTTTTCAAGTTCTTTACGTTTTTGGAGTCCCAGTAACTCGATTAAGCTTATG
104811245 CTAGCAATAATTCAACCTAGGGTTCATGTAATATCCTGATT
521 CTAGCAATAATTCAACCTAGGGTTCATGTAATATCCTGATT
* * * *
104811286 TTGGGCCTAGTCGGAATAGCGGTTTCGTGACCACAAAATCCAAGATAGAAATAATTATTTTATGA
1 TTGGGCCTAGTCGGAACAGAGGTTTCGGGACAACAAAATCCAAGATAGAAATAATTATTTTATGA
* *
104811351 TTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCATGAAGAAATTTTATGCAT
66 TTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCATAAAGAAATTCTATGCAT
* * *
104811416 AAAGTGCTTAAATT-GAAATTAGGGACTAAATCGAATAATTTGTAAAACTTGCATTCTAGAAGTT
131 AAAGTGCTT-AATTCGAAATGAGGGACTAAATCGAATAAGTTGCAAAACTTGCATTCTAGAAGTT
* *
104811480 TCTAGTATGAAATTGTTTTGAAATATTAATTAGGAGGTCTTAAATAGAAATTTTACCAATTTCTA
195 TCTAGTATGAAATTGATTTGAAATATTAATTAGGAGGTCTTAAATAGAAATTTGACCAATTTCTA
104811545 AGTCTATGGACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTAAGGGCATTTTGG
260 AGT-TATGGACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTAAGGGCATTTTGG
*
104811610 TCATTTAGGGGTAAAATGAATTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACCCCA
324 TCATTTAGGGGTAAAATGAATTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACACCA
* * * *
104811675 TGGCCGAATATAGCAA-GGAGAAACCATGGCTAGGGTTTTTCAAGCTT-CCAAGCTCGATTGTAA
389 TAGACGAATATACCAAGGGAGAAACCATGGCTAGGG-TTTTCAAGCTTCCCAAGCTCAATTGTAA
* * * *
104811738 GTCCGTTCTAGCCTCGTTTTT-AATGATT-TTTACGTTTTTGGAGTCCCGGTAGCTCGATTAAGC
453 GTCCGTTCTAACCCCGTTTTTCAA-G-TTCTTTACGTTTTTGGAGTCCCAGTAACTCGATTAAGC
104811801 TTATGCTAGCAATAATTCAACCTAGGGTTCAT
516 TTATGCTAGCAATAATTCAACCTAGGGTTCAT
104811833 ATTTGGAAAA
Statistics
Matches: 503, Mismatches: 39, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
560 2 0.00
561 352 0.70
562 149 0.30
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35
Consensus pattern (561 bp):
TTGGGCCTAGTCGGAACAGAGGTTTCGGGACAACAAAATCCAAGATAGAAATAATTATTTTATGA
TTATTTTGAGGTCTATGATATGATTGCATGATTGTGTGAAAATTTCATAAAGAAATTCTATGCAT
AAAGTGCTTAATTCGAAATGAGGGACTAAATCGAATAAGTTGCAAAACTTGCATTCTAGAAGTTT
CTAGTATGAAATTGATTTGAAATATTAATTAGGAGGTCTTAAATAGAAATTTGACCAATTTCTAA
GTTATGGACAAAAATTGGACATGGATGGAATTTTTGGAAAGTTTAGTAGTAAGGGCATTTTGGTC
ATTTAGGGGTAAAATGAATTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCAACACCATA
GACGAATATACCAAGGGAGAAACCATGGCTAGGGTTTTCAAGCTTCCCAAGCTCAATTGTAAGTC
CGTTCTAACCCCGTTTTTCAAGTTCTTTACGTTTTTGGAGTCCCAGTAACTCGATTAAGCTTATG
CTAGCAATAATTCAACCTAGGGTTCATGTAATATCCTGATT
Found at i:104812607 original size:46 final size:45
Alignment explanation
Indices: 104812557--104812732 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
104812547 ATGGTTGGCA
104812557 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
104812603 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
104812650 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
104812696 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104812733 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:104812712 original size:93 final size:93
Alignment explanation
Indices: 104812553--104812724 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
104812543 TAGGATGGTT
* *
104812553 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
104812618 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
104812646 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
104812711 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
104812725 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:104815692 original size:15 final size:14
Alignment explanation
Indices: 104815667--104815735 Score: 77
Period size: 15 Copynumber: 4.8 Consensus size: 14
104815657 GTATCGTATC
*
104815667 TTGGGTTTCTTTAT
1 TTGGATTTCTTTAT
104815681 TATGGATTTCTTTAT
1 T-TGGATTTCTTTAT
*
104815696 TCTGGATTTCTCTAT
1 T-TGGATTTCTTTAT
104815711 CTTGGATTTCTTTAT
1 -TTGGATTTCTTTAT
*
104815726 TCGG-TTTCTT
1 TTGGATTTCTT
104815736 GTTATCTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
13 6 0.12
14 4 0.08
15 37 0.77
16 1 0.02
ACGTcount: A:0.12, C:0.13, G:0.16, T:0.59
Consensus pattern (14 bp):
TTGGATTTCTTTAT
Found at i:104818165 original size:46 final size:45
Alignment explanation
Indices: 104818112--104818287 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
104818102 TAGTTGAGCA
104818112 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
104818158 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
104818205 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
104818251 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104818288 CGGGTTACAT
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:104818268 original size:93 final size:93
Alignment explanation
