Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold182
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: 1166161
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 25 characters in sequence are not A, C, G, or T
File 9 of 10
Found at i:881149 original size:24 final size:25
Alignment explanation
Indices: 881109--881160 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
881099 ATAATAAAAA
881109 TTATAATTTAATAAAAT-TAAATAT
1 TTATAATTTAATAAAATCTAAATAT
* *
881133 TTATGATTT-ATATAAATCTCAATAT
1 TTATAATTTAATA-AAATCTAAATAT
881158 TTA
1 TTA
881161 AAATGTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.12
24 12 0.50
25 9 0.38
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (25 bp):
TTATAATTTAATAAAATCTAAATAT
Found at i:881457 original size:30 final size:30
Alignment explanation
Indices: 881421--881487 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
881411 GAAAATAAGA
*
881421 AGAAATTTAATGGGGCCCTTTTGGTAAATT
1 AGAAATTTAAAGGGGCCCTTTTGGTAAATT
*
881451 AGAAATTTAAAGGGGCTCTTTTGGTAAATT
1 AGAAATTTAAAGGGGCCCTTTTGGTAAATT
*
881481 AGTAATT
1 AGAAATT
881488 CTCACTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (30 bp):
AGAAATTTAAAGGGGCCCTTTTGGTAAATT
Found at i:891554 original size:24 final size:26
Alignment explanation
Indices: 891525--891587 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
891515 CTATCATAAT
891525 TATATTTAAATTAT-TTAAT-ATTTA
1 TATATTTAAATTATATTAATAATTTA
*
891549 TATATTTTAATT-TATTAATAATTTA
1 TATATTTAAATTATATTAATAATTTA
*
891574 TATTATATAAATTA
1 TA-TATTTAAATTA
891588 AGACATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 1 0.03
24 16 0.50
25 7 0.22
26 8 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TATATTTAAATTATATTAATAATTTA
Found at i:891557 original size:25 final size:24
Alignment explanation
Indices: 891525--891587 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 24
891515 CTATCATAAT
891525 TATATTTAAATTATTTAAT-ATTTA
1 TATATTTAAATTA-TTAATAATTTA
*
891549 TATATTTTAATTTATTAATAATTTA
1 TATA-TTTAAATTATTAATAATTTA
*
891574 TATTATATAAATTA
1 TA-TATTTAAATTA
891588 AGACATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
24 9 0.27
25 22 0.67
26 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TATATTTAAATTATTAATAATTTA
Found at i:898167 original size:178 final size:178
Alignment explanation
Indices: 897867--898331 Score: 754
Period size: 178 Copynumber: 2.6 Consensus size: 178
897857 CGTAGTGGAC
* * * *
897867 TAGAAGTATGATCTGATCTCTCTGTACTCGGAGATGGCTGAATATATATTTCCTTTTCTGCTTAT
1 TAGAAGTATGATCCGATCTCTCTGTACTTGGAGATGGCTGAATGTATATGTCCTTTTCTGCTTAT
*
897932 TAGAAAGATTGATTATTATTAAGTTGGTATTTCTGGATATGTTTAATATGACTGAATGCGACAAC
66 TAGAAAGATTGATTATTATTAAGTTGATATTTCTGGATATGTTTAATATGACTGAATGCGACAAC
** * *
897997 CATTGTGGACAATTACATCAACACTGGCCCTAGTAATGACGTGGTCTT
131 CATCATGGACAATTACATCAACACTGGCCCTAGTAATGACATGGCCTT
*
898045 TAGAAGTATGATCCAATCTCTCTGTACTTGGAGATGGCTGAATGTATATGTCCTTTTCTGCTTAT
1 TAGAAGTATGATCCGATCTCTCTGTACTTGGAGATGGCTGAATGTATATGTCCTTTTCTGCTTAT
* * *
898110 TAGAAAGATTGATT-TTAATTAAGTTGATATTTCTGGATATGTTTAATGTGTCTGAATGTGACAA
66 TAGAAAGATTGATTATT-ATTAAGTTGATATTTCTGGATATGTTTAATATGACTGAATGCGACAA
898174 CCATCATGGACAATTACATCAACACTGGCCCTAGTAATGACATGGCCTT
130 CCATCATGGACAATTACATCAACACTGGCCCTAGTAATGACATGGCCTT
* *
898223 CAGAAGTATGATCCGATCTCTC-GTTCTTCGGAGATGGCTGAATGTATATGTCCTTTTCTGCTTA
1 TAGAAGTATGATCCGATCTCTCTGTACTT-GGAGATGGCTGAATGTATATGTCCTTTTCTGCTTA
*
898287 TTAGAAAGATTGATTATTATTAAGTTGATATTTCTAGATATGTTT
65 TTAGAAAGATTGATTATTATTAAGTTGATATTTCTGGATATGTTT
898332 CTTTGGGCTC
Statistics
Matches: 267, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
177 7 0.03
178 258 0.97
179 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (178 bp):
TAGAAGTATGATCCGATCTCTCTGTACTTGGAGATGGCTGAATGTATATGTCCTTTTCTGCTTAT
TAGAAAGATTGATTATTATTAAGTTGATATTTCTGGATATGTTTAATATGACTGAATGCGACAAC
CATCATGGACAATTACATCAACACTGGCCCTAGTAATGACATGGCCTT
Found at i:901529 original size:29 final size:31
Alignment explanation
Indices: 901469--901555 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 31
901459 TTATATCATA
901469 TTTATATATTTTATTATAACATTTAAAGTAT
1 TTTATATATTTTATTATAACATTTAAAGTAT
*
901500 TTTATAT-TTTTA-TATAA-ATTTTAA-TAT
1 TTTATATATTTTATTATAACATTTAAAGTAT
* *
901527 ATTA-ATAATTTGTATTATATAAATTTAAA
1 TTTATAT-ATTT-TATTATA-ACATTTAAA
901556 CACATTAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
26 2 0.04
27 6 0.13
28 9 0.19
29 7 0.15
30 9 0.19
31 8 0.17
32 6 0.13
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (31 bp):
TTTATATATTTTATTATAACATTTAAAGTAT
Found at i:902140 original size:21 final size:21
Alignment explanation
Indices: 902086--902140 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
902076 TGATTAAGAA
*
902086 ATCAAAATTTAAGTTTAAAATG
1 ATCAAAATTTAA-ATTAAAATG
*
902108 ATCAAAA-ATAAATTAAAACTG
1 ATCAAAATTTAAATTAAAA-TG
902129 AT-AAAATTTAAA
1 ATCAAAATTTAAA
902141 CCTGCCTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 10 0.36
21 11 0.39
22 7 0.25
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.31
Consensus pattern (21 bp):
ATCAAAATTTAAATTAAAATG
Found at i:904462 original size:12 final size:12
Alignment explanation
Indices: 904445--904478 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
904435 ACATTAATAT
904445 ATATATATATAG
1 ATATATATATAG
904457 ATATATATATAG
1 ATATATATATAG
*
904469 ATAGATATAT
1 ATATATATAT
904479 GTGACGAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (12 bp):
ATATATATATAG
Found at i:904462 original size:16 final size:16
Alignment explanation
Indices: 904441--904478 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
904431 TCACACATTA
*
904441 ATATATATATATATAG
1 ATATATATATAGATAG
904457 ATATATATATAGATAG
1 ATATATATATAGATAG
904473 ATATAT
1 ATATAT
904479 GTGACGAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (16 bp):
ATATATATATAGATAG
Found at i:911118 original size:226 final size:221
Alignment explanation
Indices: 910723--911150 Score: 678
Period size: 226 Copynumber: 1.9 Consensus size: 221
910713 CTTACTTAAA
* * * *
910723 TCACACAGTGGATCATGCTTCTACAGGCTTTCTCTATTAGTCATAAAAGTCTAAATATAATACAA
1 TCACACAGTGGATCACGCTTCTACAGGCTTTCTCTATTAGCCAAAAAAGTCCAAATATAATACAA
*
910788 TAACTTAGACAACAAGACAGAATTTTCTTCCTTCCAAAATATGAACTTTAAATGTACCGATCTTC
66 TAACTTAGACAACAAGACAGAATTTTCTTCCTTCCAAAATATGAACTTTAAATGCACCGATCTTC
*
910853 TTTTCAGTACTTCAGCATGTTCAAATAAGTTTCGTAACAAATTAACAAACTATGTGCAAGATTAC
131 TTTTCAGTACTTCAGCATGTTCAAATAACTTTCGTAACAAATTAACAAACTATGTGCAAGATTAC
910918 TATATCATGCATGAATTATTACAAGT
196 TATATCATGCATGAATTATTACAAGT
* *
910944 TCACACAGTGGATCACGCTTCTACAGGTTTTCTCTATTAGCCAAAAAAGTCCAAATATGATAACA
1 TCACACAGTGGATCACGCTTCTACAGGCTTTCTCTATTAGCCAAAAAAGTCCAAATATAAT-ACA
* * * *
911009 ATAACTTAGACAACGAGACAGCATTTTCTTTCTTCCAAAATATGAACTTTAAAAAAATGCACTGA
65 ATAACTTAGACAACAAGACAGAATTTTCTTCCTTCCAAAATATGAACTTT----AAATGCACCGA
911074 TCTTCTTTTCAGTACTTCAGCATGTTCAAATAAC-TTCTGTAACAAATTAACAAACTATGTGCAA
126 TCTTCTTTTCAGTACTTCAGCATGTTCAAATAACTTTC-GTAACAAATTAACAAACTATGTGCAA
*
911138 GATTACTCTATCA
190 GATTACTATATCA
911151 ACAATCATCC
Statistics
Matches: 188, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
221 55 0.29
222 50 0.27
225 3 0.02
226 80 0.43
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (221 bp):
TCACACAGTGGATCACGCTTCTACAGGCTTTCTCTATTAGCCAAAAAAGTCCAAATATAATACAA
TAACTTAGACAACAAGACAGAATTTTCTTCCTTCCAAAATATGAACTTTAAATGCACCGATCTTC
TTTTCAGTACTTCAGCATGTTCAAATAACTTTCGTAACAAATTAACAAACTATGTGCAAGATTAC
