Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 5 of 213
Found at i:1451951 original size:73 final size:73
Alignment explanation
Indices: 1451832--1452090 Score: 500
Period size: 73 Copynumber: 3.5 Consensus size: 73
1451822 TATTATTATT
*
1451832 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1451897 ATTTTAAG
66 ATTTTAAG
*
1451905 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1451970 ATTTTAAG
66 ATTTTAAG
1451978 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1452043 ATTTTAAG
66 ATTTTAAG
1452051 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1452091 GTCAAGTTGG
Statistics
Matches: 185, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 185 1.00
ACGTcount: A:0.27, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:1462689 original size:3 final size:3
Alignment explanation
Indices: 1462681--1462716 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1462671 TATTCCAATG
1462681 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1462717 GTTTATGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1463504 original size:106 final size:106
Alignment explanation
Indices: 1463312--1463512 Score: 366
Period size: 106 Copynumber: 1.9 Consensus size: 106
1463302 AAAATTTTTC
1463312 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
* *
1463377 TTCTTGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
66 TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
*
1463418 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
1463483 TTCTCGTTCGACTAAACAGCCAAATATCCT
66 TTCTCGTTCGACCAAACAGCCAAATATCCT
1463513 CTTAAAGCTT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 91 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (106 bp):
TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
Found at i:1475990 original size:21 final size:22
Alignment explanation
Indices: 1475939--1475990 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
1475929 TAGGTTTTTT
*
1475939 TATTTATTTTGGGTCATTGTAA
1 TATTTATTTTGGGTCACTGTAA
*
1475961 T-TTTGTTTTGGG-C-CTGTAA
1 TATTTATTTTGGGTCACTGTAA
1475980 TAATTTATTTT
1 T-ATTTATTTT
1475991 TTATTTGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 6 0.24
20 1 0.04
21 17 0.68
22 1 0.04
ACGTcount: A:0.19, C:0.06, G:0.17, T:0.58
Consensus pattern (22 bp):
TATTTATTTTGGGTCACTGTAA
Found at i:1488039 original size:6 final size:6
Alignment explanation
Indices: 1488030--1488055 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1488020 AGTGCATTAG
1488030 CATCTT CATCTT CATCTT CATCTT CA
1 CATCTT CATCTT CATCTT CATCTT CA
1488056 AGATTCTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.00, T:0.46
Consensus pattern (6 bp):
CATCTT
Found at i:1488754 original size:3 final size:3
Alignment explanation
Indices: 1488746--1488771 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1488736 ACATCCAAAC
1488746 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1488772 ACATGTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1493102 original size:73 final size:73
Alignment explanation
Indices: 1492983--1493173 Score: 364
Period size: 73 Copynumber: 2.6 Consensus size: 73
1492973 GCTTACAACT
*
1492983 TAACAAACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
1493048 ACTACCAC
66 ACTACCAC
1493056 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
1493121 ACTACCAC
66 ACTACCAC
*
1493129 TAACAAACTTAGTTGGAATAAAACTAAGTTACATCATTACATCCA
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1493174 AATAATAATA
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 116 1.00
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (73 bp):
TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
ACTACCAC
Found at i:1493182 original size:3 final size:3
Alignment explanation
Indices: 1493174--1493202 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1493164 ATTACATCCA
1493174 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1493203 ACATGTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1495245 original size:98 final size:98
Alignment explanation
Indices: 1495076--1495268 Score: 332
Period size: 98 Copynumber: 2.0 Consensus size: 98
1495066 CAATAAAACT
* *
1495076 TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATCCC
1 TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCAAACCCAATACGTTAGGGCACAATCCC
1495141 TTTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TTTAGAATCCCAAACTCGGAATATTTCCTTTAC
* * *
1495174 TTTAAAAGAACATCCACTTATCTAAGATTTAAGAAATCAAACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCAAACCCAATACGTTAGGGCACAATCCC
*
1495239 TTTAGAATCTCAAACTCGGAATATTTCCTT
66 TTTAGAATCCCAAACTCGGAATATTTCCTT
1495269 CATGATTTTT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCAAACCCAATACGTTAGGGCACAATCCC
TTTAGAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:1496220 original size:19 final size:20
Alignment explanation
Indices: 1496186--1496225 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
1496176 ATTTTATTTT
1496186 CAAAACCTTCTTTAAAAAAA
1 CAAAACCTTCTTTAAAAAAA
*
1496206 CAAATCCTT-TTTAAAAAAA
1 CAAAACCTTCTTTAAAAAAA
1496225 C
1 C
1496226 CTCTCAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.28
Consensus pattern (20 bp):
CAAAACCTTCTTTAAAAAAA
Found at i:1497317 original size:37 final size:37
Alignment explanation
Indices: 1497253--1497409 Score: 190
Period size: 37 Copynumber: 4.0 Consensus size: 37
1497243 TACGTATGAT
*
1497253 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
1497289 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
1497326 CACTTCTCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
1497369 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1497409 C
1 C
1497410 GAAGCTATCA
Statistics
Matches: 105, Mismatches: 6, Indels: 19
0.81 0.05 0.15
Matches are distributed among these distances:
36 10 0.10
37 53 0.50
39 2 0.02
40 4 0.04
41 1 0.01
42 1 0.01
43 3 0.03
44 2 0.02
46 29 0.28
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:1497393 original size:46 final size:46
Alignment explanation
Indices: 1497326--1497692 Score: 428
Period size: 46 Copynumber: 7.6 Consensus size: 46
1497316 TAAGTGTAGC
* * **
1497326 CACTTCTCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
1497372 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1497418 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
1497470 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
1497522 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * *
1497568 AACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
1497614 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
1497666 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
1497693 AGTACTCAAA
Statistics
Matches: 289, Mismatches: 19, Indels: 26
0.87 0.06 0.08
Matches are distributed among these distances:
46 153 0.53
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 129 0.45
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:1497445 original size:52 final size:52
Alignment explanation
Indices: 1497369--1497686 Score: 417
Period size: 52 Copynumber: 6.3 Consensus size: 52
1497359 TAGCTAAAGC
* *
1497369 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
1497422 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
1497474 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
1497526 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
1497572 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
1497618 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1497670 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
1497687 ATCAGAAGTA
Statistics
Matches: 238, Mismatches: 17, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
46 83 0.35
47 2 0.01
48 2 0.01
52 133 0.56
53 18 0.08
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:1497634 original size:196 final size:196
Alignment explanation
Indices: 1497326--1497678 Score: 589
Period size: 196 Copynumber: 1.8 Consensus size: 196
1497316 TAAGTGTAGC
* * * * * * *
1497326 CACTTCTCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
*
1497391 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
1497456 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
1497521 T
196 T
*
1497522 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
*
1497587 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
*
1497652 GTAGCTAAAGCTACCACTTATCACTTT
131 GTAGCCAAAGCTACCACTTATCACTTT
1497679 ATCACTTGAT
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 144 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (196 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
T
Found at i:1497682 original size:98 final size:97
Alignment explanation
Indices: 1497326--1497692 Score: 492
Period size: 98 Copynumber: 3.7 Consensus size: 97
1497316 TAAGTGTAGC
* * * *
1497326 CACTTCTCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACT
1497391 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
1497425 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT--A----
* *
1497490 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
59 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
1497529 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTTATCACTTG
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
*
1497589 ATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 ATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
1497621 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
1497686 GATCAGA
65 GATCAGA
1497693 AGTACTCAAA
Statistics
Matches: 238, Mismatches: 17, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
92 39 0.16
94 1 0.00
96 1 0.00
98 148 0.62
99 7 0.03
100 2 0.01
101 1 0.00
104 39 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:1500870 original size:49 final size:49
Alignment explanation
