Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 34 of 206
Found at i:10061521 original size:10 final size:10
Alignment explanation
Indices: 10061471--10061521 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
10061461 TTTATATCAA
10061471 TTTTAATATT
1 TTTTAATATT
10061481 TTTTAA-A-T
1 TTTTAATATT
* *
10061489 ATTTAATAAT
1 TTTTAATATT
10061499 TTTT-ATGATT
1 TTTTAAT-ATT
10061509 TTTTAATATT
1 TTTTAATATT
10061519 TTT
1 TTT
10061522 ATGAGATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
8 6 0.18
9 4 0.12
10 22 0.65
11 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTAATATT
Found at i:10061522 original size:19 final size:19
Alignment explanation
Indices: 10061196--10061525 Score: 94
Period size: 19 Copynumber: 16.8 Consensus size: 19
10061186 TTTTATATTA
10061196 TTTATATATTATTTATGAATT
1 TTTA-ATATT-TTTATGAATT
*
10061217 TTT-ATAAGTTTTT-TTAATT
1 TTTAAT-A-TTTTTATGAATT
* *
10061236 TTAAATATTTTTTATTAATT
1 TTTAATA-TTTTTATGAATT
* *
10061256 TGATAA-ATTTTTATATAAGTT
1 T-TTAATATTTTTAT-GAA-TT
*
10061277 TTT-ATGATTTTTAT-AAGT
1 TTTAAT-ATTTTTATGAATT
* * *
10061295 TTTAA-GTTTATAAGAA-T
1 TTTAATATTTTTATGAATT
10061312 TTTAATAATTTTTAATGTTTAATAT
1 TTTAAT-ATTTTT-ATG---AAT-T
*
10061337 TTTTATGATTTTTAATGAATT
1 TTTAAT-ATTTTT-ATGAATT
* * *
10061358 TTTTATAAGTTTTTAAGATTT
1 TTTAAT-A-TTTTTATGAATT
* * * *
10061379 TTTTACATTATTATAAAATT
1 TTTAATATTTTTAT-GAATT
* *
10061399 TTAAATATTTTTATTAATT
1 TTTAATATTTTTATGAATT
**
10061418 TTATAAT-TGATT-TGAATT
1 TT-TAATATTTTTATGAATT
*
10061436 ATT-ATATTTTTAT-AATAT
1 TTTAATATTTTTATGAAT-T
* * *
10061454 TTATAA-GTTTATATCAA-T
1 TT-TAATATTTTTATGAATT
* *
10061472 TTTAATATTTTT-TAAATA
1 TTTAATATTTTTATGAATT
*
10061490 TTTAATAATTTTTATGATTT
1 TTTAAT-ATTTTTATGAATT
10061510 TTTAATATTTTTATGA
1 TTTAATATTTTTATGA
10061526 GATAATATTA
Statistics
Matches: 232, Mismatches: 45, Indels: 66
0.68 0.13 0.19
Matches are distributed among these distances:
16 2 0.01
17 24 0.10
18 28 0.12
19 67 0.29
20 49 0.21
21 36 0.16
22 8 0.03
23 2 0.01
25 16 0.07
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTAATATTTTTATGAATT
Found at i:10068372 original size:15 final size:14
Alignment explanation
Indices: 10068340--10068374 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
10068330 TGGGTGTAGG
10068340 TTTTTAAGACGTGA
1 TTTTTAAGACGTGA
10068354 TTTTTAAGAAC-TGA
1 TTTTTAAG-ACGTGA
10068368 TTTTTAA
1 TTTTTAA
10068375 ATATTTTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 18 0.90
15 2 0.10
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.49
Consensus pattern (14 bp):
TTTTTAAGACGTGA
Found at i:10083121 original size:23 final size:23
Alignment explanation
Indices: 10083094--10083141 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
10083084 AAACTATACT
10083094 AAAAATAAGAAAGT-AAATAAACA
1 AAAAATAAGAAA-TCAAATAAACA
* *
10083117 AAAAATGAGAAATCAAATAATCA
1 AAAAATAAGAAATCAAATAAACA
10083140 AA
1 AA
10083142 TATGTATCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.15
Consensus pattern (23 bp):
AAAAATAAGAAATCAAATAAACA
Found at i:10093527 original size:25 final size:25
Alignment explanation
Indices: 10093479--10093547 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
10093469 TCAGTATAGT
* * * *
10093479 CTATCTATAGTAGTCTAAGTATATA
1 CTATCTATAGCAGTTTCAGGATATA
10093504 CTATCTATAGCAGTTTCAGGATATA
1 CTATCTATAGCAGTTTCAGGATATA
*
10093529 CTATC-AAAGACAGTTTCAG
1 CTATCTATAG-CAGTTTCAG
10093548 ATTCAGTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
24 3 0.08
25 35 0.92
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (25 bp):
CTATCTATAGCAGTTTCAGGATATA
Found at i:10093858 original size:18 final size:19
Alignment explanation
Indices: 10093831--10093871 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
10093821 GCTCGTTTCC
10093831 AAAA-CATTATTC-ATTTA
1 AAAATCATTATTCAATTTA
*
10093848 AAAATCATTATTCAATTTC
1 AAAATCATTATTCAATTTA
10093867 AAAAT
1 AAAAT
10093872 GTTTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 8 0.38
19 9 0.43
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATCATTATTCAATTTA
Found at i:10096426 original size:11 final size:11
Alignment explanation
Indices: 10096410--10096507 Score: 80
Period size: 11 Copynumber: 9.3 Consensus size: 11
10096400 TCAATTATTT
10096410 TCTCAATTTCC
1 TCTCAATTTCC
10096421 TCTCAATTTCC
1 TCTCAATTTCC
* *
10096432 TCTCAAATTGC
1 TCTCAATTTCC
10096443 TCTCAATTTCC
1 TCTCAATTTCC
*
10096454 TTCTAAATTT-C
1 -TCTCAATTTCC
*
10096465 TCTCAA-ATCC
1 TCTCAATTTCC
* **
10096475 -AT--ATTTAA
1 TCTCAATTTCC
*
10096483 TCTCAATTTGC
1 TCTCAATTTCC
10096494 TCTCAATTTCC
1 TCTCAATTTCC
10096505 TCT
1 TCT
10096508 TAAATTTCTC
Statistics
Matches: 66, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 6 0.09
11 47 0.71
12 8 0.12
ACGTcount: A:0.23, C:0.30, G:0.02, T:0.45
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:10096448 original size:33 final size:33
Alignment explanation
Indices: 10096410--10096472 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
10096400 TCAATTATTT
*
10096410 TCTCAATTTCC-TCTCAATTTCCTCTCAAATTGC
1 TCTCAATTTCCTTCTAAATTT-CTCTCAAATTGC
10096443 TCTCAATTTCCTTCTAAATTTCTCTCAAAT
1 TCTCAATTTCCTTCTAAATTTCTCTCAAAT
10096473 CCATATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 20 0.71
34 8 0.29
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (33 bp):
TCTCAATTTCCTTCTAAATTTCTCTCAAATTGC
Found at i:10096488 original size:51 final size:51
Alignment explanation
Indices: 10096432--10096531 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
10096422 CTCAATTTCC
10096432 TCTCAAATTGCTCTCAATTTCCT-TCTAAATTTCTCTCAAATCCATATTTAA
1 TCTCAAATTGCTCTCAATTTCCTCT-TAAATTTCTCTCAAATCCATATTTAA
* * *
10096483 TCTCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAAATTGCTCTCAATTTCCTCTTAAATTTCTCTCAAATCCATATTT
10096532 TTAATTATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 44 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.46
Consensus pattern (51 bp):
TCTCAAATTGCTCTCAATTTCCTCTTAAATTTCTCTCAAATCCATATTTAA
Found at i:10096556 original size:19 final size:19
Alignment explanation
Indices: 10096532--10096571 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
10096522 ATCCCTATTT
10096532 TTAATTATTTTTAAAAAAA
1 TTAATTATTTTTAAAAAAA
*
10096551 TTAATTTTTTTTAAAAAAA
1 TTAATTATTTTTAAAAAAA
10096570 TT
1 TT
10096572 TTAAATCGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAATTATTTTTAAAAAAA
Found at i:10098355 original size:18 final size:18
Alignment explanation
Indices: 10098332--10098374 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10098322 TGCCAGGTGC
* *
10098332 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
10098350 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
10098368 GTTTCCT
1 GTATCCT
10098375 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:10098849 original size:49 final size:49
Alignment explanation
Indices: 10098795--10098891 Score: 194
Period size: 49 Copynumber: 2.0 Consensus size: 49
10098785 GTTTATATTA
10098795 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
10098844 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTT
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTT
10098892 CTAGTTTATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.47
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
Found at i:10098898 original size:31 final size:31
Alignment explanation
Indices: 10098862--10098923 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
10098852 AAATACAAAA
10098862 TAGTTTATTTTGAATATTTTGATATTATTTC
1 TAGTTTATTTTGAATATTTTGATATTATTTC
*
10098893 TAGTTTATTTTGAATATTTTGATTTTATTTC
1 TAGTTTATTTTGAATATTTTGATATTATTTC
10098924 ATTTAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.03, G:0.10, T:0.63
Consensus pattern (31 bp):
TAGTTTATTTTGAATATTTTGATATTATTTC
Found at i:10098913 original size:80 final size:80
Alignment explanation
Indices: 10098813--10098972 Score: 284
Period size: 80 Copynumber: 2.0 Consensus size: 80
10098803 AAATACAAAA
* *
10098813 TAGTTTATTTTGAATATTTTGATATTATTTGATGTAATAAAATACAAAATAGTTTATTTTGAATA
1 TAGTTTATTTTGAATATTTTGATATTATTTCATGTAATAAAATAAAAAATAGTTTATTTTGAATA
10098878 TTTTGATATTATTTC
66 TTTTGATATTATTTC
* *
10098893 TAGTTTATTTTGAATATTTTGATTTTATTTCATTTAATAAAATAAAAAATAGTTTATTTTGAATA
1 TAGTTTATTTTGAATATTTTGATATTATTTCATGTAATAAAATAAAAAATAGTTTATTTTGAATA
10098958 TTTTGATATTATTTC
66 TTTTGATATTATTTC
10098973 ATTTAATAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.54
Consensus pattern (80 bp):
TAGTTTATTTTGAATATTTTGATATTATTTCATGTAATAAAATAAAAAATAGTTTATTTTGAATA
TTTTGATATTATTTC
Found at i:10100264 original size:12 final size:11
Alignment explanation
Indices: 10100234--10100331 Score: 62
Period size: 11 Copynumber: 9.3 Consensus size: 11
10100224 TCAATTATTT
10100234 TCTCAATTTCC
1 TCTCAATTTCC
*
10100245 TCTCAATTTTC
1 TCTCAATTTCC
* *
10100256 TCTCAAATTGC
1 TCTCAATTTCC
*
10100267 TCTCAATGTCC
1 TCTCAATTTCC
*
10100278 TTCTAAATTT-C
1 -TCTCAATTTCC
*
10100289 TCTCAA-ATCC
1 TCTCAATTTCC
* **
