Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 337 of 425
Found at i:104599194 original size:21 final size:21
Alignment explanation
Indices: 104599145--104599203 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
104599135 ATAATAAATC
*
104599145 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
104599165 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
104599187 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
104599204 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:104606457 original size:55 final size:53
Alignment explanation
Indices: 104606302--104606508 Score: 180
Period size: 53 Copynumber: 3.8 Consensus size: 53
104606292 TTCCTTTTTA
* * *
104606302 AACTTACCATTGCCATGCCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * *
104606355 AACTCACCATTGCCGTGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
** * * * * * * *
104606409 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
* * * * * *
104606464 AACTTACCAATGCCATGCCTTGGCAAGGCCTTACTTGGTAGCCTT
1 AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
104606509 AAACTCTAAT
Statistics
Matches: 121, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 46 0.38
54 35 0.29
55 40 0.33
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:104609295 original size:30 final size:30
Alignment explanation
Indices: 104609248--104609304 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
104609238 TTGTAGGAGC
* *
104609248 CACATGGGCTAGGCACACGCCTATGTGAGA
1 CACATGAGCTAGGCACACGCCCATGTGAGA
104609278 CACATGAGCT-GGACACACGCCCATGTG
1 CACATGAGCTAGG-CACACGCCCATGTG
104609305 CCAACTCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.26, C:0.30, G:0.28, T:0.16
Consensus pattern (30 bp):
CACATGAGCTAGGCACACGCCCATGTGAGA
Found at i:104609949 original size:15 final size:15
Alignment explanation
Indices: 104609929--104609961 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
104609919 AATTAATCAA
*
104609929 TCTAGAGTCAGTTGT
1 TCTAGAGTCAGCTGT
104609944 TCTAGAGTCAGCTGT
1 TCTAGAGTCAGCTGT
104609959 TCT
1 TCT
104609962 TACTCTCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.39
Consensus pattern (15 bp):
TCTAGAGTCAGCTGT
Found at i:104613678 original size:28 final size:28
Alignment explanation
Indices: 104613646--104613702 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
104613636 GTTGTTCGGT
104613646 ATTGTGGTTTAAGTTTTCACTTCGATTC
1 ATTGTGGTTTAAGTTTTCACTTCGATTC
104613674 ATTGTGGTTTAAGTTTTCACTTCGATTC
1 ATTGTGGTTTAAGTTTTCACTTCGATTC
104613702 A
1 A
104613703 GTCTCTATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.19, C:0.14, G:0.18, T:0.49
Consensus pattern (28 bp):
ATTGTGGTTTAAGTTTTCACTTCGATTC
Found at i:104615086 original size:25 final size:24
Alignment explanation
Indices: 104615058--104615121 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
104615048 ATTTTTATTT
* * *
104615058 TTATGTTTATTTTATTTTCTTAGAC
1 TTATTTTTATTTTATCTT-TTAAAC
*
104615083 TTATTTTTTTTTTTATCTTTTAAAC
1 TTA-TTTTTATTTTATCTTTTAAAC
104615108 TATATTTTTATTTT
1 T-TATTTTTATTTT
104615122 GATGGTTGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 18 0.56
26 14 0.44
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.70
Consensus pattern (24 bp):
TTATTTTTATTTTATCTTTTAAAC
Found at i:104615113 original size:26 final size:26
Alignment explanation
Indices: 104615058--104615121 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
104615048 ATTTTTATTT
* * *
104615058 TTATGTTTA-TTTTATTTTCTTAGAC
1 TTATTTTTATTTTTATCTTCTTAAAC
*
104615083 TTATTTTTTTTTTTATCTT-TTAAAC
1 TTATTTTTATTTTTATCTTCTTAAAC
104615108 TATATTTTTATTTT
1 T-TATTTTTATTTT
104615122 GATGGTTGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
25 13 0.41
26 19 0.59
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.70
Consensus pattern (26 bp):
TTATTTTTATTTTTATCTTCTTAAAC
Found at i:104615121 original size:6 final size:6
Alignment explanation
Indices: 104615031--104615075 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
104615021 TGTCTTTTCT
* * *
104615031 TTTTTA GTTTTA GTTTTA TTTTTA TTTTTA TGTTTA -TTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
104615076 CTTAGACTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 4 0.12
6 30 0.88
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:104619194 original size:11 final size:12
Alignment explanation
Indices: 104619178--104619210 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
104619168 TGCTGAAGAC
104619178 ATTAAAATAA-A
1 ATTAAAATAATA
104619189 ATTAAAATAATA
1 ATTAAAATAATA
104619201 A-TAAAATAAT
1 ATTAAAATAAT
104619211 TATTTCAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 19 0.90
12 2 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATTAAAATAATA
Found at i:104620212 original size:14 final size:14
Alignment explanation
Indices: 104620193--104620222 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
104620183 ATTTCAAATT
104620193 TTGAGTTAATCGAA
1 TTGAGTTAATCGAA
*
104620207 TTGAGTTATTCGAA
1 TTGAGTTAATCGAA
104620221 TT
1 TT
104620223 ATTCGAGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (14 bp):
TTGAGTTAATCGAA
Found at i:104620485 original size:18 final size:19
Alignment explanation
Indices: 104620439--104620485 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
104620429 TTAAAATTAT
*
104620439 AAATTCTATATTTTTAAAA
1 AAATTCTAAATTTTTAAAA
*
104620458 AAATTATAAATTTTTAAAA
1 AAATTCTAAATTTTTAAAA
104620477 AAA-TCTAAA
1 AAATTCTAAA
104620486 GAAATATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATTCTAAATTTTTAAAA
Found at i:104620511 original size:31 final size:29
Alignment explanation
Indices: 104620453--104620511 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
104620443 TCTATATTTT
*
104620453 TAAAAAAATTATAAATTTTTAAAAAAATC
1 TAAAAAAATTATAAAATTTTAAAAAAATC
* *
104620482 TAAAGAAATATATAAAAATTTTAATAAAAT
1 TAAAAAAAT-TAT-AAAATTTTAAAAAAAT
104620512 AATAATTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.32
30 3 0.12
31 14 0.56
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (29 bp):
TAAAAAAATTATAAAATTTTAAAAAAATC
Found at i:104620836 original size:21 final size:21
Alignment explanation
Indices: 104620810--104620849 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
104620800 ACCTTTTCTA
**
104620810 AAGTTAAAATTCAAAACTATC
1 AAGTTAAAAGGCAAAACTATC
104620831 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
104620850 CATTGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATC
Found at i:104623498 original size:31 final size:29
Alignment explanation
Indices: 104623463--104623537 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
104623453 ACGGCTCAAC
* *
104623463 GACTAAAATGTTACAATGCGATAACGTAAGT
1 GACTAAAATGTAACAATGC-A-AACATAAGT
* * *
104623494 GACTAAAATATAACATTTCAAACATAAGT
1 GACTAAAATGTAACAATGCAAACATAAGT
104623523 GACTAAAATGTAACA
1 GACTAAAATGTAACA
104623538 CTCCTAACCC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 22 0.58
30 1 0.03
31 15 0.39
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.25
Consensus pattern (29 bp):
GACTAAAATGTAACAATGCAAACATAAGT
Found at i:104625265 original size:31 final size:31
Alignment explanation
Indices: 104625227--104625288 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
104625217 TTGATCTAAA
104625227 ATGTAAAATTATTCATTCATTAGCATATATT
1 ATGTAAAATTATTCATTCATTAGCATATATT
104625258 ATGTAAAATTATTCATTCATTAGCATATATT
1 ATGTAAAATTATTCATTCATTAGCATATATT
104625289 TCAATTCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (31 bp):
ATGTAAAATTATTCATTCATTAGCATATATT
Found at i:104626415 original size:21 final size:20
Alignment explanation
Indices: 104626381--104626436 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
104626371 CATTTTTTAT
104626381 ATTTTTTA-AATTTTAAATA
1 ATTTTTTAGAATTTTAAATA
*
104626400 ATTTTTTAGAATTTTTACAT-
1 ATTTTTTAGAA-TTTTAAATA
*
104626420 ACTTTTT-GAATTTTAAA
1 ATTTTTTAGAATTTTAAA
104626437 AAATGATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 6 0.19
19 11 0.34
20 8 0.25
21 7 0.22
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (20 bp):
ATTTTTTAGAATTTTAAATA
Found at i:104626479 original size:16 final size:17
Alignment explanation
Indices: 104626466--104626511 Score: 76
Period size: 16 Copynumber: 2.8 Consensus size: 17
104626456 ATGGTTTTTC
*
104626466 ATTTTCATAATTTTTAT
1 ATTTTTATAATTTTTAT
104626483 ATTTTTAT-ATTTTTAT
1 ATTTTTATAATTTTTAT
104626499 ATTTTTATAATTT
1 ATTTTTATAATTT
104626512 GTTTTTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTTATAATTTTTAT
Found at i:104626511 original size:9 final size:8
Alignment explanation
Indices: 104626475--104626507 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
104626465 CATTTTCATA
104626475 ATTTTTAT
1 ATTTTTAT
104626483 ATTTTTAT
1 ATTTTTAT
104626491 ATTTTTAT
1 ATTTTTAT
104626499 ATTTTTAT
1 ATTTTTAT
104626507 A
1 A
104626508 ATTTGTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
ATTTTTAT
Found at i:104626526 original size:10 final size:9
Alignment explanation
Indices: 104626476--104626534 Score: 50