Indices: 1500815--1501009 Score: 309
Period size: 49 Copynumber: 4.0 Consensus size: 49
1500805 TTCGTTTTCT
* * *
1500815 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
* * *
1500864 CGATGCCATAGCCCAGCTATGGTCTTACACGGAGTCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
* *
1500913 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
1500962 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACA-AATCACAT
1501010 GTTCACATGT
Statistics
Matches: 136, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 130 0.96
50 6 0.04
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
Found at i:1502328 original size:37 final size:37
Alignment explanation
Indices: 1502264--1502420 Score: 190
Period size: 37 Copynumber: 4.0 Consensus size: 37
1502254 TACGTATGAT
*
1502264 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
1502300 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
1502337 CACTTCTCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
1502380 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1502420 C
1 C
1502421 GAAGCTATCA
Statistics
Matches: 105, Mismatches: 6, Indels: 19
0.81 0.05 0.15
Matches are distributed among these distances:
36 10 0.10
37 53 0.50
39 2 0.02
40 4 0.04
41 1 0.01
42 1 0.01
43 3 0.03
44 2 0.02
46 29 0.28
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:1502404 original size:46 final size:46
Alignment explanation
Indices: 1502337--1502703 Score: 428
Period size: 46 Copynumber: 7.6 Consensus size: 46
1502327 TAAGTGTAGC
* * **
1502337 CACTTCTCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
1502383 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1502429 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
1502481 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
1502533 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * *
1502579 AACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
1502625 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
1502677 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
1502704 AGTACTCAAA
Statistics
Matches: 289, Mismatches: 19, Indels: 26
0.87 0.06 0.08
Matches are distributed among these distances:
46 153 0.53
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 129 0.45
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:1502456 original size:52 final size:52
Alignment explanation
Indices: 1502380--1502697 Score: 417
Period size: 52 Copynumber: 6.3 Consensus size: 52
1502370 TAGCTAAAGC
* *
1502380 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
1502433 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
1502485 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
1502537 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
1502583 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
1502629 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1502681 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
1502698 ATCAGAAGTA
Statistics
Matches: 238, Mismatches: 17, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
46 83 0.35
47 2 0.01
48 2 0.01
52 133 0.56
53 18 0.08
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:1502645 original size:196 final size:196
Alignment explanation
Indices: 1502337--1502689 Score: 589
Period size: 196 Copynumber: 1.8 Consensus size: 196
1502327 TAAGTGTAGC
* * * * * * *
1502337 CACTTCTCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
*
1502402 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
1502467 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
1502532 T
196 T
*
1502533 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
*
1502598 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
*
1502663 GTAGCTAAAGCTACCACTTATCACTTT
131 GTAGCCAAAGCTACCACTTATCACTTT
1502690 ATCACTTGAT
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 144 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (196 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
T
Found at i:1502693 original size:98 final size:97
Alignment explanation
Indices: 1502337--1502703 Score: 492
Period size: 98 Copynumber: 3.7 Consensus size: 97
1502327 TAAGTGTAGC
* * * *
1502337 CACTTCTCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACT
1502402 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
1502436 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT--A----
* *
1502501 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
59 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
1502540 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTTATCACTTG
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
*
1502600 ATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 ATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
1502632 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
1502697 GATCAGA
65 GATCAGA
1502704 AGTACTCAAA
Statistics
Matches: 238, Mismatches: 17, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
92 39 0.16
94 1 0.00
96 1 0.00
98 148 0.62
99 7 0.03
100 2 0.01
101 1 0.00
104 39 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:1507402 original size:33 final size:34
Alignment explanation
Indices: 1507360--1507519 Score: 104
Period size: 33 Copynumber: 4.7 Consensus size: 34
1507350 ATGTGAAAGG
1507360 GGTTGCTAAGTGCTGATTCC-CCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCACCGAATCACTGGT
* * * * *
1507393 GGTTGCTAAGTGTTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCG-A--AT-CA-CT---GGT
* *
1507435 GGTTGCTAAGTACTGATTCCTCC--A--A--GG-
1 GGTTGCTAAGTGCTGATTCCACCGAATCACTGGT
*
1507462 GGTTGCTAAGTGCTGGTTCC-CCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCACCGAATCACTGGT
*
1507495 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCCACCGA
1507520 TAACGGACAA
Statistics
Matches: 97, Mismatches: 13, Indels: 33
0.68 0.09 0.23
Matches are distributed among these distances:
26 2 0.02
27 18 0.19
28 3 0.03
30 1 0.01
32 2 0.02
33 37 0.38
34 8 0.08
35 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
42 22 0.23
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (34 bp):
GGTTGCTAAGTGCTGATTCCACCGAATCACTGGT
Found at i:1507434 original size:74 final size:75
Alignment explanation
Indices: 1507282--1507454 Score: 258
Period size: 75 Copynumber: 2.3 Consensus size: 75
1507272 TGATTCCCCC
** * *
1507282 AAGGGGTTATTAAGTGCTGATT-CCCGACTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1507346 TTAAATGTGA
66 TTAAATGTGA
* * *
1507356 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGTTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1507421 TTAAATGTGA
66 TTAAATGTGA
* *
1507431 AGGGGGTTGCTAAGTACTGATTCC
1 AAGGGGTTGCTAAGTGCTGATTCC
1507455 TCCAAGGGGT
Statistics
Matches: 89, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
74 20 0.22
75 69 0.78
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
TTAAATGTGA
Found at i:1512790 original size:6 final size:6
Alignment explanation
Indices: 1512753--1512807 Score: 65
Period size: 6 Copynumber: 8.8 Consensus size: 6
1512743 ACCAACACAC
* *
1512753 CAGTAAA CAGTAA TCAGTAA CGGTAG CAGTAA CAGTAA CAGTAA CAGTAA
1 CAGT-AA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA
*
1512803 TAGTA
1 CAGTA
1512808 TTCAACACAC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
6 32 0.76
7 10 0.24
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (6 bp):
CAGTAA
Found at i:1512881 original size:45 final size:45
Alignment explanation
Indices: 1512787--1512887 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
1512777 AGCAGTAACA
* * *** *
1512787 GTAACAGTAACAGTAATAGTATTCAACACACAAAGTGTTGAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAATGCCAAATCG
* *
1512832 GTAACAGTAGCAGTAACAGTATTCGACACACAAAATGCCAAATCG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAATGCCAAATCG
1512877 GTAACAGTAAC
1 GTAACAGTAAC
1512888 GGTAGTCAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.22
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAATGCCAAATCG
Found at i:1527763 original size:17 final size:17
Alignment explanation
Indices: 1527741--1527775 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1527731 GCCCAATTTA
*
1527741 ACTAATGTTTTATGAAT
1 ACTAATGTTTAATGAAT
1527758 ACTAATGTTTAATGAAT
1 ACTAATGTTTAATGAAT
1527775 A
1 A
1527776 AACAACACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (17 bp):
ACTAATGTTTAATGAAT
Found at i:1528726 original size:21 final size:21
Alignment explanation
Indices: 1528702--1528745 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1528692 CTTGGACATA
1528702 TTTAAA-ACATAAGAATCAAAT
1 TTTAAAGACATAAGAAT-AAAT
* *
1528723 TTTAAAGCCATAATAATAAAT
1 TTTAAAGACATAAGAATAAAT
1528744 TT
1 TT
1528746 AGCCTTATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (21 bp):
TTTAAAGACATAAGAATAAAT
Found at i:1529021 original size:26 final size:26
Alignment explanation
Indices: 1528991--1529052 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
1528981 ATTATAGAAT
1528991 ATTCAAAAAA-TAAAAATAAATTTAAA
1 ATTCAAAAAATTAAAAA-AAATTTAAA
* * *
1529017 ATTCAAAAAATTATAAAAAGTTTATA
1 ATTCAAAAAATTAAAAAAAATTTAAA
1529043 ATTCAAAAAA
1 ATTCAAAAAA
1529053 AATAGCATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 27 0.84
27 5 0.16
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.29
Consensus pattern (26 bp):
ATTCAAAAAATTAAAAAAAATTTAAA
Found at i:1532031 original size:21 final size:21
Alignment explanation
Indices: 1532007--1532047 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1531997 TAACGGGACT
1532007 GCTGATGTGG-CAAGTTAACTA
1 GCTGATGTGGCCAA-TTAACTA
1532028 GCTGATGTGGCCAATTAACT
1 GCTGATGTGGCCAATTAACT
1532048 TGCCACGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (21 bp):
GCTGATGTGGCCAATTAACTA
Found at i:1535573 original size:106 final size:106