10100299 -AT--ATTTAA
1 TCTCAATTTCC
*
10100307 TCTCAATTTGC
1 TCTCAATTTCC
10100318 TCTCAATTTCC
1 TCTCAATTTCC
10100329 TCT
1 TCT
10100332 TAACTTTCTC
Statistics
Matches: 63, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 6 0.10
11 45 0.71
12 7 0.11
ACGTcount: A:0.23, C:0.29, G:0.03, T:0.45
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:10100269 original size:22 final size:23
Alignment explanation
Indices: 10100222--10100273 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
10100212 ATTAATCTTT
* *
10100222 TCTCAATTATTTTCTCAATTTCC
1 TCTCAATTATTCTCTCAAATTCC
*
10100245 TCTCAATT-TTCTCTCAAATTGC
1 TCTCAATTATTCTCTCAAATTCC
10100267 TCTCAAT
1 TCTCAAT
10100274 GTCCTTCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.48
Consensus pattern (23 bp):
TCTCAATTATTCTCTCAAATTCC
Found at i:10100273 original size:33 final size:33
Alignment explanation
Indices: 10100234--10100296 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
10100224 TCAATTATTT
* *
10100234 TCTCAATTTCC-TCTCAATTTTCTCTCAAATTGC
1 TCTCAATGTCCTTCT-AAATTTCTCTCAAATTGC
10100267 TCTCAATGTCCTTCTAAATTTCTCTCAAAT
1 TCTCAATGTCCTTCTAAATTTCTCTCAAAT
10100297 CCATATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.24, C:0.29, G:0.03, T:0.44
Consensus pattern (33 bp):
TCTCAATGTCCTTCTAAATTTCTCTCAAATTGC
Found at i:10100312 original size:51 final size:51
Alignment explanation
Indices: 10100256--10100355 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
10100246 CTCAATTTTC
10100256 TCTCAAATTGCTCTCAATGTCCT-TCTAAATTTCTCTCAAATCCATATTTAA
1 TCTCAAATTGCTCTCAATGTCCTCT-TAAATTTCTCTCAAATCCATATTTAA
* * * * *
10100307 TCTCAATTTGCTCTCAATTTCCTCTTAACTTTCTCTTAAATCCCTATTT
1 TCTCAAATTGCTCTCAATGTCCTCTTAAATTTCTCTCAAATCCATATTT
10100356 TTAATTATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.03, T:0.45
Consensus pattern (51 bp):
TCTCAAATTGCTCTCAATGTCCTCTTAAATTTCTCTCAAATCCATATTTAA
Found at i:10100520 original size:24 final size:23
Alignment explanation
Indices: 10100493--10100546 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
10100483 ATGGTAAGTG
*
10100493 TTAAATTTATTTTTTAA-ATATTAT
1 TTAAATTT-TTTATTAATATATT-T
*
10100517 TTAAGATTTTTTATTAATGTATTT
1 TTAA-ATTTTTTATTAATATATTT
10100541 TTAAAT
1 TTAAAT
10100547 AATTATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 2 0.08
24 16 0.62
25 8 0.31
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
TTAAATTTTTTATTAATATATTT
Found at i:10102168 original size:18 final size:18
Alignment explanation
Indices: 10102145--10102185 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
10102135 TTTTCAGATG
* *
10102145 ATCCTAGCCCTTTTATGT
1 ATCCTAACCCTTATATGT
10102163 ATCCTAACCCTTATATGT
1 ATCCTAACCCTTATATGT
*
10102181 TTCCT
1 ATCCT
10102186 TTTTCTAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.29, G:0.07, T:0.44
Consensus pattern (18 bp):
ATCCTAACCCTTATATGT
Found at i:10106232 original size:124 final size:125
Alignment explanation
Indices: 10105966--10106252 Score: 486
Period size: 124 Copynumber: 2.3 Consensus size: 125
10105956 CTCAAACATG
* *
10105966 CTACTATAGTAAAAGCGAGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
1 CTACTATAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
* *
10106031 TTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGAC
* * *
10106091 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTATAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
10106156 TTGAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGAC
* *
10106215 CTACTATAGCAAAAGCGCGTTCACGTAGGAGCGATTTC
1 CTACTATAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
10106253 CTTAATAAAT
Statistics
Matches: 151, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
124 83 0.55
125 68 0.45
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (125 bp):
CTACTATAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGAC
Found at i:10106437 original size:9 final size:9
Alignment explanation
Indices: 10106420--10106470 Score: 51
Period size: 9 Copynumber: 6.3 Consensus size: 9
10106410 TTTTTTCTCT
10106420 AAAACCCTA
1 AAAACCCTA
*
10106429 AAAATCCTA
1 AAAACCCTA
10106438 AAAACCCT-
1 AAAACCCTA
10106446 -AAACCCT-
1 AAAACCCTA
10106453 --AACCCTA
1 AAAACCCTA
10106460 AAAACCC-A
1 AAAACCCTA
10106468 AAA
1 AAA
10106471 CCTAACATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
6 6 0.16
7 7 0.19
8 4 0.11
9 20 0.54
ACGTcount: A:0.55, C:0.33, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAACCCTA
Found at i:10106474 original size:21 final size:22
Alignment explanation
Indices: 10106434--10106476 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10106424 CCCTAAAAAT
*
10106434 CCTAAAAACCCTAAACCCTAAC
1 CCTAAAAACCCTAAAACCTAAC
10106456 CCTAAAAACCC-AAAACCTAAC
1 CCTAAAAACCCTAAAACCTAAC
10106477 ATGGAGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.49, C:0.40, G:0.00, T:0.12
Consensus pattern (22 bp):
CCTAAAAACCCTAAAACCTAAC
Found at i:10106705 original size:29 final size:29
Alignment explanation
Indices: 10106641--10106706 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
10106631 ACTTTCGAGG
*
10106641 AAAAGGGC-CATTTCGGTAAATAATAAAA
1 AAAAGGGCTCATTTCGATAAATAATAAAA
* ** **
10106669 TATCGGGCTCATTTCGATAAATTTTAAAA
1 AAAAGGGCTCATTTCGATAAATAATAAAA
10106698 AAAAGGGCT
1 AAAAGGGCT
10106707 TTTAATGGTG
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.27
Consensus pattern (29 bp):
AAAAGGGCTCATTTCGATAAATAATAAAA
Found at i:10109256 original size:50 final size:50
Alignment explanation
Indices: 10109186--10109290 Score: 201
Period size: 50 Copynumber: 2.1 Consensus size: 50
10109176 TAAGTAAATA
10109186 TATTTCAGAATTTATTAGAGTTTGATAGACTTACCTTCATTTTATTATTT
1 TATTTCAGAATTTATTAGAGTTTGATAGACTTACCTTCATTTTATTATTT
*
10109236 TATTTCAGAATTTATTAGAGTTTGATAGACTTACCTTTATTTTATTATTT
1 TATTTCAGAATTTATTAGAGTTTGATAGACTTACCTTCATTTTATTATTT
10109286 TATTT
1 TATTT
10109291 ATTTATTTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.54
Consensus pattern (50 bp):
TATTTCAGAATTTATTAGAGTTTGATAGACTTACCTTCATTTTATTATTT
Found at i:10109846 original size:160 final size:160
Alignment explanation
Indices: 10109664--10109979 Score: 623
Period size: 160 Copynumber: 2.0 Consensus size: 160
10109654 CTAAGTCTAG
10109664 GTTATTGAAAAGTTTCATGTGTAAAGAATTAAATAGCTAAATAGGTCAAACCATAAGTGTACCAT
1 GTTATTGAAAAGTTTCATGTGTAAAGAATTAAATAGCTAAATAGGTCAAACCATAAGTGTACCAT
10109729 CCCAATTTAAAAGAAAAATTTTACCTTTTACCAAAAACATGCAAAAATAGCGATGACAGATAAGC
66 CCCAATTTAAAAGAAAAATTTTACCTTTTACCAAAAACATGCAAAAATAGCGATGACAGATAAGC
10109794 AAATTAGAACCAATTTATGTTTCCCTAAAA
131 AAATTAGAACCAATTTATGTTTCCCTAAAA
*
10109824 GTTATTGAAAAGTTTCATGTGTAAAGAATTAAATAGCTAAATAGGTCAAACCATAAGTGTATCAT
1 GTTATTGAAAAGTTTCATGTGTAAAGAATTAAATAGCTAAATAGGTCAAACCATAAGTGTACCAT
10109889 CCCAATTTAAAAGAAAAATTTTACCTTTTACCAAAAACATGCAAAAATAGCGATGACAGATAAGC
66 CCCAATTTAAAAGAAAAATTTTACCTTTTACCAAAAACATGCAAAAATAGCGATGACAGATAAGC
10109954 AAATTAGAACCAATTTATGTTTCCCT
131 AAATTAGAACCAATTTATGTTTCCCT
10109980 CCCACCTACT
Statistics
Matches: 155, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
160 155 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.29
Consensus pattern (160 bp):
GTTATTGAAAAGTTTCATGTGTAAAGAATTAAATAGCTAAATAGGTCAAACCATAAGTGTACCAT
CCCAATTTAAAAGAAAAATTTTACCTTTTACCAAAAACATGCAAAAATAGCGATGACAGATAAGC
AAATTAGAACCAATTTATGTTTCCCTAAAA
Found at i:10110205 original size:13 final size:13
Alignment explanation
Indices: 10110187--10110234 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
10110177 CCTACAAAAA
10110187 TAAAATTAAATAG
1 TAAAATTAAATAG
*
10110200 TAAAATTAAATAA
1 TAAAATTAAATAG
10110213 TAATAA-T-AATAG
1 TAA-AATTAAATAG
*
10110225 GAAAATTAAA
1 TAAAATTAAA
10110235 AAAAATTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
11 2 0.07
12 7 0.24
13 18 0.62
14 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (13 bp):
TAAAATTAAATAG
Found at i:10117196 original size:3 final size:3
Alignment explanation
Indices: 10117175--10117245 Score: 54
Period size: 3 Copynumber: 23.0 Consensus size: 3
10117165 TTATTTATCA
* * * * *
10117175 TAT TAT TAC TAC TAC TAT TAT TAT TGT TAG TAT TA- TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
*
10117220 TAT TACT TGAT TAT TAT TAT AAT TAT
1 TAT TA-T T-AT TAT TAT TAT TAT TAT
10117246 CTACTCATTC
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
2 2 0.04
3 47 0.84
4 6 0.11
5 1 0.02
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:10117660 original size:20 final size:20
Alignment explanation
Indices: 10117615--10117652 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10117605 TATATATATA
*
10117615 TATATATGCGTACATATTCT
1 TATATATGCATACATATTCT
*
10117635 TATATATGCATACTTATT
1 TATATATGCATACATATT
10117653 TTTTTATACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (20 bp):
TATATATGCATACATATTCT
Found at i:10117687 original size:18 final size:18
Alignment explanation
Indices: 10117664--10117718 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
10117654 TTTTATACTT
*
10117664 TATATATATACATGTATA