Period size: 8 Copynumber: 6.3 Consensus size: 9
104626466 ATTTTCATAA
104626476 TTTTTATA-
1 TTTTTATAT
104626484 TTTTTATA-
1 TTTTTATAT
104626492 TTTTTATAT
1 TTTTTATAT
*
104626501 TTTTATAATTT
1 TTTT-T-ATAT
104626512 GTTTTTATAT
1 -TTTTTATAT
*
104626522 GTTTTTACAT
1 -TTTTTATAT
104626532 TTT
1 TTT
104626535 AAAAAATTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
8 16 0.36
9 7 0.16
10 13 0.30
11 4 0.09
12 4 0.09
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.73
Consensus pattern (9 bp):
TTTTTATAT
Found at i:104626576 original size:2 final size:2
Alignment explanation
Indices: 104626571--104626601 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
104626561 TTTTTTACAT
104626571 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
104626602 TTATGATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104639690 original size:102 final size:103
Alignment explanation
Indices: 104639508--104639715 Score: 231
Period size: 102 Copynumber: 2.0 Consensus size: 103
104639498 CTGGAGCGTC
* ** * * *
104639508 TATCCTATTATTTAAGCACTTGATTGAGCTGATGTCACCTTTAACCGGGTCATCAAGTCGGTTAG
1 TATCCTATTATTTAAGCACTTAACCGAGCTGATGTCACCTTTAACAGGGTCATCAACTCAGTTAG
* ** *
104639573 GAAATTTATAGAAATA-CCTTTCATAATTAAATTGAGT
66 AAAAAATATAGAAATACCCTTTCATAATTAAAATGAGT
** * * * *
104639610 TATCCTATTATTTAAGTTCTTAACCGAGTTGGTGTCACCTTTAATAGGGTCATCAACTTAGTTAG
1 TATCCTATTATTTAAGCACTTAACCGAGCTGATGTCACCTTTAACAGGGTCATCAACTCAGTTAG
* *
104639675 AAAAAATACTA-AAATACCCTTTCGTAATTAAAATGATT
66 AAAAAATA-TAGAAATACCCTTTCATAATTAAAATGAGT
104639713 TAT
1 TAT
104639716 ATTATTTGAA
Statistics
Matches: 86, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
102 63 0.73
103 23 0.27
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (103 bp):
TATCCTATTATTTAAGCACTTAACCGAGCTGATGTCACCTTTAACAGGGTCATCAACTCAGTTAG
AAAAAATATAGAAATACCCTTTCATAATTAAAATGAGT
Found at i:104650458 original size:62 final size:62
Alignment explanation
Indices: 104650382--104650506 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
104650372 CCTGAATTGA
104650382 CTTGCAGCATTCACAGGGGATGAGATGAGGTCAAATGAGGGGGACTATCAAAGTCCGATGCT
1 CTTGCAGCATTCACAGGGGATGAGATGAGGTCAAATGAGGGGGACTATCAAAGTCCGATGCT
104650444 CTTGCAGCATTCACAGGGGATGAGATGAGGTCAAATGAGGGGGACTATCAAAGTCCGATGCT
1 CTTGCAGCATTCACAGGGGATGAGATGAGGTCAAATGAGGGGGACTATCAAAGTCCGATGCT
104650506 C
1 C
104650507 ACATGAACAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (62 bp):
CTTGCAGCATTCACAGGGGATGAGATGAGGTCAAATGAGGGGGACTATCAAAGTCCGATGCT
Found at i:104653155 original size:33 final size:33
Alignment explanation
Indices: 104653118--104653184 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
104653108 AATTTGAAAG
* *
104653118 TTCTCTCTCGAAAATTGCCTTGAAAATAACGTC
1 TTCTCTCTCGAAAATTACCTTGAAAATAAAGTC
*
104653151 TTCTCTCTCGAAAATTACCTTGAAAGTAAAGTC
1 TTCTCTCTCGAAAATTACCTTGAAAATAAAGTC
104653184 T
1 T
104653185 CAGTTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (33 bp):
TTCTCTCTCGAAAATTACCTTGAAAATAAAGTC
Found at i:104660188 original size:3 final size:3
Alignment explanation
Indices: 104660180--104660222 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
104660170 TGGGCTGTGA
104660180 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
104660223 TAATATAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:104662596 original size:35 final size:35
Alignment explanation
Indices: 104662547--104662614 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
104662537 ATTTTTTAAA
104662547 ATTACTTTTCAAGTAAACAAAATAATTAATCTTGT
1 ATTACTTTTCAAGTAAACAAAATAATTAATCTTGT
*
104662582 ATTA-TTTTCCAAGTAAATAAAATAATTAATCTT
1 ATTACTTTT-CAAGTAAACAAAATAATTAATCTT
104662615 TTTTGAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 4 0.13
35 27 0.87
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.41
Consensus pattern (35 bp):
ATTACTTTTCAAGTAAACAAAATAATTAATCTTGT
Found at i:104663190 original size:25 final size:25
Alignment explanation
Indices: 104663161--104663210 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
104663151 TTGAAAATTT
104663161 TGATTTTTTTTAACGACTTCTTTTA
1 TGATTTTTTTTAACGACTTCTTTTA
104663186 TGATTTTTTTTAACGACTTCTTTTA
1 TGATTTTTTTTAACGACTTCTTTTA
104663211 GCCTGATCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (25 bp):
TGATTTTTTTTAACGACTTCTTTTA
Found at i:104676187 original size:238 final size:238
Alignment explanation
Indices: 104675732--104676204 Score: 727
Period size: 237 Copynumber: 2.0 Consensus size: 238
104675722 AATTGTTAAA
* *
104675732 AATACAAAAAAATAAAAATCAATCTAGCCCATCTCAAGGAAGGCTATACACATGATGCTAAAAAT
1 AATACAAAAAAATAAAAATCAAACTAGCCCATCTCAAGGAAGGCTATACACATAATGCTAAAAAT
* *
104675797 AAAAACAACCAATAATTGTGCACAGCACAGTAATTAGGTCCATGTTACACCAGAGCTAAATATTT
66 AAAAACAAACAATAATTGTGCACAGCACAGTAATTAGGCCCATGTTACACCAGAGCTAAATATTT
* *
104675862 TGCTAAATACCCAGGATACGTATTTGCTAGAGAAGTACATGTAATAATGAACAATATGTCATTTA
131 TGATAAATACCCAGGATACGTATTTGCTAGAGAAGTACATGTAATAATGAACAACATGTCATTTA
* * *
104675927 TGCCTACAAAAGGAATCCTAAAGAATACAAAAGAATCTGCTCT
196 TACCTACAAAAGGAACCCTAAAGAATACAAAAGAACCTGCTCT
* * * * * * *
104675970 AATAC-AAATAATAAATATCAAACTTGCCTATCTTAAGGAA-GTTATACACATAATGGTTAAAAA
1 AATACAAAAAAATAAAAATCAAACTAGCCCATCTCAAGGAAGGCTATACACATAAT-GCTAAAAA
* *
104676033 -AACAAACAAACAATAATTGTTCACAGCACGGTAATTAGGCCCATGTTACACCAGAGCTAAATAT
65 TAA-AAACAAACAATAATTGTGCACAGCACAGTAATTAGGCCCATGTTACACCAGAGCTAAATAT
*
104676097 TTTGATAAATACCCAGGATATTGTATTTGCTAGAGAAGTACATGTAATAATGAACAACATGTCAT
129 TTTGATAAATACCCAGGATA-CGTATTTGCTAGAGAAGTACATGTAATAATGAACAACATGTCAT
104676162 TTATACCTACAAAAGGAACCCTAAAGAATACAAAAGAACCTGC
193 TTATACCTACAAAAGGAACCCTAAAGAATACAAAAGAACCTGC
104676205 ACTATTGTAG
Statistics
Matches: 213, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
236 14 0.07
237 112 0.53
238 87 0.41
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.25
Consensus pattern (238 bp):
AATACAAAAAAATAAAAATCAAACTAGCCCATCTCAAGGAAGGCTATACACATAATGCTAAAAAT
AAAAACAAACAATAATTGTGCACAGCACAGTAATTAGGCCCATGTTACACCAGAGCTAAATATTT
TGATAAATACCCAGGATACGTATTTGCTAGAGAAGTACATGTAATAATGAACAACATGTCATTTA
TACCTACAAAAGGAACCCTAAAGAATACAAAAGAACCTGCTCT
Found at i:104678195 original size:12 final size:12
Alignment explanation
Indices: 104678178--104678211 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
104678168 CCGATCCGCC
104678178 TATATTAATTTT
1 TATATTAATTTT
104678190 TATATT-ATTTT
1 TATATTAATTTT
104678201 TATA-TAATTTT
1 TATATTAATTTT
104678212 AAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 14 0.67
12 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:104678247 original size:18 final size:20
Alignment explanation
Indices: 104678212--104678252 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
104678202 ATATAATTTT
* *
104678212 AAAATATATATAATACATTA
1 AAAATATATATAAAACATCA
104678232 AAAATAT-TA-AAAACATCA
1 AAAATATATATAAAACATCA
104678250 AAA
1 AAA
104678253 TAAATATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 10 0.53
19 2 0.11
20 7 0.37
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAATATATATAAAACATCA
Found at i:104678470 original size:22 final size:22
Alignment explanation
Indices: 104678423--104678470 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
104678413 AAATAATAAC
* *
104678423 AAAATAGTAGCAATATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
*
104678445 AAAATGGTAGCAAAATAGAGAG-
1 AAAATAGTAGCAAAATA-AGAGT
104678467 AAAA
1 AAAA
104678471 CAATAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.58, C:0.04, G:0.19, T:0.19
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:104680395 original size:39 final size:39
Alignment explanation
Indices: 104680352--104680486 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 39
104680342 ACCAATATGG
*
104680352 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAATTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAATTGA
* * * *
104680391 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAATTGA
* * * * *
104680429 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATA-ATTGA
*
104680470 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
104680487 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAATTGA
Found at i:104682026 original size:17 final size:17
Alignment explanation
Indices: 104682004--104682038 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
104681994 GAATGCTCTC
*
104682004 TGTTTCTTATTCTTCTT
1 TGTTTCTTATTATTCTT
*
104682021 TGTTTCTTTTTATTCTT
1 TGTTTCTTATTATTCTT
104682038 T
1 T
104682039 TTCTTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.74
Consensus pattern (17 bp):
TGTTTCTTATTATTCTT
Found at i:104682108 original size:13 final size:13
Alignment explanation
Indices: 104682068--104682101 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
104682058 ACATATATAT
* *
104682068 ATAATATTATTTA
1 ATAATAATAGTTA
104682081 ATAATAATAGTTA
1 ATAATAATAGTTA
104682094 ATAATAAT
1 ATAATAAT
104682102 TTATAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
ATAATAATAGTTA
Found at i:104684612 original size:42 final size:42
Alignment explanation