Alignment explanation
Indices: 1535413--1535625 Score: 390
Period size: 106 Copynumber: 2.0 Consensus size: 106
1535403 ATTATTCACT
1535413 AAATATTTGTAAAAATTGAGTCTAAAAAATAAAATCGAGCATTCAAATTCGTTATCTACAAAAGT
1 AAATATTTGTAAAAATTGAGTCTAAAAAATAAAATCGAGCATTCAAATTCGTTATCTACAAAAGT
*
1535478 AAAATAGATTCAGTTAATGAATGTTCATAGACAGAAGCGGA
66 AAAATAGATTCAATTAATGAATGTTCATAGACAGAAGCGGA
* * *
1535519 AAATATTTGTAAAAATTGAGTCTAAATAATAGAATCGAGCATTCAAATTTGTTATCTACAAAAGT
1 AAATATTTGTAAAAATTGAGTCTAAAAAATAAAATCGAGCATTCAAATTCGTTATCTACAAAAGT
1535584 AAAATAGATTCAATTAATGAATGTTCATAGACAGAAGCGGA
66 AAAATAGATTCAATTAATGAATGTTCATAGACAGAAGCGGA
1535625 A
1 A
1535626 GGTGAACAAT
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 103 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (106 bp):
AAATATTTGTAAAAATTGAGTCTAAAAAATAAAATCGAGCATTCAAATTCGTTATCTACAAAAGT
AAAATAGATTCAATTAATGAATGTTCATAGACAGAAGCGGA
Found at i:1537829 original size:254 final size:254
Alignment explanation
Indices: 1537380--1537891 Score: 1024
Period size: 254 Copynumber: 2.0 Consensus size: 254
1537370 TTTATTCGCC
1537380 GAATAGTCTTAGATTTATTCATAGATCACCTAACAGACATACATATAACATTCCATGTTTATTAA
1 GAATAGTCTTAGATTTATTCATAGATCACCTAACAGACATACATATAACATTCCATGTTTATTAA
1537445 AACGTGTCATGTTTGCATGACTTAAAATGGTAACAAAAGAATGTTTTGGAGTCTACTTTCATTGT
66 AACGTGTCATGTTTGCATGACTTAAAATGGTAACAAAAGAATGTTTTGGAGTCTACTTTCATTGT
1537510 TCTTCACTACTGAAATTTTAAGTACATATGAGTTCAAAAAGTGTACATAGTTACACAAATGAATC
131 TCTTCACTACTGAAATTTTAAGTACATATGAGTTCAAAAAGTGTACATAGTTACACAAATGAATC
1537575 TGCAAACTGTCATAGTTAATGGATCATGGAGTTGATTTCACAAGGGGTTCAAAGTTCTT
196 TGCAAACTGTCATAGTTAATGGATCATGGAGTTGATTTCACAAGGGGTTCAAAGTTCTT
1537634 GAATAGTCTTAGATTTATTCATAGATCACCTAACAGACATACATATAACATTCCATGTTTATTAA
1 GAATAGTCTTAGATTTATTCATAGATCACCTAACAGACATACATATAACATTCCATGTTTATTAA
1537699 AACGTGTCATGTTTGCATGACTTAAAATGGTAACAAAAGAATGTTTTGGAGTCTACTTTCATTGT
66 AACGTGTCATGTTTGCATGACTTAAAATGGTAACAAAAGAATGTTTTGGAGTCTACTTTCATTGT
1537764 TCTTCACTACTGAAATTTTAAGTACATATGAGTTCAAAAAGTGTACATAGTTACACAAATGAATC
131 TCTTCACTACTGAAATTTTAAGTACATATGAGTTCAAAAAGTGTACATAGTTACACAAATGAATC
1537829 TGCAAACTGTCATAGTTAATGGATCATGGAGTTGATTTCACAAGGGGTTCAAAGTTCTT
196 TGCAAACTGTCATAGTTAATGGATCATGGAGTTGATTTCACAAGGGGTTCAAAGTTCTT
1537888 GAAT
1 GAAT
1537892 TGATTTCACA
Statistics
Matches: 258, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
254 258 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (254 bp):
GAATAGTCTTAGATTTATTCATAGATCACCTAACAGACATACATATAACATTCCATGTTTATTAA
AACGTGTCATGTTTGCATGACTTAAAATGGTAACAAAAGAATGTTTTGGAGTCTACTTTCATTGT
TCTTCACTACTGAAATTTTAAGTACATATGAGTTCAAAAAGTGTACATAGTTACACAAATGAATC
TGCAAACTGTCATAGTTAATGGATCATGGAGTTGATTTCACAAGGGGTTCAAAGTTCTT
Found at i:1537898 original size:31 final size:32
Alignment explanation
Indices: 1537860--1537922 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
1537850 GATCATGGAG
1537860 TTGATTTCACAAGGGGTTC-AAAGTTCTTGAA
1 TTGATTTCACAAGGGGTTCAAAAGTTCTTGAA
1537891 TTGATTTCACAAGGGGTTCAAAAGTTCTTGAA
1 TTGATTTCACAAGGGGTTCAAAAGTTCTTGAA
1537923 CAATCCCCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 19 0.61
32 12 0.39
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (32 bp):
TTGATTTCACAAGGGGTTCAAAAGTTCTTGAA
Found at i:1538527 original size:20 final size:20
Alignment explanation
Indices: 1538498--1538554 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
1538488 ATTATAAGAA
1538498 TGTTTATTGAATGGAAATAT
1 TGTTTATTGAATGGAAATAT
* *
1538518 TGTTTTTTGAACGGAAATA-
1 TGTTTATTGAATGGAAATAT
1538537 --TTTATTGAATGGAAATAT
1 TGTTTATTGAATGGAAATAT
1538555 ATATAAACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 15 0.47
20 17 0.53
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (20 bp):
TGTTTATTGAATGGAAATAT
Found at i:1538550 original size:17 final size:17
Alignment explanation
Indices: 1538500--1538554 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
1538490 TATAAGAATG
1538500 TTTATTGAATGGAAATA
1 TTTATTGAATGGAAATA
* *
1538517 TTGTTTTTTGAACGGAAATA
1 ---TTTATTGAATGGAAATA
1538537 TTTATTGAATGGAAATA
1 TTTATTGAATGGAAATA
1538554 T
1 T
1538555 ATATAAACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 16 0.52
20 15 0.48
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (17 bp):
TTTATTGAATGGAAATA
Found at i:1538747 original size:6 final size:6
Alignment explanation
Indices: 1538736--1538771 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
1538726 AAGAATTTAA
1538736 TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG
1538772 AATCTTACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:1549209 original size:24 final size:24
Alignment explanation
Indices: 1549164--1549209 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
1549154 TCCTTATGCA
*
1549164 TGCATGTATGTATGTTGTTTGAAT
1 TGCATGTATGTATGTTGATTGAAT
1549188 TGCATGTGATGTATG-TGATTGA
1 TGCATGT-ATGTATGTTGATTGA
1549210 CCTAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.22, C:0.04, G:0.28, T:0.46
Consensus pattern (24 bp):
TGCATGTATGTATGTTGATTGAAT
Found at i:1554751 original size:12 final size:12
Alignment explanation
Indices: 1554736--1554763 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1554726 TCATTTTACC
1554736 ATTTTATTTAAT
1 ATTTTATTTAAT
1554748 ATTTTATTTAAT
1 ATTTTATTTAAT
1554760 ATTT
1 ATTT
1554764 AATATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTTATTTAAT
Found at i:1554762 original size:7 final size:7
Alignment explanation
Indices: 1554740--1554782 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
1554730 TTTACCATTT
1554740 TATTTAA
1 TATTTAA
1554747 TATTT--
1 TATTTAA
1554752 TATTTAA
1 TATTTAA
1554759 TATTTAA
1 TATTTAA
1554766 TATTTAA
1 TATTTAA
1554773 -A-TTAA
1 TATTTAA
1554778 TATTT
1 TATTT
1554783 TTTATATTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 9 0.28
6 2 0.06
7 21 0.66
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TATTTAA
Found at i:1554764 original size:19 final size:19
Alignment explanation
Indices: 1554740--1554782 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
1554730 TTTACCATTT
* *
1554740 TATTTAATATTTTATTTAA
1 TATTTAATATTTAAATTAA
1554759 TATTTAATATTTAAATTAA
1 TATTTAATATTTAAATTAA
1554778 TATTT
1 TATTT
1554783 TTTATATTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTAATATTTAAATTAA
Found at i:1554777 original size:12 final size:14
Alignment explanation
Indices: 1554740--1554782 Score: 58
Period size: 12 Copynumber: 3.4 Consensus size: 14
1554730 TTTACCATTT
1554740 TATTTAATATTT--
1 TATTTAATATTTAA
1554752 TATTTAATATTTAA
1 TATTTAATATTTAA
1554766 TATTTAA-A-TTAA
1 TATTTAATATTTAA
1554778 TATTT
1 TATTT
1554783 TTTATATTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 21 0.72
13 1 0.03
14 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTTAATATTTAA
Found at i:1557765 original size:14 final size:14
Alignment explanation
Indices: 1557746--1557785 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
1557736 TTGATTGCCA
1557746 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
1557760 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
1557774 GGAAAATGTTTT
1 GTAAAATGTTTT
1557786 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:1557794 original size:20 final size:20
Alignment explanation
Indices: 1557769--1557808 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1557759 CGTAAAATGA
*
1557769 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
1557789 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
1557809 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:1557798 original size:34 final size:35
Alignment explanation
Indices: 1557754--1557820 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
1557744 CAGTAAAATG
* *
1557754 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
1557788 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
1557821 TTGCTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:1558976 original size:18 final size:16
Alignment explanation
Indices: 1558925--1558976 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
1558915 TGTTAAGATG
* *
1558925 ATTATATAAAAAATTTT
1 ATTAAATAAAAAA-TAT
*
1558942 AATAAATAAAAAATAT
1 ATTAAATAAAAAATAT
1558958 ATTAAATTAAAATAATAT
1 ATTAAA-TAAAA-AATAT
1558976 A
1 A
1558977 AATATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 7 0.24
17 16 0.55
18 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTAAATAAAAAATAT
Found at i:1568786 original size:31 final size:31
Alignment explanation
Indices: 1568722--1568787 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
1568712 AACTGCCCAA
* *
1568722 TGACTTAAATAAAAACTTTTCAATAGTTTAG
1 TGACTTAAATAAAAACTTTTCAATAGCTCAG
*
1568753 TGACTTAAATAAAAAC-TTTCGAATTGCTCAG
1 TGACTTAAATAAAAACTTTTC-AATAGCTCAG
1568784 TGAC
1 TGAC
1568788 CATTTTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTCAATAGCTCAG
Found at i:1573817 original size:14 final size:14
Alignment explanation
Indices: 1573785--1573828 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
1573775 ATTCTTAACA
1573785 AATATTTAGATT-A-
1 AATATTTA-ATTAAT
1573798 AATATTTAATTAAT
1 AATATTTAATTAAT
1573812 AATATTTAATTAAT
1 AATATTTAATTAAT
1573826 AAT
1 AAT
1573829 TTAAATGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 3 0.10
13 9 0.31
14 17 0.59
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
AATATTTAATTAAT
Found at i:1583691 original size:24 final size:25
Alignment explanation
Indices: 1583623--1583684 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
1583613 CAAACATGCA
1583623 AACGAGAAGCTCAAATGAGCCATGT
1 AACGAGAAGCTCAAATGAGCCATGT
*
1583648 AACGGGAAGCTCAAATGAGCCAT-T
1 AACGAGAAGCTCAAATGAGCCATGT
1583672 AACGAGAAGCTCA
1 AACGAGAAGCTCA
1583685 TACGAGCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 13 0.37
25 22 0.63
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.15