1 TATATATATACACGTATA
10117682 TATATATATACACGTATA
1 TATATATATACACGTATA
*
10117700 CATATATATAC-C-TATA
1 TATATATATACACGTATA
10117716 TAT
1 TAT
10117719 GCATATTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
16 6 0.18
17 1 0.03
18 27 0.79
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.42
Consensus pattern (18 bp):
TATATATATACACGTATA
Found at i:10117699 original size:16 final size:16
Alignment explanation
Indices: 10117664--10117718 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
10117654 TTTTATACTT
*
10117664 TATATATATACATGTATA
1 TATATATATACACG--TA
10117682 TATATATATACACGTA
1 TATATATATACACGTA
* * *
10117698 TACATATATATACCTA
1 TATATATATACACGTA
10117714 TATAT
1 TATAT
10117719 GCATATTGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 19 0.59
18 13 0.41
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.42
Consensus pattern (16 bp):
TATATATATACACGTA
Found at i:10122524 original size:35 final size:32
Alignment explanation
Indices: 10122469--10122545 Score: 93
Period size: 35 Copynumber: 2.3 Consensus size: 32
10122459 GACCCAATCC
*
10122469 CAAAA-AAAAAAAGAAAAATCAAAGTCAAAAG
1 CAAAAGAAAAAAAGAAAAATCAAAATCAAAAG
*
10122500 CAAAAGAAAAAAAGAAAAATAATCAAAATCAAAAT
1 CAAAAGAAAAAAAG--AAA-AATCAAAATCAAAAG
10122535 CAAAATGAAAA
1 CAAAA-GAAAA
10122546 TAAAAAATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
31 5 0.13
32 8 0.21
34 3 0.08
35 18 0.46
36 5 0.13
ACGTcount: A:0.74, C:0.09, G:0.08, T:0.09
Consensus pattern (32 bp):
CAAAAGAAAAAAAGAAAAATCAAAATCAAAAG
Found at i:10122826 original size:7 final size:7
Alignment explanation
Indices: 10122814--10122847 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
10122804 GATTTCAACA
10122814 AAAAATG
1 AAAAATG
10122821 AAAAAT-
1 AAAAATG
*
10122827 AAGAATG
1 AAAAATG
10122834 AAAAATG
1 AAAAATG
10122841 AAAAATG
1 AAAAATG
10122848 GAGAAGCTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:10124214 original size:87 final size:87
Alignment explanation
Indices: 10124065--10124528 Score: 685
Period size: 87 Copynumber: 5.3 Consensus size: 87
10124055 GGATCAGTGA
* * * *
10124065 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCAGGTTAAAGATAGTAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
* * * *
10124130 ATTCCTGCATTGACAGCAAAAC
66 CTTCCTGCATTAACAGCGAAGC
* ** * *
10124152 AGATCGAAAACAAAGCCTTGCCTCCACCGGTTCCAGTGGAGCTGGTTGAAGATAGCAAATCTTAC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
* * *
10124217 CTTCCTGCGTTAACAGTGAAGT
66 CTTCCTGCATTAACAGCGAAGC
*
10124239 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
*
10124304 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* *
10124326 AGATCGAAAACAAAGCCTTGCCTCCGTCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
*
10124391 CTTCCTACATTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
10124413 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
* *
10124478 CTTCTTGCATTAGCAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * **
10124500 AGATCAAAAATAAAATCTTGCCTCCATCG
1 AGATCGAAAACAAAGCCTTGCCTCCATCG
10124529 ATTACAACTG
Statistics
Matches: 339, Mismatches: 38, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 339 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
CTTCCTGCATTAACAGCGAAGC
Found at i:10124348 original size:43 final size:43
Alignment explanation
Indices: 10124299--10124435 Score: 111
Period size: 42 Copynumber: 3.2 Consensus size: 43
10124289 GATAGCAGAT
10124299 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
* * * * * * * *
10124342 CTTGCC-TCC-GTCGGTT-GCAGTGGAGCTGGTTGAAGATAGCAGA-T
1 CTTGCCTTCCTG-C-GTTAACAGCGAAGCAGATCGAA-A-A-CAAAGC
* *
10124386 CTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
10124429 CTTGCCT
1 CTTGCCT
10124436 CCATCGGTTG
Statistics
Matches: 67, Mismatches: 18, Indels: 18
0.65 0.17 0.17
Matches are distributed among these distances:
41 1 0.01
42 19 0.28
43 18 0.27
44 10 0.15
45 19 0.28
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
Found at i:10131778 original size:17 final size:17
Alignment explanation
Indices: 10131752--10131787 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
10131742 ATTATTATTT
10131752 TAAATATATATAAAATA
1 TAAATATATATAAAATA
*
10131769 TAAATTTATATAAAATA
1 TAAATATATATAAAATA
10131786 TA
1 TA
10131788 TACCATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATATATATAAAATA
Found at i:10131880 original size:18 final size:18
Alignment explanation
Indices: 10131854--10131900 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
10131844 TAATGTATAT
* *
10131854 AATTAATAAAAATTTACA
1 AATTTATAAAAATGTACA
*
10131872 AATTTATAAAAATGTATA
1 AATTTATAAAAATGTACA
*
10131890 AATATATAAAA
1 AATTTATAAAA
10131901 GAATACAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTTATAAAAATGTACA
Found at i:10131924 original size:44 final size:44
Alignment explanation
Indices: 10131858--10131942 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
10131848 GTATATAATT
* *
10131858 AATAAAAATTTACAAATTTATAAAAATGTATAAATATATAAAAG
1 AATAAAAATTTACAAATGTATAAAAATATATAAATATATAAAAG
* * *
10131902 AATACAAAA-TTATAAATGTATAAATATATATATATATATAA
1 AATA-AAAATTTACAAATGTATAAAAATATATAAATATATAA
10131943 TAACTAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 31 0.89
45 4 0.11
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (44 bp):
AATAAAAATTTACAAATGTATAAAAATATATAAATATATAAAAG
Found at i:10131933 original size:18 final size:18
Alignment explanation
Indices: 10131871--10131933 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
10131861 AAAAATTTAC
* *
10131871 AAATTTATAAAAATGTAT
1 AAATATATATAAATGTAT
*
10131889 AAATATATA-AAA-GAAT
1 AAATATATATAAATGTAT
*
10131905 ACAAAAT-TATAAATGTAT
1 A-AATATATATAAATGTAT
10131923 AAATATATATA
1 AAATATATATA
10131934 TATATATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
16 6 0.17
17 14 0.39
18 16 0.44
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (18 bp):
AAATATATATAAATGTAT
Found at i:10133109 original size:14 final size:15
Alignment explanation
Indices: 10133073--10133116 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
10133063 GTTTTGTTTA
*
10133073 TATTTTTACATTAATT
1 TATTTTTA-ATTATTT
*
10133089 TATTTTTATTTATTT
1 TATTTTTAATTATTT
10133104 TA-TTTTAATTATT
1 TATTTTTAATTATT
10133117 GTTTTATACG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 10 0.40
15 7 0.28
16 8 0.32
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTTAATTATTT
Found at i:10134689 original size:11 final size:11
Alignment explanation
Indices: 10134673--10134699 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10134663 GATAAATGTT
10134673 ATTTTATTAAG
1 ATTTTATTAAG
10134684 ATTTTATTAAG
1 ATTTTATTAAG
10134695 ATTTT
1 ATTTT
10134700 TAGTATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (11 bp):
ATTTTATTAAG
Found at i:10141879 original size:22 final size:22
Alignment explanation
Indices: 10141851--10142001 Score: 221
Period size: 22 Copynumber: 6.9 Consensus size: 22
10141841 TGTTGATAGT
*
10141851 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
10141873 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
10141895 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
10141917 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
10141939 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
10141961 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
10141983 ACGTACTAAGCTCTCATGT
1 ACGTACTAAGCTCTCATGT
10142002 ATTTTAATTA
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 117 1.00
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:10145613 original size:21 final size:21
Alignment explanation
Indices: 10145589--10145628 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
10145579 CAAAACAATG
10145589 TAATTTT-ACCTTTTAACTTGA
1 TAATTTTGA-CTTTTAACTTGA
10145610 TAATTTTGACTTTTAACTT
1 TAATTTTGACTTTTAACTT
10145629 TAGATAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.55
Consensus pattern (21 bp):
TAATTTTGACTTTTAACTTGA
Found at i:10145861 original size:3 final size:3
Alignment explanation
Indices: 10145853--10145916 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
10145843 ATTTTAAAGC
10145853 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10145901 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
10145917 GATATTTTAG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10145999 original size:16 final size:16
Alignment explanation
Indices: 10145974--10146013 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
10145964 CAAAATTATT
*
10145974 ATTTTATAAAATTTTAA
1 ATTTT-TAAAATTTCAA
10145991 ATTTTTAAAATTTCAA
1 ATTTTTAAAATTTCAA
*
10146007 CTTTTTA
1 ATTTTTA
10146014 TATATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTTAAAATTTCAA
Found at i:10146099 original size:19 final size:20
Alignment explanation
Indices: 10146075--10146131 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
10146065 CAAATTTTAG
* *
10146075 AATTTTTATAAA-TATTTTT
1 AATTTTTAAAAATTATTTTC
