Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008477.1 Hibiscus syriacus cultivar Beakdansim tig00111308_pilon, whole genome shotgun sequence
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: 371691
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:228 original size:23 final size:22
Alignment explanation
Indices: 177--238 Score: 74
Period size: 23 Copynumber: 2.9 Consensus size: 22
167 TTATAAAATA
*
177 TTTTAAAAT-AT-TTTTTTATT
1 TTTTAAAATAATATTATTTATT
*
197 TTTTAAAATCATATTATTTATT
1 TTTTAAAATAATATTATTTATT
*
219 TATTTGAAATAATATTATTT
1 T-TTTAAAATAATATTATTT
239 TTAAAATCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.25
21 2 0.06
22 9 0.25
23 16 0.44
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTTAAAATAATATTATTTATT
Found at i:627 original size:22 final size:24
Alignment explanation
Indices: 601--651 Score: 79
Period size: 22 Copynumber: 2.2 Consensus size: 24
591 TTGATGTATG
601 ATTTTAGAATTTAA-A-TTTTAAA
1 ATTTTAGAATTTAAGATTTTTAAA
*
623 ATTTTAGAATTTAAGATTTTTATA
1 ATTTTAGAATTTAAGATTTTTAAA
647 ATTTT
1 ATTTT
652 GGATTTATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 14 0.54
23 1 0.04
24 11 0.42
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (24 bp):
ATTTTAGAATTTAAGATTTTTAAA
Found at i:651 original size:8 final size:8
Alignment explanation
Indices: 601--651 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
591 TTGATGTATG
601 ATTTTAGA
1 ATTTTAGA
609 A-TTTA-A
1 ATTTTAGA
*
615 ATTTTAAA
1 ATTTTAGA
623 ATTTTAGA
1 ATTTTAGA
*
631 ATTTAAGA
1 ATTTTAGA
* *
639 TTTTTATA
1 ATTTTAGA
647 ATTTT
1 ATTTT
652 GGATTTATTG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 2 0.06
7 8 0.23
8 25 0.71
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (8 bp):
ATTTTAGA
Found at i:703 original size:19 final size:19
Alignment explanation
Indices: 674--719 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
664 TAAAATATAA
* *
674 ATAATTTAAATTATTTTTAT
1 ATAA-TTAAATGATTATTAT
694 ATAATTAAATGATTATTAT
1 ATAATTAAATGATTATTAT
713 ATAATTA
1 ATAATTA
720 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
ATAATTAAATGATTATTAT
Found at i:920 original size:15 final size:16
Alignment explanation
Indices: 894--929 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
884 TTCACCCTCG
894 TAGAAGGGGCTTTCTA
1 TAGAAGGGGCTTTCTA
910 TAGAA-GGGCTTTCTA
1 TAGAAGGGGCTTTCTA
925 TAGAA
1 TAGAA
930 TGTACCTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.31
Consensus pattern (16 bp):
TAGAAGGGGCTTTCTA
Found at i:1341 original size:30 final size:30
Alignment explanation
Indices: 1283--1417 Score: 123
Period size: 30 Copynumber: 4.5 Consensus size: 30
1273 ACCCTTATAC
* *
1283 ATAACATAAAATA-AATATCA-GAAATTAAA
1 ATAACATAAAATACAAAACCATG-AATTAAA
*
1312 ATAACATTAAATACAAAACCATGAATTAAA
1 ATAACATAAAATACAAAACCATGAATTAAA
* * * *
1342 ATACCAGAAAATATAATACCA-GAAATTAAA
1 ATAACATAAAATACAAAACCATG-AATTAAA
** *
1372 ATAATGTAAAATACAAAACTATGAATTAAA
1 ATAACATAAAATACAAAACCATGAATTAAA
* *
1402 ATACCAGAAAATACAA
1 ATAACATAAAATACAA
1418 TAGTAGAAAA
Statistics
Matches: 83, Mismatches: 19, Indels: 7
0.76 0.17 0.06
Matches are distributed among these distances:
29 13 0.16
30 68 0.82
31 2 0.02
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.22
Consensus pattern (30 bp):
ATAACATAAAATACAAAACCATGAATTAAA
Found at i:1373 original size:60 final size:59
Alignment explanation
Indices: 1290--1419 Score: 197
Period size: 60 Copynumber: 2.2 Consensus size: 59
1280 TACATAACAT
* *
1290 AAAATAAATATCAGAAATTAAAATAACATTAAATACAAAACCATGAATTAAAATACCAG
1 AAAATAAATACCAGAAATTAAAATAACATAAAATACAAAACCATGAATTAAAATACCAG
** *
1349 AAAATATAATACCAGAAATTAAAATAATGTAAAATACAAAACTATGAATTAAAATACCAG
1 AAAATA-AATACCAGAAATTAAAATAACATAAAATACAAAACCATGAATTAAAATACCAG
1409 AAAATACAATA
1 AAAATA-AATA
1420 GTAGAAAATA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
59 6 0.09
60 58 0.91
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (59 bp):
AAAATAAATACCAGAAATTAAAATAACATAAAATACAAAACCATGAATTAAAATACCAG
Found at i:1374 original size:15 final size:15
Alignment explanation
Indices: 1295--1374 Score: 67
Period size: 15 Copynumber: 5.3 Consensus size: 15
1285 AACATAAAAT
*
1295 AAATATCAGAAATTA
1 AAATACCAGAAATTA
* *
1310 AAATAACATTAAA-TA
1 AAATACCA-GAAATTA
1325 CAAA-ACCATG-AATTA
1 -AAATACCA-GAAATTA
*
1340 AAATACCAGAAAATA
1 AAATACCAGAAATTA
*
1355 TAATACCAGAAATTA
1 AAATACCAGAAATTA
1370 AAATA
1 AAATA
1375 ATGTAAAATA
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
14 6 0.12
15 40 0.77
16 6 0.12
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.23
Consensus pattern (15 bp):
AAATACCAGAAATTA
Found at i:1426 original size:60 final size:58
Alignment explanation
Indices: 1290--1441 Score: 187
Period size: 60 Copynumber: 2.5 Consensus size: 58
1280 TACATAACAT
*
1290 AAAATAAATATCAGAAATTAAAATAACATTAAATACAAAACCATGAATTAAAATACCAG
1 AAAATAAATAT-AGAAATTAAAATAACATAAAATACAAAACCATGAATTAAAATACCAG
* ** *
1349 AAAATATAATACCAGAAATTAAAATAATGTAAAATACAAAACTATGAATTAAAATACCAG
1 AAAATA-AATA-TAGAAATTAAAATAACATAAAATACAAAACCATGAATTAAAATACCAG
* * *
1409 AAAATACAATAGTAGAAAATACAATATCATAAA
1 AAAATA-AATA-TAGAAATTAAAATAACATAAA
1442 TAAAACTATA
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
59 6 0.08
60 72 0.92
ACGTcount: A:0.61, C:0.11, G:0.06, T:0.22
Consensus pattern (58 bp):
AAAATAAATATAGAAATTAAAATAACATAAAATACAAAACCATGAATTAAAATACCAG
Found at i:11438 original size:3 final size:3
Alignment explanation
Indices: 11430--11475 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
11420 AAATATATAT
* *
11430 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTAA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
11476 ATTTACATGC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:12460 original size:18 final size:18
Alignment explanation
Indices: 12437--12471 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12427 GAGAATTCTA
12437 AACTCCCTCTGCCCTCTC
1 AACTCCCTCTGCCCTCTC
*
12455 AACTCCCTCTTCCCTCT
1 AACTCCCTCTGCCCTCT
12472 GTTTCTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.54, G:0.03, T:0.31
Consensus pattern (18 bp):
AACTCCCTCTGCCCTCTC
Found at i:15206 original size:14 final size:14
Alignment explanation
Indices: 15187--15213 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15177 TTTTCATTTG
15187 CATTTGCATCTTTA
1 CATTTGCATCTTTA
15201 CATTTGCATCTTT
1 CATTTGCATCTTT
15214 GCATAATTAT
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:0.19, C:0.22, G:0.07, T:0.52
Consensus pattern (14 bp):
CATTTGCATCTTTA
Found at i:18446 original size:8 final size:8
Alignment explanation
Indices: 18433--18465 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
18423 GAAAGAGATG
18433 AGAAATGA
1 AGAAATGA
18441 AGAAATGA
1 AGAAATGA
18449 AGAAATGA
1 AGAAATGA
18457 AGAAATGA
1 AGAAATGA
18465 A
1 A
18466 AGGAAATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (8 bp):
AGAAATGA
Found at i:19553 original size:90 final size:90
Alignment explanation
Indices: 19450--19615 Score: 246
Period size: 90 Copynumber: 1.8 Consensus size: 90
19440 TATATTATTA
* * *
19450 TATATACAATAAAGCTTGAGTTGTCCCTCTAGAGA-AAATGGTTAATCGCCCCGGCTTTATGGAT
1 TATATACAATAAAGATTGAGTTGTCCCTCTAGA-ACAAATGGTTAATAGCCCCGACTTTATGGAT
19514 AA-TATTCAACTAACCTATTATACTAT
65 AAGT-TTCAACTAACCTATTATACTAT
* * *
19540 TATATGCAATAAAGATTGAGTTGTCCCTCTAGAACAATTGGTTAATAGCCCCGACTTTTTGGATA
1 TATATACAATAAAGATTGAGTTGTCCCTCTAGAACAAATGGTTAATAGCCCCGACTTTATGGATA
19605 AGTTTCAACTA
66 AGTTTCAACTA
19616 GCATGATAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
89 1 0.01
90 66 0.97
91 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (90 bp):
TATATACAATAAAGATTGAGTTGTCCCTCTAGAACAAATGGTTAATAGCCCCGACTTTATGGATA
AGTTTCAACTAACCTATTATACTAT
Found at i:22358 original size:41 final size:42
Alignment explanation
Indices: 22267--22360 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 42
22257 TTGTTAGTCA
* ** * *
22267 TTCGGGCCATCTGTAAGTTTTTAGAGCATGATTCTTAAATCC
1 TTCGGGTCATCTGTAAGCCTTTAGAGCAAGATTCTTAAAGCC
** * *
22309 TTTAGGTCATCTGTAAGCCTTTCGAGCAAGA-TGTTAAAGCC
1 TTCGGGTCATCTGTAAGCCTTTAGAGCAAGATTCTTAAAGCC
22350 TTCGGGTCATC
1 TTCGGGTCATC
22361 CATAGGACCT
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
41 17 0.41
42 24 0.59
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (42 bp):
TTCGGGTCATCTGTAAGCCTTTAGAGCAAGATTCTTAAAGCC
Found at i:25100 original size:20 final size:20
Alignment explanation
Indices: 25063--25100 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25053 CACATTTTTA
* *
25063 TCTAGATATTTGACAAGAAT
1 TCTAGATATTAGAAAAGAAT
25083 TCTAGATATTAGAAAAGA
1 TCTAGATATTAGAAAAGA
25101 TTATGATTCA
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:0.45, C:0.08, G:0.16, T:0.32
Consensus pattern (20 bp):
TCTAGATATTAGAAAAGAAT
Found at i:25290 original size:105 final size:105
Alignment explanation
Indices: 25106--25481 Score: 601
Period size: 105 Copynumber: 3.6 Consensus size: 105
25096 AAAGATTATG
*
25106 ATTCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTTGTCCT-
1 ATTCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTA
25170 AAAGTAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAA
66 AAAG-AGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAA
* *
25211 ATTCACCAGAGAAGGAGGTGAACCAACATTTCCAGAACAGTTCATAATGAGAAGAACTCGTCCTA
