Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 120 of 356
Found at i:38245085 original size:37 final size:37
Alignment explanation
Indices: 38245027--38245171 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
38245017 GCTCAGATGA
* *
38245027 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACA-
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
38245063 AAGTCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AA-TCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
38245101 AATCTCCACACGTAGTCATCGAGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
38245138 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
38245172 ATATATTTCC
Statistics
Matches: 103, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
36 2 0.02
37 99 0.96
38 2 0.02
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:38245373 original size:48 final size:48
Alignment explanation
Indices: 38245312--38246143 Score: 1349
Period size: 48 Copynumber: 17.0 Consensus size: 48
38245302 ATATACACAC
* *
38245312 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
38245360 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
38245408 ATCTCATATATATATTTCACATTAACCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
38245458 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
38245506 ATCTCATATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC----ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
38245558 ATCTCATACATATTTCACATTAGCTATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
38245606 ATCTCATATATATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
38245656 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
38245704 ATCTCATATATATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
38245754 ATCTCATAAATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
38245802 ATCTCATACATAATTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
38245850 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
38245900 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
38245948 ATCTCATACATAATTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
38245996 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
38246044 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
38246094 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
38246142 AT
1 AT
38246144 ATTTATCTTG
Statistics
Matches: 737, Mismatches: 33, Indels: 28
0.92 0.04 0.04
Matches are distributed among these distances:
48 462 0.63
50 228 0.31
52 47 0.06
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:38245471 original size:98 final size:98
Alignment explanation
Indices: 38245321--38246143 Score: 1365
Period size: 98 Copynumber: 8.4 Consensus size: 98
38245311 CATCTCCTAC
* * *
38245321 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
38245386 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
*
38245419 ATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
38245484 TTCGGCTTTACCACATATACATATCTCATATATAT
66 TTCGGCTTTACCACATATACATATCTC--ATATAT
*
38245519 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCTA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
38245584 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
*
38245617 ATATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
38245682 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
* *
38245715 ATATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATAAATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
38245780 TTCGGCTTTACCACATATACATATCTCATACAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
*
38245813 A-A-TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGC
*
38245876 CATTCGGCTTTACCACATATACATATCTC--ATAC
64 CATTCGGCTTTACCACATATACATATCTCATATAT
* *
38245909 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAATTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
38245974 TTCGACTTTACCACATATACATATCTC--ATAC
66 TTCGGCTTTACCACATATACATATCTCATATAT
* * *
38246005 ATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATATATATATTTCACATTAGC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGC
*
38246070 CATTCGGCTTTACCACATATACATATCTC--ATAC
64 CATTCGGCTTTACCACATATACATATCTCATATAT
38246103 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
38246144 ATTTATCTTG
Statistics
Matches: 693, Mismatches: 24, Indels: 16
0.95 0.03 0.02
Matches are distributed among these distances:
96 134 0.19
97 2 0.00
98 461 0.67
100 96 0.14
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (98 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATATAT
Found at i:38245473 original size:146 final size:146
Alignment explanation
Indices: 38245312--38246143 Score: 1384
Period size: 146 Copynumber: 5.7 Consensus size: 146
38245302 ATATACACAC
* * *
38245312 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
38245377 CACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAACCATTCGGC
66 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGC
38245442 TTTACCACATATACAT
131 TTTACCACATATACAT
*
38245458 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATAT
* *
38245523 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGCTATT
62 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATT
38245586 CGGCTTTACCACATATACAT
127 CGGCTTTACCACATATACAT
* *
38245606 ATCTCATATATATATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATACATATTT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
*
38245671 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTTG
64 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCG
38245736 GCTTTACCACATATACAT
129 GCTTTACCACATATACAT
* *
38245754 ATCTCATAAATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAATTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
38245819 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGC
66 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGC
38245884 TTTACCACATATACAT
131 TTTACCACATATACAT
* *
38245900 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAATTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * * *
38245965 CATTAGCCATTCGACTTTACCACATATACATATCTC--ATACATATTTCACACTAGCCATTCGAC
66 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGC
38246028 TTTACCACATATACAT
131 TTTACCACATATACAT
*
38246044 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
38246109 CACATTAGCCATTCGGCTTTACCACATATACATAT
64 CACATTAGCCATTCGGCTTTACCACATATACATAT
38246144 ATTTATCTTG
Statistics
Matches: 650, Mismatches: 26, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
144 45 0.07
146 422 0.65
148 90 0.14
150 93 0.14
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (146 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGC
TTTACCACATATACAT
Found at i:38254384 original size:33 final size:34
Alignment explanation
Indices: 38254307--38254386 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 34
38254297 TATGGGCCAT
*
38254307 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
38254341 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
38254374 ACTGTTATCTGAA
1 ACTGTTATCTGAA
38254387 CTGGTTTAGG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:38256085 original size:25 final size:25
Alignment explanation
Indices: 38256027--38256092 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
38256017 GTCTCTCGAG
** *
38256027 CCATATAACGGGAAGCTCATGTGAG
1 CCATATAACGGGAAGCTCATCCGAA
* *
38256052 CCATGTAACGGGAAGCTTATCCGAA
1 CCATATAACGGGAAGCTCATCCGAA
*
38256077 CTATATAACGGGAAGC
1 CCATATAACGGGAAGC
38256093 ACATAAGAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (25 bp):
CCATATAACGGGAAGCTCATCCGAA
Found at i:38256255 original size:26 final size:25
Alignment explanation
Indices: 38256204--38256266 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
38256194 AGCAAGCCAT
* * *
38256204 ATCAGGTAGCTCTAAAGGGGCATTA
1 ATCAGGAAGCTCTAAAGAGCCATTA
*
38256229 ATCAGGAAGCTCTCAAAGAGCCTTTA
1 ATCAGGAAGCTCT-AAAGAGCCATTA
38256255 ATC-GGAAAGCTC
1 ATCAGG-AAGCTC
38256267 ATGTAGAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 14 0.44
26 18 0.56
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (25 bp):
ATCAGGAAGCTCTAAAGAGCCATTA
Found at i:38269554 original size:46 final size:46
Alignment explanation
Indices: 38269489--38269663 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 46
38269479 TGTAACCCGC
* * *
38269489 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCCCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCCCAT
* * *
38269535 CCATAAGTGAACTCGGACTCAACTCAACGTGCTC-GG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCCCA--T
* *** * * * *
38269581 ACATCTCTCGAACTCGGACTCAACTCAACTAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCATTCCCAT
*
38269628 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
38269664 ATGCCCAAAC
Statistics
Matches: 102, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
44 4 0.04
45 2 0.02
46 63 0.62
47 28 0.27
48 1 0.01
49 4 0.04
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCCCAT
Found at i:38269656 original size:93 final size:93
Alignment explanation
Indices: 38269497--38269668 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
38269487 GCCCATAAGT
* *
38269497 GAACTCAGACTCAACTCAATGAGCTCGGGCGTTCCCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAATGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCAA
*
38269562 CGTGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
38269590 GAACTCGGACTCAACTCAACT-AGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAA-TGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCA
*
38269654 ACGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
38269669 CAAACATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAATGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:38269683 original size:46 final size:46
Alignment explanation
Indices: 38269540--38269683 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 46
38269530 CCCATCCATA
* * *
38269540 AGTGAACTCGGACTCAACTCAACGTGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * * *
38269589 --CGAACTCGGACTCAACTCAACTAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
*
38269633 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
38269679 AGTGA
1 AGTGA
38269684 CATGTCACTT
Statistics
Matches: 73, Mismatches: 16, Indels: 15
0.70 0.15 0.14
Matches are distributed among these distances:
44 8 0.11
46 32 0.44
47 29 0.40
49 4 0.05
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:38274641 original size:15 final size:15
Alignment explanation
Indices: 38274621--38274651 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38274611 ACATCTACCA
*
38274621 AAATAGATGAATTAC
1 AAATAGACGAATTAC
38274636 AAATAGACGAATTAC