10146094 AA-TTTTAAAAATTATTTTC
1 AATTTTTAAAAATTATTTTC
*
10146113 AATTTTTGAAAATTATTTT
1 AATTTTTAAAAATTATTTT
10146132 GATTATTCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.24
19 10 0.30
20 15 0.45
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTC
Found at i:10146124 original size:20 final size:19
Alignment explanation
Indices: 10146075--10146131 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
10146065 CAAATTTTAG
*
10146075 AATTTTTATAAA-TATTTTT
1 AATTTTTA-AAATTATTTTC
*
10146094 AATTTTAAAAATTATTTTC
1 AATTTTTAAAATTATTTTC
10146113 AATTTTTGAAAATTATTTT
1 AATTTTT-AAAATTATTTT
10146132 GATTATTCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 3 0.09
19 19 0.58
20 11 0.33
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
AATTTTTAAAATTATTTTC
Found at i:10153614 original size:112 final size:112
Alignment explanation
Indices: 10153481--10153797 Score: 381
Period size: 112 Copynumber: 2.8 Consensus size: 112
10153471 AAAAAAAAAA
*
10153481 TTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAAATTTAAAAAAAAATTCTTTTTTTTTT
1 TTTGGGTGCT-GCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAATTCTTTTTTTTTT
*
10153546 CATGTCAGAATCAGATATCAGTATACGAAAAAAA-TAAAAAAACAATT
65 CGTGTCAGAATCAGATATCAGTATACGAAAAAAATTAAAAAAACAATT
* * *
10153593 TTTGGGTGCTAGCCTGTCAATGGCAGGCACCCAGTACAAATTTTAAAAAAAA-TC-ATTTTTTTT
1 TTTGGGTGCT-GCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAATTCTTTTTTTTTT
* * * ****
10153656 CGTGTCAAAATCAAATATCAGTTTACGAAAAAAATTTAAAAAATTTTTT
65 CGTGTCAGAATCAGATATCAGTATACGAAAAAAA-TTAAAAAAACAATT
* * *
10153705 TTTGGGTGGTGACCTGTCAATGGCCGGCACCCAGTAC-AATTTAAAAAAGATTATTTTTTTCTTT
1 TTTGGGTGCTG-CCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAA-A--A-ATTCTT-TTT
*
10153769 TTTTTCGTGTCCGAATCAGATATCAGTAT
60 TTTTTCGTGTCAGAATCAGATATCAGTAT
10153798 GCCATTCACA
Statistics
Matches: 172, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
110 38 0.22
111 13 0.08
112 91 0.53
114 1 0.01
116 1 0.01
118 28 0.16
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (112 bp):
TTTGGGTGCTGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAATTCTTTTTTTTTTC
GTGTCAGAATCAGATATCAGTATACGAAAAAAATTAAAAAAACAATT
Found at i:10154247 original size:103 final size:103
Alignment explanation
Indices: 10153994--10154504 Score: 434
Period size: 111 Copynumber: 5.0 Consensus size: 103
10153984 AAATATATAT
* * * *
10153994 TTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC--AAAATTTTTTTTAATTTTT
1 TTTTAAAATTGTACTGGATGCCAGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTAAATTTT
*
10154057 TTCGTATACTGATATCTGATTTTGACACAAAAAAAAGAA
66 TTCGTATACTGATATCTGATTTTGACACGAAAAAAA-AA
*
10154096 TTTTTTTTTAAAAAATTGTACTGGGA-G-CAGGCCATTGACAGGCCAGCACCCAAAAAAATGTTT
1 -----TTTT--AAAATTGTACT-GGATGCCA-GCCATTGACAGGCCAGCACCCAAAAAAATTTTT
*
10154159 TTAAATTTTTTCGTATACTGATATCTAATTTTGACACGAAAAAAAAA
57 TTAAATTTTTTCGTATACTGATATCTGATTTTGACACGAAAAAAAAA
* * * * * * *
10154206 TTTTAAAATTGTACTGGATGCTAGCCATTGATAGACTAGCACCCAAAAAAATTTTTTTTACTCTT
1 TTTTAAAATTGTACTGGATGCCAGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTAAATTTT
* * *
10154271 TTCGCATACTGATATCTGATTCTAACACG-AAAAAAAA
66 TTCGTATACTGATATCTGATTTTGACACGAAAAAAAAA
* * *
10154308 TTTT--AATTGTATTGGGTGCCGGCCATTGACAGGCCAGCACCC----AAA------T---TTTT
1 TTTTAAAATTGTACTGGATGCCAGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTAAATTTT
* *
10154358 TTCGTATATTGATATTTGATTTTGACACGAAAAAAAAGAA
66 TTCGTATACTGATATCTGATTTTGACACG-AAAAAAA-AA
* * ** * **
10154398 TTTTTTTTTTAAATTTGTACTGGGTGCTGGCCATTGACAGGCCAGCACCTAAAAATTTTTTTTTA
1 ------TTTTAAAATTGTACTGGATGCCAGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTA
* *
10154463 ATTTTTTTCGTATACTGATATCTGATTCTGACAC-AAAAAAAA
60 AATTTTTTCGTATACTGATATCTGATTTTGACACGAAAAAAAA
10154505 GAAAAAAAAA
Statistics
Matches: 331, Mismatches: 41, Indels: 63
0.76 0.09 0.14
Matches are distributed among these distances:
87 27 0.08
89 6 0.02
90 3 0.01
96 7 0.02
98 34 0.10
100 31 0.09
102 16 0.05
103 72 0.22
104 1 0.00
105 4 0.01
107 4 0.01
108 3 0.01
109 40 0.12
110 4 0.01
111 79 0.24
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (103 bp):
TTTTAAAATTGTACTGGATGCCAGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTAAATTTT
TTCGTATACTGATATCTGATTTTGACACGAAAAAAAAA
Found at i:10154569 original size:111 final size:109
Alignment explanation
Indices: 10154351--10154581 Score: 293
Period size: 115 Copynumber: 2.1 Consensus size: 109
10154341 CCAGCACCCA
* * * ** *
10154351 AATTTTTTTCGTATATTGATATTTGATTTTGACACGAAAAAAAAGAATTTTTTTTTTAAATTTGT
1 AATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAAAATTTTCTTTAAATTTGT
* *
10154416 ACTGGGTGCTGGCCATTGACAGGCCAGCACCTAAAAATTTTTTTTT
66 ACTGGGTGCCGACCATTGACAGGCCAGCACC--AAAATTTTTTTTT
10154462 AATTTTTTTCGTATACTGATATCTGATTCTGACAC-AAAAAAAAGAAAAAAAAATTTTCTTTAAA
1 AATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAG-----AAAATTTTCTTTAAA
* * *
10154526 TTTGTACTGGGTGCCGACCATTGACAGGCTAGCACCCAATTTTTTTTTT
61 TTTGTACTGGGTGCCGACCATTGACAGGCCAGCACCAAAATTTTTTTTT
10154575 AATTTTT
1 AATTTTT
10154582 AATTTTTTTC
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
110 9 0.09
111 32 0.31
113 18 0.17
115 45 0.43
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (109 bp):
AATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAAAATTTTCTTTAAATTTGT
ACTGGGTGCCGACCATTGACAGGCCAGCACCAAAATTTTTTTTT
Found at i:10155142 original size:14 final size:14
Alignment explanation
Indices: 10155123--10155156 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
10155113 CGGATCACAT
10155123 TTATCACTTGTCAC
1 TTATCACTTGTCAC
10155137 TTATCACTTGTCAC
1 TTATCACTTGTCAC
*
10155151 TGATCA
1 TTATCA
10155157 GATAAGTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.41
Consensus pattern (14 bp):
TTATCACTTGTCAC
Found at i:10155244 original size:7 final size:7
Alignment explanation
Indices: 10155228--10155258 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
10155218 GCTAAGCTAC
*
10155228 CACTTAT
1 CACTTGT
10155235 CACTTGT
1 CACTTGT
10155242 CACTTGT
1 CACTTGT
10155249 CACTTGT
1 CACTTGT
10155256 CAC
1 CAC
10155259 CGATCAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.19, C:0.32, G:0.10, T:0.39
Consensus pattern (7 bp):
CACTTGT
Found at i:10155251 original size:57 final size:57
Alignment explanation
Indices: 10155123--10155302 Score: 275
Period size: 57 Copynumber: 3.3 Consensus size: 57
10155113 CGGATCACAT
* *
10155123 TTATCACTTGTCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCT-AAGCTACCAC
*
10155181 -T-T-A----TCACTTGTCACTTGTCACCGATTAGATAAGTGTAGCTAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAGCTACCAC
10155231 TTATCACTTGTCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAGCTACCAC
10155288 TTATCACTTGTCACT
1 TTATCACTTGTCACT
10155303 GATCAGAAGT
Statistics
Matches: 111, Mismatches: 4, Indels: 15
0.85 0.03 0.12
Matches are distributed among these distances:
50 10 0.09
51 35 0.32
52 1 0.01
53 1 0.01
55 1 0.01
56 1 0.01
57 62 0.56
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (57 bp):
TTATCACTTGTCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAGCTACCAC
Found at i:10156666 original size:45 final size:45
Alignment explanation
Indices: 10156602--10156891 Score: 436
Period size: 45 Copynumber: 6.4 Consensus size: 45
10156592 AATATACAGT
* * * * *
10156602 AATCAGTAACGGTAGCAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
10156647 AATCTGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* * *
10156692 AATCGATAACAGTAACAGTAACAGTATTCGACACATAAAGTCCCG
1 AATCGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* *
10156737 AGTCGGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCG
1 AATCGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* *
10156782 AGTCGGTAACAGTAATAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* *
10156827 AGTCGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCG
1 AATCGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
10156872 AATCAGTAACAGTAACAGTA
1 AATCGGTAACAGTAACAGTA
10156892 GTCGGCACAT
Statistics
Matches: 225, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 225 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (45 bp):
AATCGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
Found at i:10166201 original size:21 final size:21
Alignment explanation
Indices: 10166145--10166202 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
10166135 ACAAGTGCTA
* *
10166145 AACGGAAACTCATAAGGGTTG
1 AACGGAAACTCATAAGAGCTG
* * *
10166166 AACAGAAGCTTATAAGAGCTG
1 AACGGAAACTCATAAGAGCTG
*
10166187 AACGGAAACCCATAAG
1 AACGGAAACTCATAAG
10166203 GGTTAAACTG
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (21 bp):
AACGGAAACTCATAAGAGCTG
Found at i:10166238 original size:42 final size:42
Alignment explanation
Indices: 10166145--10166251 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 42
10166135 ACAAGTGCTA
* * * * * *
10166145 AACGGAAACTCATAAGGGTTGAACAGAAGCTTATAAGAGCTG
1 AACGAAAACCCATAAGGGTTAAACAGAAGCTTAAAAAAGCAG