Consensus pattern (25 bp):
AACGAGAAGCTCAAATGAGCCATGT
Found at i:1583777 original size:27 final size:25
Alignment explanation
Indices: 1583745--1583794 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
1583735 GAGAGCTAAA
1583745 TAATCGGAAAGCTCATGAAAGAGCCTT
1 TAATCGGAAAGCTC-TG-AAGAGCCTT
*
1583772 TAATCGGGAAGCTCTGAAGAGCC
1 TAATCGGAAAGCTCTGAAGAGCC
1583795 ATATATCGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
26 2 0.09
27 13 0.59
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (25 bp):
TAATCGGAAAGCTCTGAAGAGCCTT
Found at i:1583802 original size:25 final size:26
Alignment explanation
Indices: 1583713--1583804 Score: 77
Period size: 25 Copynumber: 3.6 Consensus size: 26
1583703 AGGTTCAAGT
*
1583713 GAGCCA-AT-ATCGGGAAGCT-TCGGA
1 GAGCCATATAATCGGGAAGCTCT-GAA
* * *
1583737 GAGCTAAATAATCGGAAAGCTCATGAAA
1 GAGCCATATAATCGGGAAGCTC-TG-AA
*
1583765 GAGCC-TTTAATCGGGAAGCTCTGAA
1 GAGCCATATAATCGGGAAGCTCTGAA
1583790 GAGCCATAT-ATCGGG
1 GAGCCATATAATCGGG
1583805 TCGCTCATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
24 5 0.09
25 15 0.28
26 14 0.26
27 14 0.26
28 6 0.11
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (26 bp):
GAGCCATATAATCGGGAAGCTCTGAA
Found at i:1584240 original size:21 final size:21
Alignment explanation
Indices: 1584214--1584264 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1584204 TATACGAATG
*
1584214 AATTTAACA-TCAATTTAATAC
1 AATTT-ACATTCAATTCAATAC
*
1584235 AATTTACATTCAATTCAATCC
1 AATTTACATTCAATTCAATAC
*
1584256 AATTCACAT
1 AATTTACAT
1584265 ATTAGGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (21 bp):
AATTTACATTCAATTCAATAC
Found at i:1584792 original size:17 final size:17
Alignment explanation
Indices: 1584762--1584794 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1584752 AAAATATGAT
1584762 ATTTTCATTATTTTATC
1 ATTTTCATTATTTTATC
1584779 ATTTATCATT-TTTTAT
1 ATTT-TCATTATTTTAT
1584795 TTTTTTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTCATTATTTTATC
Found at i:1587738 original size:43 final size:43
Alignment explanation
Indices: 1587677--1587769 Score: 143
Period size: 43 Copynumber: 2.1 Consensus size: 43
1587667 AGAATCAACG
1587677 CATTAAGAGAGAGGAAGTGGATGAAGTGGAACCACCA-TTGACA
1 CATTAAGAGAGAGGAAGTGGATGAAG-GGAACCACCACTTGACA
* *
1587720 CATTAAGGGAGAGGAAGTGGATGAAGGGAACCGCCACTTTGACA
1 CATTAAGAGAGAGGAAGTGGATGAAGGGAACCACCAC-TTGACA
1587764 CATTAA
1 CATTAA
1587770 CTAGTACCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 9 0.20
43 25 0.54
44 12 0.26
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.17
Consensus pattern (43 bp):
CATTAAGAGAGAGGAAGTGGATGAAGGGAACCACCACTTGACA
Found at i:1588476 original size:18 final size:19
Alignment explanation
Indices: 1588453--1588488 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1588443 CTTTTAAAAA
1588453 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
1588471 TATAAATATTTTGAATTT
1 TATAAATATTTAGAATTT
1588489 AAAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:1588477 original size:24 final size:26
Alignment explanation
Indices: 1588429--1588479 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
1588419 TTGATTTTAT
*
1588429 TAAATTTTCATAATCTTTTAAAAATA
1 TAAATTTTCAGAATCTTTTAAAAATA
*
1588455 TAAATTTT-AGAAT-TTTTATAAATA
1 TAAATTTTCAGAATCTTTTAAAAATA
1588479 T
1 T
1588480 TTTGAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
25 4 0.17
26 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (26 bp):
TAAATTTTCAGAATCTTTTAAAAATA
Found at i:1588525 original size:20 final size:20
Alignment explanation
Indices: 1588494--1588540 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
1588484 AATTTAAAAA
1588494 AAAATATATTTTAAATTTTTG
1 AAAAT-TATTTTAAATTTTTG
* * *
1588515 AAAATTATTTTGATTTTTTT
1 AAAATTATTTTAAATTTTTG
1588535 AAAATT
1 AAAATT
1588541 TTTGTTGGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
AAAATTATTTTAAATTTTTG
Found at i:1592971 original size:31 final size:31
Alignment explanation
Indices: 1592935--1592993 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
1592925 TAAAAGCCAG
1592935 TGACTT-AATTGAAAACTTTTGAATAATTCGA
1 TGACTTAAATT-AAAACTTTTGAATAATTCGA
1592966 TGACTTAAATTAAAACTTTTGAATAATT
1 TGACTTAAATTAAAACTTTTGAATAATT
1592994 TAGTGACCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (31 bp):
TGACTTAAATTAAAACTTTTGAATAATTCGA
Found at i:1596438 original size:26 final size:27
Alignment explanation
Indices: 1596409--1596468 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
1596399 CATTATTATG
* *
1596409 ATTTTGTCCGTATTTTTTGTAG-TTTT
1 ATTTTATCCATATTTTTTGTAGTTTTT
*
1596435 ATTTTATCCATATTTTTTGTGGTTTTT
1 ATTTTATCCATATTTTTTGTAGTTTTT
1596462 ATTTTAT
1 ATTTTAT
1596469 TTACTCTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.15, C:0.07, G:0.12, T:0.67
Consensus pattern (27 bp):
ATTTTATCCATATTTTTTGTAGTTTTT
Found at i:1598547 original size:14 final size:15
Alignment explanation
Indices: 1598528--1598561 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
1598518 AAATAATCTC
1598528 CAAAAAAGAGAAGGG
1 CAAAAAAGAGAAGGG
1598543 CAAAAAAGAGAAGGG
1 CAAAAAAGAGAAGGG
1598558 CAAA
1 CAAA
1598562 CTATCAGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.62, C:0.09, G:0.29, T:0.00
Consensus pattern (15 bp):
CAAAAAAGAGAAGGG
Found at i:1608671 original size:20 final size:22
Alignment explanation
Indices: 1608647--1608698 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
1608637 TATATATTTT
*
1608647 AAAAAATTAT-TATA-AAATTA
1 AAAAAATTATATAAAGAAATTA
*
1608667 TAAAAATATATATAAAGAAATTA
1 AAAAAAT-TATATAAAGAAATTA
1608690 AAAAAATTA
1 AAAAAATTA
1608699 AAAAGTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 6 0.23
21 3 0.12
22 5 0.19
23 12 0.46
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAAATTATATAAAGAAATTA
Found at i:1609998 original size:24 final size:24
Alignment explanation
Indices: 1609948--1610016 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
1609938 GATAATAATT
*
1609948 TAAATAAATAATATATATACA-TAAAA
1 TAAATAAA-AA-ATAT-TACATTCAAA
* *
1609974 TATAATCATAAAT-TTACATTCAAA
1 TA-AATAAAAAATATTACATTCAAA
1609998 TAAATAAAAAATATTACAT
1 TAAATAAAAAATATTACAT
1610017 ATAAAATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
23 12 0.34
24 13 0.37
25 2 0.06
26 4 0.11
27 4 0.11
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAATAAAAAATATTACATTCAAA
Found at i:1610571 original size:72 final size:72
Alignment explanation
Indices: 1610485--1610630 Score: 292
Period size: 72 Copynumber: 2.0 Consensus size: 72
1610475 GCCAAATCAC
1610485 AACAAAACCCATAGACGAATTATTATTCCAAGGGACCTTATCACAAGCATGAAAAATGATGGATG
1 AACAAAACCCATAGACGAATTATTATTCCAAGGGACCTTATCACAAGCATGAAAAATGATGGATG
1610550 GTCCCAA
66 GTCCCAA
1610557 AACAAAACCCATAGACGAATTATTATTCCAAGGGACCTTATCACAAGCATGAAAAATGATGGATG
1 AACAAAACCCATAGACGAATTATTATTCCAAGGGACCTTATCACAAGCATGAAAAATGATGGATG
1610622 GTCCCAA
66 GTCCCAA
1610629 AA
1 AA
1610631 AATACTCCCA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (72 bp):
AACAAAACCCATAGACGAATTATTATTCCAAGGGACCTTATCACAAGCATGAAAAATGATGGATG
GTCCCAA
Found at i:1624169 original size:13 final size:13
Alignment explanation
Indices: 1624153--1624177 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1624143 TTAATCAAAT
1624153 TTTTTGTTTTTTG
1 TTTTTGTTTTTTG
1624166 TTTTTGTTTTTT
1 TTTTTGTTTTTT
1624178 TTAATTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTGTTTTTTG
Found at i:1624177 original size:54 final size:55
Alignment explanation
Indices: 1624112--1624254 Score: 182
Period size: 56 Copynumber: 2.6 Consensus size: 55
1624102 TTTATCAATC
* *
1624112 TTTTTGTTTTTTAATTATTTGTGTTTCCATTTTAATCAAATTTTTTGTTTTT-TG
1 TTTTTGTTTTTTAATTATTTGTGTTTCCATTTTAACCAAACTTTTTGTTTTTATG
* *
1624166 TTTTTGTTTTTTTTAATTATTTGTGTTTCCATTTGAACCAACCTTTTTGTTTTTATG
1 TTTTTG--TTTTTTAATTATTTGTGTTTCCATTTTAACCAAACTTTTTGTTTTTATG
* ** *
1624223 CTTTT-TTTTAGATTTATTTGTGTTTCCATTTT
1 TTTTTGTTTTTTAATTATTTGTGTTTCCATTTT
1624255 TAAAACAATG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
54 29 0.38
56 42 0.55
57 6 0.08
ACGTcount: A:0.15, C:0.08, G:0.10, T:0.66
Consensus pattern (55 bp):
TTTTTGTTTTTTAATTATTTGTGTTTCCATTTTAACCAAACTTTTTGTTTTTATG
Found at i:1624552 original size:17 final size:19
Alignment explanation
Indices: 1624532--1624572 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
1624522 ATATATTTTA
*
1624532 AAAATATA-TAATA-CATC
1 AAAATATACTAAAAGCATC
1624549 AAAA-ATACTAAAAGCATC
1 AAAATATACTAAAAGCATC
1624567 AAAATA
1 AAAATA
1624573 AATGCTTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 8 0.40
19 1 0.05
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAATATACTAAAAGCATC
Found at i:1625086 original size:20 final size:20
Alignment explanation
Indices: 1625058--1625095 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1625048 GTAAAATATC
*
1625058 TAATGGTCATTTTCTATTCT
1 TAATAGTCATTTTCTATTCT
1625078 TAATAGTCATTTTCTATT
1 TAATAGTCATTTTCTATT
1625096 ATCACATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.13, G:0.08, T:0.55
Consensus pattern (20 bp):
TAATAGTCATTTTCTATTCT
Found at i:1631310 original size:30 final size:31
Alignment explanation
Indices: 1631274--1631382 Score: 98
Period size: 30 Copynumber: 3.5 Consensus size: 31
1631264 ATTTTTTTAT
1631274 TTTTTTAATTTTAAAATACTTTTTAAAA-A-A
1 TTTTTTAATTTTAAAAT-CTTTTTAAAATACA
* * *
1631304 TTTTTTAATTTTAACATTTTTTTAAAATACT
1 TTTTTTAATTTTAAAATCTTTTTAAAATACA
*** ** *
1631335 TTTTTTAATTTT-TTTTAATTTTAAAATACT
1 TTTTTTAATTTTAAAATCTTTTTAAAATACA
1631365 TTTTTTAATTTTTAAAAT
1 TTTTTTAA-TTTTAAAAT
1631383 AATTTTTTAG
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
29 9 0.14
30 38 0.59
31 16 0.25
32 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTTTAATTTTAAAATCTTTTTAAAATACA
Found at i:1631367 original size:21 final size:22
Alignment explanation
Indices: 1631340--1631390 Score: 79