Indices: 104684551--104684674 Score: 110
Period size: 42 Copynumber: 3.0 Consensus size: 42
104684541 TGTTTTCTCG
** * *
104684551 ATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT-A
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-ATCA
* * ** *
104684593 ATGCCATAGCCCAGTTATGGTCTTATACATATTCATGTATCG
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATCA
* *
104684635 ATGCCATAGCCTAGCTATGGTCTTGCACGA-A-TCACATATC
1 ATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATATC
104684675 TCACTGATGC
Statistics
Matches: 65, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
41 9 0.14
42 55 0.85
43 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATCA
Found at i:104684824 original size:31 final size:31
Alignment explanation
Indices: 104684781--104684929 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
104684771 TTTGTCACTT
* *
104684781 GTAGCTGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
104684812 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
104684843 GTAGCCGGAGCTACCACTTTTCACTGATCAC
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** *
104684874 GTAGCAAAAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
104684905 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
104684930 TGTCATTTGT
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 107 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:104685001 original size:49 final size:50
Alignment explanation
Indices: 104684913--104685032 Score: 149
Period size: 49 Copynumber: 2.4 Consensus size: 50
104684903 AGGTAGCTGA
*
104684913 AGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCTTCG
1 AGCTACCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGC--CG
*
104684965 -GCTA-CACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGTGTAGCCG
1 AGCTACCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGTGTAGCCG
*
104685012 AAGCTATCACTTATCACTTGT
1 -AGCTACCACTTATCACTTGT
104685033 TGCCATGGTC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
47 2 0.03
49 28 0.46
50 26 0.43
51 5 0.08
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (50 bp):
AGCTACCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCG
Found at i:104687861 original size:30 final size:30
Alignment explanation
Indices: 104687822--104687899 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 30
104687812 TCAAAATTAC
* *
104687822 ACATGAAATTTGGTTTTATGTCCAATTTTAT
1 ACATAAAATTTGATTTT-TGTCCAATTTTAT
* * *
104687853 TCA-AAAATTTTGATTTTTGTGCAGTTTTAT
1 ACATAAAA-TTTGATTTTTGTCCAATTTTAT
104687883 ACATAAAATTTTGATTT
1 ACATAAAA-TTTGATTT
104687900 GATTTAATTC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 16 0.41
31 23 0.59
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.50
Consensus pattern (30 bp):
ACATAAAATTTGATTTTTGTCCAATTTTAT
Found at i:104688480 original size:20 final size:21
Alignment explanation
Indices: 104688434--104688480 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
104688424 ATAAAAGTTA
104688434 TAATTTTCTTTATATATTTTG
1 TAATTTTCTTTATATATTTTG
* * *
104688455 TGATTTTTTTTATA-ATTTTT
1 TAATTTTCTTTATATATTTTG
104688475 TAATTT
1 TAATTT
104688481 GTTAGTAAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.70
Consensus pattern (21 bp):
TAATTTTCTTTATATATTTTG
Found at i:104692997 original size:27 final size:27
Alignment explanation
Indices: 104692967--104693020 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
104692957 ATATTATATT
*
104692967 GATTTAATGATAAATTTAAAAAATTAA
1 GATTTAATCATAAATTTAAAAAATTAA
104692994 GATTTAATCATAAATTTAAAAAATTAA
1 GATTTAATCATAAATTTAAAAAATTAA
104693021 CTCTGAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (27 bp):
GATTTAATCATAAATTTAAAAAATTAA
Found at i:104693163 original size:25 final size:24
Alignment explanation
Indices: 104693121--104693167 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
104693111 TTTTATTTTA
* *
104693121 ATATTAGTACTAATTAAATATAATT
1 ATATTAATACTAAATAAA-ATAATT
*
104693146 ATATTAATATTAAATAAAATAA
1 ATATTAATACTAAATAAAATAA
104693168 AAATCTCCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATTAATACTAAATAAAATAATT
Found at i:104695689 original size:21 final size:21
Alignment explanation
Indices: 104695665--104695732 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
104695655 ACTCATATGA
*
104695665 GTTTCAGTTTAGCCCTTCTGG
1 GTTTCAATTTAGCCCTTCTGG
* **
104695686 GTTTCAATTTAGCTCTTCTTA
1 GTTTCAATTTAGCCCTTCTGG
* * *
104695707 GCTTCAATTTAACCCTTATGG
1 GTTTCAATTTAGCCCTTCTGG
104695728 GTTTC
1 GTTTC
104695733 CGTTCAGCTC
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.46
Consensus pattern (21 bp):
GTTTCAATTTAGCCCTTCTGG
Found at i:104695729 original size:42 final size:42
Alignment explanation
Indices: 104695660--104695774 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 42
104695650 AGTTAACTCA
* * * *
104695660 TATGAGTTTCAGTTTAGCCCTTCTGGGTTTCAATTTAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCAATTCAGCTCT
* * * **
104695702 TCTTAGCTTCAATTTAACCCTTATGGGTTTCCGTTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCAATTCAGCTCT
* * *
104695744 TATGAGCTTCCGTTCAACCCTTACGGGTTTC
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTC
104695775 TTTTTAGCAC
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.42
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTCAATTCAGCTCT
Found at i:104695747 original size:21 final size:21
Alignment explanation
Indices: 104695717--104695774 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
104695707 GCTTCAATTT
104695717 AACCCTTATGGGTTTCCGTTC
1 AACCCTTATGGGTTTCCGTTC
* * * *
104695738 AGCTCTTATGAGCTTCCGTTC
1 AACCCTTATGGGTTTCCGTTC
*
104695759 AACCCTTACGGGTTTC
1 AACCCTTATGGGTTTC
104695775 TTTTTAGCAC
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.16, C:0.29, G:0.19, T:0.36
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCGTTC
Found at i:104710653 original size:47 final size:47
Alignment explanation
Indices: 104710522--104710843 Score: 171
Period size: 48 Copynumber: 6.9 Consensus size: 47
104710512 TCAGCATCGT
*
104710522 TAAGTGATTTCGTGTGAGACCATGTCTGGGATATGGCATCGGCATCA
1 TAAGTGATTTCGTGTAAGACCATGTCTGGGATATGGCATCGGCATCA
** * * * *
104710569 -AGATGTGATCCCGTATAAGACCATATCAGGGATATGGCTTCGGCATCA
1 TA-A-GTGATTTCGTGTAAGACCATGTCTGGGATATGGCATCGGCATCA
104710617 TAAGTGATTTCGTGTAAGACCATGTCT-GG-TA---CAT-GGCATCGA
1 TAAGTGATTTCGTGTAAGACCATGTCTGGGATATGGCATCGGCATC-A
* ** * * * * * * *
104710659 TAAGAGATCCCGTATAAAACCATGTTTGGAACATGGCATCAGTATCA
1 TAAGTGATTTCGTGTAAGACCATGTCTGGGATATGGCATCGGCATCA
* * ** * * *
104710706 GTATGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGA
1 -TAAGTGATTTCGTGTAAGACCATGTCTGGGATATGGCATCGGCATC-A
* * * *
104710755 T--GTGAGGTCTT-GTATAAGACCATGTCTAGGG-CATGGCATCGACACTGA
1 TAAGTGA--T-TTCGTGTAAGACCATGTCT-GGGATATGGCATCGGCA-TCA
* * * * * *
104710803 TATGAGACTTCGTATAAGACCATATCTGGAATATGGCATCG
1 TAAGTGATTTCGTGTAAGACCATGTCTGGGATATGGCATCG
104710844 ATATGTGGTC
Statistics
Matches: 205, Mismatches: 49, Indels: 41
0.69 0.17 0.14
Matches are distributed among these distances:
41 6 0.03
42 24 0.12
43 1 0.00
44 1 0.00
45 2 0.01
46 6 0.03
47 28 0.14
48 128 0.62
49 6 0.03
50 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (47 bp):
TAAGTGATTTCGTGTAAGACCATGTCTGGGATATGGCATCGGCATCA
Found at i:104710653 original size:95 final size:96
Alignment explanation
Indices: 104710485--104710657 Score: 276
Period size: 95 Copynumber: 1.8 Consensus size: 96
104710475 CCATGTCCGG
* * *
104710485 GTATAAGACCATATTAGGGATATAGCTTCAGCATCGTTAAGTGATTTCGTGTGAGACCATGTCTG
1 GTATAAGACCATATCAGGGATATAGCTTCAGCATCGATAAGTGATTTCGTGTAAGACCATGTCTG
*
104710550 GGATATGGCATCGGCATCAAGATGTGATCCC
66 GGACATGGCATCGGCATCAAGATGTGATCCC
* *
104710581 GTATAAGACCATATCAGGGATATGGCTTCGGCATC-ATAAGTGATTTCGTGTAAGACCATGTCTG
1 GTATAAGACCATATCAGGGATATAGCTTCAGCATCGATAAGTGATTTCGTGTAAGACCATGTCTG
*
104710645 GTACATGGCATCG
66 GGACATGGCATCG
104710658 ATAAGAGATC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 38 0.54
96 32 0.46
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (96 bp):
GTATAAGACCATATCAGGGATATAGCTTCAGCATCGATAAGTGATTTCGTGTAAGACCATGTCTG
GGACATGGCATCGGCATCAAGATGTGATCCC
Found at i:104718829 original size:22 final size:22
Alignment explanation
Indices: 104718800--104718849 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
104718790 TATTTTAATA
*
104718800 TTTAATAA-ATTTTATACATT-T
1 TTTAATAATATCTTA-ACATTAT
104718821 TTTATATAATATCTTAACATTAT
1 TTTA-ATAATATCTTAACATTAT
104718844 TTTAAT
1 TTTAAT
104718850 GTTTATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.16
22 11 0.44
23 10 0.40
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTAATAATATCTTAACATTAT
Found at i:104727706 original size:21 final size:23
Alignment explanation
Indices: 104727662--104727707 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
104727652 AAGTTAAATA
* *
104727662 AATATTCATATTTGTATAATTAT
1 AATACTCATATATGTATAATTAT
104727685 AATACTCATATAT-TAT-ATTAT
1 AATACTCATATATGTATAATTAT
104727706 AA
1 AA
104727708 AATATTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 3 0.14