TATATCATGCATGAATTATTACAAGT
Found at i:913532 original size:6 final size:6
Alignment explanation
Indices: 913509--913573 Score: 67
Period size: 6 Copynumber: 10.8 Consensus size: 6
913499 GATGCGCAAA
* * * **
913509 CGTTCA CGTTCA CGTTCT CTTTCT CGTTCT CGTTCT CGTAGT CGTTCT
1 CGTTCT CGTTCT CGTTCT CGTTCT CGTTCT CGTTCT CGTTCT CGTTCT
* *
913557 CGTTCC CGTTCC CGTTC
1 CGTTCT CGTTCT CGTTC
913574 CCGCTCCCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.05, C:0.35, G:0.17, T:0.43
Consensus pattern (6 bp):
CGTTCT
Found at i:917509 original size:21 final size:21
Alignment explanation
Indices: 917485--917528 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
917475 TAAAAAAAAA
917485 GTCGATCAATGATCCAGAAGT
1 GTCGATCAATGATCCAGAAGT
917506 GTCGATCAATGATCCAGAAGT
1 GTCGATCAATGATCCAGAAGT
917527 GT
1 GT
917529 GCTCGCAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (21 bp):
GTCGATCAATGATCCAGAAGT
Found at i:917877 original size:27 final size:27
Alignment explanation
Indices: 917826--917876 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
917816 TCGTCACTTA
*
917826 TTTAAACATAAATATAAAAATAAAATT
1 TTTAAACATAAATAAAAAAATAAAATT
*
917853 TTTAAA-ATATATAAAAAAATAAAA
1 TTTAAACATAAATAAAAAAATAAAA
917877 AATTAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (27 bp):
TTTAAACATAAATAAAAAAATAAAATT
Found at i:917888 original size:26 final size:26
Alignment explanation
Indices: 917827--917888 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
917817 CGTCACTTAT
* * **
917827 TTAAACATAAATATAAAAATAAAATTT
1 TTAAA-ATATATAAAAAAATAAAATAA
917854 TTAAAATATATAAAAAAATAAAA-AA
1 TTAAAATATATAAAAAAATAAAATAA
917879 TT-AAATATAT
1 TTAAAATATAT
917889 TAATATACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 8 0.26
25 2 0.06
26 16 0.52
27 5 0.16
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (26 bp):
TTAAAATATATAAAAAAATAAAATAA
Found at i:918680 original size:18 final size:18
Alignment explanation
Indices: 918635--918682 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
918625 TATGTCATAT
* *
918635 AAAAATTT-AATTTTTAA
1 AAAAATTTAAATATATAA
918652 AAAATATTTTAAATATATAA
1 AAAA-A-TTTAAATATATAA
918672 AAAAATTTAAA
1 AAAAATTTAAA
918683 AAATTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 4 0.15
18 7 0.27
19 4 0.15
20 11 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAAATTTAAATATATAA
Found at i:918690 original size:18 final size:19
Alignment explanation
Indices: 918648--918696 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
918638 AATTTAATTT
* *
918648 TTAAAAAATATTTTAAATA
1 TTAAAAAATATTTAAAAAA
918667 TATAAAAAA-ATTTAAAAAA
1 T-TAAAAAATATTTAAAAAA
918686 TT-AAAAATATT
1 TTAAAAAATATT
918697 AATTCAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 5 0.19
18 4 0.15
19 10 0.38
20 7 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TTAAAAAATATTTAAAAAA
Found at i:918743 original size:23 final size:23
Alignment explanation
Indices: 918698--918743 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
918688 AAAAATATTA
* **
918698 ATTCAAATATATACTTATTTAAT
1 ATTCAAATATAAACTTAAGTAAT
*
918721 ATTCAAATATAAATTTAAGTAAT
1 ATTCAAATATAAACTTAAGTAAT
918744 TTAGGTGATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTCAAATATAAACTTAAGTAAT
Found at i:923245 original size:23 final size:23
Alignment explanation
Indices: 923219--923282 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
923209 CATCATCAAA
* *
923219 TGATTTTGATATAAAGAAAATTG
1 TGATCTTGATATAAAAAAAATTG
* *
923242 TGATCTTGGTATAAAAAAAATCG
1 TGATCTTGATATAAAAAAAATTG
* * *
923265 TAATCTTAAAATAAAAAA
1 TGATCTTGATATAAAAAA
923283 TAAAATGATA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (23 bp):
TGATCTTGATATAAAAAAAATTG
Found at i:930231 original size:10 final size:10
Alignment explanation
Indices: 930218--930248 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
930208 TTTAAAAAAT
*
930218 TATATATATA
1 TATATCTATA
930228 TATATCTATA
1 TATATCTATA
930238 TATATCTATA
1 TATATCTATA
930248 T
1 T
930249 GTAATGCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (10 bp):
TATATCTATA
Found at i:930888 original size:17 final size:18
Alignment explanation
Indices: 930862--930898 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
930852 CCCTTTTATC
930862 ATTTTAGGTTTAGT-TTT
1 ATTTTAGGTTTAGTATTT
*
930879 ATTTTGGGTTTAGTATTT
1 ATTTTAGGTTTAGTATTT
930897 AT
1 AT
930899 GAAAGATTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (18 bp):
ATTTTAGGTTTAGTATTT
Found at i:931543 original size:29 final size:29
Alignment explanation
Indices: 931497--931573 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 29
931487 ATTTTGGTGA
* * * *
931497 TTTAATTGATTTTTAATTTCTTTTAGTGT
1 TTTAGTTGACTTTCAATTTCTTTTAGTAT
*
931526 TTTAGTTTACTTTCAATTTCTTTTAGTAT
1 TTTAGTTGACTTTCAATTTCTTTTAGTAT
*
931555 TTTAGTTGACTTTTAATTT
1 TTTAGTTGACTTTCAATTT
931574 TTAAATTTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.21, C:0.06, G:0.09, T:0.64
Consensus pattern (29 bp):
TTTAGTTGACTTTCAATTTCTTTTAGTAT
Found at i:931953 original size:15 final size:13
Alignment explanation
Indices: 931922--931947 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
931912 CAAAATTTCA
931922 ATTTCTTATATTT
1 ATTTCTTATATTT
931935 ATTTCTTATATTT
1 ATTTCTTATATTT
931948 TTATTTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTCTTATATTT
Found at i:933731 original size:7 final size:7
Alignment explanation
Indices: 933695--933734 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
933685 GAATAATTCT
933695 TTTTATA
1 TTTTATA
*
933702 TATTATA
1 TTTTATA
*
933709 TTTTTTA
1 TTTTATA
*
933716 TATTATA
1 TTTTATA
933723 TTTTATA
1 TTTTATA
933730 TTTTA
1 TTTTA
933735 ATTATTTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTTATA
Found at i:933744 original size:18 final size:19
Alignment explanation
Indices: 933700--933749 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
933690 ATTCTTTTTA
* *
933700 TATATTATATTTTTTATAT
1 TATATTTTATATTTTATAT
933719 TATATTTTATATTTTA-AT
1 TATATTTTATATTTTATAT
*
933737 TATTTTTTATATT
1 TATATTTTATATT
933750 GTGTTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TATATTTTATATTTTATAT
Found at i:934127 original size:16 final size:14
Alignment explanation
Indices: 934089--934132 Score: 56
Period size: 13 Copynumber: 3.1 Consensus size: 14
934079 TATTTTATTC
934089 ATAAAATAAATT-A
1 ATAAAATAAATTAA
934102 ATAAAA-AAATTAA
1 ATAAAATAAATTAA
934115 AGTAAAATTAAATTAA
1 A-TAAAA-TAAATTAA
934131 AT
1 AT
934133 GAAACTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.19
13 8 0.30
14 5 0.19
15 1 0.04
16 8 0.30
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (14 bp):
ATAAAATAAATTAA
Found at i:934398 original size:2 final size:2
Alignment explanation
Indices: 934391--934454 Score: 101
Period size: 2 Copynumber: 32.0 Consensus size: 2
934381 ATTTAATTTA
* **
934391 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT GC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
934433 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
934455 CAGACCCCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:934584 original size:23 final size:24
Alignment explanation
Indices: 934558--934611 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
934548 TTAATTCGTC
* *
934558 AAATTTTTTAT-TATTAATATATT
1 AAATTTTATATATATTAATATATG
* *
934581 AAATATTTATATATATTTATATGTG
1 AAAT-TTTATATATATTAATATATG
934606 AAATTT
1 AAATTT