* *
10166187 AACGGAAACCCATAAGGGTTAAACTGAAGCTTAAAAAAGCAG
1 AACGAAAACCCATAAGGGTTAAACAGAAGCTTAAAAAAGCAG
* *
10166229 AACTAAAACCCATTAGGGTTAAA
1 AACGAAAACCCATAAGGGTTAAA
10166252 TGGAAACTCA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (42 bp):
AACGAAAACCCATAAGGGTTAAACAGAAGCTTAAAAAAGCAG
Found at i:10172199 original size:2 final size:2
Alignment explanation
Indices: 10172187--10172232 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
10172177 AATAAAATCA
10172187 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10172228 AT AT A
1 AT AT A
10172233 AAATTTAGGG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10186168 original size:13 final size:13
Alignment explanation
Indices: 10186150--10186174 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10186140 TTTATTAGTG
10186150 AAAGAGTACATAT
1 AAAGAGTACATAT
10186163 AAAGAGTACATA
1 AAAGAGTACATA
10186175 CAAATTTGAT
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:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (13 bp):
AAAGAGTACATAT
Found at i:10186354 original size:23 final size:23
Alignment explanation
Indices: 10186342--10186389 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
10186332 ACTAGATTTC
10186342 AATCTTTTCCAATCATAATTGCA
1 AATCTTTTCCAATCATAATTGCA
10186365 AATCTTTTCCAATCATAATTGCA
1 AATCTTTTCCAATCATAATTGCA
10186388 AA
1 AA
10186390 ATTAATCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.38
Consensus pattern (23 bp):
AATCTTTTCCAATCATAATTGCA
Found at i:10186652 original size:15 final size:15
Alignment explanation
Indices: 10186632--10186667 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
10186622 CAAATACCAA
10186632 CAATTAATTTTAGGT
1 CAATTAATTTTAGGT
10186647 CAATTAATTTTAGGT
1 CAATTAATTTTAGGT
10186662 CAATTA
1 CAATTA
10186668 TACATATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.44
Consensus pattern (15 bp):
CAATTAATTTTAGGT
Found at i:10188256 original size:11 final size:11
Alignment explanation
Indices: 10188240--10188266 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10188230 TAGAAATTAG
10188240 TTTGTGAAACT
1 TTTGTGAAACT
10188251 TTTGTGAAACT
1 TTTGTGAAACT
10188262 TTTGT
1 TTTGT
10188267 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:10189800 original size:91 final size:91
Alignment explanation
Indices: 10189675--10189882 Score: 317
Period size: 91 Copynumber: 2.3 Consensus size: 91
10189665 TTGATTTTAG
* *
10189675 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
10189740 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* *
10189767 TAAATTCGTATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
10189832 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* * *
10189858 CAAATTCATATAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
10189883 GTTATAATTA
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 90 0.86
92 15 0.14
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:10189851 original size:26 final size:28
Alignment explanation
Indices: 10189797--10189857 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
10189787 TATTATCAAG
* *
10189797 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
10189825 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
10189851 AATTATA
1 AATTATA
10189858 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:10189857 original size:44 final size:43
Alignment explanation
Indices: 10189715--10189901 Score: 112
Period size: 47 Copynumber: 4.1 Consensus size: 43
10189705 GAATTTTATG
* *
10189715 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* * ** * *
10189759 AAATTGTATAAATTCGTATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATA-T--TATTATTAAATTATATTAAT-AATAATTATT-TT
10189806 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
* * * *
10189850 AAATTATACAAATTCATATAATATAATT-TATTAGTTATAATTATTTT
1 AAATTAT--ATATT-AT-TATTA-AATTATATTAATAATAATTATTTT
10189897 AAATT
1 AAATT
10189902 TTATTAAATC
Statistics
Matches: 109, Mismatches: 18, Indels: 29
0.70 0.12 0.19
Matches are distributed among these distances:
42 9 0.08
43 3 0.03
44 19 0.17
45 10 0.09
46 14 0.13
47 33 0.30
48 9 0.08
49 12 0.11
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:10189975 original size:59 final size:57
Alignment explanation
Indices: 10189909--10190213 Score: 153
Period size: 59 Copynumber: 5.1 Consensus size: 57
10189899 ATTTTATTAA
10189909 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATT-TCTTTTATAGT
* * ** * *
10189968 ATCATATATTATGATTCGAGTAAATTCATATAAGAATATTAATTATTAAGAATTT-TATTA-A--
1 ATCATATATTTTAATT--A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTTCTTTTATAGT
* * *
10190029 ATTATATATTTTAATTATAATATATTTAATAATT-TTTATGTT-AATGTGTCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAAT-ATTAATTAT-TTAAAT-T-TCTTTTATAGT
* * ** * *
10190088 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTT-TATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTTCTTTTATAGT
* * * *
10190149 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATT-TCTTTTATAGT
10190208 ATCATA
1 ATCATA
10190214 AAGAATTTTA
Statistics
Matches: 179, Mismatches: 35, Indels: 64
0.64 0.13 0.23
Matches are distributed among these distances:
53 3 0.02
54 22 0.12
55 16 0.09
56 10 0.06
57 6 0.03
59 30 0.17
60 8 0.04
61 24 0.13
63 7 0.04
64 10 0.06
65 15 0.08
66 25 0.14
67 3 0.02
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.50
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTTCTTTTATAGT
Found at i:10190007 original size:66 final size:63
Alignment explanation
Indices: 10189936--10190134 Score: 170
Period size: 66 Copynumber: 3.2 Consensus size: 63
10189926 AAATATATTT
10189936 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTCGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATT-TCTTTTATAGTATCATATATTATGATT-GAGTAAATTCATATAA
10190001 G
63 G
* * * * * * *
10190002 AATATTAATTATTAAGAATTT-TATTA-A--ATTATATATTTTAATT-A-T-AATAT-ATTTAAT
1 AATATTAATTATTTA-AATTTCTTTTATAGTATCATATATTATGATTGAGTAAAT-TCATATAAG
10190059 AAT-TT--TTATGTT-AATGTGTCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAAT-T-TCTTTTATAGTATCATATATTATGA-TTGAGTAAATTCATATA
10190120 AG
62 AG
10190122 AATATTAATTATT
1 AATATTAATTATT
10190135 AAGAATTTTA
Statistics
Matches: 102, Mismatches: 14, Indels: 35
0.68 0.09 0.23
Matches are distributed among these distances:
53 3 0.03
54 5 0.05
55 2 0.02
56 6 0.06
57 12 0.12
58 2 0.02
59 12 0.12
60 2 0.02
61 14 0.14
62 2 0.02
63 12 0.12
64 6 0.06
65 3 0.03
66 21 0.21
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTCTTTTATAGTATCATATATTATGATTGAGTAAATTCATATAAG
Found at i:10190022 original size:120 final size:120
Alignment explanation
Indices: 10189898--10190213 Score: 521
Period size: 120 Copynumber: 2.6 Consensus size: 120
10189888 AATTATTTTA
* *
10189898 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATATTAATTATGTT-AAATTATCTTT
10189962 TATAGTATCATATATTATGATTCGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTCGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
10190018 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATT-TTTATGTT-AATGTGTCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAAT-ATTAATTATGTTAAAT-TATCTT
*
10190081 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTATAGTATCATATATTATGATTCGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
10190138 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATATTAATTATGTTAAATTATCTTTT
10190203 ATAGTATCATA
66 ATAGTATCATA
10190214 AAGAATTTTA
Statistics
Matches: 182, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
119 5 0.03
120 170 0.93
121 7 0.04
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATATTAATTATGTTAAATTATCTTTT
ATAGTATCATATATTATGATTCGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:10190178 original size:15 final size:15
Alignment explanation
Indices: 10190143--10190194 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
10190133 TTAAGAATTT
*
10190143 TATTAAATTAT-ATA
1 TATTTAATTATAATA
10190157 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
10190171 TATTTAATAATAAT-
1 TATTTAATTATAATA
10190185 TATGTTAATT
1 TAT-TTAATT
10190195 TATCTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:10190252 original size:16 final size:16
Alignment explanation
Indices: 10190231--10190272 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10190221 TTATTAAATT
*
10190231 ATATATTTTAATTATA
1 ATATATTTTAATAATA
10190247 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
10190262 AT-TATGTTTAA
1 ATATAT-TTTAA
10190273 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:10190257 original size:15 final size:15
Alignment explanation
Indices: 10190222--10190263 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10190212 TAAAGAATTT
*
10190222 TATTAAATTAT-ATA
1 TATTTAATTATAATA
10190236 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
10190250 TATTTAATAATAAT
1 TATTTAATTATAAT
10190264 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:10190506 original size:45 final size:44