23 11 0.52
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (23 bp):
AATACTCATATATGTATAATTAT
Found at i:104728944 original size:17 final size:18
Alignment explanation
Indices: 104728922--104728955 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
104728912 TTCAATATGA
104728922 TATTTTAGT-TTTTTTCC
1 TATTTTAGTATTTTTTCC
*
104728939 TATTTTGGTATTTTTTC
1 TATTTTAGTATTTTTTC
104728956 AGTTTAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.71
Consensus pattern (18 bp):
TATTTTAGTATTTTTTCC
Found at i:104731897 original size:29 final size:29
Alignment explanation
Indices: 104731851--104731906 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
104731841 TTTAACTAAC
104731851 TTAAAATAAATATATTA-TAAATTATTTAT
1 TTAAAATAAATATATTATTAAA-TATTTAT
* *
104731880 TTAAATTAAATATTTTATTAAATATTT
1 TTAAAATAAATATATTATTAAATATTT
104731907 TAAAATAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TTAAAATAAATATATTATTAAATATTTAT
Found at i:104731901 original size:12 final size:12
Alignment explanation
Indices: 104731884--104731908 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104731874 ATTTATTTAA
104731884 ATTAAATATTTT
1 ATTAAATATTTT
104731896 ATTAAATATTTT
1 ATTAAATATTTT
104731908 A
1 A
104731909 AAATAATGAA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTAAATATTTT
Found at i:104732414 original size:22 final size:22
Alignment explanation
Indices: 104732384--104732429 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
104732374 ATAAAATTTT
*
104732384 AAAACATTATA-AAAATTTATAA
1 AAAACATTAAATAAAATTTA-AA
*
104732406 AAAATATTAAATAAAATTTAAA
1 AAAACATTAAATAAAATTTAAA
104732428 AA
1 AA
104732430 GTTAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAACATTAAATAAAATTTAAA
Found at i:104733070 original size:23 final size:23
Alignment explanation
Indices: 104733044--104733097 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
104733034 TGATTTTTAA
*
104733044 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
104733067 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
104733090 ATTTAGAA
1 ATTTAGAA
104733098 AAAATCCAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:104733071 original size:13 final size:13
Alignment explanation
Indices: 104733053--104733095 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
104733043 AATTTTGAAT
104733053 TATTTAGTGATAA
1 TATTTAGTGATAA
*
104733066 TATTTA--GA-AT
1 TATTTAGTGATAA
104733076 TATTTAGTGATAA
1 TATTTAGTGATAA
104733089 TATTTAG
1 TATTTAG
104733096 AAAAAATCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:104742761 original size:28 final size:28
Alignment explanation
Indices: 104742729--104742853 Score: 90
Period size: 28 Copynumber: 4.4 Consensus size: 28
104742719 GTGAAAACGG
* **
104742729 CACTTAGTGTGTGAATTATTGAGGATGA
1 CACTTAGTGTGCGAATTATCCAGGATGA
* ** *
104742757 CACTTACTGTGCGAAACATCCAGAAAT-A
1 CACTTAGTGTGCGAATTATCCAG-GATGA
* ** * *
104742785 GCACTTAGTGTGCAAATTATTGAAGATGG
1 -CACTTAGTGTGCGAATTATCCAGGATGA
* * *
104742814 CACTTATTGTGCGAGTTATCCAGGATGG
1 CACTTAGTGTGCGAATTATCCAGGATGA
104742842 CACTTAGTGTGC
1 CACTTAGTGTGC
104742854 AATACATCTG
Statistics
Matches: 71, Mismatches: 23, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
28 53 0.75
29 18 0.25
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (28 bp):
CACTTAGTGTGCGAATTATCCAGGATGA
Found at i:104742818 original size:57 final size:56
Alignment explanation
Indices: 104742728--104742855 Score: 157
Period size: 57 Copynumber: 2.3 Consensus size: 56
104742718 TGTGAAAACG
** *
104742728 GCACTTAGTGTGTGAATTATTGAGGATGACACTTACTGTGCGAAACATCCAGAAATA
1 GCACTTAGTGTGCAAATTATTGAAGATGACACTTACTGTGCGAAACATCCAG-AATA
* * *** * *
104742785 GCACTTAGTGTGCAAATTATTGAAGATGGCACTTATTGTGCGAGTTATCCAGGATG
1 GCACTTAGTGTGCAAATTATTGAAGATGACACTTACTGTGCGAAACATCCAGAATA
104742841 GCACTTAGTGTGCAA
1 GCACTTAGTGTGCAA
104742856 TACATCTGTG
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
56 17 0.28
57 44 0.72
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (56 bp):
GCACTTAGTGTGCAAATTATTGAAGATGACACTTACTGTGCGAAACATCCAGAATA
Found at i:104744439 original size:93 final size:93
Alignment explanation
Indices: 104744324--104744495 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
104744314 GCCCATAAGT
* *
104744324 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
104744389 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
104744417 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
104744482 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
104744496 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:104744491 original size:46 final size:46
Alignment explanation
Indices: 104744316--104744491 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
104744306 TGTAACCCGC
* * *
104744316 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
104744362 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
104744412 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
104744455 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
104744492 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:104747968 original size:17 final size:18
Alignment explanation
Indices: 104747946--104747979 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
104747936 AAATAAACAA
*
104747946 AAATGATAAA-ATTAGAT
1 AAATGAGAAACATTAGAT
104747963 AAATGAGAAACATTAGA
1 AAATGAGAAACATTAGA
104747980 AATGAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.59, C:0.03, G:0.15, T:0.24
Consensus pattern (18 bp):
AAATGAGAAACATTAGAT
Found at i:104758290 original size:58 final size:58
Alignment explanation
Indices: 104758226--104758344 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
104758216 AAGTGGCCTT
104758226 AAAATTAACTATTTCAGCCATATGGGCGTGTGGTCCCTACTCTTAAGAAATTTTTTTA
1 AAAATTAACTATTTCAGCCATATGGGCGTGTGGTCCCTACTCTTAAGAAATTTTTTTA
104758284 AAAATTAACTATTTCAGCCATATGGGCGTGTGGTCCCTACTCTTAAGAAATTTTTTTA
1 AAAATTAACTATTTCAGCCATATGGGCGTGTGGTCCCTACTCTTAAGAAATTTTTTTA
104758342 AAA
1 AAA
104758345 TTTTAAGAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (58 bp):
AAAATTAACTATTTCAGCCATATGGGCGTGTGGTCCCTACTCTTAAGAAATTTTTTTA
Found at i:104760713 original size:21 final size:21
Alignment explanation
Indices: 104760665--104760713 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
104760655 GTACCACATG
* *
104760665 CCTGTGTGGTTTAGAGACACG
1 CCTGTGTGCTTTAGAGACACA
*
104760686 CCCGTGTGTCTTTA-AGACACA
1 CCTGTGTG-CTTTAGAGACACA
104760707 CCTGTGT
1 CCTGTGT
104760714 TGTCACTCCG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (21 bp):
CCTGTGTGCTTTAGAGACACA
Found at i:104762877 original size:8 final size:8
Alignment explanation
Indices: 104762860--104762904 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
104762850 AATATATGCT
*
104762860 TTATTTTA
1 TTATTATA
104762868 TTATTATA
1 TTATTATA
104762876 TTATATTATA
1 -T-TATTATA
*
104762886 TTAATATA
1 TTATTATA
104762894 TTATTATA
1 TTATTATA
104762902 TTA
1 TTA
104762905 ATTTTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 23 0.72
9 2 0.06
10 7 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTATTATA
Found at i:104762882 original size:13 final size:13
Alignment explanation
Indices: 104762861--104762904 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
104762851 ATATATGCTT
*
104762861 TATTTTATTATTA
1 TATTATATTATTA
104762874 TATTATATTA-TA
1 TATTATATTATTA
*
104762886 TTAATATATTATTA
1 -TATTATATTATTA
104762900 TATTA
1 TATTA
104762905 ATTTTTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 2 0.08
13 22 0.85
14 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:104762901 original size:16 final size:17
Alignment explanation
Indices: 104762859--104762906 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
104762849 TAATATATGC
* *
104762859 TTTATTTTATTATTATA
1 TTTATTATATTAATATA
104762876 TTATATTATATTAATATA
1 TT-TATTATATTAATATA
104762894 -TTATTATATTAAT
1 TTTATTATATTAAT
104762907 TTTTTAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 12 0.43
17 3 0.11
18 13 0.46
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATTATATTAATATA
Found at i:104765387 original size:51 final size:50
Alignment explanation
Indices: 104765220--104765399 Score: 220
Period size: 51 Copynumber: 3.6 Consensus size: 50
104765210 TCACTAGTGA
* ** * *
104765220 CACAATTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATAACTTGGT
1 CACAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAAGATAGCTTTGT
*
104765269 CACAAGTGTGGTACTATGTGAAGGCCA-TTTTGTAAAGAAAGATAGCTTTGGT
1 CACAAGTGTGGTACTATGTGAAGGCCACTTTT-TGAAG-AAGATAGCTTT-GT
* *
104765321 CACAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAAGGTAGCTTTGA
1 CACAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAAGATAGCTTTGT
* *
104765371 CGACAAGGGTGGTACTATGTGTAGGCCAC
1 C-ACAAGTGTGGTACTATGTGAAGGCCAC
104765400 CGGGTATCCG
Statistics
Matches: 114, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
48 3 0.03
49 29 0.25
50 2 0.02
51 43 0.38
52 33 0.29
53 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.28