1 ATTCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTA
*
25276 AAAGAGAAAATTCATAATGAGAAGAACTTGTTCCTTTCAA
66 AAAGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAA
*
25316 ATTCACCACAGAAGGAGGTGAACCAACATTTCCTGAAGAGTTCATAATGAGAAGAACTCGTCCTA
1 ATTCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTA
*
25381 AAAGAGAAAGTTCATAATAAGAAGAACTTGTTCCTTTCAA
66 AAAGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAA
* * * * * * *
25421 GTCCACCGCGGAAGGAGGTGGATCAACATTTTCAATGAAGAGTTCATAATGAGAAGAACTC
1 ATTCACCACAGAAGGAGGTGAACCAACA-TTTCCA-GAAGAGTTCATAATGAGAAGAACTC
25482 ATCCAATGAG
Statistics
Matches: 251, Mismatches: 17, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
105 218 0.87
106 8 0.03
107 25 0.10
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (105 bp):
ATTCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTA
AAAGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAA
Found at i:25612 original size:32 final size:32
Alignment explanation
Indices: 25571--25638 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
25561 CAATATTTTT
*
25571 AATGGAGAGTTCATAATGAGAAGAACTCATTC
1 AATGGAGAGTTCATAATGAGAAGAACTCATCC
25603 AATGGAGAGTTCATAATGAGAAGAACTCATCC
1 AATGGAGAGTTCATAATGAGAAGAACTCATCC
25635 AATG
1 AATG
25639 ATAAAGGAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (32 bp):
AATGGAGAGTTCATAATGAGAAGAACTCATCC
Found at i:25632 original size:16 final size:16
Alignment explanation
Indices: 25581--25632 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
25571 AATGGAGAGT
25581 TCATAATGAGAAGAAC
1 TCATAATGAGAAGAAC
**
25597 TCATTCAATG-G-AGAGT
1 TCA-T-AATGAGAAGAAC
25613 TCATAATGAGAAGAAC
1 TCATAATGAGAAGAAC
25629 TCAT
1 TCAT
25633 CCAATGATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
14 4 0.14
15 2 0.07
16 16 0.57
17 2 0.07
18 4 0.14
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.25
Consensus pattern (16 bp):
TCATAATGAGAAGAAC
Found at i:25732 original size:144 final size:146
Alignment explanation
Indices: 25451--25751 Score: 401
Period size: 144 Copynumber: 2.1 Consensus size: 146
25441 GATCAACATT
* * * *
25451 TTCAATGAAGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTTATAATTAGAAG
1 TTCAATGAAGAGTTCATAATGAGAAGAACTCATCCAATGAGAAAGAAGAAATTCATAATGAGAAG
* * * * *
25516 AACTTGTTCAACCTTGGTTAAATTCCATCACAGAAGGATGTGGATCAATATTTTTAATGGAGAGT
66 AACTTGTT--ACCTT-GTCAAATCCCATCACAGAAGGAGGTGGATCAATATTTTCAAAGGAGAGT
25581 TCATAATGAGAAGAACTCA
128 TCATAATGAGAAGAACTCA
* * *
25600 TTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAATGATAAAGGAGAAAATTCATAATGAGAA
1 TTCAATGAAGAGTTCATAATGAGAAGAACTCATCCAATGAGAAAGAAG-AAATTCATAATGAGAA
* *
25665 GAACTTGTT-CCTT-TCAAGTCCCA-CACAGAAGGAGGTGGATTAATATTTTCAAAGGAGAGTTC
65 GAACTTGTTACCTTGTCAAATCCCATCACAGAAGGAGGTGGATCAATATTTTCAAAGGAGAGTTC
*
25727 ATAATGAGAATAACTCA
130 ATAATGAGAAGAACTCA
*
25744 TCCAATGA
1 TTCAATGA
25752 GGAAGAAGAA
Statistics
Matches: 134, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
144 57 0.43
145 7 0.05
147 4 0.03
149 44 0.33
150 22 0.16
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (146 bp):
TTCAATGAAGAGTTCATAATGAGAAGAACTCATCCAATGAGAAAGAAGAAATTCATAATGAGAAG
AACTTGTTACCTTGTCAAATCCCATCACAGAAGGAGGTGGATCAATATTTTCAAAGGAGAGTTCA
TAATGAGAAGAACTCA
Found at i:25839 original size:117 final size:117
Alignment explanation
Indices: 25600--26135 Score: 816
Period size: 117 Copynumber: 4.6 Consensus size: 117
25590 GAAGAACTCA
** * *
25600 TTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAATGATAAAGGAGAAAATTCATAATGAGAA
1 TTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAG-AAGTTCATAATGAGAA
* *
25665 GAACTTGTT---CC-T--TTCAAGTCCCA-CACAGAAGGAGGTGGATTAATATT
65 GAACTTGTTCAACCTTGGTTCAA-TTCCATCACAGAAGGAGGTGGATCAATATT
* *
25712 TTCAAAGGAGAGTTCATAATGAGAATAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAG
1 TTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAG
*
25777 AACTTGTTCAACCTTGGTTTAATTCCATCACAGAAGGAGGTGGATCAATATT
66 AACTTGTTCAACCTTGGTTCAATTCCATCACAGAAGGAGGTGGATCAATATT
* * *
25829 TTCAATGGAGAGTTCATAATAAGAAGAACTCATCCAATGCGGATGAAGAAGTTCATAATGAGAAG
1 TTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAG
* *
25894 AACTTGTTCAACCTTGGTTCGATTCCATCACAGAAGGAGGTGGATCAACATT
66 AACTTGTTCAACCTTGGTTCAATTCCATCACAGAAGGAGGTGGATCAATATT
25946 TTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAG
1 TTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAG
* ** * *
26011 AACTTATTCAACCTTGGTTTGATTCCCTCACAGAAGGAGGTGAATCAATATT
66 AACTTGTTCAACCTTGGTTCAATTCCATCACAGAAGGAGGTGGATCAATATT
* *
26063 TTTAATGGAGAGTTCATAATGAGAAGAACTCATCCAAAGAGGAAGAAGAAGTTCATAATGAGAAG
1 TTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAG
26128 AACTTGTT
66 AACTTGTT
26136 TAACATTGCA
Statistics
Matches: 389, Mismatches: 28, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
111 24 0.06
112 43 0.11
114 2 0.01
115 1 0.00
116 4 0.01
117 315 0.81
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (117 bp):
TTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAG
AACTTGTTCAACCTTGGTTCAATTCCATCACAGAAGGAGGTGGATCAATATT
Found at i:25856 original size:261 final size:256
Alignment explanation
Indices: 25352--25867 Score: 818
Period size: 261 Copynumber: 2.0 Consensus size: 256
25342 CATTTCCTGA
* *
25352 AGAGTTCATAATGAGAAGAACTCGTCCTAAAAGAGAAAGTTCATAATAAGAAGAACTTGTTCCTT
1 AGAGTTCATAATGAGAAGAACTCATCCTAAAAGAGAAAATTCATAATAAGAAGAACTTGTTCCTT
* * *
25417 TCAAGTCCACCGCGGAAGGAGGTGGATCAACATTTTCAATGAAGAGTTCATAATGAGAAGAACTC
66 TCAAGTCCACCACAGAAGGAGGTGGATCAACATTTTCAAAGAAGAGTTCATAATGAGAAGAACTC
* *
25482 ATCCAATGAGGAAGAAGAAGTTTATAATTAGAAGAACTTGTTCAACCTTGGTTAAATTCCATCAC
131 ATCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTAAATTCCATCAC
* * * *
25547 AGAAGGATGTGGATCAATATTTTTAATGGAGAGTTCATAATGAGAAGAACTCATTCAATGG
196 AGAAGGAGGTGGATCAATATTTTCAATGGAGAGTTCATAATAAGAAGAACTCATCCAATGG
*
25608 AGAGTTCATAATGAGAAGAACTCATCCAATGATAAAGGAGAAAATTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCC--T-A-AAA-GAGAAAATTCATAATAAGAAGAACTTGT
* * *
25673 TCCTTTCAAGTCC-CACACAGAAGGAGGTGGATTAATATTTTCAAAGGAGAGTTCATAATGAGAA
61 TCCTTTCAAGTCCAC-CACAGAAGGAGGTGGATCAACATTTTCAAAGAAGAGTTCATAATGAGAA
* *
25737 TAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTTAATTC
125 GAACTCATCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTAAATTC
25802 CATCACAGAAGGAGGTGGATCAATATTTTCAATGGAGAGTTCATAATAAGAAGAACTCATCCAAT
190 CATCACAGAAGGAGGTGGATCAATATTTTCAATGGAGAGTTCATAATAAGAAGAACTCATCCAAT
25867 G
255 G
25868 CGGATGAAGA
Statistics
Matches: 237, Mismatches: 17, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
256 26 0.11
258 1 0.00
259 1 0.00
260 4 0.02
261 205 0.86
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (256 bp):
AGAGTTCATAATGAGAAGAACTCATCCTAAAAGAGAAAATTCATAATAAGAAGAACTTGTTCCTT
TCAAGTCCACCACAGAAGGAGGTGGATCAACATTTTCAAAGAAGAGTTCATAATGAGAAGAACTC
ATCCAATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTAAATTCCATCAC
AGAAGGAGGTGGATCAATATTTTCAATGGAGAGTTCATAATAAGAAGAACTCATCCAATGG
Found at i:25962 original size:378 final size:361
Alignment explanation
Indices: 25249--25984 Score: 999
Period size: 378 Copynumber: 2.0 Consensus size: 361
25239 TTTCCAGAAC
*
25249 AGTTCATAATGAGAAGAACTCGTCCTAAAAGAGAAAATTCATAATGAGAAGAACTTGTTCCTTTC
1 AGTTCATAATGAGAAGAACTCATCCTAAAAGAGAAAATTCATAATGAGAAGAACTTGTTCCTTTC
* ** *
25314 AAATTCACCACAGAAGGAGGTGAACCAACATTTCCTGAAGAGTTCATAATGAGAAGAACTCGTCC
66 AAATCCACCACAGAAGGAGGTGAACCAACATTTCAAGAAGAGTTCATAATGAGAAGAACTCATCC
* *
25379 TAAAAGAGAAAGTTCATAATAAGAAGAACTTGTTCCTTTCAAGTCCACCGCGGAAGGAGGTGGAT
131 TAAAAGAGAAAGTTCATAATAAGAAGAACTTGTTCCTTTCAAGTCCACCACAGAAGGAGGTGGAT
* *
25444 CAACATTTTCAATGAAGAGTTCATAATGAGAAGAACTCATCCAATGAGGAAGAAGAAGTTTATAA
196 CAACATTTTCAATGAAGAGTTCATAATAAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAA
* * * *
25509 TTAGAAGAACTTGTTCAACCTTGGTTAAATTCCATCACAGAAGGATGTGGATCAATATTTTTAAT
261 TGAGAAGAACTTGTTCAACCTTGGTTAAATTCCATCACAGAAGGAGGTGGATCAACATTTTCAAT
*
25574 GGAGAGTTCATAATGAGAAGAACTCATTCAATGGAG
326 GGAGAGTTCATAATGAGAAGAACTCATCCAATGGAG
25610 AGTTCATAATGAGAAGAACTCATCCAATGATAAAGGAGAAAATTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCC--T-A-AAA-GAGAAAATTCATAATGAGAAGAACTTGTTC
* * ** * * *
25675 CTTTCAAGTCC-CACACAGAAGGAGGTGGATTAATATTTTCAAAGGAGAGTTCATAATGAGAATA
61 CTTTCAAATCCAC-CACAGAAGGAGGTGAACCAACA-TTTC-AAGAAGAGTTCATAATGAGAAGA
* * * *
25739 ACTCATCC-AATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTTAATTCC
123 ACTCATCCTAA--AAG-AG-A-AAGTTCATAATAAGAAGAACTTGTT---CC-T--TTCAAGTCC
* * *
25803 ATCACAGAAGGAGGTGGATCAATATTTTCAATGGAGAGTTCATAATAAGAAGAACTCATCCAATG
177 ACCACAGAAGGAGGTGGATCAACATTTTCAATGAAGAGTTCATAATAAGAAGAACTCATCCAATG
* * **
25868 CGGATGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCACAGAAGGAG
242 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTAAATTCCATCACAGAAGGAG
25933 GTGGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAATG
307 GTGGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAATG
25985 AGGAAGAAGA
Statistics
Matches: 324, Mismatches: 32, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
361 24 0.07
363 1 0.00
364 1 0.00
365 4 0.01
366 57 0.18
367 6 0.02
368 26 0.08
369 2 0.01
370 2 0.01
371 1 0.00
372 24 0.07
375 2 0.01
376 1 0.00
378 173 0.53
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (361 bp):