Period size: 20 Copynumber: 2.4 Consensus size: 22
1631330 ATACTTTTTT
1631340 TAATTTTTTTTAA-TTTTAAAA
1 TAATTTTTTTTAATTTTTAAAA
*
1631361 T-ACTTTTTTTAATTTTTAAAA
1 TAATTTTTTTTAATTTTTAAAA
1631382 TAATTTTTT
1 TAATTTTTT
1631391 AGTATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 10 0.38
21 10 0.38
22 6 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TAATTTTTTTTAATTTTTAAAA
Found at i:1631369 original size:20 final size:21
Alignment explanation
Indices: 1631344--1631390 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
1631334 TTTTTTTAAT
*
1631344 TTTTTTTAA-TTTTAAAATAC
1 TTTTTTTAATTTTTAAAATAA
1631364 TTTTTTTAATTTTTAAAATAA
1 TTTTTTTAATTTTTAAAATAA
1631385 TTTTTT
1 TTTTTT
1631391 AGTATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTTTAATTTTTAAAATAA
Found at i:1632581 original size:19 final size:17
Alignment explanation
Indices: 1632552--1632596 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
1632542 CAATTCAATC
* *
1632552 AAAAAACATTAAAATTTT
1 AAAAAAAATTAAAA-ATT
1632570 ATAAAAAAATTAAAAATT
1 A-AAAAAAATTAAAAATT
1632588 AAAAAAAAT
1 AAAAAAAAT
1632597 ATGATTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.33
18 4 0.17
19 12 0.50
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAAAAATTAAAAATT
Found at i:1634910 original size:94 final size:94
Alignment explanation
Indices: 1634810--1634984 Score: 314
Period size: 94 Copynumber: 1.9 Consensus size: 94
1634800 AGGCCTTGAT
*
1634810 ATATATATATTAAAATCAAACTACAGCCTGATCCAATCCAACCTAAACTTCTTCATGGATTCAGC
1 ATATATATATTAAAATCAAACTACAACCTGATCCAATCCAACCTAAACTTCTTCATGGATTCAGC
1634875 TACCTATCCAAACTTGGGCCTAGACGTAC
66 TACCTATCCAAACTTGGGCCTAGACGTAC
* * *
1634904 ATATATATTTTAAAATCAAGCTACAACCTGATCCAATCCAACCTAAACTTGTTCATGGATTCAGC
1 ATATATATATTAAAATCAAACTACAACCTGATCCAATCCAACCTAAACTTCTTCATGGATTCAGC
1634969 TACCTATCCAAACTTG
66 TACCTATCCAAACTTG
1634985 AATATTTGCT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 77 1.00
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (94 bp):
ATATATATATTAAAATCAAACTACAACCTGATCCAATCCAACCTAAACTTCTTCATGGATTCAGC
TACCTATCCAAACTTGGGCCTAGACGTAC
Found at i:1640325 original size:31 final size:31
Alignment explanation
Indices: 1640257--1640318 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
1640247 TGGTCATTTG
*
1640257 AACTATTCGAAAGTTTTCATTTAAGTCACTA
1 AACTATTCAAAAGTTTTCATTTAAGTCACTA
* *
1640288 AACTATTCAAAAGTTTTTATTTACGTCACTA
1 AACTATTCAAAAGTTTTCATTTAAGTCACTA
1640319 GGCTATTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.40
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATTTAAGTCACTA
Found at i:1640951 original size:19 final size:20
Alignment explanation
Indices: 1640922--1640959 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
1640912 TTTTTGTCAA
1640922 AATTGGTCCCTAAATTTAAC
1 AATTGGTCCCTAAATTTAAC
1640942 AATT-GTCCCTAAATTTAA
1 AATTGGTCCCTAAATTTAA
1640960 AAATCGGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (20 bp):
AATTGGTCCCTAAATTTAAC
Found at i:1644427 original size:23 final size:24
Alignment explanation
Indices: 1644386--1644431 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
1644376 TACCAACTGG
1644386 GAAAAAAAACTTCAAGTATCAAATT
1 GAAAAAAAAC-TCAAGTATCAAATT
*
1644411 GAAAAAAAA-TCAGGTATCAAA
1 GAAAAAAAACTCAAGTATCAAA
1644432 GTGATTATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
25 9 0.45
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.20
Consensus pattern (24 bp):
GAAAAAAAACTCAAGTATCAAATT
Found at i:1646927 original size:150 final size:150
Alignment explanation
Indices: 1646656--1646958 Score: 597
Period size: 150 Copynumber: 2.0 Consensus size: 150
1646646 AAAGGTGTGG
1646656 GATACCAGAATTGGCTATGCTTTGGGATCTTTTTTTTGAGTTCGTTTTTGAATTTCATGTATTAA
1 GATACCAGAATTGGCTATGCTTTGGGATCTTTTTTTTGAGTTCGTTTTTGAATTTCATGTATTAA
*
1646721 TAGAACTATTTTGCTTTTCAAAATATATTCTGCCATATAGTGTTGCATGCTGTATTTATTACAAA
66 TAGAACTATTTTGCTTTTCAAAATATATTCTGCCATATAGTATTGCATGCTGTATTTATTACAAA
1646786 CATTCAGATCTCTTGCTAGT
131 CATTCAGATCTCTTGCTAGT
1646806 GATACCAGAATTGGCTATGCTTTGGGATCTTTTTTTTGAGTTCGTTTTTGAATTTCATGTATTAA
1 GATACCAGAATTGGCTATGCTTTGGGATCTTTTTTTTGAGTTCGTTTTTGAATTTCATGTATTAA
1646871 TAGAACTATTTTGCTTTTCAAAATATATTCTGCCATATAGTATTGCATGCTGTATTTATTACAAA
66 TAGAACTATTTTGCTTTTCAAAATATATTCTGCCATATAGTATTGCATGCTGTATTTATTACAAA
1646936 CATTCAGATCTCTTGCTAGT
131 CATTCAGATCTCTTGCTAGT
1646956 GAT
1 GAT
1646959 TGCTCTTCTT
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 152 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.45
Consensus pattern (150 bp):
GATACCAGAATTGGCTATGCTTTGGGATCTTTTTTTTGAGTTCGTTTTTGAATTTCATGTATTAA
TAGAACTATTTTGCTTTTCAAAATATATTCTGCCATATAGTATTGCATGCTGTATTTATTACAAA
CATTCAGATCTCTTGCTAGT
Found at i:1655816 original size:24 final size:22
Alignment explanation
Indices: 1655785--1655834 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
1655775 ATTTTTCAGC
* *
1655785 TTTTCTTGACTTTGGGTTTTCAT
1 TTTTCTTGAATTT-CGTTTTCAT
*
1655808 TTTTACTTGAATTTCTTTTTCAT
1 TTTT-CTTGAATTTCGTTTTCAT
1655831 TTTT
1 TTTT
1655835 TTTAAGGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.12, C:0.12, G:0.10, T:0.66
Consensus pattern (22 bp):
TTTTCTTGAATTTCGTTTTCAT
Found at i:1658078 original size:159 final size:160
Alignment explanation
Indices: 1657725--1658167 Score: 475
Period size: 159 Copynumber: 2.8 Consensus size: 160
1657715 ATTGGTTTTT
* * * * *
1657725 CCTCTTGAAAATTCTCAGAAAATTTTCACAGATTCACTCAAAGGAAATATAGAAAGAGCAAAAGG
1 CCTCTTGCAAATTCCCAGAAAATTTTCACAAATT-ACTC-AAGGAAATACAGCAAGAGCAAAAGG
* * ** **
1657790 GTATCAGAATTGGTTTCCCTTCATGCAAATTCCAAGAAAATTTTCACAAATTACTCAAGGAAATA
64 GTATCAGAATTGATTTCCC-TCATGCAAATTCCCAGAAAAAATTCACAAAGAACTCAAGGAAATA
* * *
1657855 CAGCAAGAACAAAAAGGGCACAAACTAGTTTTC
128 CAGCAAGAACAAAAAGGACACAAACTAGTGTCC
** * * * *
1657888 CCTCAAGCGATTTCCCAGAAAATTTTCACAAATTACTCAAGCAAATACAGCAAGAGCAAAAGGGA
1 CCTCTTGCAAATTCCCAGAAAATTTTCACAAATTACTCAAGGAAATACAGCAAGAGCAAAAGGGT
* * *
1657953 ATCAAAAATTGTTTTCCCTCATGCAAATTCCCAGAAAAAATTCACAGAGAACT-AAGGAAATACA
66 ATC-AGAATTGATTTCCCTCATGCAAATTCCCAGAAAAAATTCACAAAGAACTCAAGGAAATACA
* * * *
1658017 GCAA-AAGC-AAACGGATATCAAATTTG-GTCC
130 GCAAGAA-CAAAAAGGACA-CAAACTAGTGTCC
* *
1658047 CCTCTTGCAAATTCCCAGAAAATTTTCACAAATTACTAAAGGAAATACAGCAAAAGCAAAAGGGT
1 CCTCTTGCAAATTCCCAGAAAATTTTCACAAATTACTCAAGGAAATACAGCAAGAGCAAAAGGGT
* * **
1658112 ATC-GAATTGATTTCTCC-CATTCAAATTCCCAGAAAAATTTTCACAAATTACTCAAG
66 ATCAGAATTGATTTC-CCTCATGCAAATTCCCAGAAAAA-ATTCACAAAGAACTCAAG
1658168 AAAAACTTAT
Statistics
Matches: 233, Mismatches: 41, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
157 28 0.12
158 12 0.05
159 73 0.31
160 22 0.09
161 55 0.24
162 16 0.07
163 27 0.12
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (160 bp):
CCTCTTGCAAATTCCCAGAAAATTTTCACAAATTACTCAAGGAAATACAGCAAGAGCAAAAGGGT
ATCAGAATTGATTTCCCTCATGCAAATTCCCAGAAAAAATTCACAAAGAACTCAAGGAAATACAG
CAAGAACAAAAAGGACACAAACTAGTGTCC
Found at i:1658138 original size:79 final size:79
Alignment explanation
Indices: 1657719--1658163 Score: 452
Period size: 80 Copynumber: 5.5 Consensus size: 79
1657709 AACATCATTG
* * * * * *
1657719 GTTTTTCCTCTTGAAAATTCTCAGAAAATTTTCACAGATTCACTCAAAGGAAATATAG-AAAGAG
1 GTTTTCCCTCATGCAAATTCCCAGAAAATTTTCACAAATT-ACT-AAAGGAAATACAGCAAA-AG
1657783 CAAAAGGGTATCAGAATT
63 CAAAAGGGTATCA-AATT
* * *
1657801 GGTTTCCCTTCATGCAAATTCCAAGAAAATTTTCACAAATTACTCAAGGAAATACAGCAAGAA-C
1 GTTTTCCC-TCATGCAAATTCCCAGAAAATTTTCACAAATTACTAAAGGAAATACAGCAA-AAGC
* *
1657865 AAAAAGGGCA-CAAACTA
64 -AAAAGGGTATCAAA-TT
* * * * * *
1657882 GTTTTCCCTCAAGCGATTTCCCAGAAAATTTTCACAAATTACTCAAGCAAATACAGCAAGAGCAA
1 GTTTTCCCTCATGCAAATTCCCAGAAAATTTTCACAAATTACTAAAGGAAATACAGCAAAAGCAA
*
1657947 AAGGGAATCAAAAATT
66 AAGGGTATC--AAATT
** * **
1657963 GTTTTCCCTCATGCAAATTCCCAGAAAAAATTCACAGAGAACT-AAGGAAATACAGCAAAAGCAA
1 GTTTTCCCTCATGCAAATTCCCAGAAAATTTTCACAAATTACTAAAGGAAATACAGCAAAAGCAA
* *
1658027 ACGGATATCAAATT
66 AAGGGTATCAAATT
* * *
1658041 -TGGTCCCCTCTTGCAAATTCCCAGAAAATTTTCACAAATTACTAAAGGAAATACAGCAAAAGCA
1 GT-TTTCCCTCATGCAAATTCCCAGAAAATTTTCACAAATTACTAAAGGAAATACAGCAAAAGCA
*
1658105 AAAGGGTATCGAATT
65 AAAGGGTATCAAATT
* *
1658120 GATTTCTCC-CATTCAAATTCCCAGAAAAATTTTCACAAATTACT
1 GTTTTC-CCTCATGCAAATTCCCAG-AAAATTTTCACAAATTACT
1658164 CAAGAAAAAC
Statistics
Matches: 300, Mismatches: 49, Indels: 30
0.79 0.13 0.08
Matches are distributed among these distances:
77 1 0.00
78 38 0.13
79 56 0.19
80 96 0.32
81 58 0.19
82 23 0.08
83 28 0.09
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (79 bp):
GTTTTCCCTCATGCAAATTCCCAGAAAATTTTCACAAATTACTAAAGGAAATACAGCAAAAGCAA
AAGGGTATCAAATT
Found at i:1666539 original size:159 final size:155
Alignment explanation
Indices: 1666102--1666837 Score: 684
Period size: 159 Copynumber: 4.9 Consensus size: 155
1666092 AGGAAGTAAC
* * * * * **
1666102 AAAAAACAAGGCAATTAGAGTGAAGGGTATCGAAATAAAATTGAAAAAAAAAACACACAAAAACC
1 AAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAATTTGAAAAAAAAAAAAAAC-CTAACC
* *
1666167 CAGAGTCAAGAACACCATGAAAGATCAAATGCTCAAGCGAATAACCAATAAAACAGA-GA-TTTC
65 CAGAGCCAAGAACACCATGAAAGATCAAATGCTCAAGCGAATAACCAATAAAA-AAATGATTTTC
* * *
1666230 AGCAAAATTAGAGATATGAAGTT-----
129 AGCAAAA-TCGAGCTAAGAAGTTAAAAA
*
1666253 AAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAATTTG--AAAAAAAAAAAACCTAACTC
1 AAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAATTTGAAAAAAAAAAAAAACCTAACCC
* * * * *
1666316 AGAGCCAAGAACACCATGACAGATCAAATGCTCAAACGAACAACCAATATAACAATGATTTTCAG
66 AGAGCCAAGAACACCATGAAAGATCAAATGCTCAAGCGAATAACCAATAAAAAAATGATTTTCAG
*
1666381 CAAAATCGAGCTAGGAAGTTTTAAAAA
131 CAAAATCGAGCTAAGAAG--TTAAAAA
* * *
1666408 AAAAAACCAAGGCAATTAGACTAAAGAGTATTGAGATAAATTTGAAAAGAAAAAAAAAACCTAAC
1 AAAAAA-CAAGGCAATTAGAGTAAAGGGTATTGAAATAAATTTGAAAA-AAAAAAAAAACCTAAC
* * *
1666473 GCAGAGCCAAAAACACCATGAAAGATCAAATGCTCAAGCGAATAACCAATAAAAAAATTATTTTC