1 AAATAGACGAATTAC
38274651 A
1 A
38274652 TACAACATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.10, G:0.13, T:0.23
Consensus pattern (15 bp):
AAATAGACGAATTAC
Found at i:38278627 original size:58 final size:59
Alignment explanation
Indices: 38278493--38278649 Score: 244
Period size: 58 Copynumber: 2.7 Consensus size: 59
38278483 GAATGAAGAG
*
38278493 GAACAAGAAATATTCTCTGGCATAAACAGTAAATATTCCCTACAAAAAAAAAGACGAGT
1 GAACAGGAAATATTCTCTGGCATAAACAGTAAATATTCCCTACAAAAAAAAAGACGAGT
* ** *
38278552 GAACAGGAAATATTCTCTGGCATAAACAATAAATATTCCCT-GTAAAAAAAAGATGAGT
1 GAACAGGAAATATTCTCTGGCATAAACAGTAAATATTCCCTACAAAAAAAAAGACGAGT
**
38278610 GAACAGGAAATATTCTCTGGTGTAAACAGTAAATATTCCC
1 GAACAGGAAATATTCTCTGGCATAAACAGTAAATATTCCC
38278650 CGGCAAGAAT
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
58 51 0.57
59 39 0.43
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (59 bp):
GAACAGGAAATATTCTCTGGCATAAACAGTAAATATTCCCTACAAAAAAAAAGACGAGT
Found at i:38281343 original size:18 final size:18
Alignment explanation
Indices: 38281311--38281358 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
38281301 CTTAAATTTT
*
38281311 AAATTTTGA-AAACTTAA
1 AAATTTGGAGAAACTTAA
38281328 AAATTTGGAGAAACTTAA
1 AAATTTGGAGAAACTTAA
*
38281346 AAATTTGAAGAAA
1 AAATTTGGAGAAA
38281359 TGAGTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.29
Consensus pattern (18 bp):
AAATTTGGAGAAACTTAA
Found at i:38293475 original size:28 final size:28
Alignment explanation
Indices: 38293412--38293509 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
38293402 NNNNNNNGTC
*
38293412 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
38293439 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
38293467 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
38293496 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38293510 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:38295716 original size:21 final size:21
Alignment explanation
Indices: 38295690--38295792 Score: 152
Period size: 21 Copynumber: 4.9 Consensus size: 21
38295680 ATACGCCAAT
* *
38295690 AGAAGCTTGTAAGAGCTAAAC
1 AGAAGCTCGTAAGAGCTGAAC
38295711 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
38295732 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
*
38295753 AGAAGCTTGTAAGAGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
* **
38295774 AAAAGCTCACAAGAGCTGA
1 AGAAGCTCGTAAGAGCTGA
38295793 TCCACCCAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 75 1.00
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.16
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTGAAC
Found at i:38298791 original size:41 final size:41
Alignment explanation
Indices: 38298666--38298851 Score: 243
Period size: 41 Copynumber: 4.6 Consensus size: 41
38298656 CTCACACAAG
* * * * * *
38298666 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* * *
38298706 GCCTTTGGGACTTAGCCTGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
38298746 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
38298787 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
38298828 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
38298852 CATTCGAGTA
Statistics
Matches: 129, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
39 3 0.02
40 55 0.43
41 68 0.53
42 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:38298801 original size:81 final size:82
Alignment explanation
Indices: 38298666--38298849 Score: 239
Period size: 81 Copynumber: 2.3 Consensus size: 82
38298656 CTCACACAAG
* * * * * * * * *
38298666 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAATGCCTTTGGGACTTAGCCTGGATAT
1 GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
*
38298730 AGTCGC-TAGCACAAAT
66 AGTCGCTTAGCACAAAA
*
38298746 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
1 GCCTTCGGGA-CTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
38298810 TAGTCGCTTAGCACAAAA
65 TAGTCGCTTAGCACAAAA
38298828 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
38298850 ATCATTCGAG
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 2 0.02
80 21 0.24
81 36 0.41
82 26 0.30
83 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (82 bp):
GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
AGTCGCTTAGCACAAAA
Found at i:38304942 original size:20 final size:19
Alignment explanation
Indices: 38304906--38304945 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
38304896 CTCTTACTCT
**
38304906 TATTTATTTATTTATTTTC
1 TATTTATTTATGCATTTTC
38304925 TATTTATTTTATGCATTTTC
1 TATTTA-TTTATGCATTTTC
38304945 T
1 T
38304946 CTATTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (19 bp):
TATTTATTTATGCATTTTC
Found at i:38305061 original size:11 final size:11
Alignment explanation
Indices: 38305047--38305076 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
38305037 TATATATTAA
38305047 TATAAATATTT
1 TATAAATATTT
38305058 TATAAATATTT
1 TATAAATATTT
*
38305069 TATTAATA
1 TATAAATA
38305077 AATGAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TATAAATATTT
Found at i:38309686 original size:12 final size:12
Alignment explanation
Indices: 38309669--38309694 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38309659 GATTAAAGAG
38309669 AGTAGTCCAGTA
1 AGTAGTCCAGTA
38309681 AGTAGTCCAGTA
1 AGTAGTCCAGTA
38309693 AG
1 AG
38309695 CCATGTAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (12 bp):
AGTAGTCCAGTA
Found at i:38313883 original size:17 final size:17
Alignment explanation
Indices: 38313847--38313895 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
38313837 ATGATTATAT
* *
38313847 AAAAAATTTTAATAAATA
1 AAAAAATATTAAT-ATTA
38313865 AAAAAATATTAATATTA
1 AAAAAATATTAATATTA
*
38313882 AAATAATA-TAATAT
1 AAAAAATATTAATAT
38313896 AAATATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 6 0.21
17 10 0.36
18 12 0.43
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAAATATTAATATTA
Found at i:38313886 original size:22 final size:22
Alignment explanation
Indices: 38313860--38313902 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
38313850 AAATTTTAAT
*
38313860 AAATAAAAAAATATTAATATTA
1 AAATAAAAAAATATAAATATTA
* *
38313882 AAATAATATAATATAAATATT
1 AAATAAAAAAATATAAATATT
38313903 TTTAAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAAAAAAATATAAATATTA
Found at i:38315094 original size:33 final size:32
Alignment explanation
Indices: 38315002--38315098 Score: 97
Period size: 33 Copynumber: 2.9 Consensus size: 32
38314992 GAACAGAGCC
*
38315002 CGTGTTTAATGTCCCGATGGACTTTAC-TTGTTT
1 CGTGTTTACTGT-CCGATGGA-TTTACTTTGTTT
* * * * *
38315035 TGTGTTTACTATCCCAGTAGACTTACTTTGTTT
1 CGTGTTTACTGTCCGA-TGGATTTACTTTGTTT
38315068 CGTGTTTACTGTCCTGATGGATTTACTTTGT
1 CGTGTTTACTGTCC-GATGGATTTACTTTGT
38315099 AGATGCCATG
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
32 7 0.14
33 42 0.84
34 1 0.02
ACGTcount: A:0.15, C:0.18, G:0.20, T:0.47
Consensus pattern (32 bp):
CGTGTTTACTGTCCGATGGATTTACTTTGTTT
Found at i:38318276 original size:36 final size:36
Alignment explanation
Indices: 38318236--38318307 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
38318226 ATGTAATTGC
*
38318236 TAATTCAATTGAATGAAAGTTTATGGATGTATATGT
1 TAATTCAATTGAATGAAAGTTTATGGAAGTATATGT
*
38318272 TAATTCAATTGAATGGAAGTTTATGGAAGTATATGT
1 TAATTCAATTGAATGAAAGTTTATGGAAGTATATGT
38318308 ATTTATATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.40
Consensus pattern (36 bp):
TAATTCAATTGAATGAAAGTTTATGGAAGTATATGT
Found at i:38318485 original size:70 final size:70
Alignment explanation
Indices: 38318367--38318513 Score: 213
Period size: 70 Copynumber: 2.1 Consensus size: 70
38318357 GTGGATGAGT
* * * *
38318367 AACTATCGTCGATTATGCGACTAGTGCTGGGCGCAATAATTTGCCAACTTGTTCGACTAGTGCTG
1 AACTATCATCGATTATCCGACTAGCGCTGGGCGCAATAATTTGCCAACTCGTTCGACTAGTGCTG
38318432 GGCAC
66 GGCAC
* * * *
38318437 AACTATCATCGGTTATCCGGCTAGCGCTTGGCGCAATAATTTGTCAACTCGTTCGACTAGTGCTG
1 AACTATCATCGATTATCCGACTAGCGCTGGGCGCAATAATTTGCCAACTCGTTCGACTAGTGCTG
38318502 GGCAC
66 GGCAC
*
38318507 AATTATC
1 AACTATC
38318514 GTTAAACGAC
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (70 bp):
AACTATCATCGATTATCCGACTAGCGCTGGGCGCAATAATTTGCCAACTCGTTCGACTAGTGCTG
GGCAC
Found at i:38335296 original size:48 final size:48
Alignment explanation
Indices: 38335241--38335467 Score: 234
Period size: 48 Copynumber: 4.8 Consensus size: 48
38335231 CACATGGTAG
* * * * * *
38335241 ATGCCAATGTCATATCCCAGATATGGTCTCACATGAGATCACATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCA
* *
38335289 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCATAGATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCA
38335337 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCA
* * * ** * * **
38335385 ATGCCGAT---A-G-CCCAGTTACA--GTCTTATACGAAATTATATATTG
1 ATGCCAATGCCATGTCCCAG--ACATGGTCTTACATGGGATCACATATCA
38335428 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
38335468 GCACATAATC
Statistics
Matches: 145, Mismatches: 25, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
43 27 0.19
44 1 0.01
45 4 0.03
46 4 0.03
47 1 0.01
48 108 0.74
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCA
Found at i:38341666 original size:15 final size:17
Alignment explanation
Indices: 38341636--38341668 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
38341626 GAAAACATCT
38341636 CAAAAGCATAAAGAAAA
1 CAAAAGCATAAAGAAAA
38341653 CAAAA-CAT-AAGAAAA
1 CAAAAGCATAAAGAAAA
38341668 C
1 C
38341669 CCAAAACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.70, C:0.15, G:0.09, T:0.06
Consensus pattern (17 bp):
CAAAAGCATAAAGAAAA
Found at i:38361880 original size:18 final size:18
Alignment explanation
Indices: 38361853--38361888 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
38361843 AAGGTGGTTA
38361853 GAGCTAATAAAGGACTAT
1 GAGCTAATAAAGGACTAT
* *
38361871 GAGCTGATAAATGACTAT
1 GAGCTAATAAAGGACTAT
38361889 CACCCGGGAA
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:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (18 bp):
GAGCTAATAAAGGACTAT
Found at i:38365864 original size:13 final size:13
Alignment explanation
Indices: 38365819--38365864 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
38365809 TTTAGTATTA
38365819 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
38365832 CTCTTAAAAAGTG
1 CTTTTGAAAAGTG
* *
38365845 ATATTGAAAAGTG
1 CTTTTGAAAAGTG
38365858 CTTTTGA
1 CTTTTGA
38365865 GAATTATTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:38373432 original size:6 final size:6
Alignment explanation
Indices: 38373423--38373486 Score: 67
Period size: 6 Copynumber: 10.5 Consensus size: 6
38373413 AATTAGGTGA
* * *
38373423 CAGAAT CAGAAT CAGAAT CAGAAT TAGTAT CAGGTAA- CAGAAT CAAAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT
*
38373472 CAGAAT CAGTAT CAG
1 CAGAAT CAGAAT CAG
38373487 GTAACAGAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
5 2 0.04
6 42 0.88
7 3 0.06
8 1 0.02
ACGTcount: A:0.47, C:0.16, G:0.17, T:0.20
Consensus pattern (6 bp):
CAGAAT
Found at i:38373446 original size:37 final size:37
Alignment explanation
Indices: 38373396--38373486 Score: 112
Period size: 37 Copynumber: 2.5 Consensus size: 37
38373386 AAGAAACATT
* * *
38373396 ATCAGAA-CTAGAATCAGAATTAGGTGACAGAATCAGA
1 ATCAGAATC-AGAATCAGAATCAGGTAACAGAATCAAA
* *
38373433 ATCAGAATCAGAATTAGTATCAGGTAACAGAATCAAA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGAATCAAA
*
38373470 ATCAGAATCAGTATCAG
1 ATCAGAATCAGAATCAG
38373487 GTAACAGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
37 45 0.98
38 1 0.02
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (37 bp):
ATCAGAATCAGAATCAGAATCAGGTAACAGAATCAAA
Found at i:38373464 original size:31 final size:31
Alignment explanation
Indices: 38373405--38373496 Score: 118
Period size: 31 Copynumber: 3.0 Consensus size: 31
38373395 TATCAGAACT
38373405 AGAATCAGAATTAGGTGA-CA-G-AATCAGAATC
1 AGAATCAGAATTA-GT-ATCAGGTAA-CAGAATC
38373436 AGAATCAGAATTAGTATCAGGTAACAGAATC
1 AGAATCAGAATTAGTATCAGGTAACAGAATC
* *
38373467 AAAATCAGAATCAGTATCAGGTAACAGAAT
1 AGAATCAGAATTAGTATCAGGTAACAGAAT
38373497 TAAAAATCAG
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
29 1 0.02
30 4 0.07
31 49 0.88
32 2 0.04
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATTAGTATCAGGTAACAGAATC
Found at i:38373694 original size:27 final size:26
Alignment explanation
Indices: 38373646--38373747 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
38373636 GCTCAGTTAT
* *
38373646 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGA-A
*
38373673 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAAAGCCACCAGAA
* *
38373699 CAGATATTTGTGGCATAGCCAGCAGAAA
1 CAGATA-TTGTGGCAAAGCCACCAG-AA
*
38373727 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
38373748 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 50 0.77
28 8 0.12
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAAAGCCACCAGAA
Found at i:38373940 original size:22 final size:21
Alignment explanation
Indices: 38373906--38373970 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
38373896 GCAAATACGT
*
38373906 TTGGCACACAGCCATAATCAGG
1 TTGGCA-AAAGCCATAATCAGG
*
38373928 TTGGCAAAGAGCCAT-ATGTAGG
1 TTGGCAAA-AGCCATAAT-CAGG
*
38373950 TTGACACAAAGCCATAATCAG
1 TTGGCA-AAAGCCATAATCAG
38373971 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
21 3 0.09
22 28 0.80
23 4 0.11
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (21 bp):
TTGGCAAAAGCCATAATCAGG
Found at i:38374391 original size:27 final size:27
Alignment explanation
Indices: 38374352--38374825 Score: 517
Period size: 27 Copynumber: 17.6 Consensus size: 27
38374342 TACCCCATAA
* * *
38374352 GGTATCTCGGTAATTCCACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* *
38374379 GGTATTTTAGTAATTCTACCCTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* *
38374406 GGTATTTCGGTAATTCTACCCTACTGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* *
38374433 GGTATTGC-GATAATTCTACCCTACAAG
1 GGTATTTCAG-TAATTCTACCCTACAGG
* *
38374460 GGTATTTCAGTAATTTTACCCTACAAG
1 GGTATTTCAGTAATTCTACCCTACAGG
* *
38374487 GGTATTTCGGCAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
**
38374514 GGTATTTTTGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
38374541 GGTATTTC-GATAATTCTACCCTACAGG
1 GGTATTTCAG-TAATTCTACCCTACAGG
*
38374568 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* * * *
38374595 GGTGTTGCAATAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* * * *
38374622 GATATTCCGGTAATTCTACCCTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
*
38374649 GGTATTCCAGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* *
38374676 GGTA-TTCCGATAATTTTACCCTACAGG
1 GGTATTTCAG-TAATTCTACCCTACAGG
* *
38374703 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* * *
38374730 GGTATTTCGGTAATTTTACCCTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* *
38374757 GGTA-TTCTAGTAATTCTACCTTATAGG
1 GGTATTTC-AGTAATTCTACCCTACAGG
* * **
38374784 GGTATTTTAGTAATTTTA-CAAACCAGG
1 GGTATTTCAGTAATTCTACCCTA-CAGG
*
38374811 GGTATTTTAGTAATT
1 GGTATTTCAGTAATT
38374826 TACAACTAGG
Statistics
Matches: 384, Mismatches: 54, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.03
27 367 0.96
28 7 0.02
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTATTTCAGTAATTCTACCCTACAGG
Found at i:38374826 original size:27 final size:27
Alignment explanation
Indices: 38374781--38375012 Score: 290
Period size: 27 Copynumber: 8.7 Consensus size: 27
38374771 TCTACCTTAT
*
38374781 AGGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
38374808 AGGGGTATTTTAGTAA-TTTAC-AACT
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
38374833 AGGGGTATTTTGGTGATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
38374860 AAGGGTATTTTAGTAA-TTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
**
38374886 AGGGGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
**
38374913 AATGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
38374940 AGGGGTATTTTGGTAATTTTATAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
* * * *
38374967 AAGAGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
38374994 AGGGGTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
38375013 GGTAAACTAA
Statistics
Matches: 174, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
25 17 0.10
26 32 0.18
27 125 0.72
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:38374912 original size:53 final size:54
Alignment explanation
Indices: 38374781--38375012 Score: 344
Period size: 54 Copynumber: 4.4 Consensus size: 54
38374771 TCTACCTTAT
* * * *
38374781 AGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTAGTAA-TTTAC-AACT
1 AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACC
*
38374833 AGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAA-TTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACC
* * *
38374886 AGGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACC
* * *
38374940 AGGGGTATTTTGGTAATTTTATAAACTAAGAGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACC
38374994 AGGGGTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
38375013 GGTAAACTAA
Statistics
Matches: 163, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
52 44 0.27
53 42 0.26
54 77 0.47
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACC
Found at i:38386789 original size:40 final size:39
Alignment explanation
Indices: 38386752--38386922 Score: 245
Period size: 39 Copynumber: 4.3 Consensus size: 39
38386742 GGACTAAGAT
*
38386752 CCGAAGGCATTTGTGCGAGATACTAATTCCAGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
38386791 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
38386830 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* * *
38386870 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-C
38386910 CCGAAGGCATTTG
1 CCGAAGGCATTTG
38386923 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 74 0.61
40 48 0.39
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:38386799 original size:39 final size:40
Alignment explanation
Indices: 38386699--38386922 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
38386689 TTGAATGATG
* * *
38386699 TCCGGGCTAATTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
38386738 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
38386779 TCCAGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
38386818 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
38386857 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
38386896 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
38386923 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
39 74 0.45
40 76 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:38386945 original size:79 final size:78
Alignment explanation
Indices: 38386752--38386922 Score: 238
Period size: 79 Copynumber: 2.2 Consensus size: 78
38386742 GGACTAAGAT
*
38386752 CCGAAGGCATTTGTGCGAGATACTAATTCCAGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGATACTAA-TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
*
38386816 ATTCCGGGCTAAGC
65 ATACCGGGCTAAGC
* * *
38386830 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGTGCGAGATACT-AATCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
*
38386894 ATAACCGGGCTATGTC
65 AT-ACCGGGCTAAG-C
38386910 CCGAAGGCATTTG
1 CCGAAGGCATTTG
38386923 AACGAGTAGC
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
78 34 0.41
79 35 0.42
80 14 0.17
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATACTAATCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAA
TACCGGGCTAAGC
Found at i:38386953 original size:79 final size:79
Alignment explanation
Indices: 38386752--38386955 Score: 218
Period size: 79 Copynumber: 2.6 Consensus size: 79
38386742 GGACTAAGAT
** * * * * *
38386752 CCGAAGGCATTTGTGCGAGATACTAATTCCAGGCT-AAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
*
38386816 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * *
38386830 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
*
38386894 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* *
38386910 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
38386956 TACGTTATTT
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 33 0.31
79 50 0.46
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:38391489 original size:21 final size:20
Alignment explanation
Indices: 38391467--38391518 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 20
38391457 TAATATTAAT
38391467 TAATAAAATATTTTTACTTA
1 TAATAAAATATTTTTACTTA
38391487 T--TAAAATATTTTTACTTAA
1 TAATAAAATATTTTTACTT-A
38391506 TAA-AAAATTATTT
1 TAATAAAA-TATTT
38391519 AAAAGTCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
18 16 0.57
19 2 0.07
20 5 0.18
21 5 0.18
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATAAAATATTTTTACTTA
Found at i:38391519 original size:19 final size:18
Alignment explanation
Indices: 38391466--38391510 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
38391456 ATAATATTAA
38391466 TTAATAAAATATTTTTAC
1 TTAATAAAATATTTTTAC
*
38391484 TTATTAAAATATTTTTAC
1 TTAATAAAATATTTTTAC
38391502 TTAATAAAA
1 TTAATAAAA
38391511 AATTATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATAAAATATTTTTAC
Found at i:38392856 original size:27 final size:27
Alignment explanation
Indices: 38392808--38392859 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
38392798 ACACGCTAGA
* * * *
38392808 AAATGGAATCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTCTCTGCCAATCTATG
38392835 AAATGGAAGCCTCTCTGCCAATCTA
1 AAATGGAAGCCTCTCTGCCAATCTA
38392860 AGGAGATGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (27 bp):
AAATGGAAGCCTCTCTGCCAATCTATG
Found at i:38393027 original size:27 final size:27
Alignment explanation
Indices: 38392997--38393060 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
38392987 TATTCCCAAT
*
38392997 GAACTCT-AAGGAGATAGTATGTGTGGC
1 GAACTCTGAAGG-GATAGTATGTATGGC
*
38393024 GAACACTGAAGGGATAGTATGTATGGC
1 GAACTCTGAAGGGATAGTATGTATGGC
38393051 GAACTCTGAA
1 GAACTCTGAA
38393061 TGAGCAGTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 29 0.88
28 4 0.12
ACGTcount: A:0.33, C:0.12, G:0.31, T:0.23
Consensus pattern (27 bp):
GAACTCTGAAGGGATAGTATGTATGGC
Found at i:38393069 original size:27 final size:27
Alignment explanation
Indices: 38393007--38393074 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
38392997 GAACTCTAAG
* *
38393007 GAGATAGTATGTGTGGCGAACACTGAA
1 GAGACAGTATGTATGGCGAACACTGAA
* * *
38393034 GGGATAGTATGTATGGCGAACTCTGAA
1 GAGACAGTATGTATGGCGAACACTGAA
*
38393061 TGAG-CAGTAGGTAT
1 -GAGACAGTATGTAT
38393075 AACAAAATCT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 32 0.94
28 2 0.06
ACGTcount: A:0.31, C:0.10, G:0.34, T:0.25
Consensus pattern (27 bp):
GAGACAGTATGTATGGCGAACACTGAA
Found at i:38407585 original size:51 final size:51
Alignment explanation
Indices: 38407499--38407749 Score: 353
Period size: 51 Copynumber: 4.9 Consensus size: 51
38407489 ACGGATACAC
*
38407499 AGTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAA
* * * * *
38407550 AGTGTCCTTCACATAGTACCACACTTGTATGCAAAGCTATTTTATTCATAT
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAA
* *
38407601 AGTGGCCTTCATATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAA
** * *
38407652 AGTGGTGTTCACATAGT-CACACACTTGTGTCCAAAGCTATTATATTCAAAA
1 AGTGGCCTTCACATAGTAC-CACACTTGTGTCCAAAGCTATTTTATTCACAA
*
38407703 AATGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
38407750 CTAAGGTTCA
Statistics
Matches: 176, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
50 1 0.01
51 174 0.99
52 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.33
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAA
Found at i:38407817 original size:24 final size:24
Alignment explanation
Indices: 38407785--38407884 Score: 146
Period size: 24 Copynumber: 4.0 Consensus size: 24
38407775 ACTTAGCACA
38407785 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
38407809 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
38407833 CACATTGCCATGGACTTATTTCACTTAG
1 ---A-TGCCATGGACTTATTTCACTTAG
* *
38407861 ATGCCATAGTCTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
38407885 CGCAATGTCA
Statistics
Matches: 70, Mismatches: 2, Indels: 8
0.88 0.03 0.10
Matches are distributed among these distances:
24 45 0.64
25 1 0.01
27 1 0.01
28 23 0.33
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:38407829 original size:52 final size:52
Alignment explanation
Indices: 38407773--38407896 Score: 203
Period size: 52 Copynumber: 2.4 Consensus size: 52
38407763 GGGAAATTTC
*
38407773 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATAGACTTATT
* *
38407825 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGCCATAGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATAGACTTATT
* *
38407877 TCACTTAGCGCAATGTCATG
1 TCACTTAGCACAATGCCATG
38407897 TCCTAGCTAT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.35
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATAGACTTATT
Found at i:38409625 original size:80 final size:80
Alignment explanation
Indices: 38409501--38409653 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
38409491 AGCACTACGG
*
38409501 TGCTCTTAACAATACTTTCATACTCCTAATAGCACAACAATGCTCCTAACCATACTTTCGTACTC
1 TGCTCTTAACAATACTTTCATACTACTAATAGCACAACAATGCTCCTAACCATACTTTCGTACTC
38409566 CTAATAGCTCAAGAA
66 CTAATAGCTCAAGAA
** ** ** * ** *
38409581 TGCTCTTAACCGTACTTTTGTACTACTAATAGCACAACGGTGCTCCTGACTGTACTTTTGTACTC
1 TGCTCTTAACAATACTTTCATACTACTAATAGCACAACAATGCTCCTAACCATACTTTCGTACTC
*
38409646 CTGATAGC
66 CTAATAGC
38409654 ACAACGGTAG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
80 61 1.00
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (80 bp):
TGCTCTTAACAATACTTTCATACTACTAATAGCACAACAATGCTCCTAACCATACTTTCGTACTC
CTAATAGCTCAAGAA
Found at i:38409659 original size:40 final size:40
Alignment explanation
Indices: 38409489--38409661 Score: 177
Period size: 40 Copynumber: 4.3 Consensus size: 40
38409479 AGTGCTCTTG
* * * *
38409489 ATAGCACTACGGTGCTCTTAACAATACTTTCATACTCCTA
1 ATAGCACAACGGTGCTCCTAACCATACTTTCGTACTCCTA
**
38409529 ATAGCACAACAATGCTCCTAACCATACTTTCGTACTCCTA
1 ATAGCACAACGGTGCTCCTAACCATACTTTCGTACTCCTA
* * * * * *
38409569 ATAGCTCAA-GAATGCTCTTAACCGTACTTTTGTACTACTA
1 ATAGCACAACG-GTGCTCCTAACCATACTTTCGTACTCCTA
* ** * *
38409609 ATAGCACAACGGTGCTCCTGACTGTACTTTTGTACTCCTG
1 ATAGCACAACGGTGCTCCTAACCATACTTTCGTACTCCTA
38409649 ATAGCACAACGGT
1 ATAGCACAACGGT
38409662 AGATCCATGT
Statistics
Matches: 112, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
40 111 0.99
41 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (40 bp):
ATAGCACAACGGTGCTCCTAACCATACTTTCGTACTCCTA
Found at i:38413865 original size:17 final size:17
Alignment explanation
Indices: 38413843--38413886 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
38413833 ACTAAGTAGT
38413843 CCAAAAAGTTTTTTCTA
1 CCAAAAAGTTTTTTCTA
*
38413860 CCAAAAAGTATTTTTGTA
1 CCAAAAAGT-TTTTTCTA
38413878 --AAAAAGTTT
1 CCAAAAAGTTT
38413887 ATTCCAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 7 0.28
17 9 0.36
18 7 0.28
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (17 bp):
CCAAAAAGTTTTTTCTA
Found at i:38420137 original size:12 final size:12
Alignment explanation
Indices: 38420122--38420146 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38420112 CAACATATAT
38420122 AATATTTATAAA
1 AATATTTATAAA
38420134 AATATTTATAAA
1 AATATTTATAAA
38420146 A
1 A
38420147 TTAAAAAGAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATATTTATAAA
Found at i:38423999 original size:38 final size:38
Alignment explanation
Indices: 38423927--38424001 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
38423917 GCTAGAGCTC
* * * *
38423927 AATAGTATGTCAATGGTAGTAAACAGACAGTATGGACA
1 AATAGTATGTCAATAGTAGCAAACAAACAATATGGACA
*
38423965 AATAGTATGTCAATAGTAGCAAACAAATAATATGGAC
1 AATAGTATGTCAATAGTAGCAAACAAACAATATGGAC
38424002 GATTAAGCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.24
Consensus pattern (38 bp):
AATAGTATGTCAATAGTAGCAAACAAACAATATGGACA
Found at i:38430542 original size:28 final size:27
Alignment explanation
Indices: 38430502--38430656 Score: 120
Period size: 28 Copynumber: 5.6 Consensus size: 27
38430492 CCAAACGAAC
*
38430502 GGCACTTAGTGTGCGAAGTATTGAGGAT
1 GGCACTTAGTGTGCGAAGTATCGA-GAT
* *
38430530 GGCACTTAGTGTGC-AAGACATCCGAAAT
1 GGCACTTAGTGTGCGAAG-TAT-CGAGAT
* ** *
38430558 GACAC--AGTGTATGAAGTATTGATGAT
1 GGCACTTAGTGTGCGAAGTATCGA-GAT
* ** *
38430584 GACACTTAGTGTGCGAAACATACGAAAT
1 GGCACTTAGTGTGCGAAGTAT-CGAGAT
38430612 -GCAACTTAGTGTGCGAAGTATCGAGGAT
1 GGC-ACTTAGTGTGCGAAGTATCGA-GAT
38430640 GGCACTTAGTGTGCGAA
1 GGCACTTAGTGTGCGAA
38430657 ACATCTGGTA
Statistics
Matches: 98, Mismatches: 19, Indels: 20
0.72 0.14 0.15
Matches are distributed among these distances:
25 2 0.02
26 14 0.14
27 10 0.10
28 66 0.67
29 6 0.06
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (27 bp):
GGCACTTAGTGTGCGAAGTATCGAGAT
Found at i:38430672 original size:28 final size:26
Alignment explanation
Indices: 38430586--38430690 Score: 86
Period size: 28 Copynumber: 3.8 Consensus size: 26
38430576 TTGATGATGA
*
38430586 CACTTAGTGTGCGAAACATACGAAATG
1 CACTTAGTGTGCGAAACAT-CGGAATG
** *
38430613 CAACTTAGTGTGCGAAGTATCGAGGATGG
1 C-ACTTAGTGTGCGAAACATCG-GAAT-G
*
38430642 CACTTAGTGTGCGAAACATCTGGTATAG
1 CACTTAGTGTGCGAAACATC-GGAAT-G
*
38430670 CACTTAGCGTGC-AAGACATCG
1 CACTTAGTGTGCGAA-ACATCG
38430691 ATTGTGCAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
27 6 0.09
28 55 0.86
29 3 0.05
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (26 bp):
CACTTAGTGTGCGAAACATCGGAATG
Found at i:38430676 original size:56 final size:54
Alignment explanation
Indices: 38430503--38430661 Score: 207
Period size: 54 Copynumber: 2.9 Consensus size: 54
38430493 CAAACGAACG
38430503 GCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAGACATCCGAAAT
1 GCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAA-ACAT-CGAAAT
** * *
38430558 GACAC--AGTGTATGAAGTATTGATGATGACACTTAGTGTGCGAAACATACGAAAT
1 G-CACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACAT-CGAAAT
*
38430612 GCAACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATC
1 GC-ACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATC
38430662 TGGTATAGCA
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
53 1 0.01
54 44 0.49
55 4 0.04
56 40 0.45
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (54 bp):
GCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCGAAAT
Found at i:38433953 original size:46 final size:46
Alignment explanation
Indices: 38433897--38434075 Score: 211
Period size: 46 Copynumber: 3.9 Consensus size: 46
38433887 GGATATTTGG
38433897 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * * *
38433943 GCGTCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA
*
38433989 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *
38434036 ACACCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38434076 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 69 0.62
47 31 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:38434055 original size:93 final size:93
Alignment explanation
Indices: 38433896--38434068 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
38433886 GGGATATTTG
* **
38433896 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
*
38433961 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
38433989 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
38434054 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
38434069 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:38437032 original size:15 final size:15
Alignment explanation
Indices: 38437012--38437080 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
38437002 GTATCTTGGG
38437012 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
38437027 TCTCTTTATTCTAGA
1 TTTCTTTATCCTGGA
* *
38437042 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
38437057 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
38437072 TTTCTTTAT
1 TTTCTTTAT
38437081 TCGGTTTTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.13, C:0.17, G:0.12, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:38437074 original size:30 final size:30