AGTTCATAATGAGAAGAACTCATCCTAAAAGAGAAAATTCATAATGAGAAGAACTTGTTCCTTTC
AAATCCACCACAGAAGGAGGTGAACCAACATTTCAAGAAGAGTTCATAATGAGAAGAACTCATCC
TAAAAGAGAAAGTTCATAATAAGAAGAACTTGTTCCTTTCAAGTCCACCACAGAAGGAGGTGGAT
CAACATTTTCAATGAAGAGTTCATAATAAGAAGAACTCATCCAATGAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTGGTTAAATTCCATCACAGAAGGAGGTGGATCAACATTTTCAAT
GGAGAGTTCATAATGAGAAGAACTCATCCAATGGAG
Found at i:26020 original size:20 final size:20
Alignment explanation
Indices: 25958--26020 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
25948 CAATGGAGAG
*
25958 TTCATAATGAGAAGAACTCA
1 TTCATAATGAGAAGAACTAA
* *
25978 -TC-CAATGAGGAAGAA-GAA
1 TTCATAATGA-GAAGAACTAA
*
25996 GTTCATAATGAGAAGAACTTA
1 -TTCATAATGAGAAGAACTAA
26017 TTCA
1 TTCA
26021 ACCTTGGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
18 6 0.19
19 8 0.25
20 12 0.38
21 6 0.19
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.24
Consensus pattern (20 bp):
TTCATAATGAGAAGAACTAA
Found at i:26364 original size:3 final size:3
Alignment explanation
Indices: 26352--26401 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
26342 GGCTTAAATA
* * *
26352 TAT T-T TAT TAT TAT TAT TAT TAT CAT TAT TAT TACT AAT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
26397 TAT TA
1 TAT TA
26402 ATTTACATGC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:29957 original size:16 final size:17
Alignment explanation
Indices: 29938--29969 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29928 AAGATGGAAT
29938 AATATTC-AAAAATAAA
1 AATATTCTAAAAATAAA
29954 AATATTCTAAAAATAA
1 AATATTCTAAAAATAA
29970 TTCAAAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (17 bp):
AATATTCTAAAAATAAA
Found at i:36380 original size:18 final size:18
Alignment explanation
Indices: 36359--36394 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
36349 TGAGATTCGA
36359 TTTAAATTTAAAATTTAT
1 TTTAAATTTAAAATTTAT
*
36377 TTTAAATTTTAAATTTAT
1 TTTAAATTTAAAATTTAT
36395 ACCTAAGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAAATTTAAAATTTAT
Found at i:37902 original size:2 final size:2
Alignment explanation
Indices: 37895--37942 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
37885 AAATCAAGAT
37895 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
37937 TA TA TA
1 TA TA TA
37943 ATTGATGATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:38058 original size:2 final size:2
Alignment explanation
Indices: 38051--38078 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
38041 TTAATATTAA
38051 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
38079 TTGAAAAATA
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):
AT
Found at i:38795 original size:45 final size:45
Alignment explanation
Indices: 38734--38846 Score: 154
Period size: 45 Copynumber: 2.5 Consensus size: 45
38724 GAGCGGTAGA
*
38734 AAAAATAACATTTTAGGTAGCGCCCAAAATTAACATTTCCAATAG
1 AAAAATAATATTTTAGGTAGCGCCCAAAATTAACATTTCCAATAG
* * * **
38779 AAAAATAATATTTTAGGTAGAGCCCAATATTAACATTTTCGGTAG
1 AAAAATAATATTTTAGGTAGCGCCCAAAATTAACATTTCCAATAG
* *
38824 AAAAATACTTTTTTAGGTAGCGC
1 AAAAATAATATTTTAGGTAGCGC
38847 TTTACCAAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (45 bp):
AAAAATAATATTTTAGGTAGCGCCCAAAATTAACATTTCCAATAG
Found at i:39151 original size:45 final size:46
Alignment explanation
Indices: 39072--39183 Score: 138
Period size: 45 Copynumber: 2.5 Consensus size: 46
39062 TGGTAAAGCG
39072 CTACCTAAAACATTATTTTTTCTATCAGAAATATTAATATTGAACA
1 CTACCTAAAACATTATTTTTTCTATCAGAAATATTAATATTGAACA
* * * **
39118 CTACTTAAAACATTA-TTTTTCTA-CTGAAAATATTAATATTGGATG
1 CTACCTAAAACATTATTTTTTCTATCAG-AAATATTAATATTGAACA
**
39163 CTACCTAAATTATTATTTTTT
1 CTACCTAAAACATTATTTTTT
39184 ACAAATTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
44 2 0.04
45 35 0.62
46 19 0.34
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (46 bp):
CTACCTAAAACATTATTTTTTCTATCAGAAATATTAATATTGAACA
Found at i:39325 original size:61 final size:60
Alignment explanation
Indices: 39226--39373 Score: 235
Period size: 61 Copynumber: 2.5 Consensus size: 60
39216 TATAGAAAAA
*
39226 TAAT-ATTTTGTTGAGGCAGGTTGGATATTGTGTCTTCTCTGTTACTGTTCTTTTTTCCTG
1 TAATGATTTTGTTGAGGCAGGTTGGATATTGTGTCTTCTCTGTTACTGTTC-TTTTCCCTG
* *
39286 TAATGATTTTGTTGAGGCAGGTTGGATATTGTGTCTTCTCTGTTATTTTTCTTTTCCCTG
1 TAATGATTTTGTTGAGGCAGGTTGGATATTGTGTCTTCTCTGTTACTGTTCTTTTCCCTG
* *
39346 TAATGATTTAGTTGAGGCAGGTTAGATA
1 TAATGATTTTGTTGAGGCAGGTTGGATA
39374 CTGTCTTCGT
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
60 38 0.46
61 44 0.54
ACGTcount: A:0.17, C:0.11, G:0.23, T:0.49
Consensus pattern (60 bp):
TAATGATTTTGTTGAGGCAGGTTGGATATTGTGTCTTCTCTGTTACTGTTCTTTTCCCTG
Found at i:46682 original size:23 final size:24
Alignment explanation
Indices: 46628--46683 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
46618 AAAATAATTT
46628 TGTCTTTGTAGCACGTTTTTCCTC
1 TGTCTTTGTAGCACGTTTTTCCTC
46652 TG-CGTTTG-AGACACGTTTTT-CTC
1 TGTC-TTTGTAG-CACGTTTTTCCTC
46675 TGTCTTTGT
1 TGTCTTTGT
46684 GGTACGCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
23 12 0.43
24 16 0.57
ACGTcount: A:0.09, C:0.21, G:0.20, T:0.50
Consensus pattern (24 bp):
TGTCTTTGTAGCACGTTTTTCCTC
Found at i:47495 original size:21 final size:22
Alignment explanation
Indices: 47446--47495 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
47436 ATATAGATTT
47446 AAGGAGTATAGATACTCAAACG
1 AAGGAGTATAGATACTCAAACG
* *
47468 AA-TAGTATGGATACTCAAAC-
1 AAGGAGTATAGATACTCAAACG
47488 AAGGAGTA
1 AAGGAGTA
47496 CATGCATTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.08
21 20 0.83
22 2 0.08
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.20
Consensus pattern (22 bp):
AAGGAGTATAGATACTCAAACG
Found at i:48888 original size:4 final size:4
Alignment explanation
Indices: 48879--48905 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
48869 GCATCCTAGC
48879 AACT AACT AACT AACT AACT AACT AAC
1 AACT AACT AACT AACT AACT AACT AAC
48906 AAGTAGTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (4 bp):
AACT
Found at i:51952 original size:20 final size:20
Alignment explanation
Indices: 51914--51953 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
51904 GTCTAAGGTC
**
51914 TCATGTGCCTCCAACATAAA
1 TCATGTGCCTAAAACATAAA
*
51934 TCATGTGCCTAAAATATAAA
1 TCATGTGCCTAAAACATAAA
51954 ACTCCTTTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.28
Consensus pattern (20 bp):
TCATGTGCCTAAAACATAAA
Found at i:55733 original size:21 final size:21
Alignment explanation
Indices: 55709--55751 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
55699 AAATCTATTC
* *
55709 GATCTTCCCCCAATTTCTTCT
1 GATCCTCCCCCAAATTCTTCT
55730 GATCCTCCCCCAAATTCTTCT
1 GATCCTCCCCCAAATTCTTCT
55751 G
1 G
55752 TTACAACCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.40, G:0.07, T:0.37
Consensus pattern (21 bp):
GATCCTCCCCCAAATTCTTCT
Found at i:56311 original size:37 final size:36
Alignment explanation
Indices: 56254--56362 Score: 182
Period size: 37 Copynumber: 3.0 Consensus size: 36
56244 ATTTCTAAAA
*
56254 CTAGTGGAAAAACCTAATTTGAGCATATTTCCAATG
1 CTAGTGGAAAAACCTAATTTGAGCATTTTTCCAATG
56290 CTAGTGGAAAAAACCTAATTTGAGCATTTTTCCAATG
1 CTAGTGG-AAAAACCTAATTTGAGCATTTTTCCAATG
*
56327 CTAGTGGAAATACCTAATTTGAGCATTTTTTCCAAT
1 CTAGTGGAAAAACCTAATTTGAGCA-TTTTTCCAAT
56363 ATTCAAGTGA
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
36 24 0.35
37 45 0.65
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (36 bp):
CTAGTGGAAAAACCTAATTTGAGCATTTTTCCAATG
Found at i:56954 original size:31 final size:31
Alignment explanation
Indices: 56919--56981 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
56909 AATTCGGTGA
56919 ATTCAATATGTCCTTCTCACTAGGAACTCCC
1 ATTCAATATGTCCTTCTCACTAGGAACTCCC
56950 ATTCAATATGTCCTTCTCACTAGGAACTCCC
1 ATTCAATATGTCCTTCTCACTAGGAACTCCC
56981 A
1 A
56982 AACTCTTGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.32
Consensus pattern (31 bp):
ATTCAATATGTCCTTCTCACTAGGAACTCCC
Found at i:61708 original size:36 final size:36
Alignment explanation
Indices: 61658--61770 Score: 163
Period size: 36 Copynumber: 3.1 Consensus size: 36
61648 CAAAATCATC
*
61658 ATTTCCAATACTAGTGGAAAAACCTAATTTGAGCAT
1 ATTTCCAATGCTAGTGGAAAAACCTAATTTGAGCAT
61694 ATTTCCAATGCTAGTGGAAAAACCTAATTTGAGCAT
1 ATTTCCAATGCTAGTGGAAAAACCTAATTTGAGCAT
* * * * *
61730 TTTTCCAACGCTAGTAGAAACACCTAATTTAAGCAT
1 ATTTCCAATGCTAGTGGAAAAACCTAATTTGAGCAT
*
61766 TTTTC
1 ATTTC
61771 TAATATTCAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 71 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (36 bp):
ATTTCCAATGCTAGTGGAAAAACCTAATTTGAGCAT
Found at i:63718 original size:22 final size:22
Alignment explanation
Indices: 63690--63765 Score: 134
Period size: 22 Copynumber: 3.5 Consensus size: 22
63680 ACACATGTAT
63690 TAATTTATTAGTAAATTAAAGG
1 TAATTTATTAGTAAATTAAAGG
*
63712 TAATTTATTAGTAAATTAAACG
1 TAATTTATTAGTAAATTAAAGG
63734 TAATTTATTAGTAAATTAAAGG
1 TAATTTATTAGTAAATTAAAGG
*
63756 AAATTTATTA
1 TAATTTATTA
63766 TTATTATATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.46, C:0.01, G:0.11, T:0.42
Consensus pattern (22 bp):
TAATTTATTAGTAAATTAAAGG
Found at i:64816 original size:19 final size:19
Alignment explanation
Indices: 64767--64819 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
64757 GAGATAAATT
64767 AAATAAAATAA-ATTTATCAA