64 CCAGAGCCAAGAACACCATGAAAGATCAAATGCTCAAGCGAATAACCAATAAAAAAATGATTTTC
* *
1666538 AGCGAAATCGAACTAAGAAG-TAAAAA
129 AGCAAAATCGAGCTAAGAAGTTAAAAA
*
1666564 AAAAAA-AAGGCAATTAGAGTAAAGGGTATTGGAATAAATTTG----AAAAAAAAAA---AACCC
1 AAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAATTTGAAAAAAAAAAAAAACCTAACCC
* *** ** * * * **
1666621 AGAGCCAAGAATC-TCACCCAATCTCGAATGCTCAAACGAACAACCAATAAATCAATGATTTTCA
66 AGAGCCAAGAA-CACCATGAAAGATCAAATGCTCAAGCGAATAACCAATAAAAAAATGATTTTCA
*
1666685 GCAAATTCGAGCTAAGAAGTT---AA
130 GCAAAATCGAGCTAAGAAGTTAAAAA
* * * * * * *
1666708 AAAAAATAAGGCAATTATACTAAAGGGAATTGAAATAAATTCG----AAAAAACACA-CTAACCC
1 AAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAATTTGAAAAAAAAAAAAAACCTAACCC
* * ** * * *
1666768 AAAGCCAAGAATC-TCACCAAAGCTCAAATGCTCAAACGAACAACCAA-AAACAACAATGATTTT
66 AGAGCCAAGAA-CACCATGAAAGATCAAATGCTCAAGCGAATAACCAATAAA-AA-AATGATTTT
1666831 CAGCAAA
128 CAGCAAA
1666838 TTCTAGCTGG
Statistics
Matches: 499, Mismatches: 66, Indels: 43
0.82 0.11 0.07
Matches are distributed among these distances:
144 8 0.02
145 39 0.08
146 72 0.14
147 51 0.10
148 79 0.16
149 32 0.06
150 2 0.00
151 40 0.08
154 32 0.06
155 6 0.01
156 46 0.09
158 2 0.00
159 90 0.18
ACGTcount: A:0.52, C:0.16, G:0.14, T:0.17
Consensus pattern (155 bp):
AAAAAACAAGGCAATTAGAGTAAAGGGTATTGAAATAAATTTGAAAAAAAAAAAAAACCTAACCC
AGAGCCAAGAACACCATGAAAGATCAAATGCTCAAGCGAATAACCAATAAAAAAATGATTTTCAG
CAAAATCGAGCTAAGAAGTTAAAAA
Found at i:1667791 original size:31 final size:31
Alignment explanation
Indices: 1667756--1667816 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
1667746 GTAATTATAC
* * *
1667756 ACATGATATTTTAATTTTGGTTCAAATGTAT
1 ACATGAAACTTTAATTTTGATTCAAATGTAT
* *
1667787 ACATGAAACTTTGATTTTGATTCAATTGTA
1 ACATGAAACTTTAATTTTGATTCAAATGTA
1667817 CATATTTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (31 bp):
ACATGAAACTTTAATTTTGATTCAAATGTAT
Found at i:1673739 original size:60 final size:60
Alignment explanation
Indices: 1673671--1673786 Score: 196
Period size: 60 Copynumber: 1.9 Consensus size: 60
1673661 AAATTGAATA
*
1673671 GTTAGGTGACCAAAAAATAAATGTACTAATAGTTGAGTGACCATTTTGTAACTTTTTATT
1 GTTAGGTGACCAAAAAAGAAATGTACTAATAGTTGAGTGACCATTTTGTAACTTTTTATT
* * *
1673731 GTTAGGTGACCAAAGAAGAAATTTACTAATAGTTGAGTGACTATTTTGTAACTTTT
1 GTTAGGTGACCAAAAAAGAAATGTACTAATAGTTGAGTGACCATTTTGTAACTTTT
1673787 CATAGTCGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (60 bp):
GTTAGGTGACCAAAAAAGAAATGTACTAATAGTTGAGTGACCATTTTGTAACTTTTTATT
Found at i:1677537 original size:30 final size:28
Alignment explanation
Indices: 1677488--1677546 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 28
1677478 AAAGTGATTT
*
1677488 AAATGAAATAATTAGGGCTAAAATGATA
1 AAATGAAAAAATTAGGGCTAAAATGATA
*
1677516 AAATGAAAAATATTAGAGGCTAAAATTATA
1 AAATGAAAAA-ATTAG-GGCTAAAATGATA
1677546 A
1 A
1677547 TTAAGCATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 9 0.33
29 5 0.19
30 13 0.48
ACGTcount: A:0.56, C:0.03, G:0.15, T:0.25
Consensus pattern (28 bp):
AAATGAAAAAATTAGGGCTAAAATGATA
Found at i:1682151 original size:7 final size:7
Alignment explanation
Indices: 1682139--1682164 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1682129 AAGAGTACTC
1682139 AAATCCA
1 AAATCCA
1682146 AAATCCA
1 AAATCCA
1682153 AAATCCA
1 AAATCCA
1682160 AAATC
1 AAATC
1682165 TTGAATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (7 bp):
AAATCCA
Found at i:1682419 original size:29 final size:29
Alignment explanation
Indices: 1682377--1682435 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1682367 ATGTGTTTCA
1682377 ATACACTCGAACCCACATTTTCCTGCACT
1 ATACACTCGAACCCACATTTTCCTGCACT
1682406 ATACACTCGAACCCACATTTTCCTGCACT
1 ATACACTCGAACCCACATTTTCCTGCACT
1682435 A
1 A
1682436 GCAACAATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.29, C:0.37, G:0.07, T:0.27
Consensus pattern (29 bp):
ATACACTCGAACCCACATTTTCCTGCACT
Found at i:1686590 original size:242 final size:235
Alignment explanation
Indices: 1686077--1686605 Score: 726
Period size: 241 Copynumber: 2.2 Consensus size: 235
1686067 AGACTACCCC
** * *
1686077 TTCAAGATTTTGTTGTCCATGTATAACCATGTATTTAGCCTTTATTTATTCCACCTATATAATAG
1 TTCAAGATTTTGTTGTCCAAATATAACCATGAATTTAGCCTTTATTTATTCCACCTATATAATAA
*
1686142 AATTGGTCAAATTTCATGGAAAGTCCCTCTATTATTTTTTTTCACAAATTTAACCTCTCTACTAT
66 AATTGGTCAAATTTCATAGAAAGTCCCTCTATTATTTTTTTTCACAAATTTAACCTCTCTACTAT
* * * * *
1686207 AATTTAATCAATTTTTGGGTGATTGGAGAGTGCCGAGTTAATTTAAAGTTCAAGAGAGTGGGATT
131 AATTTAATCAATTTTTGGGTGAGTAGAGAGTACCGAGTGAAGTTAAAGTTCAAGAGAGTGGGATT
* * *
1686272 ATATCAACAAAGTTTGAATAATGGTGATTGAAAGTGCCTT
196 ATATCAACAAAGTTTGAATAATGATCATCGAAAGTGCCTT
*
1686312 TTCAAGATTTTGTTGTCCAAATATAACCATGAATTTAGCCATTATTTA-TCC-CCGTATATAATA
1 TTCAAGATTTTGTTGTCCAAATATAACCATGAATTTAGCCTTTATTTATTCCACC-TATATAATA
* *
1686375 AAATTGGTCAAATTTCATAG-AAGCTCCCTCTATTATTTATTTTTTTTCTCGCAAATTTAATCTC
65 AAATTGGTCAAATTTCATAGAAAG-TCCCTC---TA-TTA-TTTTTTT-TCACAAATTTAACCTC
* *
1686439 TCTACTATAATTTGATC-ATTTCTTGGGTGAGTAGAGAGTACCTGAGTGAAGTTAGAA-TTCAGG
123 TCTACTATAATTTAATCAATTT-TTGGGTGAGTAGAGAGTACC-GAGTGAAGTTA-AAGTTCAAG
*
1686502 AGAGTGGGATTATATCAACAAAGTTTGAATAATGATCATCGAGAGTGTCCTT
185 AGAGTGGGATTATATCAACAAAGTTTGAATAATGATCATCGAAAGTG-CCTT
* *
1686554 TTCAAGATTTTCTTGTCCAAATATAACCATGAATTTAGCCTTTATTTGTTCC
1 TTCAAGATTTTGTTGTCCAAATATAACCATGAATTTAGCCTTTATTTATTCC
1686606 CTCTAAAATT
Statistics
Matches: 259, Mismatches: 22, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
233 5 0.02
234 36 0.14
235 44 0.17
237 2 0.01
238 3 0.01
239 11 0.04
240 47 0.18
241 57 0.22
242 51 0.20
243 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (235 bp):
TTCAAGATTTTGTTGTCCAAATATAACCATGAATTTAGCCTTTATTTATTCCACCTATATAATAA
AATTGGTCAAATTTCATAGAAAGTCCCTCTATTATTTTTTTTCACAAATTTAACCTCTCTACTAT
AATTTAATCAATTTTTGGGTGAGTAGAGAGTACCGAGTGAAGTTAAAGTTCAAGAGAGTGGGATT
ATATCAACAAAGTTTGAATAATGATCATCGAAAGTGCCTT
Found at i:1709215 original size:22 final size:24
Alignment explanation
Indices: 1709174--1709218 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
1709164 TTTGAATCAG
1709174 TTTTCTCTAATTTTTAATAATTAT
1 TTTTCTCTAATTTTTAATAATTAT
*
1709198 TTTTCT-TTATTTTT-ATAATTA
1 TTTTCTCTAATTTTTAATAATTA
1709219 AATTGGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 7 0.35
24 6 0.30
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTCTCTAATTTTTAATAATTAT
Found at i:1714620 original size:18 final size:18
Alignment explanation
Indices: 1714599--1714656 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
1714589 TTTTTTTATA
1714599 TTTTATGTTTTTAATAAT
1 TTTTATGTTTTTAATAAT
*
1714617 TTTTAAT-TTTTAAATATAT
1 TTTT-ATGTTTTTAATA-AT
1714636 TTTT-TGAATTTTTAA-AAT
1 TTTTATG--TTTTTAATAAT
1714654 TTT
1 TTT
1714657 AAAAAAGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
17 1 0.03
18 17 0.52
19 9 0.27
20 6 0.18
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTATGTTTTTAATAAT
Found at i:1716752 original size:10 final size:10
Alignment explanation
Indices: 1716739--1716796 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
1716729 TTTTTTTTGA
1716739 ATTTTTAGTG
1 ATTTTTAGTG
*
1716749 ATTTTTTTGTG
1 A-TTTTTAGTG
1716760 AATTTTTAGTG
1 -ATTTTTAGTG
* *
1716771 CTTTTAAGTG
1 ATTTTTAGTG
**
1716781 ATAGTTAGTG
1 ATTTTTAGTG
1716791 ATTTTT
1 ATTTTT
1716797 TTTTTGAATT
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
10 19 0.53
11 16 0.44
12 1 0.03
ACGTcount: A:0.21, C:0.02, G:0.19, T:0.59
Consensus pattern (10 bp):
ATTTTTAGTG
Found at i:1716754 original size:22 final size:22
Alignment explanation
Indices: 1716727--1716775 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
1716717 CGTTTCGATT
*
1716727 ATTTTTTTTTGAATTTTTAGTG
1 ATTTTTTTGTGAATTTTTAGTG
1716749 ATTTTTTTGTGAATTTTTAGTG
1 ATTTTTTTGTGAATTTTTAGTG
*
1716771 CTTTT
1 ATTTT
1716776 AAGTGATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.16, C:0.02, G:0.14, T:0.67
Consensus pattern (22 bp):
ATTTTTTTGTGAATTTTTAGTG
Found at i:1721564 original size:12 final size:12
Alignment explanation
Indices: 1721548--1721582 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
1721538 ATTATTTGGT
1721548 ATTTAAT-TTTA
1 ATTTAATATTTA
1721559 ACTTTAATATTTA
1 A-TTTAATATTTA
1721572 ATTTAATATTT
1 ATTTAATATTT
1721583 GAAGTCAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.05
12 16 0.73
13 5 0.23
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTTAATATTTA
Found at i:1722026 original size:5 final size:5
Alignment explanation
Indices: 1721979--1722026 Score: 73
Period size: 5 Copynumber: 10.0 Consensus size: 5
1721969 TTTCAAATAC
*
1721979 AAAA- AAAAA AAAAG AAAAG AAAAG AAAAG -AAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
1722027 GATAATTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
4 8 0.20
5 33 0.80
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:1722026 original size:19 final size:19
Alignment explanation
Indices: 1721979--1722026 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
1721969 TTTCAAATAC
* *
1721979 AAAAAAAAAAAAAGAAAAG
1 AAAAGAAAAGAAAGAAAAG
1721998 AAAAGAAAAGAAAGAAAAG
1 AAAAGAAAAGAAAGAAAAG
1722017 AAAAGAAAAG
1 AAAAGAAAAG
1722027 GATAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAGAAAGAAAAG
Found at i:1727191 original size:17 final size:18
Alignment explanation
Indices: 1727169--1727223 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
1727159 CTAAAATAGT
1727169 AACAAA-ATTAACAATAA
1 AACAAATATTAACAATAA
*
1727186 AACAAATGTTATACAAT-A
1 AACAAATATTA-ACAATAA
**
1727204 TCCAAATATTAACAATAA
1 AACAAATATTAACAATAA
1727222 AA
1 AA
1727224 TAGTAATAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
17 11 0.38
18 13 0.45
19 5 0.17
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.24
Consensus pattern (18 bp):
AACAAATATTAACAATAA
Found at i:1727295 original size:21 final size:22