Consensus pattern (50 bp):
CACAAGTGTGGTACTATGTGAAGGCCACTTTTTGAAGAAGATAGCTTTGT
Found at i:104770143 original size:43 final size:43
Alignment explanation
Indices: 104770073--104770156 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
104770063 TTGAGGTCTG
*
104770073 AAAATGAAATCTAGATCCTTTATTAATTTAATAAAATGATTTC
1 AAAATGAAATCTAGATCCTTTAATAATTTAATAAAATGATTTC
* * *
104770116 AAAATTGAAATCTGGATGC-TTAATAATTTAATACAATGATT
1 AAAA-TGAAATCTAGATCCTTTAATAATTTAATAAAATGATT
104770157 GATAGAGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 24 0.67
44 12 0.33
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (43 bp):
AAAATGAAATCTAGATCCTTTAATAATTTAATAAAATGATTTC
Found at i:104776631 original size:42 final size:42
Alignment explanation
Indices: 104776531--104776706 Score: 160
Period size: 42 Copynumber: 4.0 Consensus size: 42
104776521 CTTCATTTTC
** * * *
104776531 TCGATGCCATAGTTCAACTATGGTCATACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* *
104776574 T-GATGCCATAACCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
* * *
104776615 TCGATGTCATAGCCCAGCTATGATCTTACATGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTAC-----A-CATAT-TCACATA
104776664 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
104776705 TC
1 TC
104776707 TCACTGATGC
Statistics
Matches: 110, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
41 11 0.10
42 56 0.51
43 3 0.03
44 2 0.02
47 1 0.01
48 4 0.04
49 33 0.30
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:104776675 original size:49 final size:48
Alignment explanation
Indices: 104776601--104776706 Score: 158
Period size: 49 Copynumber: 2.2 Consensus size: 48
104776591 TATGGTCTTA
* * *
104776601 CACATATTCATATATCGATGTCATAGCCCAGCTATGATCTTACATGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGATCTTACACG-AAT
*
104776651 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGATCTTACACGAAT
104776699 CACATATC
1 CACATATC
104776707 TCACTGATGC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
48 11 0.21
49 35 0.67
50 6 0.12
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGATCTTACACGAAT
Found at i:104776841 original size:31 final size:31
Alignment explanation
Indices: 104776806--104776954 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
104776796 CTTGTCACTT
*
104776806 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
104776837 GTAGCCGGAGCTACCATTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
104776868 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
104776899 GTAGCAGAAGCTACCACTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
104776930 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
104776955 TGTCATTTGT
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 107 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:104777034 original size:50 final size:50
Alignment explanation
Indices: 104776930--104777106 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
104776920 CATTGATCAG
* * *
104776930 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
104776981 GTAGCCAAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
104777031 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
104777081 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
104777107 GTTGCCATGG
Statistics
Matches: 117, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 94 0.80
51 23 0.20
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:104779596 original size:28 final size:28
Alignment explanation
Indices: 104779564--104779620 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
104779554 AAACCCTAGT
104779564 TTCTAAAAGACTGATCAAATCTGGACTA
1 TTCTAAAAGACTGATCAAATCTGGACTA
104779592 TTCTAAAAGACTGATCAAATCTGGACTA
1 TTCTAAAAGACTGATCAAATCTGGACTA
104779620 T
1 T
104779621 GTTAACGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.30
Consensus pattern (28 bp):
TTCTAAAAGACTGATCAAATCTGGACTA
Found at i:104782150 original size:20 final size:20
Alignment explanation
Indices: 104782122--104782162 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
104782112 GTTGGAAATA
*
104782122 ATATGGTTGTTTAATGTATG
1 ATATGGTTGTTTAAGGTATG
*
104782142 ATATTGTTGTTTAAGGTATG
1 ATATGGTTGTTTAAGGTATG
104782162 A
1 A
104782163 GATGATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (20 bp):
ATATGGTTGTTTAAGGTATG
Found at i:104782870 original size:11 final size:11
Alignment explanation
Indices: 104782854--104782879 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
104782844 AAGTAGCAGA
104782854 CATTTCACAAG
1 CATTTCACAAG
104782865 CATTTCACAAG
1 CATTTCACAAG
104782876 CATT
1 CATT
104782880 GTATTATAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.31
Consensus pattern (11 bp):
CATTTCACAAG
Found at i:104792039 original size:12 final size:12
Alignment explanation
Indices: 104792022--104792088 Score: 50
Period size: 12 Copynumber: 5.5 Consensus size: 12
104792012 TTTTTTAAGA
104792022 AAAATAATATAT
1 AAAATAATATAT
104792034 AAAATAGAAAGTATAT
1 AAAAT---AA-TATAT
* *
104792050 AAAATAATTTAC
1 AAAATAATATAT
104792062 AAAATAAT-TAT
1 AAAATAATATAT
*
104792073 ATAATAA-ATA-
1 AAAATAATATAT
104792083 AAAATA
1 AAAATA
104792089 TCACATAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
10 5 0.11
11 10 0.22
12 16 0.36
13 2 0.04
15 2 0.04
16 10 0.22
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (12 bp):
AAAATAATATAT
Found at i:104792239 original size:28 final size:28
Alignment explanation
Indices: 104792169--104792239 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
104792159 TTACAAATTC
104792169 TAAAATTATAAATAATATAATGAGTAATA
1 TAAAA-TATAAATAATATAATGAGTAATA
* * *
104792198 TAAAACATATATAATATGAT-AGATAATA
1 TAAAATATAAATAATATAATGAG-TAATA
* *
104792226 TACAATATACATAA
1 TAAAATATAAATAA
104792240 CATATAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
27 2 0.06
28 28 0.80
29 5 0.14
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (28 bp):
TAAAATATAAATAATATAATGAGTAATA
Found at i:104792292 original size:17 final size:17
Alignment explanation
Indices: 104792236--104792317 Score: 66
Period size: 17 Copynumber: 4.9 Consensus size: 17
104792226 TACAATATAC
* *
104792236 ATAACATATAAAAAAAT
1 ATAATATATAATAAAAT
104792253 AATAATATATAAT-AAAT
1 -ATAATATATAATAAAAT
*
104792270 GT--TATATAATAAAAT
1 ATAATATATAATAAAAT
104792285 ATAATATAT-ATAGGAAA-
1 ATAATATATAATA--AAAT
*
104792302 ATAATATATGATAAAA
1 ATAATATATAATAAAA
104792318 GATTTTAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
14 8 0.15
15 5 0.09
16 7 0.13
17 18 0.33
18 16 0.30
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (17 bp):
ATAATATATAATAAAAT
Found at i:104794781 original size:205 final size:206
Alignment explanation
Indices: 104794181--104794856 Score: 1012
Period size: 205 Copynumber: 3.3 Consensus size: 206
104794171 CAAATCTGCT
* * *
104794181 TCTTCGATTTGTTCATTGTAAGCACAAGAATGCCAAATCATCTTGGATCTTGCTTCAGTCTAATC
1 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGTCTAATC
* * * *
104794246 GTCTGAAGGTGAGATCTGCTATGTATCTGCTCCTCGTTGAAGATGGAGACGCCAAATTTCGATTT
66 GTCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAG-TGGAGATGCCAGACTTCGATTT
* * *
104794311 GTTCTCTGACAAAACAGAGATGACAAATCATCTTAGATTTGCTTCAGCGTAAACACGCGAAAGCC
130 GTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCC
104794376 AAATCAGCTATG
195 AAATCAGCTATG
* * *
104794388 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATATTTCTTCAGTCTAATC
1 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGTCTAATC
* * *
104794453 GTCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGAGATGCCAGACTTCGATTTG
66 GTCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCCAGACTTCGATTTG
104794518 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCA
104794583 AATCAGCTATG
196 AATCAGCTATG
** * *
104794594 TCTTCGATTTGTTCCTTGTAAGCACAAGGATATCAAACCATCTTGGATC-TGCTTCAGTATAAAC
1 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGTCTAATC
* * * *
104794658 ATCTGAAGGTGAGATCTGCTATGTATCTTCTCCCCGTTGAAGTGGAGATGCCTGACTTCAATTTG
66 GTCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCCAGACTTCGATTTG
* * * * *
104794723 CTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGTCT
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCA
*
104794788 AACCAGCTATG
196 AATCAGCTATG
* ** * * *
104794799 TCTTCGGTTCATTCCTTGTAAGCACAAGGATTCCAAACCATTTTGAATCTTGCTTCAG
1 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAG
104794857 CCTGATCCGC
Statistics
Matches: 427, Mismatches: 41, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
205 182 0.43
206 146 0.34
207 99 0.23
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (206 bp):
TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGTCTAATC
GTCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCCAGACTTCGATTTG
TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCA
AATCAGCTATG
Found at i:104802995 original size:14 final size:14
Alignment explanation
Indices: 104802972--104803001 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
104802962 ATTTTGGTTC
104802972 AACTTCATTTAGAA
1 AACTTCATTTAGAA
*