1 AAATAAAA-AATA-TTATCAA
* *
64787 AACTAATAAAATATTATTAA
1 AAATAA-AAAATATTATCAA
64807 AAATAAAAAATAT
1 AAATAAAAAATAT
64820 CAAACATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 7 0.25
20 18 0.64
21 3 0.11
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATAAAAAATATTATCAA
Found at i:65774 original size:30 final size:30
Alignment explanation
Indices: 65738--65804 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
65728 AGTGAACCGG
* **
65738 CGGTTCAAATCGGTTTTGTCGGTTTTCAGC
1 CGGTTCAAACCGGTTTTACCGGTTTTCAGC
** *
65768 CGGTTCATCCCGGTTTTACCGGTTTTCATC
1 CGGTTCAAACCGGTTTTACCGGTTTTCAGC
65798 CGGTTCA
1 CGGTTCA
65805 TTGTCAGATC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.39
Consensus pattern (30 bp):
CGGTTCAAACCGGTTTTACCGGTTTTCAGC
Found at i:65805 original size:30 final size:30
Alignment explanation
Indices: 65748--65805 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
65738 CGGTTCAAAT
**
65748 CGGTTTTGTCGGTTTTCAGCCGGTTCATCC
1 CGGTTTTACCGGTTTTCAGCCGGTTCATCC
*
65778 CGGTTTTACCGGTTTTCATCCGGTTCAT
1 CGGTTTTACCGGTTTTCAGCCGGTTCAT
65806 TGTCAGATCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.41
Consensus pattern (30 bp):
CGGTTTTACCGGTTTTCAGCCGGTTCATCC
Found at i:71206 original size:29 final size:28
Alignment explanation
Indices: 71164--71265 Score: 132
Period size: 29 Copynumber: 3.5 Consensus size: 28
71154 AAATCACCAT
* * *
71164 TTCCCTCTTTATTTACCTTTTAGGCACCC
1 TTCCATCTTTATTT-CCTGTCAGGCACCC
71193 TTCCATCTTTATTTCCCTGTCAGGCACCC
1 TTCCATCTTTATTT-CCTGTCAGGCACCC
*
71222 TTCCATCTTTATTTCTCTGTCAGTCACCC
1 TTCCATCTTTATTTC-CTGTCAGGCACCC
*
71251 TTCTATCTTTATTTC
1 TTCCATCTTTATTTC
71266 TCGATCTAAC
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 1 0.02
29 65 0.98
ACGTcount: A:0.14, C:0.33, G:0.07, T:0.46
Consensus pattern (28 bp):
TTCCATCTTTATTTCCTGTCAGGCACCC
Found at i:71266 original size:29 final size:29
Alignment explanation
Indices: 71185--71267 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
71175 TTTACCTTTT
*
71185 AGGCACCCTTCCATCTTTATTTCCCTGTC
1 AGGCACCCTTCCATCTTTATTTCTCTGTC
71214 AGGCACCCTTCCATCTTTATTTCTCTGTC
1 AGGCACCCTTCCATCTTTATTTCTCTGTC
* *
71243 AGTCACCCTTCTATCTTTATTTCTC
1 AGGCACCCTTCCATCTTTATTTCTC
71268 GATCTAACAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.14, C:0.35, G:0.08, T:0.42
Consensus pattern (29 bp):
AGGCACCCTTCCATCTTTATTTCTCTGTC
Found at i:71672 original size:12 final size:11
Alignment explanation
Indices: 71657--71721 Score: 50
Period size: 12 Copynumber: 6.1 Consensus size: 11
71647 AGGTATATTT
71657 TATTATATTTAA
1 TATT-TATTTAA
* *
71669 TATTTTTTTAG
1 TATTTATTTAA
71680 TATTTTATTT-A
1 TA-TTTATTTAA
71691 -A-TTATTTAA
1 TATTTATTTAA
71700 T-TTT-TTTAA
1 TATTTATTTAA
71709 TATTTTATTTAA
1 TA-TTTATTTAA
71721 T
1 T
71722 TAATTTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
8 6 0.14
9 7 0.17
10 3 0.07
11 10 0.24
12 16 0.38
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (11 bp):
TATTTATTTAA
Found at i:71673 original size:17 final size:18
Alignment explanation
Indices: 71651--71684 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
71641 TCTTTAAGGT
71651 ATATTTTATTA-TATTTA
1 ATATTTTATTAGTATTTA
*
71668 ATATTTTTTTAGTATTT
1 ATATTTTATTAGTATTT
71685 TATTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
ATATTTTATTAGTATTTA
Found at i:71683 original size:11 final size:12
Alignment explanation
Indices: 71657--71721 Score: 56
Period size: 11 Copynumber: 6.1 Consensus size: 12
71647 AGGTATATTT
*
71657 TATTATATTTAA
1 TATTTTATTTAA
*
71669 TATTTT-TTTAG
1 TATTTTATTTAA
71680 TATTTTATTT-A
1 TATTTTATTTAA
71691 -A--TTATTT-A
1 TATTTTATTTAA
71699 -ATTTT-TTTAA
1 TATTTTATTTAA
71709 TATTTTATTTAA
1 TATTTTATTTAA
71721 T
1 T
71722 TAATTTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
8 8 0.18
9 3 0.07
10 4 0.09
11 15 0.34
12 14 0.32
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (12 bp):
TATTTTATTTAA
Found at i:71709 original size:17 final size:17
Alignment explanation
Indices: 71681--71718 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
71671 TTTTTTTAGT
71681 ATTTTATTTAATTATTTA
1 ATTTTATTTAA-TATTTA
*
71699 ATTTT-TTTAATATTTT
1 ATTTTATTTAATATTTA
71715 ATTT
1 ATTT
71719 AATTAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 5 0.26
18 5 0.26
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTATTTAATATTTA
Found at i:74023 original size:12 final size:12
Alignment explanation
Indices: 74008--74033 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
73998 TTTGTTGGAC
74008 TTTTTGTTAATT
1 TTTTTGTTAATT
74020 TTTTTGTTAATT
1 TTTTTGTTAATT
74032 TT
1 TT
74034 GTTTATTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTTTGTTAATT
Found at i:79795 original size:22 final size:23
Alignment explanation
Indices: 79767--79814 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
79757 TGAGGGTTTT
* *
79767 ATAGGTCCTTCGGGACATA-TTC
1 ATAGGTCCTTAGGGACAAATTTC
79789 ATAGGTCCTTAGGGACAAATTTC
1 ATAGGTCCTTAGGGACAAATTTC
79812 ATA
1 ATA
79815 TGTCGCTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (23 bp):
ATAGGTCCTTAGGGACAAATTTC
Found at i:86710 original size:22 final size:23
Alignment explanation
Indices: 86668--86719 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
86658 GAGTCGAGGG
*
86668 TTTCATAGGTCCTTCAAGACATA
1 TTTCATAGGTCCTTCAAGACAAA
*
86691 -TTCATAGGTCCTT-AGGGACAAA
1 TTTCATAGGTCCTTCA-AGACAAA
86713 TTTCATA
1 TTTCATA
86720 TGCCACTCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 18 0.72
23 6 0.24
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (23 bp):
TTTCATAGGTCCTTCAAGACAAA
Found at i:91667 original size:21 final size:21
Alignment explanation
Indices: 91643--91702 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
91633 AAGAATGAAT
91643 AATATCGATACTTTTAAATAC
1 AATATCGATACTTTTAAATAC
91664 AATATCGATACTTTTAAATAC
1 AATATCGATACTTTTAAATAC
*
91685 AATATCGATACTTCTAAA
1 AATATCGATACTTTTAAA
91703 CTAAGGTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.37
Consensus pattern (21 bp):
AATATCGATACTTTTAAATAC
Found at i:94072 original size:17 final size:18
Alignment explanation
Indices: 94050--94085 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
94040 CAAGATTAAT
94050 ACAATTAAAATAC-ATTA
1 ACAATTAAAATACAATTA
94067 ACAATTAAAATACAATTA
1 ACAATTAAAATACAATTA
94085 A
1 A
94086 AATGTCAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (18 bp):
ACAATTAAAATACAATTA
Found at i:94529 original size:23 final size:23
Alignment explanation
Indices: 94511--94557 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
94501 TTTATGGCAT
*
94511 ATTTTCATATGCTTATATGATAC
1 ATTTTCATATGCTTATATGACAC
*
94534 ATTTTCATATGCTTTTATGACAC
1 ATTTTCATATGCTTATATGACAC
94557 A
1 A
94558 CTATTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.47
Consensus pattern (23 bp):
ATTTTCATATGCTTATATGACAC
Found at i:94793 original size:18 final size:18
Alignment explanation
Indices: 94770--94828 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
94760 TTGGTCTTTA
94770 GTAGTTTGATCTACTGTT
1 GTAGTTTGATCTACTGTT
94788 GTAGTTTGGA---A-T-TT
1 GTAGTTT-GATCTACTGTT
*
94802 AGTACTTTGATCTACTGTT
1 -GTAGTTTGATCTACTGTT
94821 GTAGTTTG
1 GTAGTTTG
94829 TTTTACTGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
14 4 0.12
15 7 0.22
16 1 0.03
17 1 0.03
18 15 0.47
19 4 0.12
ACGTcount: A:0.19, C:0.08, G:0.24, T:0.49
Consensus pattern (18 bp):
GTAGTTTGATCTACTGTT
Found at i:94804 original size:33 final size:33
Alignment explanation
Indices: 94766--94828 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
94756 GTTGTTGGTC
*
94766 TTTAGTAGTTTGATCTACTGTTGTAGTTTGGAA
1 TTTAGTACTTTGATCTACTGTTGTAGTTTGGAA
94799 TTTAGTACTTTGATCTACTGTTGTAGTTTG
1 TTTAGTACTTTGATCTACTGTTGTAGTTTG
94829 TTTTACTGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.19, C:0.08, G:0.22, T:0.51
Consensus pattern (33 bp):
TTTAGTACTTTGATCTACTGTTGTAGTTTGGAA
Found at i:100325 original size:17 final size:15
Alignment explanation
Indices: 100285--100327 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
100275 AATGCAACAT
*
100285 TTTTTTCATTCTTTTC
1 TTTTTTC-TTCTCTTC
100301 TTTTTTCTTCTCTTC
1 TTTTTTCTTCTCTTC
100316 TTCTTGTTCTTC
1 TT-TT-TTCTTC
100328 CTCATTTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 9 0.38
16 9 0.38
17 6 0.25
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTTTTCTTCTCTTC
Found at i:104552 original size:20 final size:19
Alignment explanation
Indices: 104529--104575 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
104519 CGATATACTA
104529 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
104549 GGTAAGAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
104569 GGTAAAA
1 GGTAAAA
104576 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.09, G:0.19, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:104609 original size:182 final size:180
Alignment explanation
Indices: 104317--104788 Score: 662
Period size: 180 Copynumber: 2.6 Consensus size: 180
104307 GATCCAAATT
* * * *
104317 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCAGTATTG-AAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-TGAAAATGAT
* * * * * *
104381 AAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGAAACTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGAATCGAAACTT
*