Alignment explanation
Indices: 1727253--1727295 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1727243 GAATGGTAGC
*
1727253 AAAACAGTGGCAAAAAAGCAAG
1 AAAACAGTGGCAAAAAAACAAG
1727275 AAAACA-TGG-AAAAACAACAAG
1 AAAACAGTGGCAAAAA-AACAAG
1727296 GGTTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 8 0.42
22 6 0.32
ACGTcount: A:0.63, C:0.14, G:0.19, T:0.05
Consensus pattern (22 bp):
AAAACAGTGGCAAAAAAACAAG
Found at i:1730487 original size:26 final size:27
Alignment explanation
Indices: 1730457--1730516 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
1730447 TAAGATGACT
*
1730457 ATATAAAAATT-TTCAATAAATAAAA-A
1 ATATAAAAATTATTAAAT-AATAAAATA
*
1730483 ATATATAAAATTATTAAATATTAAAATA
1 ATATA-AAAATTATTAAATAATAAAATA
1730511 ATATAA
1 ATATAA
1730517 TATAAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 5 0.17
27 13 0.45
28 11 0.38
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
ATATAAAAATTATTAAATAATAAAATA
Found at i:1730488 original size:28 final size:28
Alignment explanation
Indices: 1730456--1730544 Score: 76
Period size: 28 Copynumber: 3.1 Consensus size: 28
1730446 TTAAGATGAC
*
1730456 TATATAAAAATTTTCAATAAATAAAAAA
1 TATATAAAAATTTTAAATAAATAAAAAA
*
1730484 TATAT-AAAATTATTAAAT-ATTAAAATAA
1 TATATAAAAATT-TTAAATAAATAAAA-AA
*
1730512 TATAATATAAATATTTTTAAA-AAATTAAAAA
1 TAT-ATA-AAA-A-TTTTAAATAAATAAAAAA
1730543 TA
1 TA
1730545 ATATGAGCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
27 12 0.24
28 15 0.31
29 2 0.04
31 7 0.14
32 11 0.22
33 2 0.04
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (28 bp):
TATATAAAAATTTTAAATAAATAAAAAA
Found at i:1734751 original size:38 final size:40
Alignment explanation
Indices: 1734683--1734761 Score: 110
Period size: 38 Copynumber: 2.0 Consensus size: 40
1734673 CTGAATATAA
*
1734683 TAAATATATATTTTTTATTTTTTAATTTTAAAATACTTTT
1 TAAATATATATTTTTTATTTTTTAATTTTAAAATAATTTT
*
1734723 TAAATAT-T-TTTATTT-TTTTTTATTTTTAAAATAATTTT
1 TAAATATATATTT-TTTATTTTTTAATTTTAAAATAATTTT
1734761 T
1 T
1734762 TAATGTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
38 25 0.69
39 4 0.11
40 7 0.19
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (40 bp):
TAAATATATATTTTTTATTTTTTAATTTTAAAATAATTTT
Found at i:1736322 original size:18 final size:19
Alignment explanation
Indices: 1736283--1736323 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
1736273 ATTGATTGGA
*
1736283 TATTGTATAATTTTTGTTT
1 TATTGTATAATTTTTGTAT
1736302 TATTGT-TAATTTTAT-TAT
1 TATTGTATAATTTT-TGTAT
1736320 TATT
1 TATT
1736324 TTAGAGGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (19 bp):
TATTGTATAATTTTTGTAT
Found at i:1750219 original size:9 final size:9
Alignment explanation
Indices: 1750194--1750227 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
1750184 TCATTAACTG
1750194 TATTTTTTA
1 TATTTTTTA
1750203 TATATTTTTA
1 TAT-TTTTTA
1750213 TATTTTTTA
1 TATTTTTTA
*
1750222 GATTTT
1 TATTTT
1750228 ATATGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (9 bp):
TATTTTTTA
Found at i:1753567 original size:6 final size:6
Alignment explanation
Indices: 1753553--1753585 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
1753543 TTTTTAGGTC
*
1753553 GTTTTG GTTTGG GTTTGG GTTTGG GTTTGG GTT
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTT
1753586 AACTTCAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.45, T:0.55
Consensus pattern (6 bp):
GTTTGG
Found at i:1758513 original size:31 final size:31
Alignment explanation
Indices: 1758478--1758550 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
1758468 TTAATATATT
**
1758478 ATTTGGTATTTGAATTTGGCTTAAACATTCA
1 ATTTGGTATTTGAATTTCACTTAAACATTCA
* * * *
1758509 ATTTGGTACTTGAGTTTCACTTTAATATTCA
1 ATTTGGTATTTGAATTTCACTTAAACATTCA
*
1758540 ATTTAGTATTT
1 ATTTGGTATTT
1758551 AACCCAAACA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTTGGTATTTGAATTTCACTTAAACATTCA
Found at i:1761444 original size:6 final size:6
Alignment explanation
Indices: 1761430--1761466 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
1761420 ATCCATTGTG
*
1761430 TATATA TATAAA TATAAA TATAAA TATAAA TATAAA T
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA T
1761467 GAGAATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TATAAA
Found at i:1769629 original size:32 final size:32
Alignment explanation
Indices: 1769588--1769656 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
1769578 ACCCTCCAAA
* *
1769588 TTTTTGAAAATTTTCATTATGC-CTTTTAATTT
1 TTTTTGAAAACTTTAATTATGCTC-TTTAATTT
1769620 TTTTTGAAAACTTTAATTATGCTCTTTAATTT
1 TTTTTGAAAACTTTAATTATGCTCTTTAATTT
1769652 TTTTT
1 TTTTT
1769657 TTGAAATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 33 0.97
33 1 0.03
ACGTcount: A:0.25, C:0.09, G:0.06, T:0.61
Consensus pattern (32 bp):
TTTTTGAAAACTTTAATTATGCTCTTTAATTT
Found at i:1770825 original size:10 final size:10
Alignment explanation
Indices: 1770812--1770852 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
1770802 TACCTTACAT
*
1770812 ACATACATAT
1 ACATACATAC
1770822 ACATACATAC
1 ACATACATAC
**
1770832 ACACGCATAC
1 ACATACATAC
1770842 ACATACATAC
1 ACATACATAC
1770852 A
1 A
1770853 TGCTAATCAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (10 bp):
ACATACATAC
Found at i:1780881 original size:25 final size:26
Alignment explanation
Indices: 1780835--1780886 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
1780825 AAATAACTTT
*
1780835 TAAATAGAAAGAAACAAGAAAAAAAA
1 TAAATAGAAAGAAACAACAAAAAAAA
*
1780861 TAAAT-GAAA-AAACAAACAAAATAAA
1 TAAATAGAAAGAAAC-AACAAAAAAAA
1780886 T
1 T
1780887 GGACATGGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 14 0.61
26 5 0.22
ACGTcount: A:0.75, C:0.06, G:0.08, T:0.12
Consensus pattern (26 bp):
TAAATAGAAAGAAACAACAAAAAAAA
Found at i:1784752 original size:32 final size:30
Alignment explanation
Indices: 1784679--1784753 Score: 78
Period size: 32 Copynumber: 2.4 Consensus size: 30
1784669 AAAAGTTTAA
* *
1784679 GTACTAACTTAAGAAAAAGTGTCAAGTTTGG
1 GTACTAA-TTAGGAAAAAATGTCAAGTTTGG
* *
1784710 ATACCAAATTAGGAAAAAAATGTCAAGTTTGGG
1 GTA-CTAATTAGG-AAAAAATGTCAAGTTT-GG
1784743 GTACTAATTAG
1 GTACTAATTAG
1784754 ACTAAAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
31 6 0.17
32 25 0.71
33 4 0.11
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.28
Consensus pattern (30 bp):
GTACTAATTAGGAAAAAATGTCAAGTTTGG
Found at i:1785839 original size:312 final size:312
Alignment explanation
Indices: 1785140--1785897 Score: 896
Period size: 314 Copynumber: 2.4 Consensus size: 312
1785130 AAATTCAGGT
* * * *
1785140 CCATACAAGTATTAGTCATACCGATATCAATTAGGT-TCAATTATTAACACCATTAAAACGTACA
1 CCATACAAGTATTAATCACACCAATATCAATCAGGTCT-AATTATTAACACCATTAAAACGTACA
* * * *
1785204 AAGAGCACAGGGATTTGGGTATATTTTAATCTTTAAACAGGTTTTGTTTTTCTTCCTCAACTCCA
65 AAGAGCACAGGGACTTGCGAATATTTTAACCTTTAAACAGG-TTTGTTTTTCTTCCTCAACTCCA
* * *
1785269 TTTCTCAAACCTAATACTTTCATCCAAACCATCCCAAAAAATGAATAAAACTTTGAACTTGAACA
129 TTTCTCAAACCAAATACTTTCATCCAAACCACCCCAAAAAA-GAATAAAACTTCGAACTTGAACA
*
1785334 GGTGTGTCGACCCTCAAAAAAGCCTTAAAGGGGGCAACTTGGATCACCAAGATTGGATCATCTAA
193 GGTGTGTCGACCCTCAAAAAAGCCCTAAAGGGGGCAACTTGGATCACCAAGATTGGATCATCTAA
*
1785399 AAATTTGGTTAAACACTACCACAAAATTTATGAAATAAGAACAAGATACATGAAC
258 AAATTTGGTTAAACACTACCACAAAATTCATGAAATAAGAACAAGATACATGAAC
* * * * *
1785454 CCATACAAGTATTAATCACACCAATATCAATCAAGTCCAATTGTTAACATCGTTAAAACGTACAA
1 CCATACAAGTATTAATCACACCAATATCAATCAGGTCTAATTATTAACACCATTAAAACGTACAA
* **
1785519 AGAGCACAGGGACTT-CGAACTATTTTAACCTTTAAACAGG-TTGTTTTTGCTTCCTTAACTTTA
66 AGAGCACAGGGACTTGCGAA-TATTTTAACCTTTAAACAGGTTTGTTTTT-CTTCCTCAACTCCA
* * * ** *
1785582 TTTCTCAGACCAAATACTTTCATCCAAATCACCCCAAAGATCAA-AATGAGTCTTCGAGCTTGAA
129 TTTCTCAAACCAAATACTTTCATCCAAACCACCCCAAA-A--AAGAATAAAACTTCGAACTTGAA
* * * * **
1785646 CAGGTCGT-TCGACCCTCGAACAAGCCCT-AAGGGGGCAGCTTGGATCACCATGATT-GAGTGGT
191 CAGGT-GTGTCGACCCTCAAAAAAGCCCTAAAGGGGGCAACTTGGATCACCAAGATTGGA-TCAT
* * *
1785708 CTAAAAATATT-GTTAAACCCTACCCCAGAATTCATGAACA-AA-AACAAGATACATGAAC
254 CTAAAAAT-TTGGTTAAACACTACCACAAAATTCATGAA-ATAAGAACAAGATACATGAAC
*
1785766 CCATACAAGTATTAATCACACCAATAACAATCAGGTCTAATTATTAACACCATTAAAACGTACAC
1 CCATACAAGTATTAATCACACCAATATCAATCAGGTCTAATTATTAACACCATTAAAACGTACA-
* * * * * *
1785831 AA-AGCACAGAGG-TTTGGGTATATTTTAA-CTTCTAAATAGGTTT-TTTTTCTTCTTCAACTCA
65 AAGAGCACAG-GGACTTGCGAATATTTTAACCTT-TAAACAGGTTTGTTTTTCTTCCTCAACTCC
1785892 ATTTCT
128 ATTTCT
1785898 TGAGCCTATT
Statistics
Matches: 379, Mismatches: 50, Indels: 33
0.82 0.11 0.07
Matches are distributed among these distances:
311 18 0.05
312 113 0.30
313 115 0.30
314 129 0.34
315 2 0.01
316 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (312 bp):
CCATACAAGTATTAATCACACCAATATCAATCAGGTCTAATTATTAACACCATTAAAACGTACAA
AGAGCACAGGGACTTGCGAATATTTTAACCTTTAAACAGGTTTGTTTTTCTTCCTCAACTCCATT
TCTCAAACCAAATACTTTCATCCAAACCACCCCAAAAAAGAATAAAACTTCGAACTTGAACAGGT
GTGTCGACCCTCAAAAAAGCCCTAAAGGGGGCAACTTGGATCACCAAGATTGGATCATCTAAAAA
TTTGGTTAAACACTACCACAAAATTCATGAAATAAGAACAAGATACATGAAC
Found at i:1786740 original size:86 final size:93
Alignment explanation
Indices: 1786586--1786768 Score: 317
Period size: 86 Copynumber: 2.0 Consensus size: 93
1786576 ATTGTAAAAT
1786586 TTTACGTTAATATAGCGATGAATTTGGAGTCTAGCTCTCTTGAATATTTATAATTCAAATTTGTC
1 TTTACGTTAATATAGCGATGAATTTGGAGTCTAGCTCTCTTGAATATTTATAATTCAAATTTGTC
1786651 TCCAGGAAATTTTGGCTTTGCCCCTAAA
66 TCCAGGAAATTTTGGCTTTGCCCCTAAA
1786679 TTTAC-TT-ATATAGCGATG-ATTTGGAGTCTA-CTCTC-TGAATATTTAT-ATTC-AATTTGTC
1 TTTACGTTAATATAGCGATGAATTTGGAGTCTAGCTCTCTTGAATATTTATAATTCAAATTTGTC
1786737 TCCAGGAAATTTTGGCTTTGCCCCTAAA
66 TCCAGGAAATTTTGGCTTTGCCCCTAAA
1786765 TTTA
1 TTTA
1786769 TTCGATTGAT
Statistics
Matches: 90, Mismatches: 0, Indels: 7
0.93 0.00 0.07
Matches are distributed among these distances:
86 40 0.44
87 4 0.04
88 11 0.12