104802986 AACTTTATTTAGAA
1 AACTTCATTTAGAA
104803000 AA
1 AA
104803002 AGAATATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (14 bp):
AACTTCATTTAGAA
Found at i:104806579 original size:27 final size:27
Alignment explanation
Indices: 104806516--104806579 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
104806506 CATTTAATAC
104806516 ATAAAATA-TATATACAAAATATATAA
1 ATAAAATAGTATATACAAAATATATAA
* *
104806542 A-AGAATTAGTATATATAAAATATA-AA
1 ATA-AAATAGTATATACAAAATATATAA
104806568 ATAAAATGAGTA
1 ATAAAAT-AGTA
104806580 ATTGTTAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 1 0.03
26 11 0.35
27 19 0.61
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (27 bp):
ATAAAATAGTATATACAAAATATATAA
Found at i:104812078 original size:20 final size:20
Alignment explanation
Indices: 104812049--104812087 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
104812039 GATCTATACG
104812049 AATAAATTTAAA-TCAATTT
1 AATAAATTTAAACTCAATTT
104812068 AATACAATTTAAACTCAATT
1 AATA-AATTTAAACTCAATT
104812088 CAGTCCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 8 0.44
21 6 0.33
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (20 bp):
AATAAATTTAAACTCAATTT
Found at i:104812620 original size:19 final size:19
Alignment explanation
Indices: 104812591--104812628 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
104812581 TAAATGATGA
104812591 TATTTTCATCTTT-TTTAT
1 TATTTTCATCTTTATTTAT
104812609 TATTTATCATCTTTATTTAT
1 TATTT-TCATCTTTATTTAT
104812629 CATCTTTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTTTCATCTTTATTTAT
Found at i:104812642 original size:16 final size:13
Alignment explanation
Indices: 104812608--104812635 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
104812598 ATCTTTTTTA
104812608 TTATTTATCATCT
1 TTATTTATCATCT
104812621 TTATTTATCATCT
1 TTATTTATCATCT
104812634 TT
1 TT
104812636 CCAATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:104814203 original size:2 final size:2
Alignment explanation
Indices: 104814196--104814221 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
104814186 TTCAATGGAC
104814196 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
104814222 GAAATAAAAG
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:104816725 original size:26 final size:29
Alignment explanation
Indices: 104816660--104816725 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
104816650 ATGGGTGATA
104816660 AATT-TTTTAGATTTTATTTTATATATTT
1 AATTGTTTTAGATTTTATTTTATATATTT
*
104816688 AGAATGTATTTAGATTTTA-TTTAT-T-TTT
1 A-ATTGT-TTTAGATTTTATTTTATATATTT
104816716 AATTGTTTTA
1 AATTGTTTTA
104816726 CATATGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
26 4 0.12
27 4 0.12
28 5 0.15
29 3 0.09
30 6 0.18
31 11 0.33
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.64
Consensus pattern (29 bp):
AATTGTTTTAGATTTTATTTTATATATTT
Found at i:104816835 original size:21 final size:22
Alignment explanation
Indices: 104816791--104816837 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
104816781 ATTTTAGATG
104816791 TTTTTATATATTTTTTCTGAATT
1 TTTTTATATATTTTTTCT-AATT
104816814 TTTTTATAT-TTTATTTCT-ATT
1 TTTTTATATATTT-TTTCTAATT
104816835 TTT
1 TTT
104816838 AAGACTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.26
22 3 0.13
23 14 0.61
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTATATATTTTTTCTAATT
Found at i:104816861 original size:2 final size:2
Alignment explanation
Indices: 104816854--104816882 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
104816844 TTTAATGATT
104816854 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
104816883 TATCAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104818252 original size:15 final size:15
Alignment explanation
Indices: 104818232--104818261 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
104818222 AGGGAAAAAG
104818232 AAAGCCAAAATCAGC
1 AAAGCCAAAATCAGC
104818247 AAAGCCAAAATCAGC
1 AAAGCCAAAATCAGC
104818262 CATCTTCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.27, G:0.13, T:0.07
Consensus pattern (15 bp):
AAAGCCAAAATCAGC
Found at i:104820721 original size:23 final size:23
Alignment explanation
Indices: 104820690--104820747 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
104820680 CGGATAAAGG
104820690 ACACGGGCGTGTACATTGCCTCC
1 ACACGGGCGTGTACATTGCCTCC
* *
104820713 ACACAGGCGTATACATTGCCTCC
1 ACACGGGCGTGTACATTGCCTCC
104820736 ACACGGGCGTGT
1 ACACGGGCGTGT
104820748 GAGGCTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.21
Consensus pattern (23 bp):
ACACGGGCGTGTACATTGCCTCC
Found at i:104827085 original size:25 final size:27
Alignment explanation
Indices: 104827057--104827106 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
104827047 GTATCGATAT
104827057 ATGACTCTTT-A-GAGCTTCCTGATTA
1 ATGACTCTTTCATGAGCTTCCTGATTA
*
104827082 ATGACTCTTTCATGATCTTCCTGAT
1 ATGACTCTTTCATGAGCTTCCTGAT
104827107 ATTGGCTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 1 0.05
27 11 0.50
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (27 bp):
ATGACTCTTTCATGAGCTTCCTGATTA
Found at i:104827134 original size:25 final size:25
Alignment explanation
Indices: 104827099--104827166 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
104827089 TTTCATGATC
*
104827099 TTCCTGATATTGGCTCACTTGAACTT
1 TTCCT-ATATTGGCTCACTTGAACCT
* *
104827125 TTCCTATATTGGTTCTCTTGAACCT
1 TTCCTATATTGGCTCACTTGAACCT
* *
104827150 TCCCGATATTGGCTCAC
1 TTCCTATATTGGCTCAC
104827167 ATGAGCTTCC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
25 30 0.86
26 5 0.14
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.41
Consensus pattern (25 bp):
TTCCTATATTGGCTCACTTGAACCT
Found at i:104828714 original size:139 final size:139
Alignment explanation
Indices: 104828456--104828735 Score: 461
Period size: 139 Copynumber: 2.0 Consensus size: 139
104828446 GAAATGATAT
* *
104828456 AAATTGTCTGTATTTGATCAATAAATTTTTGGTAATGCTCTGTGACCCTGTTTCGGCGACGGATA
1 AAATTGTCTGTATTTGATCAATAAACTTTTGGTAATGCTCTGTAACCCTGTTTCGGCGACGGATA
** ** * *
104828521 TGGATTAGGGGTGTTACAGATAATCCATTTCCTATGCATCCTGGTAGAATGAAAATGGATCGTAA
66 TGGATTAAAGGTGTTACAGATAATCCATTTCCTATGCATCCTGCCAGAACGAAAATAGATCGTAA
104828586 CTTACGGGA
131 CTTACGGGA
104828595 AAATTGTCTGTATTTGATCAATAAACTTTTGGTAATGCTCTGTAACCCTGTTTCGGCGACGGATA
1 AAATTGTCTGTATTTGATCAATAAACTTTTGGTAATGCTCTGTAACCCTGTTTCGGCGACGGATA
* * *
104828660 TGGGTTAAAGGTGTTACAGATAATCCCTTTCCTATGCATCCTGCCAGAACGAAAATAGATCGTGA
66 TGGATTAAAGGTGTTACAGATAATCCATTTCCTATGCATCCTGCCAGAACGAAAATAGATCGTAA
104828725 CTTACGGGA
131 CTTACGGGA
104828734 AA
1 AA
104828736 TGTATTGGTG
Statistics
Matches: 130, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
139 130 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (139 bp):
AAATTGTCTGTATTTGATCAATAAACTTTTGGTAATGCTCTGTAACCCTGTTTCGGCGACGGATA
TGGATTAAAGGTGTTACAGATAATCCATTTCCTATGCATCCTGCCAGAACGAAAATAGATCGTAA
CTTACGGGA
Found at i:104831750 original size:20 final size:20
Alignment explanation
Indices: 104831735--104831776 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
104831725 AATTTTTTAT
104831735 TAAGCGTACAGTTTTTTTTC
1 TAAGCGTACAGTTTTTTTTC
* *
104831755 TCAGCGTACGGTTTTTTTTC
1 TAAGCGTACAGTTTTTTTTC
104831775 TA
1 TA
104831777 TGCACAGGTT
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:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (20 bp):
TAAGCGTACAGTTTTTTTTC
Found at i:104831751 original size:19 final size:20
Alignment explanation
Indices: 104831727--104831776 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
104831717 CATTTACAAA
104831727 TTTTTTAT-TAAGCGTACAG
1 TTTTTTATCTAAGCGTACAG
* * *
104831746 TTTTTTTTCTCAGCGTACGG
1 TTTTTTATCTAAGCGTACAG
*
104831766 TTTTTTTTCTA
1 TTTTTTATCTA
104831777 TGCACAGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.56
Consensus pattern (20 bp):
TTTTTTATCTAAGCGTACAG
Found at i:104833562 original size:40 final size:40
Alignment explanation
Indices: 104833507--104833589 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
104833497 GGATTTACAA
*
104833507 GATATGTCATATCAAATCTAATCTAATATTTATAAGATAT
1 GATATGTCATATCAAATCTAATCTAATATTTACAAGATAT
104833547 GATATGTCATATCAAATCTAATCTAATATTTACAAGATAT
1 GATATGTCATATCAAATCTAATCTAATATTTACAAGATAT
104833587 GAT
1 GAT
104833590 CCTATCAATC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (40 bp):
GATATGTCATATCAAATCTAATCTAATATTTACAAGATAT
Found at i:104833600 original size:35 final size:36
Alignment explanation
Indices: 104833499--104833597 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 36
104833489 CATTTTAGGG
104833499 ATTTACAAGATATG-TCATATCAAATCTAATCTAAT
1 ATTTACAAGATATGATCATATCAAATCTAATCTAAT
*
104833534 ATTTATAAGATATGATATGTCATATCAAATCTAATCTAAT
1 ATTTACAAGATATG--A--TCATATCAAATCTAATCTAAT
*
104833574 ATTTACAAGATATGATCCTATCAA
1 ATTTACAAGATATGATCATATCAA
104833598 TCTTCCAAGA
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
35 13 0.23
36 8 0.14
38 1 0.02
40 34 0.61
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.37
Consensus pattern (36 bp):
ATTTACAAGATATGATCATATCAAATCTAATCTAAT