104446 CGTGAATTTAAAAGAGAAGCGGTTTTAA-GTCCTATAAAGTGTCGATACTTCTA
129 CGTGAATTTAAAAGAGAAGCAGTTTTAATG-CCTATAAAGTGTCGATACTT-TA
*
104499 AAAAATGTATCGATCCAAAACGATAT-ACTAGGTAAAAATATGATAAAACCGGTAAGAAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAAC-AGGTAAAAATATGATAAAACCGGTATGAAAATGAT
* * *
104563 AAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTTATATAAGAATCGACACTTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTATATAAGAATCGAAACTTC
* *
104628 GTGAATTTAAAAGAGAATCAGTTTTAATGCCTATAATGTGTCGATACTTTA
130 GTGAATTTAAAAGAGAAGCAGTTTTAATGCCTATAAAGTGTCGATACTTTA
* * * * * *
104679 AAAAATATATCGATCCACAACGATATAACAGGCAAAAATATGATAAAACAGGTATCAAAAAGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATGAAAATGATA
*
104744 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
104789 CGTAAGTACG
Statistics
Matches: 261, Mismatches: 25, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
180 100 0.38
181 65 0.25
182 96 0.37
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (180 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATGAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTATATAAGAATCGAAACTTCG
TGAATTTAAAAGAGAAGCAGTTTTAATGCCTATAAAGTGTCGATACTTTA
Found at i:107004 original size:21 final size:21
Alignment explanation
Indices: 106978--107042 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
106968 AAGACAATCA
*
106978 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
106999 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
107020 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
107041 AG
1 AG
107043 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:107118 original size:33 final size:33
Alignment explanation
Indices: 107076--107141 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
107066 AAATAGATGG
*
107076 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
107109 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
107142 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:108967 original size:18 final size:19
Alignment explanation
Indices: 108927--108968 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
108917 AATGTAGGGT
*
108927 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATATA
*
108946 TAATTTTGTATATGA-ATA
1 TAATTTTGTATAAGATATA
108964 TAATT
1 TAATT
108969 ATGAATGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (19 bp):
TAATTTTGTATAAGATATA
Found at i:109765 original size:200 final size:200
Alignment explanation
Indices: 109490--110386 Score: 1589
Period size: 200 Copynumber: 4.5 Consensus size: 200
109480 GTGCAACCAT
109490 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
*
109555 CCGGTACAAGTTTACCGGTTTTATGAGAGAATATGTCTAAATAATTTGTCGACACTTTTTTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATTTGTCGACACTTTTTTAGTT
* * *
109620 TGTGTCGAAATGTTTGGTCCAAAATGAATGGAAAACATGGTGCAACCATAAAGTGTCGATCCATA
131 TGTGTCGAAATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
109685 TATAA
196 TATAA
* *
109690 AAAATGTCGATCCCAAAAACATCAAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
* *
109755 CCGATACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATATGTCGACACTTTTTTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATTTGTCGACACTTTTTTAGTT
* *
109820 TGTGTC-AATATTGTTGGTCCAGAATGAATGGAAAATAGGGTGCAACCATAAAGTGTCGATCCAT
131 TGTGTCGAA-ATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCAT
109884 ATATAA
195 ATATAA
109890 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
* * *
109955 CTGGTACAAGTTTACCGGTTTTATGAGAGAATATGTCTAAATAATTTGTTGACACTTTTTTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATTTGTCGACACTTTTTTAGTT
* * *
110020 TGTGTCGATATTTTTGGTCCAGAATGAATTGAAAACATGGTGCAACCATAAAGTGTCGATCCATA
131 TGTGTCGAAATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
110085 TATAA
196 TATAA
110090 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
*
110155 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATTTGTCGACACTTTTTTAGTT
*
110220 TGTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
131 TGTGTCGAAATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
*
110285 TATAG
196 TATAA
* *
110290 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTACAATGTAATATGTAAATTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
110355 CCGGTACAAGTATACCGGTTTTATGAGAGAAT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAAT
110387 TGGTATATAA
Statistics
Matches: 664, Mismatches: 31, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
199 2 0.00
200 661 1.00
201 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (200 bp):
AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATTTGTCGACACTTTTTTAGTT
TGTGTCGAAATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
TATAA
Found at i:111920 original size:6 final size:6
Alignment explanation
Indices: 111894--111993 Score: 76
Period size: 6 Copynumber: 16.7 Consensus size: 6
111884 CAAGCGGTCA
* * * *
111894 ATGAAG ATGAA- ACTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG A-TGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * * * *
111942 CTGACG ATGAAG ATGATG ACGATG ATGATG ATGATG ATGAAG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
111990 ATGA
1 ATGA
111994 TGATCCAAAC
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
5 1 0.01
6 75 0.97
7 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.32, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:111926 original size:24 final size:23
Alignment explanation
Indices: 111894--111993 Score: 82
Period size: 21 Copynumber: 4.4 Consensus size: 23
111884 CAAGCGGTCA
*
111894 ATGAAGATGAAACTGACGATGAAG
1 ATGACGATGAAA-TGACGATGAAG
*
111918 ATGACGATGATGATGACGATGAAG
1 ATGACGATGA-AATGACGATGAAG
* * *
111942 CTGACGATG-AA-GATGATGACG
1 ATGACGATGAAATGACGATGAAG
* *
111963 ATGATGATG--ATGATGATGAAG
1 ATGACGATGAAATGACGATGAAG
*
111984 ATGATGATGA
1 ATGACGATGA
111994 TGATCCAAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.52
22 1 0.02
24 28 0.44
25 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.32, T:0.22
Consensus pattern (23 bp):
ATGACGATGAAATGACGATGAAG
Found at i:111931 original size:3 final size:3
Alignment explanation
Indices: 111911--111997 Score: 93
Period size: 3 Copynumber: 29.0 Consensus size: 3
111901 TGAAACTGAC
* * * * * * *
111911 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
111959 GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
111998 CCAAACAAGT
Statistics
Matches: 66, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:113526 original size:183 final size:183
Alignment explanation
Indices: 113201--114505 Score: 2294
Period size: 183 Copynumber: 7.1 Consensus size: 183
113191 CAAAGTTTTC
* * *
113201 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATT-
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTG
* * * *
113265 TAAAAAAATGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTA
65 TCAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTA
* *
113328 ATATAACTGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
127 ATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
113385 ACACTTTTAAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
*
113450 CAAAAAGTGTCGACATTTACTCATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
113515 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
113568 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
113633 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
113698 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
113751 ACACTTTTTAATATTGTGTCGAAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
113816 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
113881 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
113934 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
*
113999 CAAAAAGTGTCGACATTTACACATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
114064 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
114117 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
*
114182 CAAAAAGTGTCGACATTTACACATCGGAACCAAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
114247 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTATAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* * *
114300 ACACTTTCTAATATTGTGTCGGTACTTTATGTCTAGATTGGAAGAAAAATGTGTCGATACCATT-
1 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTG
* * * * * *
114364 TAAAAAAGTGTCAACATGTACACATCGGAACCCAGATTTGTAATGTAATATATAATTTTGTAATA
65 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
114429 TAACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTTACAACCTATATCG
130 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTC-TACAACCTATATCG
*
114484 ACACGTTTTAATATTGTGTCGG
1 ACACTTTTTAATATTGTGTCGG
114506 TAATTTTAAG
Statistics
Matches: 1083, Mismatches: 33, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
183 977 0.90
184 103 0.10
186 3 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:117034 original size:25 final size:25
Alignment explanation
Indices: 116970--117034 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
116960 TTATCATTAA
*
116970 ATTTAGGTATGCACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
116995 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
117020 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