934612 GGTCAAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 4 0.16
24 8 0.32
25 13 0.52
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (24 bp):
AAATTTTATATATATTAATATATG
Found at i:935131 original size:6 final size:6
Alignment explanation
Indices: 935120--935146 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
935110 CATTAAATAT
935120 ATATAA ATATAA ATATAA ATATAA ATA
1 ATATAA ATATAA ATATAA ATATAA ATA
935147 AATTAAAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:935603 original size:28 final size:27
Alignment explanation
Indices: 935566--935627 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 27
935556 CATAATATAA
* * *
935566 ATATAAAATAAAAAATAATTAAAATATG
1 ATATATAATAAAAAATAATAAAAATA-C
935594 ATATATAATAAAAAATAATAAAAATAC
1 ATATATAATAAAAAATAATAAAAATAC
935621 ATATATA
1 ATATATA
935628 TATATATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
27 7 0.23
28 24 0.77
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (27 bp):
ATATATAATAAAAAATAATAAAAATAC
Found at i:935663 original size:24 final size:24
Alignment explanation
Indices: 935636--935686 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
935626 TATATATATA
935636 TATACT-CATAAATATATTAAAATT
1 TATACTACATAAAT-TATTAAAATT
* * *
935660 TATATTATATAAATTATTAATATT
1 TATACTACATAAATTATTAAAATT
935684 TAT
1 TAT
935687 TAAATAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
TATACTACATAAATTATTAAAATT
Found at i:936807 original size:38 final size:38
Alignment explanation
Indices: 936721--936808 Score: 90
Period size: 39 Copynumber: 2.3 Consensus size: 38
936711 ATTCAATAAA
* * *
936721 TTAAATTTGAAAATTTATTTTTATTATATAATATATAT
1 TTAAAATTAAAAATTTATTTTTATTACATAATATATAT
* *
936759 TAAAATATTAAAAATTTATTTTATATTAACATTATA-AT-T
1 TTAAA-ATTAAAAATTTATTTT-TATT-ACATAATATATAT
936798 TTAAAATTAAA
1 TTAAAATTAAA
936809 TTTAAATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
38 10 0.24
39 19 0.46
40 6 0.15
41 6 0.15
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (38 bp):
TTAAAATTAAAAATTTATTTTTATTACATAATATATAT
Found at i:942412 original size:43 final size:44
Alignment explanation
Indices: 942364--942468 Score: 122
Period size: 51 Copynumber: 2.2 Consensus size: 44
942354 TATACTTAGA
*
942364 GTCAACAATTATGGCCA-CATTTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCATTTGTCAAAGGTTAGTGAAGAATC
*
942407 GTCAACAATAATGGCCACCTCTCTCCATTTGTCAAAGGTTAGTGAAGAATC
1 GTCAACAATTATGGCCA-------CCATTTGTCAAAGGTTAGTGAAGAATC
942458 GTCAACAATTA
1 GTCAACAATTA
942469 CGACCACCTC
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
43 16 0.31
51 35 0.69
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (44 bp):
GTCAACAATTATGGCCACCATTTGTCAAAGGTTAGTGAAGAATC
Found at i:942512 original size:50 final size:51
Alignment explanation
Indices: 942381--942516 Score: 202
Period size: 51 Copynumber: 2.7 Consensus size: 51
942371 ATTATGGCCA
* *
942381 CATTTGTCAAAGGTTGGTGAAGAATCGTCAACAATAATGGCCACCTCTCTC
1 CATTTGTCAAAGGTTGGTGAAGAATCGTCAACAATAACGACCACCTCTCTC
* *
942432 CATTTGTCAAAGGTTAGTGAAGAATCGTCAACAATTACGACCACCTCTCTC
1 CATTTGTCAAAGGTTGGTGAAGAATCGTCAACAATAACGACCACCTCTCTC
* * *
942483 TA-TTGTCAAAGGTTGGTGAAGGATAGTCAACAAT
1 CATTTGTCAAAGGTTGGTGAAGAATCGTCAACAAT
942517 GTCAACAACT
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 29 0.38
51 48 0.62
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (51 bp):
CATTTGTCAAAGGTTGGTGAAGAATCGTCAACAATAACGACCACCTCTCTC
Found at i:947001 original size:51 final size:51
Alignment explanation
Indices: 946925--947036 Score: 145
Period size: 51 Copynumber: 2.2 Consensus size: 51
946915 ATTATGGCCA
* * * * * *
946925 CATTTGTTAAAGGTTGGTGAAGAATCGTCAATAATAATGGCCACCTCTCTC
1 CATTTGTCAAAAGTTAGTGAAGAATCGTCAACAATAACGACCACCTCTCTC
*
946976 CATTTGTCAAAAGTTAGTGAAGAATCGTCAACAATTACGACCACCTCTCTC
1 CATTTGTCAAAAGTTAGTGAAGAATCGTCAACAATAACGACCACCTCTCTC
*
947027 TA-TTGTCAAA
1 CATTTGTCAAA
947037 GATTGGTAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 8 0.15
51 45 0.85
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (51 bp):
CATTTGTCAAAAGTTAGTGAAGAATCGTCAACAATAACGACCACCTCTCTC
Found at i:947057 original size:50 final size:51
Alignment explanation
Indices: 946965--947060 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 51
946955 ATAATAATGG
* *
946965 CCACCTCTCTCCATTTGTCAAAAGTTAGTGAAGAATCGTCAACAATTACGA
1 CCACCTCTCTCCATTTGTCAAAAGTTAGTAAAGAATAGTCAACAATTACGA
* * *
947016 CCACCTCTCTCTA-TTGTC-AAAGATTGGTAAAGGATAGTCAACAAT
1 CCACCTCTCTCCATTTGTCAAAAG-TTAGTAAAGAATAGTCAACAAT
947061 GTCAACAACT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
49 4 0.10
50 23 0.59
51 12 0.31
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (51 bp):
CCACCTCTCTCCATTTGTCAAAAGTTAGTAAAGAATAGTCAACAATTACGA
Found at i:948597 original size:21 final size:21
Alignment explanation
Indices: 948558--948623 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
948548 ACCACAACCT
*
948558 TTTATAATTTTCATTATAAATA
1 TTTAT-ATTTTAATTATAAATA
* *
948580 TTT-TA-TTTAATTTTATAATTT
1 TTTATATTTTAA--TTATAAATA
948601 TTTATATTTTAATTATAAATA
1 TTTATATTTTAATTATAAATA
948622 TT
1 TT
948624 AATTATTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 20 0.57
22 5 0.14
23 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATATTTTAATTATAAATA
Found at i:948657 original size:48 final size:43
Alignment explanation
Indices: 948557--948657 Score: 105
Period size: 42 Copynumber: 2.3 Consensus size: 43
948547 CACCACAACC
* * * * *
948557 TTTTATAATTTTCATTATAAATATTTTATTTAATTTTATAATT
1 TTTTATTATTTTAATTATAAATATTTTATTAAATATTAAAATT
948600 TTTTA-TATTTTAATTATAAATATTAATTATTAAATAAATTAAAATT
1 TTTTATTATTTTAATTATAAATATT--TTATTAAAT--ATTAAAATT
948646 ATTTTATTATTT
1 -TTTTATTATTT
948658 ATTAAATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
42 17 0.36
43 5 0.11
44 8 0.17
46 7 0.15
47 5 0.11
48 5 0.11
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (43 bp):
TTTTATTATTTTAATTATAAATATTTTATTAAATATTAAAATT
Found at i:948663 original size:26 final size:27
Alignment explanation
Indices: 948617--948698 Score: 91
Period size: 26 Copynumber: 3.1 Consensus size: 27
948607 TTTTAATTAT
*
948617 AAATATTAATTATTAAATAAAT-TAAA
1 AAATTTTAATTATTAAATAAATATAAA
* * *
948643 ATTATTTT-ATTATTTATTAAATATAAA
1 A-AATTTTAATTATTAAATAAATATAAA
948670 AAATTTTAATTATTAAAT--ATATAAA
1 AAATTTTAATTATTAAATAAATATAAA
948695 AAAT
1 AAAT
948699 ATTATTTTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
25 11 0.24
26 18 0.39
27 17 0.37
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
AAATTTTAATTATTAAATAAATATAAA
Found at i:948683 original size:30 final size:30
Alignment explanation
Indices: 948611--948713 Score: 79
Period size: 30 Copynumber: 3.4 Consensus size: 30
948601 TTTATATTTT
* *
948611 AATTATAAATATTAATTATTAAATAAATTAA
1 AATTTTAATTATTAATTATTAAATAAA-TAA
*
948642 AATTATT--TTATTATTTATTAAATATAA-AA
1 AATT-TTAATTATTAATTATTAAATA-AATAA
* *
948671 AATTTTAATTATTAAATATATAAA-AAATATT
1 AATTTTAATTATTAATTAT-TAAATAAATA-A
*
948702 ATTTTTAATTAT
1 AATTTTAATTAT
948714 CACATATAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
28 2 0.03
29 8 0.14
30 26 0.45
31 21 0.36
32 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTTTAATTATTAATTATTAAATAAATAA
Found at i:948776 original size:2 final size:2
Alignment explanation
Indices: 948771--948802 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
948761 TGTAATTATT
948771 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