Alignment explanation
Indices: 10190413--10190507 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 44
10190403 TTACACCTCT
* * *
10190413 ATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTCT
1 ATTACATTCAACCAAACACAAGAATACTATTACACCTCTAATCC
* * *
10190457 ATTACATTCAACCAAACA-ATTGATTTGCTATTACACCTCTAATCC
1 ATTACATTCAACCAAACACA-AGA-ATACTATTACACCTCTAATCC
10190502 ATTACA
1 ATTACA
10190508 CCTCTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
43 1 0.02
44 20 0.47
45 22 0.51
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAAGAATACTATTACACCTCTAATCC
Found at i:10190507 original size:16 final size:16
Alignment explanation
Indices: 10190486--10190555 Score: 86
Period size: 16 Copynumber: 4.4 Consensus size: 16
10190476 TTGATTTGCT
*
10190486 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
10190502 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
***
10190518 ATTATGTCTCTATTCC
1 ATTACACCTCTATTCC
*
10190534 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
10190550 AATACA
1 ATTACA
10190556 GCGAACCAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.27, C:0.33, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:10195263 original size:16 final size:16
Alignment explanation
Indices: 10195242--10195272 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10195232 CTGTGGATTG
10195242 TGAAAACTATAGACTT
1 TGAAAACTATAGACTT
*
10195258 TGAAAACTCTAGACT
1 TGAAAACTATAGACT
10195273 CTGTAGTCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (16 bp):
TGAAAACTATAGACTT
Found at i:10196046 original size:9 final size:9
Alignment explanation
Indices: 10196017--10196046 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
10196007 TGAATTTTAC
10196017 AATTCAAAT
1 AATTCAAAT
*
10196026 AACTCAAAT
1 AATTCAAAT
10196035 AATTCAAAT
1 AATTCAAAT
10196044 AAT
1 AAT
10196047 AGATTGATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (9 bp):
AATTCAAAT
Found at i:10196207 original size:21 final size:20
Alignment explanation
Indices: 10196181--10196219 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
10196171 AAAATTAATA
10196181 TTTTAAAAAAGTTTATAAATT
1 TTTTAAAAAAG-TTATAAATT
10196202 TTTTAAAAAAGTTATAAA
1 TTTTAAAAAAGTTATAAA
10196220 AAATATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
TTTTAAAAAAGTTATAAATT
Found at i:10196209 original size:20 final size:20
Alignment explanation
Indices: 10196181--10196219 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10196171 AAAATTAATA
10196181 TTTT-AAAAAAGTTTATAAAT
1 TTTTAAAAAAAG-TTATAAAT
*
10196201 TTTTTAAAAAAGTTATAAA
1 TTTTAAAAAAAGTTATAAA
10196220 AAATATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
TTTTAAAAAAAGTTATAAAT
Found at i:10196454 original size:14 final size:14
Alignment explanation
Indices: 10196437--10196463 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10196427 TTAATTTTTT
10196437 TAATTTAACTCGAA
1 TAATTTAACTCGAA
10196451 TAATTTAACTCGA
1 TAATTTAACTCGA
10196464 CTCAAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (14 bp):
TAATTTAACTCGAA
Found at i:10201630 original size:178 final size:178
Alignment explanation
Indices: 10201331--10201686 Score: 676
Period size: 178 Copynumber: 2.0 Consensus size: 178
10201321 CTAACCTCCA
* *
10201331 ACACACCACTTACTAACGACAGATAATGTGTTTAAGTATAACATTGCAGCGGAGTTATTTCATAT
1 ACACACCACTTACTAACGACAGATAATGTGTTTAAGTATAACATTGCAGCAGAGTTATTTCATAC
10201396 ACAAAATATAAACATATGAGCTTATAAAATATCAAAGGAAAGGTTTGCATGTCAACAGTAAAAAC
66 ACAAAATATAAACATATGAGCTTATAAAATATCAAAGGAAAGGTTTGCATGTCAACAGTAAAAAC
*
10201461 ACTCAAAGGTTCGCAAACAATAAATAACATAAGTTTGCATAGTAGCAT
131 ACTCAAAGGTTCGCAAACAATAAATAACATAAGTTTGCATAGCAGCAT
10201509 ACACACCACTTACTAACGACAGATAATGTGTTTAAGTATAACATTGCAGCAGAGTTATTTCATAC
1 ACACACCACTTACTAACGACAGATAATGTGTTTAAGTATAACATTGCAGCAGAGTTATTTCATAC
10201574 ACAAAATATAAACATATGAGCTTATAAAATATCAAAGGAAAGGTTTGCATGTCAACAGTAAAAAC
66 ACAAAATATAAACATATGAGCTTATAAAATATCAAAGGAAAGGTTTGCATGTCAACAGTAAAAAC
*
10201639 ACTCAAGGGTTCGCAAACAATAAATAACATAAGTTTGCATAGCAGCAT
131 ACTCAAAGGTTCGCAAACAATAAATAACATAAGTTTGCATAGCAGCAT
10201687 CATGAGTTCG
Statistics
Matches: 174, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
178 174 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (178 bp):
ACACACCACTTACTAACGACAGATAATGTGTTTAAGTATAACATTGCAGCAGAGTTATTTCATAC
ACAAAATATAAACATATGAGCTTATAAAATATCAAAGGAAAGGTTTGCATGTCAACAGTAAAAAC
ACTCAAAGGTTCGCAAACAATAAATAACATAAGTTTGCATAGCAGCAT
Found at i:10204454 original size:21 final size:21
Alignment explanation
Indices: 10204408--10204475 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
10204398 TGAATACACC
10204408 AACAGAAGCTCG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTG
10204427 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* *
10204448 GATAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
10204469 AACAGAA
1 AACAGAA
10204476 AGTAAAACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.28
20 2 0.05
21 29 0.67
ACGTcount: A:0.41, C:0.18, G:0.28, T:0.13
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:10207110 original size:44 final size:42
Alignment explanation
Indices: 10207061--10207167 Score: 115
Period size: 44 Copynumber: 2.5 Consensus size: 42
10207051 TGCGATATCG
* *
10207061 TGTAAGACCAAGTCTGGGACGTTGGCATCGATTTAAGATTTACA
1 TGTAAGACCAAGTCTGGGACATTGGCATCG-TATAAGA-TTACA
* * * * *
10207105 TGTAAGACCATGTCTGTGACATTGGCGTCGTATATGATTACG
1 TGTAAGACCAAGTCTGGGACATTGGCATCGTATAAGATTACA
* *
10207147 TGTAAGACCCAGTCTAGGACA
1 TGTAAGACCAAGTCTGGGACA
10207168 GTGAAATCAT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 21 0.40
43 5 0.10
44 26 0.50
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCAAGTCTGGGACATTGGCATCGTATAAGATTACA
Found at i:10212263 original size:17 final size:17
Alignment explanation
Indices: 10212228--10212264 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
10212218 TTGTCGCTTG
*
10212228 AATTAATTTAATTATAT
1 AATTAATTTAATTAGAT
*
10212245 AATTAATTTAATTGGAT
1 AATTAATTTAATTAGAT
10212262 AAT
1 AAT
10212265 CAAATATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
AATTAATTTAATTAGAT
Found at i:10215246 original size:39 final size:39
Alignment explanation
Indices: 10215078--10215243 Score: 242
Period size: 39 Copynumber: 4.3 Consensus size: 39
10215068 GTATTGCGAT
10215078 ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
1 ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
* * * *
10215117 ACATATGCTTGAATGTTATGTGATTACATAAGTATTGCG
1 ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
* *
10215156 ATATATGCTTGAACGTTATGTAATTATATGAGTATTGTG
1 ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
* * * *
10215195 ATATATGCTTAAATGTTATGTGGTTATATGTGTAATGTG
1 ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
10215234 ATATATGCTT
1 ATATATGCTT
10215244 AAAAGTGAAC
Statistics
Matches: 111, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (39 bp):
ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
Found at i:10216652 original size:22 final size:22
Alignment explanation
Indices: 10216626--10216670 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
10216616 AGATCAACAC
10216626 AAATAT-AATTACATACATATCA
1 AAATATCAATTACAT-CATATCA
*
10216648 AAATATCAATTTCATCATATCA
1 AAATATCAATTACATCATATCA
10216670 A
1 A
10216671 TCATCATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATATCAATTACATCATATCA
Found at i:10216863 original size:22 final size:22
Alignment explanation
Indices: 10216838--10216886 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
10216828 GGACAAGCCA
*
10216838 CCACTGATTTGTAGATAAACTG
1 CCACTGATTTGCAGATAAACTG
10216860 CCACTGATTTGCAGATAAACTG
1 CCACTGATTTGCAGATAAACTG
10216882 CCACT
1 CCACT
10216887 AATAACACTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (22 bp):
CCACTGATTTGCAGATAAACTG
Found at i:10220987 original size:5 final size:5
Alignment explanation
Indices: 10220977--10221005 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
10220967 TATCTTGTAA
10220977 AGATT AGATT AGATT AGATT AGATT AGAT
1 AGATT AGATT AGATT AGATT AGATT AGAT
10221006 ATGGCATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (5 bp):
AGATT
Found at i:10221852 original size:19 final size:19
Alignment explanation
Indices: 10221828--10221864 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
10221818 TTTGCAAACT
10221828 TCATTTTCTAGATCAAGAC
1 TCATTTTCTAGATCAAGAC
10221847 TCATTTTCTAGATCAAGA
1 TCATTTTCTAGATCAAGA
10221865 TGTTCCTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (19 bp):
TCATTTTCTAGATCAAGAC
Found at i:10228995 original size:28 final size:28
Alignment explanation
Indices: 10228924--10229092 Score: 160
Period size: 28 Copynumber: 6.0 Consensus size: 28
10228914 CATGACAATT
* * * *
10228924 AAGAATAGCCTTTGTAGCGAATTATGAA
1 AAGAATAGCCTGTGTGGCGAACTCTGAA
*** *
10228952 AAGAATATATTTTGTGGCGAACTCTGAA
1 AAGAATAGCCTGTGTGGCGAACTCTGAA
*
10228980 AAGAATAGCCTGTGTGGCAAAC-CATGAA
1 AAGAATAGCCTGTGTGGCGAACTC-TGAA
* * * * *