117035 TCTTTTGAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:117412 original size:23 final size:23
Alignment explanation
Indices: 117381--117444 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
117371 ATAGGTAAAA
*
117381 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
117404 ATATAATGTAATAAGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
117427 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
117445 TTGTAAAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:117892 original size:23 final size:23
Alignment explanation
Indices: 117861--117924 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
117851 ATAGGTAAAA
*
117861 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
117884 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
117907 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
117925 TTGTAAAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:118060 original size:481 final size:481
Alignment explanation
Indices: 117034--118327 Score: 2466
Period size: 481 Copynumber: 2.7 Consensus size: 481
117024 AGGTATATAC
* *
117034 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATTATTTATTTTTTAA
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
117099 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
117164 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
117229 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAA
*
117294 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGAC
260 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
117359 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTATCG
325 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTATCG
*
117424 TTTATATAATGTAATAGGTAGTTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATACTTTTTT
390 TTTATATAATGTAATAGGTAGTTGTAAAGTATATATCCTTTTTATAAAAATGTCCATACTTTTTT
117489 CACTGTGGAAAACATTAATTTAAGGTT
455 CACTGTGGAAAACATTAATTTAAGGTT
117516 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
117580 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
117645 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
117710 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
* *
117775 AAATTAAAACATAAATTATATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACA
261 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACA
117840 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAAT-AGATATCG
326 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAG-TATCG
*
117904 TTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAAAATGTCCATACTTTTTT
390 TTTATATAATGTAATAGGTAGTTGTAAAGTATATATCCTTTTTATAAAAATGTCCATACTTTTTT
117969 CACTGTGGAAAACATTAATTTAAGGTT
455 CACTGTGGAAAACATTAATTTAAGGTT
* *
117996 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATTTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
118061 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
118126 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
118191 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
118256 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACA
261 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACA
118321 CTTTCAA
326 CTTTCAA
118328 CATATTATAA
Statistics
Matches: 798, Mismatches: 12, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
479 2 0.00
480 272 0.34
481 468 0.59
482 56 0.07
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (481 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACA
CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTATCGT
TTATATAATGTAATAGGTAGTTGTAAAGTATATATCCTTTTTATAAAAATGTCCATACTTTTTTC
ACTGTGGAAAACATTAATTTAAGGTT
Found at i:119110 original size:22 final size:21
Alignment explanation
Indices: 119045--119107 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
119035 TGCATTCATA
* *
119045 AAAGGAATTTGTGAGTTTTTT
1 AAAGGAAATTGTGATTTTTTT
119066 AAAGGAAATTGTGATTTTTTT
1 AAAGGAAATTGTGATTTTTTT
*
119087 AAAGTAAATTGTGATTTTTTT
1 AAAGGAAATTGTGATTTTTTT
119108 TAATTTTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (21 bp):
AAAGGAAATTGTGATTTTTTT
Found at i:119537 original size:72 final size:72
Alignment explanation
Indices: 119416--119568 Score: 252
Period size: 72 Copynumber: 2.1 Consensus size: 72
119406 GATTTATACA
* * *
119416 TTTCATTTTTTTATAACGAACTACGTGTTTTTTTCTCGGTGAAATATTAGAACGTGCATGTTTTT
1 TTTC-TTTTTTTATAACGAACTACGTGCTTTTTTCTCGGTGAAAAATTAGAACGTACATGTTTTT
119481 CCCCCTCT
65 CCCCCTCT
* *
119489 TTTTTTTTTTTATAACGAACTACGTGCTTTTTTCTCGGTGAAAAATTAGAACGTACATGTTTTTT
1 TTTCTTTTTTTATAACGAACTACGTGCTTTTTTCTCGGTGAAAAATTAGAACGTACATGTTTTTC
119554 CCCCTCT
66 CCCCTCT
119561 TTTCTTTT
1 TTTCTTTT
119569 GCTAAACATG
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
72 71 0.96
73 3 0.04
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.49
Consensus pattern (72 bp):
TTTCTTTTTTTATAACGAACTACGTGCTTTTTTCTCGGTGAAAAATTAGAACGTACATGTTTTTC
CCCCTCT
Found at i:125141 original size:36 final size:36
Alignment explanation
Indices: 125054--125164 Score: 143
Period size: 36 Copynumber: 3.1 Consensus size: 36
125044 TTGAATATTA
* * * * *
125054 GAAAAATGCTTAAATTAGATATTTCTACTAGCGTT-
1 GAAAAATGCTCAAATTAGGTTTTTCCACTAGCATTG
125089 GAAAAATGCTCAAATTAGGTTTTTCCACTAGCATTG
1 GAAAAATGCTCAAATTAGGTTTTTCCACTAGCATTG
* * *
125125 GAAATATGCTCAAATTAGGTTTTTTCACTAGTATTG
1 GAAAAATGCTCAAATTAGGTTTTTCCACTAGCATTG
125161 GAAA
1 GAAA
125165 TCATGATTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
35 30 0.45
36 37 0.55
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (36 bp):
GAAAAATGCTCAAATTAGGTTTTTCCACTAGCATTG
Found at i:129851 original size:31 final size:31
Alignment explanation
Indices: 129816--129875 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
129806 AAGAGTTTGA
*
129816 GAGTTCCTAGTGAGAAGGACATATTGAATGG
1 GAGTTCCTAGTGAGAAAGACATATTGAATGG
129847 GAGTTCCTAGTGAGAAAGACATATTGAAT
1 GAGTTCCTAGTGAGAAAGACATATTGAAT
129876 TCATCGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (31 bp):
GAGTTCCTAGTGAGAAAGACATATTGAATGG
Found at i:130505 original size:36 final size:35
Alignment explanation
Indices: 130439--130548 Score: 175
Period size: 36 Copynumber: 3.1 Consensus size: 35
130429 AATATTGGAA
*
130439 AAAATGCTCAAATTAGGTATTTCCACTAGCATTGG
1 AAAATGCTCAAATTAGGTTTTTCCACTAGCATTGG
130474 AAAATGCTCAAATTAGGTTTTTTCCACTAGCATTGG
1 AAAATGCTCAAATTAGG-TTTTTCCACTAGCATTGG
* *
130510 AAATATGCTCAAATTATGTTTTTCCACTAGTATTGG
1 AAA-ATGCTCAAATTAGGTTTTTCCACTAGCATTGG
130546 AAA
1 AAA
130549 TGACGATTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
35 17 0.24
36 40 0.57
37 13 0.19
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (35 bp):
AAAATGCTCAAATTAGGTTTTTCCACTAGCATTGG
Found at i:136282 original size:21 final size:21
Alignment explanation
Indices: 136243--136282 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
136233 GTTGTAACCG
* *
136243 AAGAATTTGGGAGAGGATCAA
1 AAGAAATTGGGAGAAGATCAA
*
136264 AAGAAATTGGGGGAAGATC
1 AAGAAATTGGGAGAAGATC
136283 GAACGGATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.35, T:0.17
Consensus pattern (21 bp):
AAGAAATTGGGAGAAGATCAA
Found at i:147392 original size:13 final size:13
Alignment explanation
Indices: 147368--147403 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
147358 ACCCCAAAAA
147368 TATTGAGATTTAAT
1 TATTG-GATTTAAT
147382 TATTGGATTTAAT
1 TATTGGATTTAAT
*
147395 TATTAGATT
1 TATTGGATT
147404 ATAGTAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (13 bp):
TATTGGATTTAAT
Found at i:148281 original size:22 final size:22
Alignment explanation
Indices: 148256--148300 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
148246 CCGAGTTGAT
*
148256 TGAGTCAACTCGCTAAGTTAAC
1 TGAGTCAACTCGCCAAGTTAAC
148278 TGAGTCAACTCGCCAAGTTAAC
1 TGAGTCAACTCGCCAAGTTAAC
148300 T
1 T
148301 CAGACCAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (22 bp):
TGAGTCAACTCGCCAAGTTAAC
Found at i:164589 original size:18 final size:18
Alignment explanation
Indices: 164566--164618 Score: 97
Period size: 18 Copynumber: 2.9 Consensus size: 18
164556 ACTTAGAATT
*
164566 TGTCCCGAAGGACCACTA
1 TGTCCCGAATGACCACTA
164584 TGTCCCGAATGACCACTA
1 TGTCCCGAATGACCACTA
164602 TGTCCCGAATGACCACT
1 TGTCCCGAATGACCACT
164619 CCTTAAGAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.26, C:0.34, G:0.19, T:0.21
Consensus pattern (18 bp):
TGTCCCGAATGACCACTA
Found at i:170758 original size:20 final size:20
Alignment explanation
Indices: 170721--170759 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
170711 CTCTAAATCA
* * *
170721 TTTTTCAAACTTTCATTTTG
1 TTTTTCAAAATCTAATTTTG
170741 TTTTTCAAAATCTAATTTT
1 TTTTTCAAAATCTAATTTT
170760 ACTTTCAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTTCAAAATCTAATTTTG
Found at i:172010 original size:21 final size:22
Alignment explanation
Indices: 171984--172024 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
171974 CCAAAATAAG
* *
171984 GAGTATTGGTACTT-CTTTAAT
1 GAGTATCGATACTTCCTTTAAT
172005 GAGTATCGATACTTCCTTTA
1 GAGTATCGATACTTCCTTTA
172025 TAATTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (22 bp):
GAGTATCGATACTTCCTTTAAT
Found at i:178300 original size:6 final size:6
Alignment explanation
Indices: 178282--178330 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
178272 ATAAGTATTT
* * * *
178282 CCACGA GCCTCGA CCTCGA CCACGA CCACGA CCACAA CCATGA CCACGA