948803 CTTATTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:949164 original size:23 final size:23
Alignment explanation
Indices: 949110--949164 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 23
949100 CTCTAATTTT
949110 TTTTAAATACAAAAGAAATTATAA
1 TTTTAAATA-AAAAGAAATTATAA
*
949134 TTTGAAAT-AAAA-AAATTATAAA
1 TTTTAAATAAAAAGAAATTAT-AA
949156 TATTTAAAT
1 T-TTTAAAT
949165 TTAAATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 7 0.26
22 7 0.26
23 6 0.22
24 7 0.26
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
TTTTAAATAAAAAGAAATTATAA
Found at i:949551 original size:14 final size:15
Alignment explanation
Indices: 949531--949564 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
949521 ATTATTTAAA
949531 ATAATATTAAAATTT
1 ATAATATTAAAATTT
*
949546 -TAATATTAATATTT
1 ATAATATTAAAATTT
949560 ATAAT
1 ATAAT
949565 TAAATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATAATATTAAAATTT
Found at i:949626 original size:21 final size:21
Alignment explanation
Indices: 949602--949671 Score: 79
Period size: 22 Copynumber: 3.3 Consensus size: 21
949592 TATAAATAAT
949602 AATTTAAATTAAATTAATTTA
1 AATTTAAATTAAATTAATTTA
* *
949623 AATTATAAATTAATTTATTTTA
1 AATT-TAAATTAAATTAATTTA
* *
949645 AATTT-AATTTAATATAAATTA
1 AATTTAAATTAAAT-TAATTTA
949666 AATTTA
1 AATTTA
949672 TTGAGTTGAG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 6 0.15
21 15 0.38
22 19 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTTAAATTAAATTAATTTA
Found at i:949630 original size:27 final size:28
Alignment explanation
Indices: 949594--949669 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
949584 ATTTTTTATA
*
949594 TAAATAATAATTTAAATTAAATT-AATT
1 TAAATTATAATTTAAATTAAATTAAATT
* * **
949621 TAAATTATAAATTAATTTATTTTAAATT
1 TAAATTATAATTTAAATTAAATTAAATT
*
949649 T-AATT-TAATATAAATTAAATT
1 TAAATTATAATTTAAATTAAATT
949670 TATTGAGTTG
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
26 11 0.29
27 22 0.58
28 5 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
TAAATTATAATTTAAATTAAATTAAATT
Found at i:949648 original size:11 final size:11
Alignment explanation
Indices: 949602--949671 Score: 65
Period size: 10 Copynumber: 6.5 Consensus size: 11
949592 TATAAATAAT
*
949602 AATTTAAATTA
1 AATTTAATTTA
949613 AA-TTAATTTA
1 AATTTAATTTA
*
949623 AATTATAAATT-
1 AATT-TAATTTA
*
949634 AATTTATTTTA
1 AATTTAATTTA
949645 AATTTAATTT-
1 AATTTAATTTA
* *
949655 AATATAAATTA
1 AATTTAATTTA
949666 AATTTA
1 AATTTA
949672 TTGAGTTGAG
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
10 21 0.45
11 21 0.45
12 5 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AATTTAATTTA
Found at i:949653 original size:16 final size:15
Alignment explanation
Indices: 949611--949673 Score: 72
Period size: 16 Copynumber: 3.9 Consensus size: 15
949601 TAATTTAAAT
949611 TAAATTAATTTAAATTA
1 TAAATTAATTT--ATTA
*
949628 TAAATTAATTTATTT
1 TAAATTAATTTATTA
*
949643 TAAATTTAATTTAATA
1 TAAA-TTAATTTATTA
949659 TAAATTAAATTTATT
1 TAAATT-AATTTATT
949674 GAGTTGAGCG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
15 9 0.22
16 20 0.50
17 11 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAAATTAATTTATTA
Found at i:960402 original size:32 final size:31
Alignment explanation
Indices: 960330--960402 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 31
960320 CAGCTAAACA
*
960330 ATGAGTACATTACAGTGTTTAGCTGTCTGAT
1 ATGAGTACATTACAGTGTTTAGCTGTCTAAT
* *
960361 ATGAATACATTAACAGTGTTTAGGTGTCTAAT
1 ATGAGTACATT-ACAGTGTTTAGCTGTCTAAT
*
960393 GTGAGTACAT
1 ATGAGTACAT
960403 ATAAATGCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 10 0.28
32 26 0.72
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (31 bp):
ATGAGTACATTACAGTGTTTAGCTGTCTAAT
Found at i:963667 original size:2 final size:2
Alignment explanation
Indices: 963660--963701 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
963650 AAACAATAAC
963660 AT AT AT 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
963702 TGGTTAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:964668 original size:4 final size:4
Alignment explanation
Indices: 964661--964693 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
964651 ATTTATTCTC
*
964661 TTAA TTAA TTAA TTAA TTAA TCAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
964694 GTGAAAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (4 bp):
TTAA
Found at i:969241 original size:12 final size:13
Alignment explanation
Indices: 969215--969243 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
969205 CTATATTACC
969215 ATATTTATATTTA
1 ATATTTATATTTA
969228 ATATTTAT-TTTA
1 ATATTTATATTTA
969240 ATAT
1 ATAT
969244 AATTATGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATATTTATATTTA
Found at i:969304 original size:15 final size:16
Alignment explanation
Indices: 969286--969316 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
969276 ATATTAAAAA
969286 TTAAAATATAT-TCAT
1 TTAAAATATATATCAT
969301 TTAAAATATATATCAT
1 TTAAAATATATATCAT
969317 CCGACATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATATCAT
Found at i:974954 original size:2 final size:2
Alignment explanation
Indices: 974947--975010 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
974937 GTTGCCTTTC
974947 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
974989 CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT
975011 ATATATATAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:975015 original size:2 final size:2
Alignment explanation
Indices: 975010--975036 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
975000 TCTCTCTCTC
975010 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
975037 TCCTTCTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:975400 original size:18 final size:17
Alignment explanation
Indices: 975377--975421 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
975367 TAAATTTATA
975377 AAAATTTATATAATATG
1 AAAATTTATATAATATG
*
975394 AATAA-TTA-AT-ATATT
1 AA-AATTTATATAATATG
975409 AAAATTTATATAA
1 AAAATTTATATAA
975422 AATATATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 8
0.72 0.03 0.25
Matches are distributed among these distances:
14 2 0.09
15 9 0.39
16 4 0.17
17 6 0.26
18 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
AAAATTTATATAATATG
Found at i:975829 original size:10 final size:9
Alignment explanation
Indices: 975808--975851 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
975798 AATTTAAAAT
975808 TTAAATTTA
1 TTAAATTTA
975817 TTAAATATTA
1 TTAAAT-TTA
975827 TTAAA-TTA
1 TTAAATTTA
*
975835 TATAAATTAA
1 T-TAAATTTA
975845 TTAAATT
1 TTAAATT
975852 AAATTTTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
8 4 0.13
9 16 0.52
10 11 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TTAAATTTA
Found at i:975847 original size:18 final size:20
Alignment explanation
Indices: 975808--975852 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
975798 AATTTAAAAT
*
975808 TTAAATT-TATTAAATATTA
1 TTAAATTATATTAAATATAA
975827 TTAAATTATA-TAAAT-TAA
1 TTAAATTATATTAAATATAA
975845 TTAAATTA
1 TTAAATTA
975853 AATTTTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 10 0.42
19 12 0.50
20 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAAATTATATTAAATATAA
Found at i:978844 original size:23 final size:22
Alignment explanation
Indices: 978819--978861 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
978809 AAAAAAATAA
978819 AAAATTATAAA-TATTAAAATTT