Alignment explanation
Indices: 38437003--38437090 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
38436993 CATAGTATCG
* * * *
38437003 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
* *
38437033 TAT-TCTAGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
38437063 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
38437091 TGTTATCTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.17
30 39 0.81
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:38437091 original size:14 final size:14
Alignment explanation
Indices: 38437012--38437091 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
38437002 GTATCTTGGG
*
38437012 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
* *
38437027 TCTCTTTATTCTAGA
1 TTTCTTTATTC-GGA
*
38437042 TTTCTTTATTCTGGG
1 TTTCTTTATTC-GGA
* *
38437057 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
38437072 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
38437086 TTTCTT
1 TTTCTT
38437092 GTTATCTTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
14 9 0.17
15 42 0.81
16 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:38438046 original size:42 final size:41
Alignment explanation
Indices: 38437987--38438148 Score: 182
Period size: 42 Copynumber: 3.8 Consensus size: 41
38437977 TAGGGTTAGT
* *
38437987 TGAGATTACGTGTAAGACCATATCTGGCATATGGTGTCGGTA
1 TGAGATTACGTGTAAGACCATATCTGG-ATATGGCGTCGATA
* * * *
38438029 TGAGATTTCGTGTAAGACTATATCTGAGATATGGCATCTATA
1 TGAGATTACGTGTAAGACCATATCTG-GATATGGCGTCGATA
*
38438071 TGAGACTT-CGTGTAAGACCATAGCTGGACTATTGGCGTCGATA
1 TGAGA-TTACGTGTAAGACCATATCTGGA-TA-TGGCGTCGATA
* *
38438114 CGAGATTACATGTAAGACCATATCTGGGATATGGC
1 TGAGATTACGTGTAAGACCATATCT-GGATATGGC
38438149 ATTGGTACGG
Statistics
Matches: 101, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.02
42 63 0.62
43 33 0.33
44 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (41 bp):
TGAGATTACGTGTAAGACCATATCTGGATATGGCGTCGATA
Found at i:38438137 original size:85 final size:84
Alignment explanation
Indices: 38437987--38438150 Score: 215
Period size: 85 Copynumber: 1.9 Consensus size: 84
38437977 TAGGGTTAGT
* * * * * * *
38437987 TGAGATTACGTGTAAGACCATATCTGGCATATGGTGTCGGTATGAGATTTCGTGTAAGACTATAT
1 TGAGATTACGTGTAAGACCATAGCTGGCATATGGCGTCGATACGAGATTACATGTAAGACCATAT
38438052 CTGAGATATGGCATCTATA
66 CTGAGATATGGCATCTATA
38438071 TGAGACTT-CGTGTAAGACCATAGCTGG-ACTATTGGCGTCGATACGAGATTACATGTAAGACCA
1 TGAGA-TTACGTGTAAGACCATAGCTGGCA-TA-TGGCGTCGATACGAGATTACATGTAAGACCA
*
38438134 TATCTGGGATATGGCAT
63 TATCTGAGATATGGCAT
38438151 TGGTACGGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
83 1 0.01
84 25 0.36
85 43 0.62
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (84 bp):
TGAGATTACGTGTAAGACCATAGCTGGCATATGGCGTCGATACGAGATTACATGTAAGACCATAT
CTGAGATATGGCATCTATA
Found at i:38446541 original size:39 final size:39
Alignment explanation
Indices: 38446498--38446588 Score: 128
Period size: 39 Copynumber: 2.3 Consensus size: 39
38446488 TCTTTAACCG
*
38446498 GGATATTTTTCTAGCATGCAGCCTGCGGACCTCAAGTCC
1 GGATATTTTTCTAGCATACAGCCTGCGGACCTCAAGTCC
* * * * *
38446537 GGATATATTTCAAGCATATAGCCTGCGGATCTCATGTCC
1 GGATATTTTTCTAGCATACAGCCTGCGGACCTCAAGTCC
38446576 GGATATTTTTCTA
1 GGATATTTTTCTA
38446589 TCTCAAACAC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (39 bp):
GGATATTTTTCTAGCATACAGCCTGCGGACCTCAAGTCC
Found at i:38453933 original size:39 final size:39
Alignment explanation
Indices: 38453885--38453973 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 39
38453875 TTTAACCCGG
*
38453885 ATATTTTTCTAGCATGTAGCCTGCGGACCTCAAGTCCGA
1 ATATTTTTCTAGCATATAGCCTGCGGACCTCAAGTCCGA
* * * *
38453924 ATATATTTCTAGCATATAGCCTGCGGATCTCATGTCCGG
1 ATATTTTTCTAGCATATAGCCTGCGGACCTCAAGTCCGA
38453963 ATATTTTTCTA
1 ATATTTTTCTA
38453974 TCTCAAACAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (39 bp):
ATATTTTTCTAGCATATAGCCTGCGGACCTCAAGTCCGA
Found at i:38464962 original size:18 final size:17
Alignment explanation
Indices: 38464939--38464972 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
38464929 AAAAAGTCAC
38464939 TTAACAAAACAAGTTTAT
1 TTAAC-AAACAAGTTTAT
*
38464957 TTAACAACCAAGTTTA
1 TTAACAAACAAGTTTA
38464973 ATAATCTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (17 bp):
TTAACAAACAAGTTTAT
Found at i:38466611 original size:3 final size:3
Alignment explanation
Indices: 38466603--38466629 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
38466593 ATTTAGCTCT
38466603 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
38466630 AGTCCCTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:38478111 original size:25 final size:25
Alignment explanation
Indices: 38478077--38478131 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
38478067 TCAATGCAGT
* *
38478077 CTATCTATAGTAGTCTCAGTATATA
1 CTATCTATAGCAGTCTCAGGATATA
* *
38478102 CTATCTATAGCAGTTTTAGGATATA
1 CTATCTATAGCAGTCTCAGGATATA
38478127 CTATC
1 CTATC
38478132 AAAAACAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (25 bp):
CTATCTATAGCAGTCTCAGGATATA
Found at i:38478143 original size:25 final size:25
Alignment explanation
Indices: 38478097--38478145 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
38478087 TAGTCTCAGT
* * * *
38478097 ATATACTATCTATAGCAGTTTTAGG
1 ATATACTATCAAAAACAATTTTAGG
38478122 ATATACTATCAAAAACAATTTTAG
1 ATATACTATCAAAAACAATTTTAG
38478146 AACAATTCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (25 bp):
ATATACTATCAAAAACAATTTTAGG
Found at i:38482740 original size:27 final size:24
Alignment explanation
Indices: 38482689--38482748 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 24
38482679 TTTACCTTCC
*
38482689 TCTTTCTTTTTCCCATTTTCCTTT
1 TCTTTCTTTTTCCCATTTTACTTT
*
38482713 TCTTTCTTTTTCTTTCCATTTTATTTT
1 TCTTTCTTTTTC---CCATTTTACTTT
38482740 TC-TTCTTTT
1 TCTTTCTTTT
38482749 GCTTCCTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 12 0.39
26 7 0.23
27 12 0.39
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (24 bp):
TCTTTCTTTTTCCCATTTTACTTT
Found at i:38488258 original size:40 final size:40
Alignment explanation
Indices: 38488174--38488357 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
38488164 TTGAATGCTG
* * * *
38488174 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
38488213 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
38488254 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
38488294 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
38488334 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38488358 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:38488311 original size:80 final size:81
Alignment explanation
Indices: 38488174--38488354 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
38488164 TTGAATGCTG
* *
38488174 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
38488238 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
38488254 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
38488315 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
38488334 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
38488355 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:38490644 original size:18 final size:18
Alignment explanation
Indices: 38490621--38490656 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
38490611 AGAATATCAC
38490621 ATAATATAGAACTCTTTT
1 ATAATATAGAACTCTTTT
38490639 ATAATATAGAACTCTTTT
1 ATAATATAGAACTCTTTT
38490657 GCTCCCCCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (18 bp):
ATAATATAGAACTCTTTT
Found at i:38491087 original size:49 final size:49
Alignment explanation
Indices: 38491034--38491258 Score: 281
Period size: 49 Copynumber: 4.5 Consensus size: 49
38491024 CTAGTACGCA
38491034 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
** ** * *
38491083 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACC-AATTATCCGGTACACG
* * * ***
38491133 TAGTAGCCTGCACTTAGTACTACACACGTG-ATCGAAGTTATCGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-TTATCCGGTACACG
* *
38491184 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
38491233 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
38491259 CGTGATCTCA
Statistics
Matches: 147, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
49 68 0.46
50 43 0.29
51 34 0.23
52 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
Found at i:38503462 original size:18 final size:20
Alignment explanation
Indices: 38503426--38503469 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
38503416 TGATGAAAGT
38503426 TAATTACTATTATTATTATC
1 TAATTACTATTATTATTATC
*
38503446 TAATTA-TA-TATTTTTATC
1 TAATTACTATTATTATTATC
*
38503464 AAATTA
1 TAATTA
38503470 ACTTTAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 14 0.64
19 2 0.09
20 6 0.27
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATTACTATTATTATTATC
Found at i:38506287 original size:18 final size:20
Alignment explanation
Indices: 38506251--38506294 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
38506241 TGATGAAAGT
38506251 TAATTACTATTATTATTATC
1 TAATTACTATTATTATTATC
*
38506271 TAATTA-TA-TATTTTTATC
1 TAATTACTATTATTATTATC
*
38506289 AAATTA
1 TAATTA
38506295 ACTTTAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 14 0.64
19 2 0.09
20 6 0.27
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATTACTATTATTATTATC
Found at i:38507290 original size:15 final size:15
Alignment explanation
Indices: 38507254--38507301 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
38507244 ATATATTATG
*
38507254 TTTAAA-TT-TAATA
1 TTTAAATTTATAAAA
*
38507267 TTTATATTTATAAAA
1 TTTAAATTTATAAAA
*
38507282 TTTAAATTTATATAA
1 TTTAAATTTATAAAA
38507297 TTTAA
1 TTTAA
38507302 GATCTATCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 5 0.17
14 2 0.07
15 22 0.76
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTAAATTTATAAAA
Found at i:38508480 original size:34 final size:34
Alignment explanation
Indices: 38508414--38508517 Score: 149
Period size: 34 Copynumber: 3.1 Consensus size: 34
38508404 TTTATAATTT
* *
38508414 TTTTAAAAAAAATT-ATTAAATT-TGGTTTAGGG
1 TTTTAAAGAAAATTAATTAAATTAAGGTTTAGGG
*
38508446 TTTTAAAGTAAATTAATTAAATTAAGGTTTAGGG
1 TTTTAAAGAAAATTAATTAAATTAAGGTTTAGGG
* *
38508480 TTTTTAAGAAAATTAATTAAATTAAGGTTTAAGG
1 TTTTAAAGAAAATTAATTAAATTAAGGTTTAGGG
38508514 TTTT
1 TTTT
38508518 TTTAAAATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
32 12 0.19
33 8 0.12
34 44 0.69
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.44
Consensus pattern (34 bp):
TTTTAAAGAAAATTAATTAAATTAAGGTTTAGGG
Found at i:38508842 original size:127 final size:127
Alignment explanation
Indices: 38508614--38509138 Score: 666