1 CCACGA -CCACGA CCACGA CCACGA CCACGA CCACGA CCACGA CCACGA
178331 GTTGAGCCGA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (6 bp):
CCACGA
Found at i:185011 original size:27 final size:27
Alignment explanation
Indices: 184964--185016 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
184954 ATCAATTTTA
184964 TGAAAAATATAAATTTAAGAAGTAAAT
1 TGAAAAATATAAATTTAAGAAGTAAAT
184991 TGAACAAATATGAAA-TT-AGAAGTAAA
1 TGAA-AAATAT-AAATTTAAGAAGTAAA
185017 AATTAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 13 0.54
28 8 0.33
29 3 0.12
ACGTcount: A:0.58, C:0.02, G:0.13, T:0.26
Consensus pattern (27 bp):
TGAAAAATATAAATTTAAGAAGTAAAT
Found at i:185349 original size:2 final size:2
Alignment explanation
Indices: 185344--185967 Score: 189
Period size: 2 Copynumber: 310.5 Consensus size: 2
185334 AAATATTGAA
* * *
185344 AT AT AT AT AT AA ACT AT AT AGT TT AT AT AT AA ACT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT A-T AT AT AT AT
* * * * * *
185387 AT -T AT AT AT AT AT AA ACT AG AT AG AG AA ACT AT AT AGT TT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT A-T AT AT
* * *
185429 AT TT AT AT -T AT -T AT ACT AT AT AA ACT AT AT AT AT A- AT GT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT
* * * *
185470 AA ACT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AA ACT AT AT ACC
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T
* * * * * *
185515 AT GT AT AA ACT AT AG AGT TT AT AT AT GA- AT -T AT AT AT AA AA
1 AT AT AT AT A-T AT AT A-T AT AT AT AT -AT AT AT AT AT AT AT AT
* * *
185556 AT AT AGT -T AT -T A- AT AT AA AT -T AT AT AGT TT AT AC AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * * *
185596 -T AT AT AT AA AT -T AT AT AT GA- AT -T AT AT TT AA AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT
* * *
185635 AT CT -T AT AT TT AT AT AT -T AT GT AT A- AT -T AT AT AT ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * * * * *
185674 GT AT AA AT -T AT AT AGT TT AT AT AGT TT AA AT AT AA AGT AT AT
1 AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT A-T AT AT
* * * *
185716 A- AGT AT AT AT GT AA ACT AT AA AT -T AT AT AT AT AT AT AT AA AGT
1 AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * *
185759 -T TT AGT AT AA ACT AT AT AT A- AT AT A- AT A- AT AT AA AGT AT
1 AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
*
185798 A- AT AT AT AT A- AT AT AT AT AT AT AT AT AA AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
185837 ACT A- AA AT AT AT AGT AT AT A- AT AT AA AGT AT AT AA AT AT AT
1 A-T AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * * * *
185878 AA ACT AT AT A- AT AT A- AA AGT AT AT AT AC GT AT AA AGT AT A-
1 AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT
* *
185918 AGT AT AT AT AT AA ACT AT AA AGT AT AT AT AT AT AT AT AT AT AT
1 A-T AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT
185961 AT AT AT A
1 AT AT AT A
185968 AAGTATAATT
Statistics
Matches: 450, Mismatches: 103, Indels: 138
0.65 0.15 0.20
Matches are distributed among these distances:
1 33 0.07
2 378 0.84
3 39 0.09
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.42
Consensus pattern (2 bp):
AT
Found at i:185363 original size:13 final size:13
Alignment explanation
Indices: 185345--185512 Score: 53
Period size: 13 Copynumber: 12.5 Consensus size: 13
185335 AATATTGAAA
185345 TATATATATAAAC
1 TATATATATAAAC
185358 TATATAGTTTATATATAAAC
1 --TATA--T-ATATA-AA-C
*
185378 TATATATATATTA-
1 TATATATATA-AAC
185391 TATATATATAAAC
1 TATATATATAAAC
* * *
185404 TAGATAGAGAAAC
1 TATATATATAAAC
*
185417 TATATAGT-T-TA-
1 TATATA-TATAAAC
* * *
185428 TATTTATAT-TAT
1 TATATATATAAAC
185440 TATACTATATAAAC
1 TATA-TATATAAAC
**
185454 TATATATATAATG
1 TATATATATAAAC
*
185467 TATAAACTATATATA-
1 TAT--A-TATATAAAC
*
185482 TATATATATATA-
1 TATATATATAAAC
*
185494 TATATGTATAAAC
1 TATATATATAAAC
185507 TATATA
1 TATATA
185513 CCATGTATAA
Statistics
Matches: 118, Mismatches: 20, Indels: 32
0.69 0.12 0.19
Matches are distributed among these distances:
10 1 0.01
11 8 0.07
12 23 0.19
13 46 0.39
14 5 0.04
15 15 0.13
16 7 0.06
17 1 0.01
18 9 0.08
19 2 0.02
20 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:185397 original size:11 final size:11
Alignment explanation
Indices: 185344--185861 Score: 87
Period size: 11 Copynumber: 44.5 Consensus size: 11
185334 AAATATTGAA
185344 ATATATATA-T
1 ATATATATATT
*
185354 AAACTATATAGTTT
1 ATA-TATATA--TT
* *
185368 ATATATAAACT
1 ATATATATATT
185379 ATATATATATT
1 ATATATATATT
185390 ATATATATA-T
1 ATATATATATT
* * **
185400 AAACTAGATAGAG
1 ATA-TATATA-TT
*
185413 AAACTATATAGTTT
1 ATA-TATATA--TT
*
185427 ATATTTATATT
1 ATATATATATT
*
185438 ATTATACTATATAA
1 A-TATA-TATAT-T
*
185452 ACTATATATATA
1 A-TATATATATT
* * *
185464 ATGTATAAACT
1 ATATATATATT
185475 ATATATATA-T
1 ATATATATATT
185485 ATATATATATAT
1 ATATATATAT-T
* * *
185497 ATGTATAAACT
1 ATATATATATT
* *
185508 ATATACCATGTAT
1 ATATA-TATAT-T
* *
185521 AAACTATAGAGTT
1 ATA-TATATA-TT
185534 -TATATATGAATT
1 ATATATAT--ATT
**
185546 ATATATA-AAA
1 ATATATATATT
185556 ATATAGT-TATT
1 ATATA-TATATT
*
185567 A-ATATAAATT
1 ATATATATATT
*
185577 ATATA-GT-TT
1 ATATATATATT
*
185586 ATACATATATT
1 ATATATATATT
*
185597 ATATATAAATT
1 ATATATATATT
185608 ATATATGA-ATT
1 ATATAT-ATATT
* *
185619 ATATTTA-AAT
1 ATATATATATT
* *
185629 ATATACATCTT
1 ATATATATATT
185640 ATATTTATATATT
1 ATA--TATATATT
*
185653 ATGTATA-ATT
1 ATATATATATT
185663 ATATATACTATGT
1 ATATATA-TAT-T
185676 ATAAATTATATAGTT
1 AT--A-TATATA-TT
185691 -TATATAGT-TT
1 ATATATA-TATT
* *
185701 AAATATAAAGTAT
1 ATATATATA-T-T
185714 ATAAGTATATATGT
1 AT-A-TATATAT-T
* *
185728 AAACTATAAATT
1 ATA-TATATATT
185740 ATATATATA-T
1 ATATATATATT
* *
185750 ATATAAAGTTTT
1 ATATATA-TATT
*
185762 AGTATAAACTA-T
1 A-TATATA-TATT
*
185774 ATATAATATAATA
1 ATAT-ATAT-ATT
* *
185787 ATATAAAGTATA
1 ATATATA-TATT
*
185799 ATATATATAAT
1 ATATATATATT
185810 ATATATATATAT
1 ATATATATAT-T
* *
185822 ATAAATATATA
1 ATATATATATT
* *
185833 ATATACTAAAAT
1 ATATA-TATATT
*
185845 ATATAGTATATA
1 ATATA-TATATT
185857 ATATA
1 ATATA
185862 AAGTATATAA
Statistics
Matches: 365, Mismatches: 90, Indels: 104
0.65 0.16 0.19
Matches are distributed among these distances:
9 7 0.02
10 55 0.15
11 128 0.35
12 70 0.19
13 73 0.20
14 18 0.05
15 9 0.02
16 5 0.01
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.43
Consensus pattern (11 bp):
ATATATATATT
Found at i:185567 original size:21 final size:21
Alignment explanation
Indices: 185543--185584 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
185533 TTATATATGA
185543 ATTATATATAAA-AATATAGTT
1 ATTA-ATATAAATAATATAGTT
*
185564 ATTAATATAAATTATATAGTT
1 ATTAATATAAATAATATAGTT
185585 TATACATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (21 bp):
ATTAATATAAATAATATAGTT
Found at i:185602 original size:9 final size:9
Alignment explanation
Indices: 185563--185856 Score: 50
Period size: 9 Copynumber: 31.0 Consensus size: 9
185553 AAAATATAGT
185563 TATTAATATA
1 TATT-ATATA
*
185573 AATTATATA
1 TATTATATA
185582 GT-TTATACATA
1 -TATTAT--ATA
185593 TATTATATA
1 TATTATATA
185602 TAAATTATATA
1 T--ATTATATA
*
185613 TGAAT-TATA
1 T-ATTATATA
*
185622 T-TTAAATA
1 TATTATATA
* *
185630 TATACATCTTA
1 TAT-TAT-ATA
185641 TATT-TATA
1 TATTATATA
*
185649 TATTATGTA
1 TATTATATA
185658 TAATTATATA
1 T-ATTATATA
*
185668 TACTATGTATA
1 TA-T-TATATA
*
185679 AATTATATA
1 TATTATATA
185688 GT-TTATATA
1 -TATTATATA
*
185697 GT-TTAAATA
1 -TATTATATA
*
185706 TA-AAGTATA
1 TATTA-TATA
*
185715 TAAGTATATA
1 T-ATTATATA
* *
185725 TGTAAACTATA
1 TAT-TA-TATA
*
185736 AATTATATA
1 TATTATATA
185745 TATATATATA
1 TAT-TATATA
* *
185755 AAGTTTTAGTA
1 TA-TTATA-TA
*
185766 TA-AACTATA
1 TATTA-TATA
*
185775 TATAATATAA
1 TATTATAT-A
* *
185785 TAATATAAA
1 TATTATATA
*
185794 GTATAATATA
1 -TATTATATA
*
185804 TATAATATA
1 TATTATATA
185813 TA-TATATA
1 TATTATATA
*
185821 TA-TAAATA
1 TATTATATA
*
185829 TATAATATA
1 TATTATATA
**
185838 CTAAAATATA
1 -TATTATATA
*
185848 TAGTATATA
1 TATTATATA
185857 ATATAAAGTA
Statistics
Matches: 208, Mismatches: 46, Indels: 61
0.66 0.15 0.19
Matches are distributed among these distances:
7 1 0.00
8 26 0.12
9 85 0.41
10 59 0.28
11 37 0.18
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (9 bp):
TATTATATA
Found at i:185886 original size:80 final size:84
Alignment explanation
Indices: 185773--186224 Score: 251
Period size: 80 Copynumber: 5.4 Consensus size: 84
185763 GTATAAACTA
*
185773 TATATAATAT-AATAATATAAAGTATA-ATATATATAATAT-A-TATATATA-TATAAA-TAT-A
1 TATATAATATAAAT-ATATAAA-TATATAAATATATAATATAAGTATATATACTATAAAGTATAA
*
185831 -TA-ATATACTAAAATATATAG
64 GTATATATA-TAAAATATAAAG
185851 TATATAATATAAAGTATATAAATATATAAACTATATAATATAAAAGTATATATACGTATAAAGTA
1 TATATAATATAAA-TATATAAATATATAAA-TATATAATAT--AAGTATATATAC-TATAAAGTA
*
185916 TAAGTATATATATAAACTATAAAG
61 TAAGTATATATATAAAATATAAAG
* * * *
185940 TATATATATATATATATATATATATATAAAGTATA-ATTATAAAG-ACTA-A-AGTATATAAGTA
1 TATATA-ATATAAATATATAAATATATAAA-TATATAATAT-AAGTA-TATATACTATA-AAGTA
* *
186001 TATAATATAAAGTATATACACATATAAAG
61 TA-AGTAT--A-TATATA-AAATATAAAG
* * * *
186030 TATAT-ATATAAGT-TATAAGTAT-TAAAGTATATATTATAAAGTAT-TACACTATATAA-TATA
1 TATATAATATAAATATATAAATATATAAA-TATATAATAT-AAGTATATATACTATA-AAGTATA
* *
186090 AGTATTAAATATAAAGTATTAAAG
63 AGTA-TATATATAAAATA-TAAAG