Indices: 104818109--104818279 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
104818099 GGATAGTTGA
* *
104818109 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
104818174 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
104818202 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
104818267 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
104818280 ACTTATGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:104820686 original size:68 final size:67
Alignment explanation
Indices: 104820614--104820763 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
104820604 CATCATGTGT
* * * *
104820614 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
104820676 ATGTAG
62 ATGTAG
** * *
104820682 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
104820747 AG
66 AG
104820749 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
104820764 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:104820719 original size:64 final size:64
Alignment explanation
Indices: 104820638--104820821 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
104820628 AGACATTATG
* *
104820638 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
104820702 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
104820767 AA
63 AA
* * * *
104820769 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
104820822 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:104823672 original size:14 final size:15
Alignment explanation
Indices: 104823653--104823681 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
104823643 TAATGAGAAT
104823653 CAAAAATA-AAAAAC
1 CAAAAATAGAAAAAC
104823667 CAAAAATAGAAAAAC
1 CAAAAATAGAAAAAC
104823682 AAAGAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.76, C:0.14, G:0.03, T:0.07
Consensus pattern (15 bp):
CAAAAATAGAAAAAC
Found at i:104833541 original size:12 final size:12
Alignment explanation
Indices: 104833524--104833548 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104833514 ATAAGAGGAT
104833524 GGAAAAAAAAAA
1 GGAAAAAAAAAA
104833536 GGAAAAAAAAAA
1 GGAAAAAAAAAA
104833548 G
1 G
104833549 TGTTCATCTT
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
GGAAAAAAAAAA
Found at i:104834928 original size:40 final size:40
Alignment explanation
Indices: 104834843--104834993 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
104834833 AATTGAATGA
* * *
104834843 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
104834883 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
104834924 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
104834963 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
104834994 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:104835007 original size:40 final size:40
Alignment explanation
Indices: 104834879--104835009 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
104834869 TATGCTGGAA
* * *
104834879 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
104834919 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
104834959 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
104834999 ATTATATCCGG
1 ATTATATCCGG
104835010 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:104838551 original size:47 final size:47
Alignment explanation
Indices: 104838492--104838622 Score: 165
Period size: 47 Copynumber: 2.8 Consensus size: 47
104838482 CACAATCGAT
* * * *
104838492 AAGTACCGATACCATGGCCTGTAGCGAAATCAAGGTAACTTATC-CC
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCC
* * *
104838538 AGAGTACCTATACCATGGCCCGCAGCCAAATCAAGGTAACTCCTCTCT
1 A-AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCC
* *
104838586 AAATACCTATACCATAGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
104838623 TTGTTCACAC
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
46 1 0.01
47 70 0.96
48 2 0.03
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.21
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCC
Found at i:104840021 original size:4 final size:4
Alignment explanation
Indices: 104840012--104840080 Score: 138
Period size: 4 Copynumber: 17.2 Consensus size: 4
104840002 AAGTTTTGAG
104840012 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
104840060 TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT T
104840081 TTAATTTGGT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 65 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:104847865 original size:99 final size:99
Alignment explanation
Indices: 104847694--104847892 Score: 398
Period size: 99 Copynumber: 2.0 Consensus size: 99
104847684 GGCAAAACCT
104847694 ATAACCCAAGATGGAGGAATCATCCAAGCTTCTCTTGAGGTGGTCAAAGGAATCAAAGTTCACAA