Period size: 127 Copynumber: 4.2 Consensus size: 127
38508604 TTTTGGTTTT
* * * * *
38508614 TTTTTCTACAGTAGTTTCTGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAAATAGTG-ACATA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATGTAAAAA
* * *
38508678 AATGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTAAAAAAAGCTCTCACATGGACGCTC
66 AATGCTTCAAGCAGTATGCACTATCAGCAAAATTACTAAAAAAAGCTCTCACGTGGACGCTC
** * * *
38508740 TTTTTCTACAGTAGTTTTTGAAAAAATAATTTTAAGAATACGATTCTGAAAAAATAATGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATGTAAAAA
* * * *
38508805 AATGCTTCAAGCAATATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTAGACGCTC
66 AATGCTTCAAGCAGTATGCACTATCAGCAAAATTACTAAAAAAAGCTCTCACGTGGACGCTC
* *
38508867 TTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATGTAAAAA
* * * * *
38508932 AACGCTTCAAGTAGTATGTACTATCAACAAAATTACTGAAAAAAGCTCTCACGTGGACGCTC
66 AATGCTTCAAGCAGTATGCACTATCAGCAAAATTACTAAAAAAAGCTCTCACGTGGACGCTC
* * * *
38508994 CTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATGT-AAAA
* * * * * *
38509059 ACA--CTTCAAGCAGTATGCAC-AGTTAGAAAAATTACT-TAAAAATCTC-CTATGTGGACGCTC
65 AAATGCTTCAAGCAGTATGCACTA-TCAGCAAAATTACTAAAAAAAGCTCTC-ACGTGGACGCTC
*
38509119 TTTTTCTACAGCAGTTCCTG
1 TTTTTCTACAGTAGTTCCTG
38509139 CTTGGCTTTA
Statistics
Matches: 346, Mismatches: 49, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
124 1 0.00
125 37 0.11
126 79 0.23
127 223 0.64
128 6 0.02
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.29
Consensus pattern (127 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATGTAAAAA
AATGCTTCAAGCAGTATGCACTATCAGCAAAATTACTAAAAAAAGCTCTCACGTGGACGCTC
Found at i:38516687 original size:16 final size:16
Alignment explanation
Indices: 38516668--38516700 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
38516658 ACTATAGACC
38516668 ATAAAAATATAATAAA
1 ATAAAAATATAATAAA
38516684 ATAAAAATATAATAAA
1 ATAAAAATATAATAAA
38516700 A
1 A
38516701 ATGAATCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
ATAAAAATATAATAAA
Found at i:38517011 original size:29 final size:30
Alignment explanation
Indices: 38516944--38517012 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 30
38516934 GACTATTATA
*
38516944 AAAAATT-ATAAAAAAATTAATTAAAATTAC
1 AAAAATTGA-AAAAAAATTAAATAAAATTAC
* * *
38516974 ATAAA-TGAAAAAATATTAAATAATATT-C
1 AAAAATTGAAAAAAAATTAAATAAAATTAC
38517002 AAAAATTGAAA
1 AAAAATTGAAA
38517013 TTAACCCTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 5 0.16
29 22 0.69
30 5 0.16
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (30 bp):
AAAAATTGAAAAAAAATTAAATAAAATTAC
Found at i:38523326 original size:31 final size:31
Alignment explanation
Indices: 38523282--38523353 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
38523272 TTGAGATGCA
38523282 CAAAATATGTTAATTTCATAACAGTACTTTTTC
1 CAAAA-AT-TTAATTTCATAACAGTACTTTTTC
*
38523315 CAAAAATTTAATTTCATAACATTACTTTTTC
1 CAAAAATTTAATTTCATAACAGTACTTTTTC
38523346 CAAAAATT
1 CAAAAATT
38523354 CTCTCTTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
31 31 0.82
32 2 0.05
33 5 0.13
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.42
Consensus pattern (31 bp):
CAAAAATTTAATTTCATAACAGTACTTTTTC
Found at i:38525301 original size:18 final size:19
Alignment explanation
Indices: 38525265--38525303 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
38525255 GAGTAAAGTA
38525265 TAATTTTATTTTATTAATT
1 TAATTTTATTTTATTAATT
38525284 TAATTTT-TTTT-TTAAATT
1 TAATTTTATTTTATT-AATT
38525302 TA
1 TA
38525304 TAGAGCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.11
18 10 0.53
19 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TAATTTTATTTTATTAATT
Found at i:38527024 original size:49 final size:49
Alignment explanation
Indices: 38526875--38527147 Score: 233
Period size: 49 Copynumber: 5.7 Consensus size: 49
38526865 TGATATGTGT
* * * *
38526875 GCTAGTGTAAGACATGTATGGGACAT-GCATTG-GC-C-ATATTATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATA-TATGAGA
* * * * *
38526921 GCCAATGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATGCA-A
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATG-AGA
* *
38526969 GCTAGTGGAAGACCTGTCTGGGACATGGCATCGACAC-CGATAAATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATATATGAGA
* * *
38527018 GCTAGTGTAAGACCTGTCTGGGACATGGCGTCGGCCTCGATATATGAAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAGA
* * * * *
38527067 G-TCAGTGTAAGACCTGTCTGGGGCATGACATCGA-CT-TAGATATGTGA
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAGA
* * *
38527114 GCCAGTGTAAGACCATGTTTGGAACATGGCATCG
1 GCTAGTGTAAGACC-TGTCTGGGACATGGCATCG
38527148 GCATCATACC
Statistics
Matches: 185, Mismatches: 31, Indels: 20
0.78 0.13 0.08
Matches are distributed among these distances:
46 28 0.15
47 20 0.11
48 48 0.26
49 88 0.48
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAGA
Found at i:38527088 original size:98 final size:96
Alignment explanation
Indices: 38526875--38527149 Score: 288
Period size: 98 Copynumber: 2.9 Consensus size: 96
38526865 TGATATGTGT
* * * * * * * *
38526875 GCTAGTGTAAGACATGTATGGGACATG-CATTGGC-CATATTATGAGAGCCAATGTAAGACATGT
1 GCTAGTGGAAGACCTGTCTGGGACATGACATCGACACAGA-TATGAGAGCCAGTGTAAGACCTGT
*
38526938 CTGGGACAT-GCATCGGCCTCGAGATATGCAA
65 CTGGGACATGGCATCGGCCTCGAGATATGAAA
* * *
38526969 GCTAGTGGAAGACCTGTCTGGGACATGGCATCGACACCGATAAATGAGAGCTAGTGTAAGACCTG
1 GCTAGTGGAAGACCTGTCTGGGACATGACATCGACACAGAT--ATGAGAGCCAGTGTAAGACCTG
* *
38527034 TCTGGGACATGGCGTCGGCCTCGATATATGAAA
64 TCTGGGACATGGCATCGGCCTCGAGATATGAAA
* * ** *
38527067 G-TCAGTGTAAGACCTGTCTGGGGCATGACATCGACTTAGATATGTGAGCCAGTGTAAGACCATG
1 GCT-AGTGGAAGACCTGTCTGGGACATGACATCGACACAGATATGAGAGCCAGTGTAAGACC-TG
* *
38527131 TTTGGAACATGGCATCGGC
64 TCTGGGACATGGCATCGGC
38527150 ATCATACCCT
Statistics
Matches: 150, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
94 24 0.16
95 6 0.04
96 20 0.13
97 48 0.32
98 52 0.35
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (96 bp):
GCTAGTGGAAGACCTGTCTGGGACATGACATCGACACAGATATGAGAGCCAGTGTAAGACCTGTC
TGGGACATGGCATCGGCCTCGAGATATGAAA
Found at i:38527141 original size:146 final size:143
Alignment explanation
Indices: 38526875--38527147 Score: 318
Period size: 146 Copynumber: 1.9 Consensus size: 143
38526865 TGATATGTGT
* *
38526875 GCTAGTGTAAGACATGTATGGGACATGCATTGGCCATATTATGAGAGCCAATGTAAGACATGTCT
1 GCTAGTGTAAGACATGTATGGGACATGCATCGGCCATATTATGAAAGCCAATGTAAGACATGTCT
* * *
38526940 GGGACATGCATCGGCCTCGAGATATGCAAGCTAGTGGAAGACCTGTCTGGGACATGGCATCGACA
66 GGGACATGCATCGGACTCGAGATATGCAAGCCAGTGGAAGACCTGTCTGGAACATGGCATCGACA
38527005 CCGATAAATGAGA
131 CCGATAAATGAGA
* * * * * *
38527018 GCTAGTGTAAGACCTGTCTGGGACATGGCGTCGGCC-TCGATATATGAAAGTCAGTGTAAGACCT
1 GCTAGTGTAAGACATGTATGGGACAT-GCATCGGCCAT--AT-TATGAAAGCCAATGTAAGACAT
* * ** * *
38527082 GTCTGGGGCATGACATC-GACT-TAGATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCA
62 GTCTGGGACATG-CATCGGACTCGAGATATGCAAGCCAGTGGAAGACC-TGTCTGGAACATGGCA
38527145 TCG
125 TCG
38527148 GCATCATACC
Statistics
Matches: 107, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
143 25 0.23
144 7 0.07
145 22 0.21
146 49 0.46
147 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (143 bp):
GCTAGTGTAAGACATGTATGGGACATGCATCGGCCATATTATGAAAGCCAATGTAAGACATGTCT
GGGACATGCATCGGACTCGAGATATGCAAGCCAGTGGAAGACCTGTCTGGAACATGGCATCGACA
CCGATAAATGAGA
Found at i:38529722 original size:33 final size:32
Alignment explanation
Indices: 38529655--38529735 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 32
38529645 TAAAATGAGA
** *
38529655 TTTTAGGTTTCTTAAAAGTTGGAGAAAAAATT
1 TTTTAGGTCCCTTAAAAGTTGGACAAAAAATT
38529687 TTTTAGGTCCCTTAAAAGTTGGTAC-AAAAATT
1 TTTTAGGTCCCTTAAAAGTTGG-ACAAAAAATT
* *
38529719 TTTT-GGGCCTTTAAAAG
1 TTTTAGGTCCCTTAAAAG
38529736 CTATTTTTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 11 0.26
32 31 0.72
33 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (32 bp):
TTTTAGGTCCCTTAAAAGTTGGACAAAAAATT
Found at i:38529842 original size:53 final size:52
Alignment explanation
Indices: 38529782--38529890 Score: 200
Period size: 53 Copynumber: 2.1 Consensus size: 52
38529772 TTTGTTTGAC
38529782 TTTTAAAAGTTAGAAAAATATTTTTGAGCCCATTAAAAACTAAAAAAACAATA
1 TTTTAAAAGTTAGAAAAATATTTTTGAGCCCATTAAAAACT-AAAAAACAATA
*
38529835 TTTTAAAAGTTAGAAAAATATTTTTGAGCCTATTAAAAACTAAAAAACAATA
1 TTTTAAAAGTTAGAAAAATATTTTTGAGCCCATTAAAAACTAAAAAACAATA
38529887 TTTT
1 TTTT
38529891 GAATCCCTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 15 0.27
53 40 0.73
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.34
Consensus pattern (52 bp):
TTTTAAAAGTTAGAAAAATATTTTTGAGCCCATTAAAAACTAAAAAACAATA
Found at i:38533671 original size:35 final size:35
Alignment explanation
Indices: 38533632--38533748 Score: 128
Period size: 35 Copynumber: 3.3 Consensus size: 35
38533622 ACTCTCTGTT
*
38533632 TTGGTGTGTTTTAGATGGATTAACTCTTACAAGCA
1 TTGGTGTGTTTTAGAGGGATTAACTCTTACAAGCA
* *
38533667 TTGGTGTG-TTTCGAAGGGATTAACTTTTACAAGCA
1 TTGGTGTGTTTTAG-AGGGATTAACTCTTACAAGCA
* ** * **
38533702 TTAGTGTGTTGCAGAGGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTTAGAGGGATTAACTCTTACAAGCA
*
38533737 TTGGTGTATTTT
1 TTGGTGTGTTTT
38533749 GGATGGATCA
Statistics
Matches: 65, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
34 4 0.06
35 59 0.91
36 2 0.03
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.40
Consensus pattern (35 bp):
TTGGTGTGTTTTAGAGGGATTAACTCTTACAAGCA
Found at i:38533762 original size:35 final size:36
Alignment explanation
Indices: 38533718--38533786 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
38533708 TGTTGCAGAG
*
38533718 GGATTAGCTCTTATGAGCAT-TGGTGTATTTTGGAT
1 GGATCAGCTCTTATGAGCATCTGGTGTATTTTGGAT
* *
38533753 GGATCAGCTCTTGTGAGCATCTGGTGTTTTTTGG
1 GGATCAGCTCTTATGAGCATCTGGTGTATTTTGG
38533787 GTTGGATTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 18 0.60
36 12 0.40
ACGTcount: A:0.16, C:0.12, G:0.30, T:0.42
Consensus pattern (36 bp):
GGATCAGCTCTTATGAGCATCTGGTGTATTTTGGAT
Found at i:38541902 original size:42 final size:42
Alignment explanation
Indices: 38541866--38542003 Score: 190
Period size: 41 Copynumber: 3.3 Consensus size: 42
38541856 TATGAGTTTA
* * *
38541866 CGTGTAAGACCATATCTGGGATATGAAATCGATATGAGATTT
1 CGTGTAAGACCATATCTGGGACATGGAATCGATATGAGAATT
*
38541908 CGTGTAAGACCATTTCTGGGACATGGAATCGATATGAGAATT
1 CGTGTAAGACCATATCTGGGACATGGAATCGATATGAGAATT
* * * *
38541950 -GTGTAAGACCATGTATGGGACATGGCATTGATATGAGAA-T
1 CGTGTAAGACCATATCTGGGACATGGAATCGATATGAGAATT
38541990 CGTGTAAGACCATA
1 CGTGTAAGACCATA
38542004 GTTGGGCTAT
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.01
41 47 0.55
42 38 0.44
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGACATGGAATCGATATGAGAATT
Found at i:38542026 original size:83 final size:83