10229008 AAAAATAACCTATGTGTCGAACTATGAA
1 AAGAATAGCCTGTGTGGCGAACTCTGAA
* **
10229036 AAGAATAGCTTGTGTGGTAAACTCTGAA
1 AAGAATAGCCTGTGTGGCGAACTCTGAA
*
10229064 AAGAATAGCCCGTGTGGCGAACTCTGAA
1 AAGAATAGCCTGTGTGGCGAACTCTGAA
10229092 A
1 A
10229093 GGGATGCCTT
Statistics
Matches: 110, Mismatches: 29, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
27 1 0.01
28 109 0.99
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.25
Consensus pattern (28 bp):
AAGAATAGCCTGTGTGGCGAACTCTGAA
Found at i:10230855 original size:34 final size:34
Alignment explanation
Indices: 10230812--10230935 Score: 149
Period size: 34 Copynumber: 3.6 Consensus size: 34
10230802 ACATATACGA
* * * *
10230812 ATATCATATCAGAATGTCACATTACCAGAAACAT
1 ATATCAGATCAGAATGTCATATTTCCAAAAACAT
* *
10230846 ATATCATATCAAAATGTCATATTTCCAAAAACAT
1 ATATCAGATCAGAATGTCATATTTCCAAAAACAT
* * *
10230880 ATATCAGATTAGAATGTCATATTTTCATAAACAT
1 ATATCAGATCAGAATGTCATATTTCCAAAAACAT
* *
10230914 ATATTAGATCAGAATGTTATAT
1 ATATCAGATCAGAATGTCATAT
10230936 CAAATCAGAA
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 78 1.00
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.34
Consensus pattern (34 bp):
ATATCAGATCAGAATGTCATATTTCCAAAAACAT
Found at i:10246105 original size:2 final size:2
Alignment explanation
Indices: 10246098--10246128 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10246088 ATTTCAACCA
*
10246098 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10246129 AACCAAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10255766 original size:17 final size:17
Alignment explanation
Indices: 10255744--10255794 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
10255734 ATAAAATTAC
10255744 ATTTTATAAAATATTTT
1 ATTTTATAAAATATTTT
* *
10255761 ATTTTATGAAATATTATC
1 ATTTTATAAAATATT-TT
*
10255779 A-TTTAAAAAATATTTT
1 ATTTTATAAAATATTTT
10255795 TGAATTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 1 0.04
17 25 0.89
18 2 0.07
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTTTATAAAATATTTT
Found at i:10255791 original size:34 final size:33
Alignment explanation
Indices: 10255713--10255794 Score: 98
Period size: 34 Copynumber: 2.5 Consensus size: 33
10255703 TTCAATTTCT
*
10255713 TTTTAAAAAGT-TTTTATTCTTATAAAATTACA
1 TTTTAAAAAATATTTTATTCTTATAAAATTACA
*
10255745 TTTTATAAAATATTTTATT-TTATGAAATATTATCA
1 TTTTAAAAAATATTTTATTCTTAT-AAA-ATTA-CA
10255780 -TTTAAAAAATATTTT
1 TTTTAAAAAATATTTT
10255795 TGAATTAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
32 13 0.30
33 10 0.23
34 18 0.42
35 2 0.05
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (33 bp):
TTTTAAAAAATATTTTATTCTTATAAAATTACA
Found at i:10259836 original size:27 final size:26
Alignment explanation
Indices: 10259783--10259855 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
10259773 ACAAAGTGTA
* * *
10259783 AAAACATTTTAAGTAATTAATTAATAT
1 AAAATATTTTAA-AAATTAATAAATAT
*
10259810 AAATTA-TTTATAAAATTAATAATATAT
1 AAAATATTTTA-AAAATTAATAA-ATAT
10259837 AAAATATTTTAAAAATTAA
1 AAAATATTTTAAAAATTAA
10259856 ATATAATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 12 0.32
27 22 0.58
28 4 0.11
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (26 bp):
AAAATATTTTAAAAATTAATAAATAT
Found at i:10259864 original size:26 final size:25
Alignment explanation
Indices: 10259783--10259864 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 25
10259773 ACAAAGTGTA
* *
10259783 AAAACATTTTAAGTAATTAAT-TAAT
1 AAAATATTTTAA-AAATTAATATAAT
10259808 ATAAAT-TATTTATAAAATTAATAATATAT
1 A-AAATAT-TTTA-AAAATTAAT-ATA-AT
10259837 AAAATATTTTAAAAATTAAATATAAT
1 AAAATATTTTAAAAATT-AATATAAT
10259863 AA
1 AA
10259865 TAAATGAGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
25 2 0.04
26 18 0.38
27 10 0.21
28 13 0.28
29 4 0.09
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (25 bp):
AAAATATTTTAAAAATTAATATAAT
Found at i:10259899 original size:31 final size:32
Alignment explanation
Indices: 10259844--10259916 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
10259834 TATAAAATAT
10259844 TTTAAA-AA-TTAAATATAATAATAAA-TGAGA
1 TTTAAATAATTTAAATATAATAATAAACT-AGA
* *
10259874 TTTAAATAATTTAAA-ATAATGATAAACTATA
1 TTTAAATAATTTAAATATAATAATAAACTAGA
10259905 TTTAAATAATTT
1 TTTAAATAATTT
10259917 CATTTAATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
30 6 0.16
31 26 0.68
32 6 0.16
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (32 bp):
TTTAAATAATTTAAATATAATAATAAACTAGA
Found at i:10260533 original size:16 final size:17
Alignment explanation
Indices: 10260512--10260545 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
10260502 TGTTTAGGAC
10260512 TGCTATTTTT-AGTGTT
1 TGCTATTTTTAAGTGTT
10260528 TGCTATTTTTAAGTGTT
1 TGCTATTTTTAAGTGTT
10260545 T
1 T
10260546 TGTTATTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.15, C:0.06, G:0.18, T:0.62
Consensus pattern (17 bp):
TGCTATTTTTAAGTGTT
Found at i:10264921 original size:17 final size:16
Alignment explanation
Indices: 10264875--10264922 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
10264865 TTTAGGACTC
*
10264875 CTATTTTGAGTGTTTG
1 CTATTTTTAGTGTTTG
*
10264891 CTATTTTTAATGTTTG
1 CTATTTTTAGTGTTTG
10264907 CTATTTTTAGGTGTTT
1 CTATTTTTA-GTGTTT
10264923 TGTTATTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 23 0.82
17 5 0.18
ACGTcount: A:0.15, C:0.06, G:0.19, T:0.60
Consensus pattern (16 bp):
CTATTTTTAGTGTTTG
Found at i:10266946 original size:15 final size:15
Alignment explanation
Indices: 10266928--10266958 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10266918 TGGTTTAAAT
10266928 TTATATATTATCATC
1 TTATATATTATCATC
*
10266943 TTATATATTATTATC
1 TTATATATTATCATC
10266958 T
1 T
10266959 ATGTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATATTATCATC
Found at i:10267370 original size:24 final size:22
Alignment explanation
Indices: 10267325--10267370 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
10267315 ATACACACAC
* *
10267325 ATACTTACATTTTTATTTTATA
1 ATACTTACATTTTTAATATATA
10267347 ATACTTACAGATTTTTAATATATA
1 ATACTTAC--ATTTTTAATATATA
10267371 TATATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (22 bp):
ATACTTACATTTTTAATATATA
Found at i:10267396 original size:26 final size:27
Alignment explanation
Indices: 10267367--10267422 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
10267357 ATTTTTAATA
10267367 TATA-TATATATATTTATATACATTT-T
1 TATACTATATA-ATTTATATACATTTCT
* *
10267393 TATACTCTATAATTTATATGCATTTCT
1 TATACTATATAATTTATATACATTTCT
10267420 TAT
1 TAT
10267423 TTTCATAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (27 bp):
TATACTATATAATTTATATACATTTCT
Found at i:10271811 original size:22 final size:22
Alignment explanation
Indices: 10271786--10271834 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
10271776 AAATTCAATA
*
10271786 TCAATTTCCTTCAAAAATTCTC
1 TCAAATTCCTTCAAAAATTCTC
*
10271808 TCAAATTCCTTCCAAAATTCTC
1 TCAAATTCCTTCAAAAATTCTC
10271830 TCAAA
1 TCAAA
10271835 CTCTCAAATT
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:0.35, C:0.29, G:0.00, T:0.37
Consensus pattern (22 bp):
TCAAATTCCTTCAAAAATTCTC
Found at i:10271841 original size:30 final size:30
Alignment explanation
Indices: 10271805--10271863 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
10271795 TTCAAAAATT
*
10271805 CTCTCAAATTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
10271835 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
10271864 TTTCCTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:10271869 original size:52 final size:51
Alignment explanation
Indices: 10271786--10271885 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 51
10271776 AAATTCAATA
* * * *
10271786 TCAATTTCCTTCAAAAATTCTCTCAAATTCCTTCCAAAATTCTCTCAAACTC
1 TCAAATTCCTTCAAAAATCCTCTCAAATTCCTTCAAAAAATCTC-CAAACTC
* *
10271838 TCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 TCAAATTCCTTCAAAAATCCTCTCAAATTCCTTCAAAAAATCTCCAAA
10271886 TCCATATTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 4 0.10
52 38 0.90
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.34
Consensus pattern (51 bp):
TCAAATTCCTTCAAAAATCCTCTCAAATTCCTTCAAAAAATCTCCAAACTC
Found at i:10271874 original size:21 final size:22
Alignment explanation
Indices: 10271835--10271876 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10271825 TTCTCTCAAA
10271835 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
10271857 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
10271877 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:10272105 original size:14 final size:15
Alignment explanation
Indices: 10272076--10272109 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10272066 AAAATTTAAA
10272076 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
10272091 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
10272105 TTTTA
1 TTTTA
10272110 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:10273792 original size:23 final size:23
Alignment explanation
Indices: 10273772--10273816 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