1 ATAACCCAAGATGGAGGAATCATCCAAGCTTCTCTTGAGGTGGTCAAAGGAATCAAAGTTCACAA
104847759 CCCCATCCAGACTTTCAGCAACCTCAACAAAAAG
66 CCCCATCCAGACTTTCAGCAACCTCAACAAAAAG
104847793 ATAACCCAAGATGGAGGAATCATCCAAGCTTCTCTTGAGGTGGTCAAAGGAATCAAAGTTCACAA
1 ATAACCCAAGATGGAGGAATCATCCAAGCTTCTCTTGAGGTGGTCAAAGGAATCAAAGTTCACAA
104847858 CCCCATCCAGACTTTCAGCAACCTCAACAAAAAG
66 CCCCATCCAGACTTTCAGCAACCTCAACAAAAAG
104847892 A
1 A
104847893 AAAGAAGTCA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (99 bp):
ATAACCCAAGATGGAGGAATCATCCAAGCTTCTCTTGAGGTGGTCAAAGGAATCAAAGTTCACAA
CCCCATCCAGACTTTCAGCAACCTCAACAAAAAG
Found at i:104850144 original size:25 final size:27
Alignment explanation
Indices: 104850107--104850157 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
104850097 TCAAACATGC
104850107 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
104850133 ATTTCGGT-AATTTATCTCCTAGGGG
1 ATTTAGGTCAATTTAACTCCTAGGGG
104850158 GTAAAACTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:104851682 original size:32 final size:32
Alignment explanation
Indices: 104851645--104851709 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
104851635 AATGCTTACC
104851645 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
104851677 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
104851709 A
1 A
104851710 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:104855469 original size:40 final size:40
Alignment explanation
Indices: 104855424--104855552 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
104855414 CGGAATATAA
*
104855424 CCGGATATAACCACGCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTCGCACGAATGCCTTCGGGTCTTAGC
* **
104855464 CCGGATAGAATGACTCGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAACCACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
104855503 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTCGCACGAA-TGCCTTCGGGTCTTAGC
104855543 CCGGATATAA
1 CCGGATATAA
104855553 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
38 2 0.03
39 30 0.41
40 42 0.57
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:104855530 original size:39 final size:40
Alignment explanation
Indices: 104855440--104855549 Score: 138
Period size: 39 Copynumber: 2.8 Consensus size: 40
104855430 ATAACCACGC
*
104855440 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
104855480 GCACGAATGCCTTC-GGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
*
104855519 GCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
104855550 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
37 1 0.02
38 4 0.06
39 29 0.47
40 28 0.45
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:104864358 original size:44 final size:45
Alignment explanation
Indices: 104864263--104864377 Score: 144
Period size: 44 Copynumber: 2.6 Consensus size: 45
104864253 ACAGGACAGA
*
104864263 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCTTTGGAG
* *
104864309 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGG-TATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCT-TTGGAG
* **
104864353 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
104864378 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 34 0.56
46 26 0.43
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCTTTGGAG
Found at i:104866212 original size:40 final size:40
Alignment explanation
Indices: 104866167--104866296 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
104866157 CGGAATATAA
*
104866167 CCGGATATAACCACGCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTCGCACGAATGCCTTCGGGTCTTAGC
* ** *
104866207 CCGGATAGAATGACTCACACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
104866247 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTCGCACGAA-TGCCTTCGGGTCTTAGC
104866287 CCGGATATAA
1 CCGGATATAA
104866297 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 2 0.03
40 72 0.97
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:104866311 original size:40 final size:40
Alignment explanation
Indices: 104866167--104866330 Score: 147
Period size: 40 Copynumber: 4.1 Consensus size: 40
104866157 CGGAATATAA
*
104866167 CCGGATATAACCACGC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* *
104866207 CCGGATAGAATGACTCA-CACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
104866247 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
104866287 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
104866327 CCGG
1 CCGG
104866331 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 3 0.03
40 97 0.97
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Done.