Alignment explanation
Indices: 38541867--38542029 Score: 188
Period size: 83 Copynumber: 2.0 Consensus size: 83
38541857 ATGAGTTTAC
* * * *
38541867 GTGTAAGACCATATCTGGGATATGAAATCGATATGAGATTTCGTGTAAGACCATTTCTGGGACAT
1 GTGTAAGACCATATATGGGACATGAAATCGATATGAGATATCGTGTAAGACCATGTCTGGGACAT
*
38541932 GGAATCGATATGAGAATT
66 GGAATCAATATGAGAATT
* ** *
38541950 GTGTAAGACCATGTATGGGACATGGCATTGATATGAGA-ATCGTGTAAGACCATAGT-TGGG-CT
1 GTGTAAGACCATATATGGGACATGAAATCGATATGAGATATCGTGTAAGACCAT-GTCTGGGAC-
*
38542012 ATTGGCATCAATATGAGA
64 A-TGGAATCAATATGAGA
38542030 TCCCATATAA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
81 1 0.01
82 19 0.28
83 47 0.70
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (83 bp):
GTGTAAGACCATATATGGGACATGAAATCGATATGAGATATCGTGTAAGACCATGTCTGGGACAT
GGAATCAATATGAGAATT
Found at i:38542234 original size:16 final size:17
Alignment explanation
Indices: 38542213--38542244 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
38542203 AAGCATTGGC
38542213 TTCATGAT-ATTATGAG
1 TTCATGATCATTATGAG
38542229 TTCATGATCATTATGA
1 TTCATGATCATTATGA
38542245 AAGTGACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (17 bp):
TTCATGATCATTATGAG
Found at i:38543723 original size:46 final size:49
Alignment explanation
Indices: 38543585--38543863 Score: 296
Period size: 47 Copynumber: 5.9 Consensus size: 49
38543575 ATAGGGTGTA
* *
38543585 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCACT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCA-T
* * *
38543635 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCAT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAT
*
38543682 A-GCCGATG-CATGTCCCAGACAT-GTCTAACACTGGCT-TACATCT--T
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATCTCAT
* * *
38543726 GAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCA-
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAT
* * * *
38543773 ATGCCGTTGCCATGTTCCAGACAT-GTCTTACACTAGCTCTCGTCTCA-
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAT
* * *
38543820 ATGCCGTTGCCATGTCCCAGTCATGGTCTTACACTGGCTATCAT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
38543864 AATGTGGCTG
Statistics
Matches: 199, Mismatches: 20, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
44 10 0.05
45 16 0.08
46 56 0.28
47 60 0.30
48 23 0.12
49 1 0.01
50 33 0.17
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (49 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAT
Found at i:38543882 original size:141 final size:139
Alignment explanation
Indices: 38543587--38543903 Score: 354
Period size: 141 Copynumber: 2.2 Consensus size: 139
38543577 AGGGTGTAAT
* * *
38543587 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCACTGTGCCGATGCCATGTCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATATCAC-ATGCCGATGCCATGTCC
38543652 CAGACATGGTCTTACACTGACACATCTCATAGCCGATGCATGTCCCAGACATGTCTAACACTGGC
63 CAGACATGGTCTTACACTGACACATCTCATAGCCGATGCATGTCCCAGACATGTCTAACACTGGC
**
38543717 TTACATCTTGAG
128 TTACATAATGAG
* * * *
38543729 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCA-ATGCCGTTGCCATGTTCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCACATGCCGATGCCATGTCCCAG
* * * * * *
38543793 ACAT-GTCTTACACTAGCTCTCGTCTCA-ATGCCGTTGCCATGTCCCAGTCATGGTCTTACACTG
66 ACATGGTCTTACACT-G-ACACATCTCATA-GCCGATG-CATGTCCCAGACAT-GTCTAACACTG
*
38543856 GC-TATCATAATGTG
126 GCTTA-CATAATGAG
* * *
38543870 GCTGATGTATGTCCCAGACATGTCTTACAATAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
38543904 ACACAAATGA
Statistics
Matches: 150, Mismatches: 19, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
137 10 0.07
138 23 0.15
139 13 0.09
140 35 0.23
141 62 0.41
142 7 0.05
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (139 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCACATGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGACACATCTCATAGCCGATGCATGTCCCAGACATGTCTAACACTGGCTTA
CATAATGAG
Found at i:38557478 original size:27 final size:27
Alignment explanation
Indices: 38557430--38557587 Score: 198
Period size: 27 Copynumber: 5.9 Consensus size: 27
38557420 GCGAGGCTGC
* * *
38557430 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
38557457 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
38557483 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
38557510 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
38557537 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
38557564 TAGATATTGTGGCATAGCCACCAG
1 CAGATATTGTGGCAGAGCCACCAG
38557588 GACGCTTCCT
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
26 26 0.22
27 88 0.76
28 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:38557523 original size:54 final size:53
Alignment explanation
Indices: 38557430--38557587 Score: 237
Period size: 54 Copynumber: 3.0 Consensus size: 53
38557420 GCGAGGCTGC
* * * *
38557430 CAGATAT-TGTGACAAAGTCACCAGATACAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATATTGTGGCATAGCCACCAGAA
*
38557483 CAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGATCAGAT-ATTGTGGCATAGCCACCAGAA
*
38557537 CAGATATATGTGGCAGAGCCACCAGATTAGATATTGTGGCATAGCCACCAG
1 CAGATATATGTGGCAGAGCCACCAGATCAGATATTGTGGCATAGCCACCAG
38557588 GACGCTTCCT
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
53 30 0.31
54 66 0.69
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (53 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATATTGTGGCATAGCCACCAGAA
Found at i:38559187 original size:26 final size:26
Alignment explanation
Indices: 38559156--38559263 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
38559146 ATGAAATTCC
38559156 ATCATGGAACATTTACCTAA-ACCATT
1 ATCATGGAACATTTACCTAACA-CATT
38559182 ATCATGGAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAACACATT
*
38559208 ATCATGGAATATTTACCTAATC-CATT
1 ATCATGGAACATTTACCTAA-CACATT
*
38559234 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACACATT
38559260 ATCA
1 ATCA
38559264 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
25 1 0.01
26 74 0.96
27 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACACATT
Found at i:38559222 original size:52 final size:52
Alignment explanation
Indices: 38559156--38559263 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 52
38559146 ATGAAATTCC
38559156 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACACATT
* * *
38559208 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACACATT
38559260 ATCA
1 ATCA
38559264 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACACATT
Found at i:38562528 original size:13 final size:14
Alignment explanation
Indices: 38562510--38562542 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
38562500 ACTATAATTC
*
38562510 ATAAATATTTCT-A
1 ATAAATATTTATGA
38562523 ATAAATATTTATGA
1 ATAAATATTTATGA
38562537 ATAAAT
1 ATAAAT
38562543 TTCACGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (14 bp):
ATAAATATTTATGA
Found at i:38564654 original size:10 final size:11
Alignment explanation
Indices: 38564639--38564689 Score: 61
Period size: 10 Copynumber: 4.5 Consensus size: 11
38564629 TATAGTTTAA
38564639 AATAAAATA-T
1 AATAAAATATT
38564649 AATAAAATATT
1 AATAAAATATT
38564660 ATATTAAAATATT
1 A-A-TAAAATATT
38564673 ACATAAAATA-T
1 A-ATAAAATATT
38564684 AATAAA
1 AATAAA
38564690 TAAAAAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
10 14 0.38
11 4 0.11
12 8 0.22
13 11 0.30
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
AATAAAATATT
Found at i:38564667 original size:13 final size:12
Alignment explanation
Indices: 38564640--38564683 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 12
38564630 ATAGTTTAAA
38564640 ATAAAATA-TA-
1 ATAAAATATTAT
38564650 ATAAAATATTAT
1 ATAAAATATTAT
*
38564662 ATTAAAATATTAC
1 A-TAAAATATTAT
38564675 ATAAAATAT
1 ATAAAATAT
38564684 AATAAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 8 0.27
11 2 0.07
12 9 0.30
13 11 0.37
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAAAATATTAT
Found at i:38572858 original size:46 final size:46
Alignment explanation
Indices: 38572802--38572971 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 46
38572792 TGGTTGAGCA
* *
38572802 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAATG
** * * *
38572848 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG-GCAT-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACATATG-GA-T-GCGAATG
* * *
38572896 T-TGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAATG
* * *
38572941 CCCGAGCTCATTGAGTTGAGTCCGAGTTCAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
38572972 TTAGGGGTGG
Statistics
Matches: 98, Mismatches: 19, Indels: 14
0.75 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 57 0.58
47 29 0.30
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAATG
Found at i:38578594 original size:12 final size:12
Alignment explanation
Indices: 38578577--38578608 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
38578567 AGGTTAGTAT
38578577 AAAGAATGTGTG
1 AAAGAATGTGTG
38578589 AAAGAATGTGTG
1 AAAGAATGTGTG
38578601 AAAGAATG
1 AAAGAATG
38578609 AAATTAGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (12 bp):
AAAGAATGTGTG
Found at i:38580490 original size:46 final size:47
Alignment explanation
Indices: 38580352--38580575 Score: 185
Period size: 46 Copynumber: 4.8 Consensus size: 47
38580342 ATAAGGTGTA
*
38580352 ATGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATCTCC
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGG-T-TCACATCT-C
* * * * *
38580402 GTGCCTATGCCATGTCCCAGACGTGGTCTTACACT-G-ACACATCTC
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGTTCACATCTC
* *
38580447 ATAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGTTTACATCTC
1 AT-GCCGATGCCATGTCCCAAACATGGTCTTACACTGGTTCACATCTC
* * * *
38580493 GAGGCCGATG-CATGTCCCAAACAT-GTCTTACAC-AGCTCTCATCTC
1 -ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGTTCACATCTC
* ** *
38580538 GATG-CTATTGCCATGTCCCAGGCGTGGTCTTACACTGG
1 -ATGCCGA-TGCCATGTCCCAAACATGGTCTTACACTGG
38580576 CTCTCATAAT
Statistics
Matches: 143, Mismatches: 23, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
44 12 0.08
45 29 0.20
46 60 0.42
47 10 0.07
48 1 0.01
49 1 0.01
50 30 0.21
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.28
Consensus pattern (47 bp):
ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGTTCACATCTC
Found at i:38585918 original size:21 final size:20
Alignment explanation
Indices: 38585890--38585929 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
38585880 TTATTGAAAT
*
38585890 AGGGAACACGCTCGTGTGGA
1 AGGGAACACGCCCGTGTGGA
*
38585910 AGGGCAACATGCCCGTGTGG
1 AGGG-AACACGCCCGTGTGG
38585930 TCATTATAAC
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:0.23, C:0.23, G:0.40, T:0.15