1 AAAATT-TAAATTATTAAAATTT
978841 AAAATTTAAATTTATTAAAAT
1 AAAATTTAAA-TTATTAAAAT
978862 ATTTACGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATTTAAATTATTAAAATTT
Found at i:979690 original size:15 final size:15
Alignment explanation
Indices: 979670--979700 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
979660 ATAAAAGCAA
979670 TAATCTTTTCTTTTC
1 TAATCTTTTCTTTTC
979685 TAATCTTTTCTTTTC
1 TAATCTTTTCTTTTC
979700 T
1 T
979701 TTTTCAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (15 bp):
TAATCTTTTCTTTTC
Found at i:980577 original size:2 final size:2
Alignment explanation
Indices: 980570--980597 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
980560 AATTTGGTAT
980570 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
980598 AAAGCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:980815 original size:2 final size:2
Alignment explanation
Indices: 980808--980837 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
980798 TGTTACAGGC
980808 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
980838 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:983226 original size:2 final size:2
Alignment explanation
Indices: 983219--983248 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
983209 TCAATACACA
983219 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
983249 TGTATTCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:986130 original size:17 final size:17
Alignment explanation
Indices: 986108--986141 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
986098 CCTTGGGCTC
986108 CTCCTGTCCCAAAATCA
1 CTCCTGTCCCAAAATCA
986125 CTCCTGTCCCAAAATCA
1 CTCCTGTCCCAAAATCA
986142 TGAGTTTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.41, G:0.06, T:0.24
Consensus pattern (17 bp):
CTCCTGTCCCAAAATCA
Found at i:990853 original size:16 final size:17
Alignment explanation
Indices: 990828--990866 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
990818 TAAATATTAT
990828 TAAA-ATTAATT-TAAA
1 TAAATATTAATTATAAA
990843 TAAATATTAATTATAAA
1 TAAATATTAATTATAAA
990860 TATAATA
1 TA-AATA
990867 ATAAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.19
16 7 0.33
17 6 0.29
18 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATATTAATTATAAA
Found at i:990865 original size:28 final size:27
Alignment explanation
Indices: 990811--990896 Score: 83
Period size: 26 Copynumber: 3.2 Consensus size: 27
990801 TATGATTATA
990811 AATATAATAAATATT-ATTAAAATTAAT
1 AATA-AATAAATATTAATTAAAATTAAT
*
990838 -TTAAATAAATATTAATTATAAATATAAT
1 AATAAATAAATATTAATTA-AAAT-TAAT
990866 AATAAA-AAATATTAA--AATAATTAAAT
1 AATAAATAAATATTAATTAA-AATT-AAT
990892 AATAA
1 AATAA
990897 TCGCATATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
25 12 0.24
26 18 0.35
27 4 0.08
28 13 0.25
29 4 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (27 bp):
AATAAATAAATATTAATTAAAATTAAT
Found at i:990870 original size:12 final size:13
Alignment explanation
Indices: 990814--990885 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
990804 GATTATAAAT
990814 ATAATAAATATTA
1 ATAATAAATATTA
* * *
990827 TTAA-AATTAATTT
1 ATAATAAAT-ATTA
990840 A-AATAAATATTA
1 ATAATAAATATTA
*
990852 ATTATAAATATAATA
1 ATAATAAATAT--TA
*
990867 ATAAAAAATATTA
1 ATAATAAATATTA
990880 A-AATAA
1 ATAATAA
990886 TTAAATAATA
Statistics
Matches: 44, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
12 13 0.30
13 20 0.45
15 11 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATAAATATTA
Found at i:991681 original size:6 final size:6
Alignment explanation
Indices: 991670--991696 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
991660 AACACCACAA
991670 CCCCTC CCCCTC CCCCTC CCCCTC CCC
1 CCCCTC CCCCTC CCCCTC CCCCTC CCC
991697 TACAATCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.85, G:0.00, T:0.15
Consensus pattern (6 bp):
CCCCTC
Found at i:995346 original size:13 final size:13
Alignment explanation
Indices: 995325--995355 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
995315 TACCATTACC
*
995325 ACAACTGATAAGA
1 ACAATTGATAAGA
995338 ACAATTGATAAGA
1 ACAATTGATAAGA
995351 ACAAT
1 ACAAT
995356 ACAGATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.19
Consensus pattern (13 bp):
ACAATTGATAAGA
Found at i:996825 original size:23 final size:24
Alignment explanation
Indices: 996760--996849 Score: 73
Period size: 23 Copynumber: 3.8 Consensus size: 24
996750 GATTTTAGTT
* *
996760 TTAATATTTAAAATT-TAAAATTTA
1 TTAAT-TTTATAATTATATAATTTA
*
996784 TTTATTTTATAATTATATAATTTA
1 TTAATTTTATAATTATATAATTTA
* *
996808 -TAATTTTATATTTGTAT-ATGTTA
1 TTAATTTTATAATTATATAAT-TTA
996831 TGTAATTTT-T-ATTATATAA
1 T-TAATTTTATAATTATATAA
996850 ATAATAAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
22 2 0.04
23 30 0.57
24 14 0.26
25 7 0.13
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (24 bp):
TTAATTTTATAATTATATAATTTA
Found at i:997093 original size:14 final size:13
Alignment explanation
Indices: 997048--997099 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
997038 AATTAAAAAA
*
997048 TTTAAA-TAAAAT
1 TTTAAATTAATAT
* *
997060 TTAAAATTCATAT
1 TTTAAATTAATAT
997073 TTTAAATTAATCAT
1 TTTAAATTAAT-AT
*
997087 TTTAAATAAATAT
1 TTTAAATTAATAT
997100 AAATAATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
12 5 0.16
13 15 0.47
14 12 0.38
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTAAATTAATAT
Found at i:997351 original size:2 final size:2
Alignment explanation
Indices: 997344--997368 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
997334 ACATTTACAC
997344 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
997369 AACCAATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:997712 original size:48 final size:48
Alignment explanation
Indices: 997660--997786 Score: 112
Period size: 48 Copynumber: 2.6 Consensus size: 48
997650 ATTAAAACAT
*
997660 TTTATTAAATATATACATCTCCTCTCTTCCAAACATGAACCAAACTAA
1 TTTATTAAATATATACATCTCCTCTCTTCCAAACATAAACCAAACTAA
* * * * * * * ** *
997708 TTTATTACATTTGTTCATCTCTTCTC-TCCATATATAAATTAAATTAA
1 TTTATTAAATATATACATCTCCTCTCTTCCAAACATAAACCAAACTAA
* * *
997755 TTTATTAAATTAAATGCATCTCCTTTCTTCCA
1 TTTATTAAA-TATATACATCTCCTCTCTTCCA
997787 TTTATAAATC
Statistics
Matches: 59, Mismatches: 18, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
47 23 0.39
48 32 0.54
49 4 0.07
ACGTcount: A:0.34, C:0.21, G:0.02, T:0.43
Consensus pattern (48 bp):
TTTATTAAATATATACATCTCCTCTCTTCCAAACATAAACCAAACTAA
Found at i:1000647 original size:2 final size:2
Alignment explanation
Indices: 1000640--1000678 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
1000630 ATGTAAGGAC
* *
1000640 AT AT AT AT AT AT AT AT AG AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1000679 GCATACTGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1000928 original size:2 final size:2
Alignment explanation
Indices: 1000921--1000950 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1000911 AAGCCAAAAC
*
1000921 CT CT CT CT CT CC CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1000951 ATATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:1001747 original size:12 final size:12
Alignment explanation
Indices: 1001728--1001767 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
1001718 TTATTAAATC
1001728 TATACATATATA
1 TATACATATATA
* *
1001740 TGTACATATGTA
1 TATACATATATA
1001752 TATACATATATA
1 TATACATATATA
1001764 TATA
1 TATA
1001768 TATACTCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (12 bp):