89 5 0.06
90 12 0.13
91 11 0.12
92 2 0.02
93 5 0.06
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (93 bp):
TTTACGTTAATATAGCGATGAATTTGGAGTCTAGCTCTCTTGAATATTTATAATTCAAATTTGTC
TCCAGGAAATTTTGGCTTTGCCCCTAAA
Found at i:1796848 original size:3 final size:3
Alignment explanation
Indices: 1796840--1796868 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1796830 CAATTGAAGT
1796840 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1796869 GTAGCAGCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:1802491 original size:139 final size:139
Alignment explanation
Indices: 1802241--1802495 Score: 422
Period size: 139 Copynumber: 1.8 Consensus size: 139
1802231 GCTTATCATT
*
1802241 TTCTAAAGAAAGCCAATTTTAGTTTAAGATATTAAATTAATTCCAATTTATCAATATCATCATTA
1 TTCTAAAGAAAGCCAATTTTAGTTTAAGATATTAAATAAATTCCAATTTATCAATATCATCATTA
1802306 GATCCTAATTACATCAAAACAAAAACAACCCAAACTTTAAATCTCTAAAAAAATTTTAAAAAGAC
66 GATCCTAATTACATCAAAACAAAAACAACCCAAACTTTAAATCTCTAAAAAAATTTTAAAAAGAC
1802371 ATCATTATA
131 ATCATTATA
* * * *
1802380 TTCTAAAGTAAGCTAATTTTAGTTTAAGATATTGAATAAATTCCGATTTATCAATATCATCATTA
1 TTCTAAAGAAAGCCAATTTTAGTTTAAGATATTAAATAAATTCCAATTTATCAATATCATCATTA
** *
1802445 GATCCTAATTACATTTTAAA-AAAAACCACCCAAACTTTAAATCTCTAAAAA
66 GATCCTAATTACA-TCAAAACAAAAACAACCCAAACTTTAAATCTCTAAAAA
1802496 CATCCATGGG
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
139 103 0.96
140 4 0.04
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (139 bp):
TTCTAAAGAAAGCCAATTTTAGTTTAAGATATTAAATAAATTCCAATTTATCAATATCATCATTA
GATCCTAATTACATCAAAACAAAAACAACCCAAACTTTAAATCTCTAAAAAAATTTTAAAAAGAC
ATCATTATA
Found at i:1803065 original size:20 final size:21
Alignment explanation
Indices: 1803023--1803065 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
1803013 GTTTAATAAA
*
1803023 AAATATTTGAAAGTAAAAGAG
1 AAATATTTGAAAGCAAAAGAG
* *
1803044 AAATTTTTG-AAGCAAAATAG
1 AAATATTTGAAAGCAAAAGAG
1803064 AA
1 AA
1803066 GAAGAAGAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.16, T:0.26
Consensus pattern (21 bp):
AAATATTTGAAAGCAAAAGAG
Found at i:1808752 original size:546 final size:544
Alignment explanation
Indices: 1807720--1808802 Score: 1586
Period size: 546 Copynumber: 2.0 Consensus size: 544
1807710 CGTGATGATA
*
1807720 ACACCTGTTGAGTATTTAGACCAGAAATCAACATTTTATCAGCAAGACAGACTCAAGCAGGATGA
1 ACACCTGTTGAGGATTTAGACCAGAAATCAACATTTTATCAGCAAGACAGACTCAAGCAGGATGA
1807785 ATGATACTTTATTTGACCAAAGGATCAACCATACTCCGATATTAATCGGATCATCTAAATGGATA
66 ATGATACTTTATTTGACCAAAGGATCAACCATACTCCGATATTAATCGGA--ATCTAAATGGATA
* **
1807850 TCATTCGATCAAATTAAAGAACTGCATCCAAGTTCAATTATTTAACTTTTAAATAGATTTCCACT
129 TCATTCAATCAAATTAAAGAACTGCATCCAAGTTCAATTACATAACTTTTAAATAGATTTCCACT
** * *
1807915 ATGACTGAGCATAGCCACTATATTGAGTAAATAAATGAGATTTAAATTATGGTTCAGTTCTACAT
194 ATGACTGAGCATAGCCACTATACCGAGTAAATAAATGAGATTCAAATTATGGTTCAGTTCTAAAT
* *
1807980 TGACCCTCAAACTTCAAAATGTTTTAATCTAGTCCTCAAAGTATCATTACTATGCCAACAAGTTT
259 TGACCCTCAAACTTCAAAACGTTTTAATCTAGTCCTCAAAGTATCATTACTATACCAACAAGTTT
* *
1808045 TTCTATCAACCTAGTTGTTAGTTTGGTTGTTAAATGTCATTCAGATATGATATAAAAGCATATCT
324 TTCTATCAACCTAGTTGTTAGTTTGGTTGTTAAATGCCATTCAGATATGATAGAAAAGCATATCT
*
1808110 AAAACACGTGGATCAAATTTTAAACACGTGTACATCCTGACCACATAGACAGCTTGGAAGGCTAT
389 AAAACACATGGATCAAATTTTAAACACGTGTACATCCTGACCACATAGACAGCTTGGAAGGCTAT
* * * ** * *
1808175 GTTTTTTTACTTAACACGTTTGATACCATGCTTCATGTGTTACGTTAATAAATGTTCGAATATTA
454 ATTCTTTCACTTAACACGTTTGATACCATGCTTCACATGCTACGTTAATAAATGTCCGAATATTA
*
1808240 GATAAACAATAGATTTTTTTTTCTAG
519 GATAAACAACAGATTTTTTTTTCTAG
** * *
1808266 ACACCTGTTGAGGATTTAGACTGGAAATCAACATTTTATTAGCAAGACAGACTCCAGCAGGATGA
1 ACACCTGTTGAGGATTTAGACCAGAAATCAACATTTTATCAGCAAGACAGACTCAAGCAGGATGA
* * *
1808331 ATGATACTTTATTTGACCAAAGGATCAACTATACTCCGATA-T-ATTGG-ATCTAAATGGATATT
66 ATGATACTTTATTTGACCAAAGGATCAACCATACTCCGATATTAATCGGAATCTAAATGGATATC
* * * *
1808393 GTTCAATCAAATTAAAGAACTGCATCCAAGTTCGATTACATAACTTTTTAATATATTTCCACTGA
131 ATTCAATCAAATTAAAGAACTGCATCCAAGTTCAATTACATAACTTTTAAATAGATTTCCACT-A
* * *
1808458 -GATTGAGCCAGATATAGCCACTATAACCG-GTAATTAAATGTGATTCAAATTATGGTTCAGTTC
195 TGACTGAG-C----ATAGCCACTAT-ACCGAGTAAATAAATGAGATTCAAATTATGGTTCAGTTC
* *
1808521 TAAATTGATCCTCAAACTTCAAAACGTTTTAATCTAGTCCTCAAAGTATCATTACTGTACCAATC
254 TAAATTGACCCTCAAACTTCAAAACGTTTTAATCTAGTCCTCAAAGTATCATTACTATACCAA-C
* *
1808586 AAGTTTTTCTATTAACCTGGTTGTTAGTTTGGTTGTTAAATGCCAATTCA-ATATGATAGAAAAG
318 AAGTTTTTCTATCAACCTAGTTGTTAGTTTGGTTGTTAAATGCC-ATTCAGATATGATAGAAAAG
* * * * * *
1808650 CAT-TTTAAAACATATGGATCAAATTTTAAACATGTGTACGTCTTTACCACATAGACAGCTTGGA
382 CATATCTAAAACACATGGATCAAATTTTAAACACGTGTACATCCTGACCACATAGACAGCTTGGA
**
1808714 AGGCTATATTCTTTCACTTAACGTGTTTGATACCATGCTTCACATGCTACGTTAATAAATGTCCG
447 AGGCTATATTCTTTCACTTAACACGTTTGATACCATGCTTCACATGCTACGTTAATAAATGTCCG
*
1808779 AATCTTAGATAAACAACAGATTTT
512 AATATTAGATAAACAACAGATTTT
1808803 CTTTCCAGAC
Statistics
Matches: 480, Mismatches: 48, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
541 76 0.16
542 2 0.00
544 4 0.01
545 1 0.00
546 332 0.69
547 60 0.12
548 5 0.01
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (544 bp):
ACACCTGTTGAGGATTTAGACCAGAAATCAACATTTTATCAGCAAGACAGACTCAAGCAGGATGA
ATGATACTTTATTTGACCAAAGGATCAACCATACTCCGATATTAATCGGAATCTAAATGGATATC
ATTCAATCAAATTAAAGAACTGCATCCAAGTTCAATTACATAACTTTTAAATAGATTTCCACTAT
GACTGAGCATAGCCACTATACCGAGTAAATAAATGAGATTCAAATTATGGTTCAGTTCTAAATTG
ACCCTCAAACTTCAAAACGTTTTAATCTAGTCCTCAAAGTATCATTACTATACCAACAAGTTTTT
CTATCAACCTAGTTGTTAGTTTGGTTGTTAAATGCCATTCAGATATGATAGAAAAGCATATCTAA
AACACATGGATCAAATTTTAAACACGTGTACATCCTGACCACATAGACAGCTTGGAAGGCTATAT
TCTTTCACTTAACACGTTTGATACCATGCTTCACATGCTACGTTAATAAATGTCCGAATATTAGA
TAAACAACAGATTTTTTTTTCTAG
Found at i:1810041 original size:31 final size:31
Alignment explanation
Indices: 1810006--1810066 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
1809996 TTTCAATTTA
* *
1810006 ATCACTAAAATTTTAGATTATTTTTATTTTG
1 ATCACTAAAATTGTAGATCATTTTTATTTTG
* *
1810037 ATCACTCACATTGTAGATCATTTTTATTTT
1 ATCACTAAAATTGTAGATCATTTTTATTTT
1810067 AATTACTCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (31 bp):
ATCACTAAAATTGTAGATCATTTTTATTTTG
Found at i:1810561 original size:9 final size:9
Alignment explanation
Indices: 1810543--1810582 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
1810533 CTAGCTTGAA
1810543 TTTTAGATTT
1 TTTTA-ATTT
*
1810553 TTTTTATTT
1 TTTTAATTT
*
1810562 TTTTAATAT
1 TTTTAATTT
1810571 TTTTAATTT
1 TTTTAATTT
1810580 TTT
1 TTT
1810583 AGATACATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 22 0.85
10 4 0.15
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (9 bp):
TTTTAATTT
Found at i:1810677 original size:22 final size:24
Alignment explanation
Indices: 1810632--1810678 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
1810622 ATTTATACAA
**
1810632 TTTTTATATATTTTTATTTTAAAT
1 TTTTTATATATTTTTATTAAAAAT
1810656 TTTTTAT-TATTTTTA-TAAAAAT
1 TTTTTATATATTTTTATTAAAAAT
1810678 T
1 T
1810679 AGATTATGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 8 0.38
24 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTTTATATATTTTTATTAAAAAT
Found at i:1811031 original size:31 final size:31
Alignment explanation
Indices: 1810990--1811058 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
1810980 ATTTAAGAGA
* *
1810990 GAGTGCCCAAAATATAAATCATCTAAAACGT
1 GAGTGACCAAAATAGAAATCATCTAAAACGT
*
1811021 GAGTGACCAAAATAGAAATGATCTAAAACGT
1 GAGTGACCAAAATAGAAATCATCTAAAACGT
*
1811052 TAGTGAC
1 GAGTGAC
1811059 TAAATTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.22
Consensus pattern (31 bp):
GAGTGACCAAAATAGAAATCATCTAAAACGT
Found at i:1812606 original size:18 final size:19
Alignment explanation
Indices: 1812580--1812619 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
1812570 ATTTTTCATG
*
1812580 TCAACAAAAATTTAAAA-T
1 TCAAAAAAAATTTAAAAGT
1812598 TCAAAAAAAATTTAAAAGT
1 TCAAAAAAAATTTAAAAGT
1812617 TCA
1 TCA
1812620 CAAACTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.28
Consensus pattern (19 bp):
TCAAAAAAAATTTAAAAGT
Found at i:1815825 original size:5 final size:5
Alignment explanation
Indices: 1815809--1815844 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
1815799 TATTTCTGAT
1815809 TTATA TTTATA TTATA TTATA TTATA TTATAA TTAT
1 TTATA -TTATA TTATA TTATA TTATA TTAT-A TTAT
1815845 TCGGACATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 19 0.66
6 10 0.34
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:1816321 original size:24 final size:22
Alignment explanation
Indices: 1816294--1816340 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 22
1816284 ATAAAAAGCA
1816294 AAAATTTTATAAAATA-AAAATATT
1 AAAA-TTTA-AAAATACAAAA-ATT
1816318 AAAATTTAAAAATACAAAAATT
1 AAAATTTAAAAATACAAAAATT
1816340 A
1 A
1816341 TAAAGTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 10 0.45
23 8 0.36
24 4 0.18
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATTTAAAAATACAAAAATT
Found at i:1816337 original size:16 final size:17
Alignment explanation
Indices: 1816307--1816344 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1816297 ATTTTATAAA
**
1816307 ATAAAAATATTAAAATT
1 ATAAAAATACAAAAATT
1816324 -TAAAAATACAAAAATT
1 ATAAAAATACAAAAATT
1816340 ATAAA
1 ATAAA
1816345 GTTGTTGGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAAATACAAAAATT
Found at i:1817166 original size:18 final size:18
Alignment explanation
Indices: 1817115--1817166 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
1817105 GTCCACATAT
*
1817115 AATTCATACAAATTTTAAA
1 AATTCA-ACAAAATTTAAA
* *
1817134 AATTTTAA-AATATTTAAA
1 AA-TTCAACAAAATTTAAA
1817152 AATTCAACAAAATTT
1 AATTCAACAAAATTT
1817167 TTAAAAAGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
17 4 0.15
18 16 0.62
19 3 0.12
20 3 0.12
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTCAACAAAATTTAAA
Done.