Consensus pattern (20 bp):
AGGGAACACGCCCGTGTGGA
Found at i:38587367 original size:13 final size:13
Alignment explanation
Indices: 38587349--38587374 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38587339 GCCCGACAAA
38587349 GACACGCCCGTGT
1 GACACGCCCGTGT
38587362 GACACGCCCGTGT
1 GACACGCCCGTGT
38587375 TCAAGTGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:38589470 original size:37 final size:37
Alignment explanation
Indices: 38589417--38589519 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
38589407 CGAATAGTCC
*
38589417 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
38589454 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
38589491 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
38589520 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:38589718 original size:48 final size:48
Alignment explanation
Indices: 38589660--38590141 Score: 793
Period size: 48 Copynumber: 10.0 Consensus size: 48
38589650 ATATACACAC
* * * *
38589660 ATCTCCTACATATTTCACATTAGCCATTCAGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
38589708 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
38589756 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATGTACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
38589804 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
38589852 ATTTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
38589900 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
38589948 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
38589996 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
38590044 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
38590092 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
38590140 AT
1 AT
38590142 ATTTATCTTG
Statistics
Matches: 405, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 405 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:38600161 original size:13 final size:13
Alignment explanation
Indices: 38600139--38600175 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
38600129 GGACAGAGAC
38600139 ACGCCCGTGTGAA
1 ACGCCCGTGTGAA
* *
38600152 ACGCCTGTGTGAC
1 ACGCCCGTGTGAA
38600165 ACGCCCGTGTG
1 ACGCCCGTGTG
38600176 CAAGTGCTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.19
Consensus pattern (13 bp):
ACGCCCGTGTGAA
Found at i:38602679 original size:47 final size:47
Alignment explanation
Indices: 38602610--38602779 Score: 243
Period size: 47 Copynumber: 3.6 Consensus size: 47
38602600 TGTAATGCCA
38602610 ATGCCATGTCCCAGACATGGTCTTACGCTGGGTCATCCATCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACGCTGGGTCATCCATCAAGTCG
38602657 ATGCCATGTCCCAGACATGGTCTTACGCTGGGTCATCCATCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACGCTGGGTCATCCATCAAGTCG
* * ** * *
38602704 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATC-CGTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACGCTGG--GTCATCCATCAAGT--CG
38602754 ATGCCATGTCCCAGACATGGTCTTAC
1 ATGCCATGTCCCAGACATGGTCTTAC
38602780 ACTAACACAT
Statistics
Matches: 113, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
47 77 0.68
48 2 0.02
49 7 0.06
50 27 0.24
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACGCTGGGTCATCCATCAAGTCG
Found at i:38602855 original size:46 final size:44
Alignment explanation
Indices: 38602796--38602966 Score: 164
Period size: 46 Copynumber: 3.7 Consensus size: 44
38602786 ACATGTCATA
38602796 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTT-C-TCTCGAG
* * *
38602842 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCGAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TC-TCTCGAG
* * * * **
38602888 GTCGTTTCCATGTCCCAGACATGGTCTTACACTGG-TTCTCATAATATG
1 GCCG-ATGCATGTCCCAAACAT-GTCTTACACTGGCTTCTC-T-CGA-G
*
38602936 GTCGATGCATGTCCCAAACATGTCTTACACT
1 GCCGATGCATGTCCCAAACATGTCTTACACT
38602967 AGCGCACAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.02
46 56 0.53
47 32 0.30
48 15 0.14
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (44 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTCTCTCGAG
Found at i:38602915 original size:94 final size:94
Alignment explanation
Indices: 38602613--38602969 Score: 287
Period size: 94 Copynumber: 3.8 Consensus size: 94
38602603 AATGCCAATG
* * * *
38602613 CCATGTCCCAGACATGGTCTTACGCTGGGTCATCCAT-C-AAGTCGATGCCATGTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACTGGTTCAT-CATACGAGGCCGATGCCATGTCCCAGACATG
* * * * *
38602676 GTCTTACGCTGGGTCATC-CATCAAGTCGATG
65 GTCTTACACTAGCTCATCGC-TCATGTCG-TT
* *
38602707 CCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATATCCG-TGCCAATGCCATGTCCCAGAC
1 CCATGTCCCAGACATGGTCTTACACTGG-T-TCATCATA--CGAGGCCGATGCCATGTCCCAGAC
* * * *
38602770 ATGGTCTTACACTAACACAT-G-TCATAGCCGAT
62 ATGGTCTTACACTAGCTCATCGCTCAT-GTCGTT
* *
38602802 GCATGTCCCAAACAT-GTCTTACACTGGCTTACATC-T-CGAGGCCGATG-CATGTCCCAGACAT
1 CCATGTCCCAGACATGGTCTTACACTGG-TT-CATCATACGAGGCCGATGCCATGTCCCAGACAT
38602863 -GTCTTACACTAGCTC-TCGTCTCGATGTCGTTT
64 GGTCTTACACTAGCTCATCG-CTC-ATGTCG-TT
** * *
38602895 CCATGTCCCAGACATGGTCTTACACTGGTTC-TCATAATATGGTCGATG-CATGTCCCAAACAT-
1 CCATGTCCCAGACATGGTCTTACACTGGTTCATCATACGA-GGCCGATGCCATGTCCCAGACATG
38602957 GTCTTACACTAGC
65 GTCTTACACTAGC
38602970 GCACAAATGA
Statistics
Matches: 215, Mismatches: 28, Indels: 40
0.76 0.10 0.14
Matches are distributed among these distances:
89 1 0.00
90 14 0.07
91 18 0.08
92 13 0.06
93 20 0.09
94 92 0.43
95 16 0.07
96 7 0.03
97 34 0.16
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
CCATGTCCCAGACATGGTCTTACACTGGTTCATCATACGAGGCCGATGCCATGTCCCAGACATGG
TCTTACACTAGCTCATCGCTCATGTCGTT
Found at i:38602947 original size:47 final size:45
Alignment explanation
Indices: 38602614--38602966 Score: 240
Period size: 47 Copynumber: 7.6 Consensus size: 45
38602604 ATGCCAATGC
* *
38602614 CATGTCCCAGACATGGTCTTACGCTGGGTCATCCATCA-A-GTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-ATATGTCGATG
* *
38602660 CCATGTCCCAGACATGGTCTTACGCTGGGTCATCCATCA-A-GTCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-ATATGTCGATG
*
38602707 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCCGTGCCAATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTCATATAT--GT--CGATG
** * * *
38602757 CCATGTCCCAGACATGGTCTTACACT--AACACATGTCATAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-AT-GTCGATG
* * * *
38602803 CATGTCCCAAACAT-GTCTTACACTGGCT-TACATCTCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCT-CATAT--ATGTCGATG
* * * * *
38602849 CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCGATGTCGTTTC
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCATAT--ATGTCG-ATG
*
38602896 CATGTCCCAGACATGGTCTTACACTGGTTCTCATAATATGGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATAT-GTCGATG
*
38602943 CATGTCCCAAACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
38602967 AGCGCACAAA
Statistics
Matches: 259, Mismatches: 31, Indels: 33
0.80 0.10 0.10
Matches are distributed among these distances:
44 11 0.04
45 17 0.07
46 62 0.24
47 108 0.42
48 28 0.11
49 3 0.01
50 30 0.12
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGTCGATG
Found at i:38610585 original size:79 final size:80
Alignment explanation
Indices: 38610487--38610669 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
38610477 TACTCGTTCA
* *
38610487 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
38610550 ATTTAGTAACTCA-CACC
64 ATATAGTAACTCAGCA-C
**
38610567 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* * *
38610631 ATGGTCACTTAGCAC
66 ATAGTAACTCAGCAC
*
38610646 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
38610670 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 61 0.68
80 26 0.29
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTCAGCAC
Found at i:38610669 original size:40 final size:40
Alignment explanation
Indices: 38610485--38610669 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
38610475 GCTACTCGTT
* * *
38610485 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* *
38610525 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT-AGCA
* *
38610565 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
* * *
38610604 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
38610645 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38610670 CATCATTCGA
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 78 0.64
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:38612638 original size:39 final size:40
Alignment explanation
Indices: 38612593--38612801 Score: 125
Period size: 41 Copynumber: 5.2 Consensus size: 40
38612583 CGGGGTTTAG
* * *
38612593 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
38612632 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
38612672 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
38612712 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
** * * * *
38612753 CCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
38612794 CCGGATAT
1 CCGGATAT
38612802 CATTCGAGTA
Statistics
Matches: 150, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
39 18 0.12
40 61 0.41
41 68 0.45
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:38612743 original size:41 final size:41
Alignment explanation
Indices: 38612616--38612801 Score: 261
Period size: 41 Copynumber: 4.6 Consensus size: 41
38612606 CTCGCACAAG
* * * * * *
38612616 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
38612656 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
38612696 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
38612737 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
38612778 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
38612802 CATTCGAGTA
Statistics
Matches: 133, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 3 0.02
40 59 0.44
41 68 0.51
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:38612750 original size:81 final size:82
Alignment explanation
Indices: 38612616--38612799 Score: 257
Period size: 81 Copynumber: 2.3 Consensus size: 82
38612606 CTCGCACAAG
* * * * * * *
38612616 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
*
38612680 AGTCGC-TAGCACAAAT
66 AGTCGCTTAGCACAAAA
*
38612696 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
1 GCCTTCGGGA-CTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
38612760 TAGTCGCTTAGCACAAAA
65 TAGTCGCTTAGCACAAAA
38612778 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
38612800 ATCATTCGAG
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
79 2 0.02
80 21 0.23
81 38 0.42
82 26 0.29
83 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (82 bp):
GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
AGTCGCTTAGCACAAAA
Done.