TATACATATATA
Found at i:1004383 original size:25 final size:24
Alignment explanation
Indices: 1004332--1004392 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
1004322 CAATACAAAC
*
1004332 AAAACATATATAATAAAACTAATT
1 AAAACATATATAATAAAACAAATT
*
1004356 AAAACATAATATGATAAAA-AAA-T
1 AAAACAT-ATATAATAAAACAAATT
*
1004379 ATAAACGTATATAA
1 A-AAACATATATAA
1004393 GAATGTATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 7 0.23
24 14 0.45
25 10 0.32
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.26
Consensus pattern (24 bp):
AAAACATATATAATAAAACAAATT
Found at i:1005076 original size:2 final size:2
Alignment explanation
Indices: 1005069--1005109 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1005059 CAAGAATAGA
1005069 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1005110 AGCCTACGCG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1013372 original size:2 final size:2
Alignment explanation
Indices: 1013365--1013399 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1013355 AGCATAAAGT
1013365 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1013400 ATGAAACTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1015615 original size:2 final size:2
Alignment explanation
Indices: 1015610--1015638 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1015600 TGTGTGTGTG
1015610 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1015639 CCATTCTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1017376 original size:2 final size:2
Alignment explanation
Indices: 1017369--1017397 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1017359 TGTTTCTTGC
1017369 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1017398 AATGGACTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1019773 original size:24 final size:22
Alignment explanation
Indices: 1019746--1019812 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 22
1019736 ATATTATTTT
1019746 TTTAATTTAATATTTAAATAAATA
1 TTTAATTTAAT-TTT-AATAAATA
*
1019770 TTTATATTATAATTTTATTAAATA
1 TTTA-ATT-TAATTTTAATAAATA
*
1019794 TATAATTTTAATTATTAAT
1 TTTAA-TTTAATT-TTAAT
1019813 TTTATTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
23 6 0.17
24 20 0.56
25 6 0.17
26 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTAATTTAATTTTAATAAATA
Found at i:1019797 original size:17 final size:17
Alignment explanation
Indices: 1019777--1019831 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
1019767 ATATTTATAT
1019777 TATAATTTTATTAAATA
1 TATAATTTTATTAAATA
*
1019794 TATAA--TT-TTAATTA
1 TATAATTTTATTAAATA
1019808 T-TAATTTTATTTAAA-A
1 TATAATTTTA-TTAAATA
1019824 TATAATTT
1 TATAATTT
1019832 AACAAGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
13 3 0.10
14 7 0.23
15 4 0.13
16 2 0.06
17 15 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATAATTTTATTAAATA
Found at i:1019815 original size:30 final size:30
Alignment explanation
Indices: 1019756--1019831 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
1019746 TTTAATTTAA
1019756 TATTT-AAATA-AATATTTATATTATAATTT
1 TATTTAAAATATAAT-TTTATATTATAATTT
1019785 TA-TTAAATATATAATTTTA-ATTATTAATTT
1 TATTTAAA-ATATAATTTTATATTA-TAATTT
1019815 TATTTAAAATATAATTT
1 TATTTAAAATATAATTT
1019832 AACAAGTAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
28 2 0.05
29 8 0.19
30 24 0.57
31 8 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
TATTTAAAATATAATTTTATATTATAATTT
Found at i:1020526 original size:16 final size:16
Alignment explanation
Indices: 1020507--1020544 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1020497 AAAATATATT
*
1020507 TTTTTTCAATTTAAAC
1 TTTTTTCAAATTAAAC
*
1020523 -TTTTTAAAATTAAAC
1 TTTTTTCAAATTAAAC
1020538 TTTTTTC
1 TTTTTTC
1020545 TGACAGCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 2
0.78 0.13 0.09
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTTCAAATTAAAC
Found at i:1020963 original size:20 final size:20
Alignment explanation
Indices: 1020924--1020963 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1020914 TTAACTATTT
*
1020924 ATATTAATATTATATTTAAA
1 ATATTAATATTATATATAAA
1020944 ATATTATATATT-TATATAAA
1 ATATTA-ATATTATATATAAA
1020964 TTTTAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATTAATATTATATATAAA
Found at i:1021266 original size:3 final size:3
Alignment explanation
Indices: 1021258--1021295 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1021248 ATAAAAAAGG
1021258 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1021296 AGAGTACCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1022462 original size:6 final size:6
Alignment explanation
Indices: 1022439--1022472 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
1022429 TGATTATATA
*
1022439 AAAATT AAATAAT AAAATT AAAATT AAAATT AAA
1 AAAATT AAA-ATT AAAATT AAAATT AAAATT AAA
1022473 GGTTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:1026856 original size:23 final size:24
Alignment explanation
Indices: 1026808--1026866 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
1026798 TATATTAAAT
*
1026808 ATAATTCTTTAAAAAATAATATAA
1 ATAATTTTTTAAAAAATAATATAA
**
1026832 ATAATTTTTTAATTAAT-ATATAA
1 ATAATTTTTTAAAAAATAATATAA
*
1026855 AT-ATCTTTTAAA
1 ATAATTTTTTAAA
1026867 TAAAATTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 8 0.27
23 8 0.27
24 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAATTTTTTAAAAAATAATATAA
Found at i:1027042 original size:15 final size:15
Alignment explanation
Indices: 1027021--1027058 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1027011 ATTAAATAAA
1027021 AATAATTATTAAATAT
1 AATAATTATTAAA-AT
*
1027037 AA-AATTTTTAAAAT
1 AATAATTATTAAAAT
1027051 AATAATTA
1 AATAATTA
1027059 AAAATTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 4 0.21
15 13 0.68
16 2 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAATTATTAAAAT
Found at i:1027089 original size:11 final size:11
Alignment explanation
Indices: 1027047--1027086 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
1027037 AAAATTTTTA
*
1027047 AAATAATAATT
1 AAATATTAATT
*
1027058 AAAAATTAATT
1 AAATATTAATT
1027069 AAATATTAATT
1 AAATATTAATT
1027080 AATATAT
1 AA-ATAT
1027087 AATCACCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 21 0.84
12 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAATATTAATT
Found at i:1027607 original size:16 final size:16
Alignment explanation
Indices: 1027520--1027608 Score: 54
Period size: 16 Copynumber: 5.2 Consensus size: 16
1027510 AATAAGTTTA
**
1027520 TATAAATATGTAAAAT
1 TATAAATATAAAAAAT
* * *
1027536 TTTAAGTATTAAAAAT
1 TATAAATATAAAAAAT
*
1027552 ATATAAAAATAAATAAA-
1 -TATAAATATAAA-AAAT
*
1027569 TATAATATTTTAAATATAAT
1 TATAA-A-TATAAA-A-AAT
1027589 TATAAATATAAAAAAT
1 TATAAATATAAAAAAT
1027605 TATA
1 TATA
1027609 TAAATTATTA
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
16 24 0.43
17 10 0.18
18 14 0.25
19 3 0.05
20 5 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
TATAAATATAAAAAAT
Found at i:1027610 original size:18 final size:18
Alignment explanation
Indices: 1027517--1027613 Score: 51
Period size: 18 Copynumber: 5.6 Consensus size: 18
1027507 ATAAATAAGT
**
1027517 TTATATAAATATGTAAAA
1 TTATATAAATATAAAAAA
* *
1027535 TT-T-TAAGTATTAAAAA
1 TTATATAAATATAAAAAA
*
1027551 -TATATAAAAATAAATAAA
1 TTATATAAATATAAA-AAA
* * * *
1027569 -TATA-ATATTTTAAATA
1 TTATATAAATATAAAAAA
*
1027585 TAATTATAAATATAAAAAA
1 TTA-TATAAATATAAAAAA