Found at i:104839606 original size:22 final size:23
Alignment explanation
Indices: 104839581--104839624 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
104839571 TAATAACTTA
*
104839581 GTAGTAATATAATAG-AGAAATG
1 GTAGTAAAATAATAGCAGAAATG
104839603 GTAGTAAAATAATAGCAGAAAT
1 GTAGTAAAATAATAGCAGAAAT
104839625 AAAAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.52, C:0.02, G:0.20, T:0.25
Consensus pattern (23 bp):
GTAGTAAAATAATAGCAGAAATG
Found at i:104856375 original size:69 final size:69
Alignment explanation
Indices: 104856281--104856660 Score: 415
Period size: 69 Copynumber: 5.5 Consensus size: 69
104856271 GTTAACTGTC
* * * * * * * *
104856281 TTGGAGGTTACGACTCTTCGTCTGCGAACCTTAATATTATAGCTAGGAGATTTGCTCTTGCTAAG
1 TTGGAGGTTGCGGCTCTTCGCCTGCGAACCTTAATATTACAGCTGGGAGCTTTGCTCTCGCTAAC
104856346 TATT
66 TATT
* * * ** * *
104856350 TTGGAGGTTACGGCTCTTTGCCTGCGAACCTTAATGTTACAATTGGGAGCTTTGCTCTCACTAAT
1 TTGGAGGTTGCGGCTCTTCGCCTGCGAACCTTAATATTACAGCTGGGAGCTTTGCTCTCGCTAAC
104856415 TATT
66 TATT
* ** * ** * *
104856419 TTGAAGGTTGTAGCTCTTCGCTTGCGAACCTTAATACGATAG-TTGGAGCTTTGCTCTCGCTAAC
1 TTGGAGGTTGCGGCTCTTCGCCTGCGAACCTTAATATTACAGCTGGGAGCTTTGCTCTCGCTAAC
*
104856483 T-GT
66 TATT
* * *
104856486 TTGGAGGTTGCGGCTCTTCGCCTGCAAACCTTAATATTACAGCTGGGAGCTTTGCTCTCACTAAT
1 TTGGAGGTTGCGGCTCTTCGCCTGCGAACCTTAATATTACAGCTGGGAGCTTTGCTCTCGCTAAC
*
104856551 TGTT
66 TATT
* * * * **
104856555 TTGGAGGTTGCGGCTCTTCACCTACAAACCTTAATGTTACAATTGGGAGCTTTGCTCTCGCTAAC
1 TTGGAGGTTGCGGCTCTTCGCCTGCGAACCTTAATATTACAGCTGGGAGCTTTGCTCTCGCTAAC
104856620 TATT
66 TATT
*
104856624 TTGGAGGTTGCGGCTCCTT-GCCTACGAACCTTAATAT
1 TTGGAGGTTGCGGCT-CTTCGCCTGCGAACCTTAATAT
104856661 CACACGAACA
Statistics
Matches: 258, Mismatches: 50, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
67 35 0.14
68 40 0.16
69 180 0.70
70 3 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (69 bp):
TTGGAGGTTGCGGCTCTTCGCCTGCGAACCTTAATATTACAGCTGGGAGCTTTGCTCTCGCTAAC
TATT
Found at i:104856519 original size:136 final size:136
Alignment explanation
Indices: 104856294--104856660 Score: 450
Period size: 136 Copynumber: 2.7 Consensus size: 136
104856284 GAGGTTACGA
* * * *
104856294 CTCTTCG-TCTGCGAACCTTAATATTATAGCTAGGAGATTTGCTCTTGCTAAGTATTTTGGAGGT
1 CTCTTCGCT-TGCGAACCTTAATATTATAG-TTGGAGCTTTGCTCTCGCTAACTATTTTGGAGGT
* * *
104856358 TACGGCTCTTTGCCTGCGAACCTTAATGTTACAATTGGGAGCTTTGCTCTCACTAATTATTTTGA
64 TGCGGCTC-TTGCCTGCGAACCTTAATATTACAACTGGGAGCTTTGCTCTCACTAATTATTTTGA
*
104856423 AGGTTGTAG
128 AGGTTGCAG
** *
104856432 CTCTTCGCTTGCGAACCTTAATACGATAGTTGGAGCTTTGCTCTCGCTAACT-GTTTGGAGGTTG
1 CTCTTCGCTTGCGAACCTTAATATTATAGTTGGAGCTTTGCTCTCGCTAACTATTTTGGAGGTTG
* * * *
104856496 CGGCTCTTCGCCTGCAAACCTTAATATTACAGCTGGGAGCTTTGCTCTCACTAATTGTTTTGGAG
66 CGGCTCTT-GCCTGCGAACCTTAATATTACAACTGGGAGCTTTGCTCTCACTAATTATTTTGAAG
*
104856561 GTTGCGG
130 GTTGCAG
* * * * * * *
104856568 CTCTTCACCTACAAACCTTAATGTTACAATTGGGAGCTTTGCTCTCGCTAACTATTTTGGAGGTT
1 CTCTTCGCTTGCGAACCTTAATATTATAGTT-GGAGCTTTGCTCTCGCTAACTATTTTGGAGGTT
*
104856633 GCGGCTCCTTGCCTACGAACCTTAATAT
65 GCGGCT-CTTGCCTGCGAACCTTAATAT
104856661 CACACGAACA
Statistics
Matches: 196, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
135 2 0.01
136 93 0.47
137 40 0.20
138 57 0.29
139 4 0.02
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (136 bp):
CTCTTCGCTTGCGAACCTTAATATTATAGTTGGAGCTTTGCTCTCGCTAACTATTTTGGAGGTTG
CGGCTCTTGCCTGCGAACCTTAATATTACAACTGGGAGCTTTGCTCTCACTAATTATTTTGAAGG
TTGCAG
Found at i:104856654 original size:205 final size:206
Alignment explanation
Indices: 104856273--104856659 Score: 544
Period size: 205 Copynumber: 1.9 Consensus size: 206
104856263 TTGCTATTGT
* * *
104856273 TAACTGTCTTGGAGGTTACGACTCTTCGTCTGCGAACCTTAATATTATAGCTAGGAGATTTGCTC
1 TAACTGTCTTGGAGGTTACGACTCTTCGCCTGCAAACCTTAATATTACAGCTAGGAGATTTGCTC
** ** * *
104856338 TTGCTAAGTATTTTGGAGGTTACGGCTCTTTGCCTGCGAACCTTAATGTTACAATTGGGAGCTTT
66 TCACTAAGTATTTTGGAGGTTACGGCTCTTCACCTACAAACCTTAATGTTACAATTGGGAGCTTT
* * * *
104856403 GCTCTCACTAATTATTTTGAAGGTTGTAGCTCTTCGCTTGCGAACCTTAATACGATAGTTGGAGC
131 GCTCTCACTAACTATTTTGAAGGTTGCAGCTCTTCGCCTACGAACCTTAATACGATAGTTGGAGC
104856468 TTTGCTCTCGC
196 TTTGCTCTCGC
* * * *
104856479 TAACTGT-TTGGAGGTTGCGGCTCTTCGCCTGCAAACCTTAATATTACAGCTGGGAGCTTTGCTC
1 TAACTGTCTTGGAGGTTACGACTCTTCGCCTGCAAACCTTAATATTACAGCTAGGAGATTTGCTC
* * *
104856543 TCACTAATTGTTTTGGAGGTTGCGGCTCTTCACCTACAAACCTTAATGTTACAATTGGGAGCTTT
66 TCACTAAGTATTTTGGAGGTTACGGCTCTTCACCTACAAACCTTAATGTTACAATTGGGAGCTTT
* * *
104856608 GCTCTCGCTAACTATTTTGGAGGTTGCGGCTCCTT-GCCTACGAACCTTAATA
131 GCTCTCACTAACTATTTTGAAGGTTGCAGCT-CTTCGCCTACGAACCTTAATA
104856660 TCACACGAAC
Statistics
Matches: 157, Mismatches: 23, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
205 147 0.94
206 10 0.06
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (206 bp):
TAACTGTCTTGGAGGTTACGACTCTTCGCCTGCAAACCTTAATATTACAGCTAGGAGATTTGCTC
TCACTAAGTATTTTGGAGGTTACGGCTCTTCACCTACAAACCTTAATGTTACAATTGGGAGCTTT
GCTCTCACTAACTATTTTGAAGGTTGCAGCTCTTCGCCTACGAACCTTAATACGATAGTTGGAGC
TTTGCTCTCGC
Found at i:104860268 original size:43 final size:43
Alignment explanation
Indices: 104860167--104860271 Score: 176
Period size: 43 Copynumber: 2.4 Consensus size: 43
104860157 GGTTTAATGT
*
104860167 ATTGGCACTAAGTGTACGATACAATTATAGCTTCGACTAATTA
1 ATTGGCACTAAGTGTGCGATACAATTATAGCTTCGACTAATTA
*
104860210 ATTGGCACTAAGTGTGCGATACAATTATAGTTTC-AGCTAATTA
1 ATTGGCACTAAGTGTGCGATACAATTATAGCTTCGA-CTAATTA
104860253 ATTGGCACTAAGTGTGCGA
1 ATTGGCACTAAGTGTGCGA
104860272 GTTCGTTGAA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
42 1 0.02
43 58 0.98
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (43 bp):
ATTGGCACTAAGTGTGCGATACAATTATAGCTTCGACTAATTA
Found at i:104864787 original size:18 final size:18
Alignment explanation
Indices: 104864750--104864797 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
104864740 ACAAAAACCC
*
104864750 AAATTTATTTCCCGATTT
1 AAATTTATTTCCCAATTT
104864768 AAATTTATTT-CCAATATT
1 AAATTTATTTCCCAAT-TT
104864786 AATTATTTATTT
1 AA--ATTTATTT
104864798 ATTTACGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 4 0.15
18 14 0.54
20 8 0.31
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.54
Consensus pattern (18 bp):
AAATTTATTTCCCAATTT
Found at i:104875044 original size:21 final size:23
Alignment explanation
Indices: 104875017--104875081 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
104875007 CTGATCAGAG
104875017 TACGACACATAAAGTGCCT-AAA
1 TACGACACATAAAGTGCCTGAAA
** *
104875039 -ACGACACACGAGGTGCCTGAAA
1 TACGACACATAAAGTGCCTGAAA
*
104875061 TATGACACATAAAGTGCCTGA
1 TACGACACATAAAGTGCCTGA
104875082 TCGGTAAAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 15 0.44
22 3 0.09
23 16 0.47
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (23 bp):
TACGACACATAAAGTGCCTGAAA
Found at i:104875477 original size:15 final size:15
Alignment explanation
Indices: 104875452--104875509 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
104875442 TCATGTATAT
104875452 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
104875468 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* * *
104875483 AATAATTTCAATCAC
1 TATAAATTCAATCAA
104875498 TATAAATTCAAT
1 TATAAATTCAAT
104875510 AAATTCATCG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:104876791 original size:5 final size:5
Alignment explanation
Indices: 104876778--104876819 Score: 75
Period size: 5 Copynumber: 8.2 Consensus size: 5
104876768 TTCTTTAGTT
104876778 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
104876820 TAAAACATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 32 0.89
6 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:104876866 original size:15 final size:14
Alignment explanation
Indices: 104876779--104876869 Score: 65
Period size: 15 Copynumber: 6.0 Consensus size: 14
104876769 TCTTTAGTTT
*
104876779 ATATATATAATATA
1 ATATAAATAATATA
104876793 ATATAATATAATATA
1 ATATAA-ATAATATA
*
104876808 ATATAATATAATTAAA
1 ATATAA-ATAA-TATA
* * *
104876824 ACATAAAATATCTTTA
1 ATAT-AAATA-ATATA
*
104876840 TTATATAATAATATA
1 ATATA-AATAATATA
104876855 ATAATAAATAATATA
1 AT-ATAAATAATATA
104876870 CTAAACATAA
Statistics
Matches: 60, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
14 5 0.08
15 33 0.55
16 20 0.33
17 2 0.03
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATAAATAATATA
Found at i:104877043 original size:19 final size:19
Alignment explanation
Indices: 104877021--104877070 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
104877011 CTTAATTAAT
104877021 CTTAATTAAATTAAATTCA
1 CTTAATTAAATTAAATTCA
104877040 CTTAATTAAATTAAATTCA
1 CTTAATTAAATTAAATTCA
*
104877059 CTTAATTTAATT
1 CTTAATTAAATT
104877071 TGTAAATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (19 bp):
CTTAATTAAATTAAATTCA
Found at i:104878514 original size:25 final size:25
Alignment explanation
Indices: 104878469--104878517 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
104878459 CCTTATAAAT
**
104878469 TTTAAATTAGGAACTCTATTAGGAC
1 TTTAAATTAGGAACTAGATTAGGAC
*