10273762 CATTATTTGA
*
10273772 TTAAAAATCCTAACCTAATTTAG
1 TTAAAAACCCTAACCTAATTTAG
10273795 TTAAAAACCCTAACCTAATTTA
1 TTAAAAACCCTAACCTAATTTA
10273817 ATTTAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.33
Consensus pattern (23 bp):
TTAAAAACCCTAACCTAATTTAG
Found at i:10273838 original size:34 final size:34
Alignment explanation
Indices: 10273800--10273869 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
10273790 TTTAGTTAAA
*
10273800 AACCCTAACCTAATTTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAACTTAATTAAAAACCCT
10273834 AACCCTAACCTAATTTAACTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAACTTAATTAAAAACCCT
10273868 AA
1 AA
10273870 TTTAGTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (34 bp):
AACCCTAACCTAATTTAACTTAATTAAAAACCCT
Found at i:10273899 original size:28 final size:28
Alignment explanation
Indices: 10273867--10273956 Score: 135
Period size: 28 Copynumber: 3.2 Consensus size: 28
10273857 TTAAAAACCC
*
10273867 TAATTTAGTTAAAAACCCTAACCTCATT
1 TAATTTAGTTAAAAACCCTAACCTAATT
* **
10273895 TAATTTAATTAAAAACCCTAACCCTAACC
1 TAATTTAGTTAAAAACCCTAA-CCTAATT
10273924 TAATTTAGTTAAAAACCCTAACCTAATT
1 TAATTTAGTTAAAAACCCTAACCTAATT
10273952 TAATT
1 TAATT
10273957 GGACGAAAGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
28 30 0.56
29 24 0.44
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.34
Consensus pattern (28 bp):
TAATTTAGTTAAAAACCCTAACCTAATT
Found at i:10273949 original size:80 final size:80
Alignment explanation
Indices: 10273772--10273953 Score: 273
Period size: 80 Copynumber: 2.3 Consensus size: 80
10273762 CATTATTTGA
10273772 TTAAAAATCCTAACCTAATTTAGTTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAAC
1 TTAAAAA-CCTAACCTAATTTAGTTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAAC
10273837 CCTAACCTAATTTAAC
65 CCTAACCTAATTTAAC
*
10273853 TTAATTAAA---AACCCTAATTTAGTTAAAAACCCTAACCTCATTTAATTTAATTAAAAACCCTA
1 TTAA--AAACCTAA-CCTAATTTAGTTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTA
*
10273915 ACCCTAACCTAATTT-AG
63 ACCCTAACCTAATTTAAC
10273932 TTAAAAACCCTAACCTAATTTA
1 TTAAAAA-CCTAACCTAATTTA
10273954 ATTGGACGAA
Statistics
Matches: 92, Mismatches: 2, Indels: 15
0.84 0.02 0.14
Matches are distributed among these distances:
77 3 0.03
79 7 0.08
80 73 0.79
81 6 0.07
83 3 0.03
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (80 bp):
TTAAAAACCTAACCTAATTTAGTTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACC
CTAACCTAATTTAAC
Found at i:10274656 original size:124 final size:124
Alignment explanation
Indices: 10274446--10274690 Score: 339
Period size: 124 Copynumber: 2.0 Consensus size: 124
10274436 GCGATTTGGC
* * * * * *
10274446 ACTATTTGCTCAAAAATGTCAAAAAAATTTATTTCCTACATGACCAATTGTAGCAAAATCGCGTC
1 ACTATTTGCTAAAAAACGTCAAAAAAAATTATTTCCTACATGACCAACTATAGCAAAATCGCATC
* * * * **
10274511 CACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCGATTTTAT
66 CACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTTTAT
* *
10274570 ACTATTTGCTAAGAAAACGTCAAAAAAAATTATTTCTTACATGACC-ACTATAGCGAAATCGCAT
1 ACTATTTGCTAA-AAAACGTCAAAAAAAATTATTTCCTACATGACCAACTATAGCAAAATCGCAT
*
10274634 CCACGATGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTT
65 CCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTT
10274691 CCCACTATTT
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
124 75 0.71
125 30 0.29
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (124 bp):
ACTATTTGCTAAAAAACGTCAAAAAAAATTATTTCCTACATGACCAACTATAGCAAAATCGCATC
CACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTTTAT
Found at i:10275088 original size:24 final size:22
Alignment explanation
Indices: 10275061--10275116 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 22
10275051 AATTTCAAAA
10275061 ATAAAACATAATATAATATTTATT
1 ATAAAA-ATAA-ATAATATTTATT
*
10275085 ATAAAAATAAATATTATTTA--
1 ATAAAAATAAATAATATTTATT
*
10275105 ATTAAAATAAAT
1 ATAAAAATAAAT
10275117 TTTTTAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 11 0.37
22 9 0.30
23 4 0.13
24 6 0.20
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAAAAATAAATAATATTTATT
Found at i:10275108 original size:23 final size:24
Alignment explanation
Indices: 10275061--10275104 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
10275051 AATTTCAAAA
10275061 ATAAAACATAATATAATATTTATT
1 ATAAAACATAATATAATATTTATT
*
10275085 ATAAAA-ATAA-ATATTATTTA
1 ATAAAACATAATATAATATTTA
10275105 ATTAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
ATAAAACATAATATAATATTTATT
Found at i:10279625 original size:13 final size:13
Alignment explanation
Indices: 10279609--10279635 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10279599 TAATTAAAGG
10279609 GTTAAAATTTAAA
1 GTTAAAATTTAAA
10279622 GTTAAAATTTAAA
1 GTTAAAATTTAAA
10279635 G
1 G
10279636 ATGATAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:10279704 original size:9 final size:9
Alignment explanation
Indices: 10279690--10279755 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 9
10279680 AACTTTGGAT
10279690 CATAACTTA
1 CATAACTTA
10279699 CATAACTTA
1 CATAACTTA
10279708 CATAA--TA
1 CATAACTTA
*
10279715 CATAA-ATA
1 CATAACTTA
* * *
10279723 TATATCATA
1 CATAACTTA
10279732 TCATAACTTA
1 -CATAACTTA
10279742 CATAACTTA
1 CATAACTTA
10279751 CATAA
1 CATAA
10279756 AACTTTGGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
7 7 0.14
8 5 0.10
9 31 0.63
10 6 0.12
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:10279883 original size:7 final size:7
Alignment explanation
Indices: 10279871--10279895 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10279861 ACACCCATTA
10279871 GATACTT
1 GATACTT
10279878 GATACTT
1 GATACTT
10279885 GATACTT
1 GATACTT
10279892 GATA
1 GATA
10279896 TGTATTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (7 bp):
GATACTT
Found at i:10289234 original size:43 final size:43
Alignment explanation
Indices: 10289186--10289305 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
10289176 GGGGGAAAGC
** * * * *
10289186 GCCGCTAAAGAACATGACCTATAGCGGCATTTTTGTGAGCAAT
1 GCCGCTAAAGGTCATGATCTATAGCGGCGTTTTTGTGAGAAAA
*
10289229 GCCGCTAAAGGTCATGTTCTATAGCGGCGTTTTTGTGAGAAAA
1 GCCGCTAAAGGTCATGATCTATAGCGGCGTTTTTGTGAGAAAA
*
10289272 GCCGCTAAAGGTTATGATCTATAGCGGCGTTTTT
1 GCCGCTAAAGGTCATGATCTATAGCGGCGTTTTT
10289306 CCATATAAAC
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
GCCGCTAAAGGTCATGATCTATAGCGGCGTTTTTGTGAGAAAA
Found at i:10290139 original size:88 final size:87
Alignment explanation
Indices: 10289990--10290154 Score: 294
Period size: 88 Copynumber: 1.9 Consensus size: 87
10289980 TTGAAAATAA
* * *
10289990 AAATATAGAGGTTAAATTCTAAATTTATAAAGAGTATATAGACTTATAATATATTTTAATCTTTT
1 AAATATAAAGGCTAAATTCCAAATTTATAAAGAGTATATAGACTTATAATATATTTTAATCTTTT
10290055 ATTTTTTTTGTTGATTTGGATTT
66 A-TTTTTTTGTTGATTTGGATTT
10290078 AAATATAAAGGCTAAATTCCAAATTTATAAAGAGTATATAGACTTATAATATATTTTAATCTTTT
1 AAATATAAAGGCTAAATTCCAAATTTATAAAGAGTATATAGACTTATAATATATTTTAATCTTTT
10290143 ATTTTTTTGTTG
66 ATTTTTTTGTTG
10290155 GCTTGAATTT
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
87 11 0.15
88 63 0.85
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (87 bp):
AAATATAAAGGCTAAATTCCAAATTTATAAAGAGTATATAGACTTATAATATATTTTAATCTTTT
ATTTTTTTGTTGATTTGGATTT
Found at i:10292044 original size:20 final size:19
Alignment explanation
Indices: 10292011--10292048 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
10292001 TTTTAATTTA
10292011 ATAATAATTAAAATATTTTT
1 ATAATAATTAAAAT-TTTTT
10292031 ATAATTAATT-AAATTTTT
1 ATAA-TAATTAAAATTTTT
10292049 ATTATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATAATAATTAAAATTTTTT
Found at i:10312246 original size:21 final size:19
Alignment explanation
Indices: 10312208--10312246 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
10312198 TTGTTTATAT
10312208 TATTTTTATATTATTATTG
1 TATTTTTATATTATTATTG
*
10312227 TATTTGTTATCATTGTTATT
1 TATTT-TTAT-ATTATTATT
10312247 ATGACATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 4 0.24
21 8 0.47
ACGTcount: A:0.23, C:0.03, G:0.08, T:0.67
Consensus pattern (19 bp):
TATTTTTATATTATTATTG
Found at i:10316754 original size:31 final size:32
Alignment explanation
Indices: 10316718--10316782 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
10316708 CTTAGATAAT
10316718 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
10316749 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
10316781 TT
1 TT
10316783 GTAATTTACC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:10322327 original size:20 final size:20
Alignment explanation
Indices: 10322302--10322348 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
10322292 AATTTAGATG
10322302 GTGAAAGGAAAGCTGATTTA
1 GTGAAAGGAAAGCTGATTTA
10322322 GTGAAAGGAAAGCTGATTTA
1 GTGAAAGGAAAGCTGATTTA
10322342 GTGAAAG
1 GTGAAAG
10322349 AGATCCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.32, T:0.23
Consensus pattern (20 bp):
GTGAAAGGAAAGCTGATTTA
Done.