1027604 TTATATAAAT
1 TTATATAAAT
1027614 TATTATATCT
Statistics
Matches: 56, Mismatches: 17, Indels: 12
0.66 0.20 0.14
Matches are distributed among these distances:
15 1 0.02
16 13 0.23
17 14 0.25
18 18 0.32
19 10 0.18
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
TTATATAAATATAAAAAA
Found at i:1028095 original size:19 final size:19
Alignment explanation
Indices: 1028073--1028161 Score: 73
Period size: 19 Copynumber: 4.7 Consensus size: 19
1028063 AAAATATATG
1028073 ATATAATAAAATAATTAAA
1 ATATAATAAAATAATTAAA
1028092 ATATAATAAAA-ATATTATATA
1 ATATAATAAAATA-ATTA-A-A
1028113 ATAT-A-AAAATAATGT-AA
1 ATATAATAAAATAAT-TAAA
*
1028130 ATATATTAAAATAA-TAAA
1 ATATAATAAAATAATTAAA
1028148 AGT-TAATATAAATA
1 A-TATAATA-AAATA
1028162 TATAACATTT
Statistics
Matches: 58, Mismatches: 2, Indels: 20
0.73 0.03 0.25
Matches are distributed among these distances:
17 6 0.10
18 9 0.16
19 34 0.59
20 4 0.07
21 5 0.09
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
ATATAATAAAATAATTAAA
Found at i:1028159 original size:29 final size:28
Alignment explanation
Indices: 1028073--1028164 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 28
1028063 AAAATATATG
*
1028073 ATATAATAAAATAATTAAAATATAATA-AA
1 ATATATTAAAATAA-TAAAAT-TAATATAA
* *
1028102 A-ATATTATATAAT-ATAAAAATAATGTAA
1 ATATATTA-A-AATAATAAAATTAATATAA
1028130 ATATATTAAAATAATAAAAGTTAATATAA
1 ATATATTAAAATAATAAAA-TTAATATAA
1028159 ATATAT
1 ATATAT
1028165 AACATTTTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
27 7 0.13
28 20 0.38
29 22 0.42
30 3 0.06
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (28 bp):
ATATATTAAAATAATAAAATTAATATAA
Found at i:1029258 original size:2 final size:2
Alignment explanation
Indices: 1029251--1029281 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1029241 ATGACTTTTC
*
1029251 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1029282 GAGAGAGAGA
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:1030505 original size:22 final size:22
Alignment explanation
Indices: 1030483--1030526 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1030473 ATTTAAAAAA
1030483 TTTTAATAATGAATTTT-TTAAAT
1 TTTTAA-AAT-AATTTTATTAAAT
1030506 TTTTAAAATAATTTTATTAAA
1 TTTTAAAATAATTTTATTAAA
1030527 CATTTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 8 0.40
23 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTTAAAATAATTTTATTAAAT
Found at i:1031014 original size:27 final size:28
Alignment explanation
Indices: 1030966--1031019 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
1030956 TCGTCTCTTT
** *
1030966 AAATTATATTTTTTAATTTTATATATTA
1 AAATTATATTTTAAAATATTATATATTA
1030994 AAATTATA-TTTAAAATATTATATATT
1 AAATTATATTTTAAAATATTATATATT
1031020 TATATAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
AAATTATATTTTAAAATATTATATATTA
Found at i:1031105 original size:30 final size:31
Alignment explanation
Indices: 1031088--1031155 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 31
1031078 ATGTTTATAT
1031088 TATTTTT-ATTATTTTTTATATTTAATATTA
1 TATTTTTAATTATTTTTTATATTTAATATTA
1031118 TATTTTTAATTA-TTTTTATATATTATATAATTA
1 TATTTTTAATTATTTTTTATAT-TTA-AT-ATTA
1031151 TATTT
1 TATTT
1031156 ATATTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
30 16 0.47
31 7 0.21
32 2 0.06
33 9 0.26
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (31 bp):
TATTTTTAATTATTTTTTATATTTAATATTA
Found at i:1031111 original size:6 final size:6
Alignment explanation
Indices: 1031102--1031162 Score: 52
Period size: 6 Copynumber: 9.7 Consensus size: 6
1031092 TTTATTATTT
* * *
1031102 TTTATA TTTA-A TATTATA TTTTTA ATTATT TTTATA TATTATA TAATTATA
1 TTTATA TTTATA T-TTATA TTTATA TTTATA TTTATA T-TTATA T--TTATA
1031153 TTTATA TTTA
1 TTTATA TTTA
1031163 AAATTATTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
5 2 0.04
6 28 0.62
7 8 0.18
8 7 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TTTATA
Found at i:1031115 original size:28 final size:30
Alignment explanation
Indices: 1031045--1031155 Score: 99
Period size: 31 Copynumber: 3.7 Consensus size: 30
1031035 ATATTAATAA
*
1031045 TTTATA-TTAT-TTA-AATTTTAATATAATTT
1 TTTATATTTATATTATATTTTTAAT-T-ATTT
*
1031074 TATTATGTTTATA-T-TATTTTT-ATTATTT
1 T-TTATATTTATATTATATTTTTAATTATTT
1031102 TTTATATTTAATATTATATTTTTAATTATTT
1 TTTATATTT-ATATTATATTTTTAATTATTT
1031133 TTATATATTATATAATTATATTT
1 TT-TATATT-TAT-ATTATATTT
1031156 ATATTTAAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 18
0.76 0.03 0.20
Matches are distributed among these distances:
27 7 0.10
28 8 0.12
29 3 0.04
30 13 0.19
31 19 0.28
32 8 0.12
33 10 0.15
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (30 bp):
TTTATATTTATATTATATTTTTAATTATTT
Found at i:1031133 original size:31 final size:32
Alignment explanation
Indices: 1031088--1031160 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 32
1031078 ATGTTTATAT
1031088 TATTTTTATTATTTTT-TATATT-TA-ATATTA
1 TATTTTTATTATTTTTATATATTATATA-ATTA
1031118 TATTTTTAATTATTTTTATATATTATATAATTA
1 TATTTTT-ATTATTTTTATATATTATATAATTA
*
1031151 TATTTATATT
1 TATTTTTATT
1031161 TAAAATTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
30 7 0.18
31 9 0.24
32 9 0.24
33 12 0.32
34 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (32 bp):
TATTTTTATTATTTTTATATATTATATAATTA
Found at i:1031141 original size:10 final size:10
Alignment explanation
Indices: 1031011--1031141 Score: 69
Period size: 10 Copynumber: 12.9 Consensus size: 10
1031001 ATTTAAAATA
1031011 TTATATATTT
1 TTATATATTT
* *
1031021 ATATAAATTT
1 TTATATATTT
*
1031031 TGATATATTAAT
1 TTATATATT--T
1031043 AATT-TATATTAT
1 --TTATATATT-T
1031055 TTA-A-ATTT
1 TTATATATTT
* *
1031063 TAATATAATT
1 TTATATATTT
*
1031073 TTAT-TATGT
1 TTATATATTT
1031082 TTATATTATTT
1 TTATA-TATTT
1031093 TTAT-TATTT
1 TTATATATTT
1031102 TT-TATATTT
1 TTATATATTT
*
1031111 AATATTATATTT
1 -TTA-TATATTT
1031123 TTA-ATTATTT
1 TTATA-TATTT
1031133 TTATATATT
1 TTATATATT
1031142 ATATAATTAT
Statistics
Matches: 92, Mismatches: 14, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
8 4 0.04
9 24 0.26
10 36 0.39
11 11 0.12
12 10 0.11
13 6 0.07
14 1 0.01
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
TTATATATTT
Found at i:1031157 original size:51 final size:50
Alignment explanation
Indices: 1030997--1031169 Score: 129
Period size: 51 Copynumber: 3.3 Consensus size: 50
1030987 TATATTAAAA
* * *
1030997 TTATATTTAAAATATTATATATTTATATAAATTTTGATATATTAATAATT-TAT
1 TTATATTT--AATATTATATTTTTA-AT-TATTTTTATATATTAATAATTATAT
* * * * * *
1031050 ATTAT-TTAAATTTTAATATAATTTT-ATTATGTTTATATTATT-TTTATTATTTT
1 -TTATATTTAATATT-ATAT--TTTTAATTATTTTTATA-TATTAATAATTA-TAT
1031103 TTATATTTAATATTATATTTTTAATTATTTTTATATATTATATAATTATAT
1 TTATATTTAATATTATATTTTTAATTATTTTTATATATTA-ATAATTATAT
*
1031154 TTATATTTAAAATTAT
1 TTATATTTAATATTAT
1031170 TAAATAAATA
Statistics
Matches: 93, Mismatches: 16, Indels: 23
0.70 0.12 0.17
Matches are distributed among these distances:
50 8 0.09
51 44 0.47
52 23 0.25
53 11 0.12
54 7 0.08
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (50 bp):
TTATATTTAATATTATATTTTTAATTATTTTTATATATTAATAATTATAT
Found at i:1031162 original size:27 final size:27
Alignment explanation
Indices: 1030984--1031162 Score: 92
Period size: 27 Copynumber: 6.9 Consensus size: 27
1030974 TTTTTTAATT
* * *
1030984 TTATAT-ATTAAAATTATATTTAAAATA
1 TTATATAATTATATTTATATTT-ATATA
* **
1031011 TTATATATTTATATAAAT-TTTGATATA
1 TTATATAATTATATTTATATTT-ATATA