104878494 TTTAAATTAGGAATTAGATTAGGA
1 TTTAAATTAGGAACTAGATTAGGA
104878518 TTTTCCTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
TTTAAATTAGGAACTAGATTAGGAC
Found at i:104883349 original size:7 final size:7
Alignment explanation
Indices: 104883337--104883364 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
104883327 TATCCTATTT
104883337 CCCTAAA
1 CCCTAAA
104883344 CCCTAAA
1 CCCTAAA
104883351 CCCTAAA
1 CCCTAAA
104883358 CCCTAAA
1 CCCTAAA
104883365 AAGCCAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (7 bp):
CCCTAAA
Found at i:104884520 original size:24 final size:22
Alignment explanation
Indices: 104884492--104884544 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
104884482 TGCGCTTAAT
104884492 TTAAAAATATTAATAACAATAAAA
1 TTAAAAATATT-ATAA-AATAAAA
*
104884516 TT--AAATATTATAATATAAAA
1 TTAAAAATATTATAAAATAAAA
*
104884536 TAAAAAATA
1 TTAAAAATA
104884545 AGACGCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 7 0.28
21 4 0.16
22 12 0.48
24 2 0.08
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
TTAAAAATATTATAAAATAAAA
Found at i:104885557 original size:2 final size:2
Alignment explanation
Indices: 104885550--104885576 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
104885540 TCATATTACG
104885550 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
104885577 TCTCTAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104886033 original size:15 final size:15
Alignment explanation
Indices: 104886014--104886070 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 15
104886004 ACCGCCGGAG
*
104886014 AAGAAGGAGGAGCCG
1 AAGAAGGAGGAGCCC
* *
104886029 AAGAAGGAAGAACCC
1 AAGAAGGAGGAGCCC
*
104886044 AAGAAAGAGGAGCCC
1 AAGAAGGAGGAGCCC
104886059 AAGAAGGAGGAG
1 AAGAAGGAGGAG
104886071 GAGCCGAAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.47, C:0.14, G:0.39, T:0.00
Consensus pattern (15 bp):
AAGAAGGAGGAGCCC
Found at i:104886033 original size:18 final size:18
Alignment explanation
Indices: 104886007--104886086 Score: 57
Period size: 18 Copynumber: 4.7 Consensus size: 18
104885997 CAGCAAAACC
*
104886007 GCCGGAGAAGAAGGAGGA
1 GCCGAAGAAGAAGGAGGA
104886025 GCCGAAGAAGGAA-GA--A
1 GCCGAAGAA-GAAGGAGGA
*
104886041 -CCCAAG-A-AA-GAGGA
1 GCCGAAGAAGAAGGAGGA
* *
104886055 GCCCAAGAAGGAGGAGGA
1 GCCGAAGAAGAAGGAGGA
104886073 GCCGAAGAAAGAAG
1 GCCGAAG-AAGAAG
104886087 AACCCAAGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
12 4 0.08
14 2 0.04
15 11 0.22
16 2 0.04
17 1 0.02
18 21 0.43
19 8 0.16
ACGTcount: A:0.45, C:0.15, G:0.40, T:0.00
Consensus pattern (18 bp):
GCCGAAGAAGAAGGAGGA
Found at i:104886081 original size:33 final size:33
Alignment explanation
Indices: 104886013--104886171 Score: 153
Period size: 33 Copynumber: 4.8 Consensus size: 33
104886003 AACCGCCGGA
* *
104886013 GAAGAAGGAGGAGCCGAAGAAGGAAGA--A-CC
1 GAAGAAAGAGGAGCCCAAGAAGGAAGAGGAGCC
* *
104886043 CAAGAAAGAGGAGCCCAAGAAGGAGGAGGAGCC
1 GAAGAAAGAGGAGCCCAAGAAGGAAGAGGAGCC
* *
104886076 GAAGAAAGAAGAACCCAAGAAGGAAGAGGAGCC
1 GAAGAAAGAGGAGCCCAAGAAGGAAGAGGAGCC
* * * *
104886109 AAAGAAAGAAGAACCCAAGAAGGAAGAGGAACCC
1 GAAGAAAGAGGAGCCCAAGAAGGAAGAGG-AGCC
* * *
104886143 AAGAAGGAAGAGGAGCCAAAGAAAGAAGA
1 --GAAGAAAGAGGAGCCCAAGAAGGAAGA
104886172 AGAGAAACAA
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
30 23 0.21
32 1 0.01
33 59 0.55
34 3 0.03
36 21 0.20
ACGTcount: A:0.51, C:0.14, G:0.35, T:0.00
Consensus pattern (33 bp):
GAAGAAAGAGGAGCCCAAGAAGGAAGAGGAGCC
Found at i:104886097 original size:18 final size:18
Alignment explanation
Indices: 104886076--104886174 Score: 96
Period size: 18 Copynumber: 5.7 Consensus size: 18
104886066 AGGAGGAGCC
*
104886076 GAAGAAAGAAGAACCCAA
1 GAAGGAAGAAGAACCCAA
* *
104886094 GAAGGAAG-AGGAGCC-A
1 GAAGGAAGAAGAACCCAA
*
104886110 -AAGAAAGAAGAACCCAA
1 GAAGGAAGAAGAACCCAA
*
104886127 GAAGGAAGAGGAACCCAA
1 GAAGGAAGAAGAACCCAA
* * *
104886145 GAAGGAAGAGGAGCCAAA
1 GAAGGAAGAAGAACCCAA
*
104886163 GAAAGAAGAAGA
1 GAAGGAAGAAGA
104886175 GAAACAACCA
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
15 6 0.09
16 6 0.09
17 6 0.09
18 48 0.73
ACGTcount: A:0.56, C:0.13, G:0.31, T:0.00
Consensus pattern (18 bp):
GAAGGAAGAAGAACCCAA
Found at i:104886108 original size:51 final size:50
Alignment explanation
Indices: 104886012--104886165 Score: 181
Period size: 51 Copynumber: 3.1 Consensus size: 50
104886002 AAACCGCCGG
* *
104886012 AGAAGAAGGAGGAGCCGAAGAAGGAAGAACCCAAG-A--AAGAGGAGCCCA
1 AGAAG-AGGAGGAGCCGAAGAAAGAAGAACCCAAGAAGGAAGAGGAGCCAA
104886060 AGAAGGAGGAGGAGCCGAAGAAAGAAGAACCCAAGAAGGAAGAGGAGCCAA
1 AGAA-GAGGAGGAGCCGAAGAAAGAAGAACCCAAGAAGGAAGAGGAGCCAA
* * * * *
104886111 AGAA-AGAAGAACCCAAGAAGGAAGAGGAACCCAAGAAGGAAGAGGAGCCAA
1 AGAAGAGGAGGAGCC--GAAGAAAGAAGAACCCAAGAAGGAAGAGGAGCCAA
104886162 AGAA
1 AGAA
104886166 AGAAGAAGAG
Statistics
Matches: 93, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
48 32 0.34
49 9 0.10
51 52 0.56
ACGTcount: A:0.51, C:0.15, G:0.34, T:0.00
Consensus pattern (50 bp):
AGAAGAGGAGGAGCCGAAGAAAGAAGAACCCAAGAAGGAAGAGGAGCCAA
Found at i:104890649 original size:134 final size:135
Alignment explanation
Indices: 104890493--104890763 Score: 526
Period size: 134 Copynumber: 2.0 Consensus size: 135
104890483 ATGTAAATTG
*
104890493 TAGCATGTTCATACATTGTGTTATAATGTTACTTTTGTGACAATTTTATTTGTTTGAATAATTAT
1 TAGCATGTTCATACATTGTGTTATAATGCTACTTTTGTGACAATTTTATTTGTTTGAATAATTAT
104890558 ATCTGTAATATATTTATATAAATAGGGTAAACTATTTAATTGATCATTCAAAT-AAAAAATTAAT
66 ATCTGTAATATATTTATATAAATAGGGTAAACTATTTAATTGATCATTCAAATAAAAAAATTAAT
104890622 TCGGC
131 TCGGC
104890627 TAGCATGTTCATACATTGTGTTATAATGCTACTTTTGTGACAATTTTATTTGTTTGAATAATTAT
1 TAGCATGTTCATACATTGTGTTATAATGCTACTTTTGTGACAATTTTATTTGTTTGAATAATTAT
104890692 ATCTGTAATATATTTATATAAATAGGGTAAACTATTTAATTGATCATTCAAATAAAAAAATTAAT
66 ATCTGTAATATATTTATATAAATAGGGTAAACTATTTAATTGATCATTCAAATAAAAAAATTAAT
104890757 TCGGC
131 TCGGC
104890762 TA
1 TA
104890764 CTGGCGTTAT
Statistics
Matches: 135, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
134 117 0.87
135 18 0.13
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (135 bp):
TAGCATGTTCATACATTGTGTTATAATGCTACTTTTGTGACAATTTTATTTGTTTGAATAATTAT
ATCTGTAATATATTTATATAAATAGGGTAAACTATTTAATTGATCATTCAAATAAAAAAATTAAT
TCGGC
Found at i:104891396 original size:17 final size:17
Alignment explanation
Indices: 104891374--104891430 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
104891364 TGTCATCCAA
104891374 CTCGCCACATTCGCTAG
1 CTCGCCACATTCGCTAG
* *
104891391 CTCGCCACTCCACTC-CCAG
1 CTCGCCA---CATTCGCTAG
*
104891410 CTCGCCACCTTCGCTAG
1 CTCGCCACATTCGCTAG
104891427 CTCG
1 CTCG
104891431 TCATTCCGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
16 3 0.10
17 14 0.45
19 10 0.32
20 4 0.13
ACGTcount: A:0.14, C:0.49, G:0.16, T:0.21
Consensus pattern (17 bp):
CTCGCCACATTCGCTAG
Found at i:104891464 original size:36 final size:36
Alignment explanation
Indices: 104891374--104891476 Score: 125
Period size: 36 Copynumber: 2.9 Consensus size: 36
104891364 TGTCATCCAA
* *
104891374 CTCGCCACATTCGCTAGCTCGCCACTCCACTCCCAG
1 CTCGCCACATTCGCTAGCTCGCCATTCCGCTCCCAG
* * *
104891410 CTCGCCACCTTCGCTAGCTCGTCATTCCGCTTCCAG
1 CTCGCCACATTCGCTAGCTCGCCATTCCGCTCCCAG
* ** *
104891446 CTTGCCACATTCATTAGCTCACCATTCCGCT
1 CTCGCCACATTCGCTAGCTCGCCATTCCGCT
104891477 AGCTCACAAT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.16, C:0.45, G:0.14, T:0.26
Consensus pattern (36 bp):
CTCGCCACATTCGCTAGCTCGCCATTCCGCTCCCAG
Found at i:104892507 original size:25 final size:25
Alignment explanation
Indices: 104892478--104892528 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
104892468 AGCTTGATAC
*
104892478 TTGTCTAAACGTCAAACAGCAACAT
1 TTGTCTAAACGTCAAACAACAACAT
104892503 TTGTCTAAACGTCAAACAACAACAT
1 TTGTCTAAACGTCAAACAACAACAT
104892528 T
1 T
104892529 GTTAGTATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (25 bp):
TTGTCTAAACGTCAAACAACAACAT
Found at i:104893076 original size:24 final size:24
Alignment explanation
Indices: 104893047--104893095 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
104893037 ACATGATGCC
104893047 ATAGTATCTTTCAACTATGGTCTT
1 ATAGTATCTTTCAACTATGGTCTT
104893071 ATAGTATCTTTCAACTATGGTCTT
1 ATAGTATCTTTCAACTATGGTCTT
104893095 A
1 A
104893096 CTCGTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (24 bp):
ATAGTATCTTTCAACTATGGTCTT
Found at i:104893141 original size:46 final size:46
Alignment explanation
Indices: 104893074--104893243 Score: 227
Period size: 46 Copynumber: 3.7 Consensus size: 46
104893064 TGGTCTTATA
* * *
104893074 GTATCTTTCAACTATGGTCTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATGTCACGTTGCCATG
* *
104893120 GTATCTTTCAACCATGGTCTTATTCATTTCATGTCACATTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATG
* * * *
104893166 GCATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATG
104893212 GTATCTTTCAACCATGGTCTTACAT-ATTTCAT
1 GTATCTTTCAACCATGGTCTTAC-TCATTTCAT
104893244 TTCAAAGAGC
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
45 4 0.04
46 105 0.96
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATG
Done.