* * *
1031038 TTA-ATAATT-TATAT-TATTTAAATT
1 TTATATAATTATATTTATATTTATATA
* *
1031062 TTAATATAATTTTA-TTATGTTTATATTA
1 TT-ATATAATTATATTTATATTTATA-TA
* *
1031090 TT-T-TTATTATTTTTTATATTTA-ATA
1 TTATATAATTA-TATTTATATTTATATA
* * *
1031115 TTATAT--TTTTAATTATTTTTATATA
1 TTATATAATTATATTTATATTTATATA
1031140 TTATATAATTATATTTATATTTA
1 TTATATAATTATATTTATATTTA
1031163 AAATTATTAA
Statistics
Matches: 112, Mismatches: 26, Indels: 28
0.67 0.16 0.17
Matches are distributed among these distances:
24 15 0.13
25 27 0.24
26 16 0.14
27 45 0.40
28 9 0.08
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (27 bp):
TTATATAATTATATTTATATTTATATA
Found at i:1031168 original size:39 final size:39
Alignment explanation
Indices: 1031065--1031170 Score: 101
Period size: 39 Copynumber: 2.7 Consensus size: 39
1031055 TTAAATTTTA
* * * *
1031065 ATATAATTTTA-TTATGTTTATATTATTTTTATTATTTT
1 ATATAATTATATTTATATTTAAATTATTTTTATTATATT
* * *
1031103 TTATATTTA-ATATTATATTTTTAATTATTTTTA-TATATT
1 ATATAATTATAT-TTATA-TTTAAATTATTTTTATTATATT
1031142 ATATAATTATATTTATATTTAAAATTATT
1 ATATAATTATATTTATATTT-AAATTATT
1031171 AAATAAATAT
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
37 1 0.02
38 9 0.17
39 28 0.53
40 15 0.28
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (39 bp):
ATATAATTATATTTATATTTAAATTATTTTTATTATATT
Found at i:1031545 original size:2 final size:2
Alignment explanation
Indices: 1031538--1031588 Score: 50
Period size: 2 Copynumber: 26.0 Consensus size: 2
1031528 ATTTATACTT
* * * *
1031538 TA TA TA TA AA TA TA TA TC TA TA TA TA T- TA TA TA TG TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1031579 TA TA TG TA TA
1 TA TA TA TA TA
1031589 AGTGGCACAT
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1032116 original size:14 final size:14
Alignment explanation
Indices: 1032091--1032133 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
1032081 ATTACAAGAT
1032091 ATATATTTAAAAATA
1 ATATA-TTAAAAATA
1032106 ATATATTAAAAAT-
1 ATATATTAAAAATA
*
1032119 ATATTTTTAAAAATA
1 ATA-TATTAAAAATA
1032134 CCAATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 3 0.12
14 17 0.68
15 5 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATATTAAAAATA
Found at i:1036213 original size:16 final size:16
Alignment explanation
Indices: 1036172--1036215 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
1036162 GAAAACAAAT
1036172 ATATATATATATTTAAA
1 ATAT-TATATATTTAAA
*
1036189 ATTTTTTATATATTTAAA
1 A--TATTATATATTTAAA
1036207 ATATTATAT
1 ATATTATAT
1036216 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 7 0.30
17 1 0.04
18 13 0.57
19 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATTATATATTTAAA
Found at i:1036240 original size:27 final size:26
Alignment explanation
Indices: 1036180--1036241 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 26
1036170 ATATATATAT
*
1036180 ATATTTAAAATTTTTTATATATTTAAA
1 ATATTT-ATATTTTTTATATATTTAAA
* *
1036207 ATA-TTATATTTTTTATTTATGTTTAA
1 ATATTTATATTTTTTATATAT-TTAAA
1036233 ATATTTATA
1 ATATTTATA
1036242 AATATATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 13 0.43
26 9 0.30
27 8 0.27
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
ATATTTATATTTTTTATATATTTAAA
Found at i:1037094 original size:3 final size:3
Alignment explanation
Indices: 1037086--1037120 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1037076 AAATACGACC
1037086 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1037121 TAGAAAAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1037342 original size:15 final size:15
Alignment explanation
Indices: 1037324--1037361 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
1037314 CCTAAATAAT
1037324 TTTTTTAAAAAAATA
1 TTTTTTAAAAAAATA
1037339 TTTTTT-AAAAAATA
1 TTTTTTAAAAAAATA
1037353 TTCTTTTAA
1 TT-TTTTAA
1037362 TTCTTTCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.48
15 10 0.48
16 1 0.05
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTTTAAAAAAATA
Found at i:1038956 original size:3 final size:3
Alignment explanation
Indices: 1038948--1038972 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1038938 CGTACTGCAG
1038948 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
1038973 AAATGGACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1042702 original size:5 final size:5
Alignment explanation
Indices: 1042694--1042722 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
1042684 AATTTAATTG
1042694 AAGAA AAGAA AAGAA AAGAA AAGAA AAGA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGA
1042723 TTCAAAAGAA
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:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:1042958 original size:6 final size:6
Alignment explanation
Indices: 1042905--1042957 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
1042895 TGCAGCTTCC
* * *
1042905 TGCGAC TGCGAA TGCAAA TGCGAA TGCGAA TGCGAA TGCGAA TGCGAG
1 TGCGAA TGCGAA TGCGAA TGCGAA TGCGAA TGCGAA TGCGAA TGCGAA
1042953 TGCGA
1 TGCGA
1042958 GGCGAGGGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.30, C:0.19, G:0.34, T:0.17
Consensus pattern (6 bp):
TGCGAA
Found at i:1043222 original size:17 final size:17
Alignment explanation
Indices: 1043200--1043236 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1043190 AGATACGTGT
1043200 TGACGACTG-TGCTCTGA
1 TGACGA-TGATGCTCTGA
1043217 TGACGATGATGCTCTGA
1 TGACGATGATGCTCTGA
1043234 TGA
1 TGA
1043237 TAGACCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (17 bp):
TGACGATGATGCTCTGA
Found at i:1044715 original size:2 final size:2
Alignment explanation
Indices: 1044708--1044732 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1044698 GAATAATTGA
1044708 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1044733 AATTTGACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1044841 original size:5 final size:5
Alignment explanation
Indices: 1044831--1044865 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
1044821 TTTGAAACTA
1044831 TATAC TATAC TATAC TATAC TATAC TATAC TATAC
1 TATAC TATAC TATAC TATAC TATAC TATAC TATAC
1044866 ACTTAATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAC
Found at i:1044907 original size:2 final size:2
Alignment explanation
Indices: 1044900--1044930 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1044890 ATACCAAATT
1044900 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1044931 GTGTGTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1046553 original size:2 final size:2
Alignment explanation
Indices: 1046546--1046571 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1046536 TCCCCTATTT
1046546 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
1046572 TAATAGACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1048108 original size:2 final size:2
Alignment explanation
Indices: 1048101--1048130 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1048091 ACATACATAC
1048101 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
1048131 TCTTAAAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1051453 original size:22 final size:22
Alignment explanation
Indices: 1051428--1051471 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1051418 ATTTTTTGTC
*
1051428 AATTATTATTTAATATAAAATT
1 AATTATTATTTAATAAAAAATT
*
1051450 AATTATTATTTATTAAAAAATT
1 AATTATTATTTAATAAAAAATT
1051472 CATGAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTATTATTTAATAAAAAATT
Done.