**
186114 TATACCATATAAAGTAT-TAAAGTATAT-AA-ATATAA-AT-A-T-TA-A-A-TATAAAGTATAT
1 TATATAATATAAA-TATATAAA-TATATAAATATATAATATAAGTATATATACTATAAAG--TAT
* *
186169 AAGTATATAATATAAAGTATTAAAC
62 AAGTATAT-ATATAAAATA-TAAAG
*
186194 TATATAATATAAGTAT-TAAAGTATATAAATA
1 TATATAATATAAATATATAAA-TATATAAATA
186225 GAATTATATA
Statistics
Matches: 305, Mismatches: 29, Indels: 77
0.74 0.07 0.19
Matches are distributed among these distances:
77 2 0.01
78 18 0.06
79 27 0.09
80 48 0.16
81 2 0.01
82 1 0.00
83 4 0.01
84 28 0.09
85 20 0.07
86 28 0.09
87 38 0.12
88 22 0.07
89 43 0.14
90 24 0.08
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (84 bp):
TATATAATATAAATATATAAATATATAAATATATAATATAAGTATATATACTATAAAGTATAAGT
ATATATATAAAATATAAAG
Found at i:185952 original size:51 final size:48
Alignment explanation
Indices: 185691--186221 Score: 110
Period size: 50 Copynumber: 10.6 Consensus size: 48
185681 TTATATAGTT
* * * * *
185691 TATATAGTTTAAA-TATAAAGTATATAA-GTATATATGTAAACTATAAAT
1 TATATA-TATAAACTATAAAGTATATAATATATATATATAAAGTAT-AAG
* *
185739 TATATATATATA-TATAAAGTTTTAGTATAAACTATATATAATATAATAATATAAAG
1 TATATATATAAACTATAAAG---TA-TAT-AA-TATATAT-ATATAA-AGTAT-AAG
* *
185795 TATAATATATATAA-TATATATATATATATAAATATATAATATACTAAAATATATAG
1 TAT-ATATATA-AACTATA-A-A-GTATAT-AATATAT-ATATA-TAAAGTATA-AG
* *
185851 TATATAATATAAAGTATATAAATATATAA-ACTATATAATATAAAAGTAT-A-
1 TATAT-ATATAAACTATA-AAGTATATAATA-TATAT-ATAT-AAAGTATAAG
** *
185901 TATACGTATAAAGTAT-AAGTATAT-ATATA-A-ACTATAAAGTAT-A-
1 TATATATATAAACTATAAAGTATATAATATATATA-TATAAAGTATAAG
* *
185944 TATATATATATA-TATATA-TATATAA-AGTATA-ATTATAAAG-ACTAAAG
1 TATATATATAAACTATAAAGTATATAATA-TATATA-TATAAAGTA-T-AAG
* * *
185991 TATATAAGTATATAA-TATAAAGTATATACACATATAAAGTATATA-TATAAG
1 TATAT-A-TATA-AACTATAAAGTATATA-ATATATATA-TATAAAGTATAAG
* * * *
186042 T-TATAAGTATTAAAGTATATATTATA-AAGTAT-TACACTATATAA-TATAAG
1 TATAT-A-TA-TAAACTATAAAGTATATAA-TATATATA-TATA-AAGTATAAG
* * ** * *
186092 TATTAAATATAAAGTATTAAAGTATACCATATAAAGTAT-TAAAGTATATAAA
1 TA-TATATATAAACTA-TAAAGTATATAATATATA-TATATAAAG--TATAAG
* *
186144 TATAAATATTAAA-TATAAAGTATATAAGTATATA-ATATAAAGTATTAAAC
1 TATATATA-TAAACTATAAAGTATATAA-TATATATATATAAAGTA-T-AAG
*
186194 TATATA-ATATAAGTATTAAAGTATATAA
1 TATATATATA-AACTA-TAAAGTATATAA
186222 ATAGAATTAT
Statistics
Matches: 383, Mismatches: 39, Indels: 119
0.71 0.07 0.22
Matches are distributed among these distances:
42 9 0.02
43 23 0.06
44 13 0.03
45 1 0.00
46 4 0.01
47 24 0.06
48 11 0.03
49 37 0.10
50 71 0.19
51 54 0.14
52 26 0.07
53 22 0.06
54 11 0.03
55 11 0.03
56 39 0.10
57 18 0.05
58 7 0.02
59 1 0.00
60 1 0.00
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (48 bp):
TATATATATAAACTATAAAGTATATAATATATATATATAAAGTATAAG
Found at i:186002 original size:22 final size:22
Alignment explanation
Indices: 185839--186234 Score: 99
Period size: 22 Copynumber: 18.5 Consensus size: 22
185829 TATAATATAC
* *
185839 TAAAATATAT-AGTATATAATA
1 TAAAGTATATAAGTATATAAGA
*
185860 TAAAGTATATAAATATATAA-A
1 TAAAGTATATAAGTATATAAGA
* *
185881 CTATATAATATAAAAGTATATATACGTA
1 -TA-A-AGTATATAAGTATATA-A-G-A
*
185909 TAAAG--TATAAGTATAT-ATA
1 TAAAGTATATAAGTATATAAGA
* *
185928 TAAACTATA-AAGTATAT-ATA
1 TAAAGTATATAAGTATATAAGA
* *
185948 TATA-TATAT-A-TATAT-ATA
1 TAAAGTATATAAGTATATAAGA
*
185966 TAAAG--TATAATTATA-AAGA
1 TAAAGTATATAAGTATATAAGA
*
185985 CTAAAGTATATAAGTATATAATA
1 -TAAAGTATATAAGTATATAAGA
*
186008 TAAAGTATATACA-CATATAA-A
1 TAAAGTATATA-AGTATATAAGA
*
186029 GTATA-TATATAAGT-TATAAGTA
1 -TAAAGTATATAAGTATATAAG-A
*
186051 TTAAAGTATAT-ATTATA-AAGTA
1 -TAAAGTATATAAGTATATAAG-A
* *
186073 TTACACTATAT-A--ATATAAGTA
1 -TAAAGTATATAAGTATATAAG-A
186094 TTAAA-TATA-AAGTAT-TAAAGTA
1 -TAAAGTATATAAGTATAT-AAG-A
*
186116 TACCA-TATA-AAGTAT-TAAAGTA
1 TA-AAGTATATAAGTATAT-AAG-A
* *
186138 TATAA--ATATAAATAT-TAAATA
1 TA-AAGTATATAAGTATAT-AAGA
*
186159 TAAAGTATATAAGTATATAATA
1 TAAAGTATATAAGTATATAAGA
* *
186181 TAAAGTAT-TAAACTATATAATA
1 TAAAGTATAT-AAGTATATAAGA
186203 T-AAGTAT-TAAAGTATATAA-A
1 TAAAGTATAT-AAGTATATAAGA
*
186223 TAGAATTATATA
1 TA-AAGTATATA
186235 TATTAAATTA
Statistics
Matches: 303, Mismatches: 32, Indels: 79
0.73 0.08 0.19
Matches are distributed among these distances:
17 3 0.01
18 12 0.04
19 16 0.05
20 37 0.12
21 56 0.18
22 136 0.45
23 24 0.08
24 13 0.04
25 2 0.01
26 1 0.00
27 2 0.01
28 1 0.00
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.37
Consensus pattern (22 bp):
TAAAGTATATAAGTATATAAGA
Found at i:186060 original size:58 final size:57
Alignment explanation
Indices: 185875--186209 Score: 280
Period size: 58 Copynumber: 5.8 Consensus size: 57
185865 TATATAAATA
* * * *
185875 TATAAACTATATAATATAAAAGTATATATACGTATAAAGTATAAGTAT-ATATATAAAC
1 TATAAAGTATATAATAT-AAAGTATATACACATATAAAGTATAAGTATAAT-TATAAAG
* * * * **
185933 TATAAAGTATATATATATATA-TATATATATATATAAAGTATAATTATAAAGACTAAAG
1 TATAAAGTATATA-ATATAAAGTATATACACATATAAAGTATAAGTATAATTA-TAAAG
185991 TATATAAGTATATAATATAAAGTATATACACATATAAAGTATATA-TATAAGTTAT-AAG
1 TATA-AAGTATATAATATAAAGTATATACACATATAAAGTATA-AGTATAA-TTATAAAG
* *
186049 TATTAAAGTATATATTATAAAGTAT-TACAC-TATATAA-TATAAGTATTAAATATAAAG
1 TA-TAAAGTATATAATATAAAGTATATACACATATA-AAGTATAAGTA-TAATTATAAAG
** * * * *
186106 TATTAAAGTATACCATATAAAGTAT-TAAAGTATATAAA-TATAAATATTAAATATAAAG
1 TA-TAAAGTATATAATATAAAGTATATACA-CATATAAAGTATAAGTA-TAATTATAAAG
*
186164 TATATAAGTATATAATATAAAGTAT-TAAAC-TATATAA-TATAAGTAT
1 TATA-AAGTATATAATATAAAGTATATACACATATA-AAGTATAAGTAT
186210 TAAAGTATAT
Statistics
Matches: 236, Mismatches: 25, Indels: 34
0.80 0.08 0.12
Matches are distributed among these distances:
55 1 0.00
56 18 0.08
57 73 0.31
58 98 0.42
59 44 0.19
60 2 0.01
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (57 bp):
TATAAAGTATATAATATAAAGTATATACACATATAAAGTATAAGTATAATTATAAAG
Found at i:186128 original size:115 final size:113
Alignment explanation
Indices: 185866--186218 Score: 346
Period size: 115 Copynumber: 3.0 Consensus size: 113
185856 AATATAAAGT
* * *
185866 ATATAAA-TATATAAACTATATAATATAAAAGTATATATACGTATAAAGTATAAGTAT-ATATAT
1 ATATAAAGTAT-TAAAGTATATAATAT-AAAGTATATAAACATATAAAGTATAA-TATAAT-TAT
* * * *
185929 AAACTATAAAGTATATATATATATA-TATATATA-TATATAAAGTATAATTA-TAA
62 AAAGTATAAAGTATATAT-TATAAAGTAT-TAAACTATAT-AA-TATAAGTATTAA
* *
185982 AGACTAAAGTA-TATAAGTATATAATATAAAGTATATACACATATAAAGTATATATATAAGTTAT
1 ATA-TAAAGTATTA-AAGTATATAATATAAAGTATATAAACATATAAAGTATA-ATATAA-TTAT
*
186046 -AAGTATTAAAGTATATATTATAAAGTATTACACTATATAATATAAGTATTAA
62 AAAGTA-TAAAGTATATATTATAAAGTATTAAACTATATAATATAAGTATTAA
** * *
186098 ATATAAAGTATTAAAGTATACCATATAAAGTAT-TAAAGTATATAAA-TATAAATATTAAATATA
1 ATATAAAGTATTAAAGTATATAATATAAAGTATATAAA-CATATAAAGTAT-AATA-TAATTATA
*
186161 AAGTATATAAGTATATAATATAAAGTATTAAACTATATAATATAAGTATTAA
63 AAGTATA-AAGTATATATTATAAAGTATTAAACTATATAATATAAGTATTAA
186213 AGTATA
1 A-TATA
186219 TAAATAGAAT
Statistics
Matches: 204, Mismatches: 16, Indels: 34
0.80 0.06 0.13
Matches are distributed among these distances:
114 14 0.07
115 91 0.45
116 55 0.27
117 41 0.20
118 3 0.01
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (113 bp):
ATATAAAGTATTAAAGTATATAATATAAAGTATATAAACATATAAAGTATAATATAATTATAAAG
TATAAAGTATATATTATAAAGTATTAAACTATATAATATAAGTATTAA
Found at i:186160 original size:36 final size:40
Alignment explanation
Indices: 185923--186224 Score: 168
Period size: 36 Copynumber: 7.7 Consensus size: 40
185913 GTATAAGTAT
* * * *
185923 ATATATAAACTA-TAAAGTATATATATATATA-TA-TATAT
1 ATATATAAAGTATTAAAGTATATAAATATAAAGTATTA-AC
*
185961 ATATATAAAGTA-T-AA-T-TATAAAGACTAAAGTATATAA-
1 ATATATAAAGTATTAAAGTATATAAATA-TAAAGTAT-TAAC
* *
185998 GTATAT-AA-TA-TAAAGTATATACACATATAAAGTA-T-AT
1 ATATATAAAGTATTAAAGTATATA-A-ATATAAAGTATTAAC
*
186035 ATATAAGTTATAAGTATTAAAGTATAT-ATTATAAAGTATTACAC
1 ATAT-A--TA-AAGTATTAAAGTATATAAATATAAAGTATTA-AC
*
186079 TATATAATATAAGTATTAAA-TATA-AAGTATTAAAGTA-T-AC
1 -ATAT-ATA-AAGTATTAAAGTATATAAATA-TAAAGTATTAAC
*
186119 -CATATAAAGTATTAAAGTATATAAATATAAA-TATT-A-
1 ATATATAAAGTATTAAAGTATATAAATATAAAGTATTAAC
186155 A-ATATAAAGTA-TATAAGTATAT-AATATAAAGTATTAAAC
1 ATATATAAAGTATTA-AAGTATATAAATATAAAGTATT-AAC
186194 TATATAATATAAGTATTAAAGTATATAAATA
1 -ATAT-ATA-AAGTATTAAAGTATATAAATA
186225 GAATTATATA
Statistics
Matches: 214, Mismatches: 12, Indels: 70
0.72 0.04 0.24
Matches are distributed among these distances:
35 19 0.09
36 43 0.20
37 27 0.13
38 25 0.12
39 10 0.05
40 6 0.03
41 11 0.05
42 15 0.07
43 35 0.16
44 17 0.08
45 6 0.03
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (40 bp):
ATATATAAAGTATTAAAGTATATAAATATAAAGTATTAAC
Found at i:187021 original size:17 final size:17
Alignment explanation
Indices: 186999--187032 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
186989 AGTATTTAAC
186999 ATGCAATGCAACATGAA
1 ATGCAATGCAACATGAA
*
187016 ATGCAATTCAACATGAA
1 ATGCAATGCAACATGAA
187033 TTAATATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.21
Consensus pattern (17 bp):
ATGCAATGCAACATGAA
Found at i:187055 original size:14 final size:14
Alignment explanation
Indices: 187036--187065 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
187026 ACATGAATTA
*
187036 ATATGGAATGTCAC
1 ATATGGAATGCCAC
187050 ATATGGAATGCCAC
1 ATATGGAATGCCAC
187064 AT
1 AT
187066 GAATTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (14 bp):
ATATGGAATGCCAC
Found at i:188453 original size:15 final size:16
Alignment explanation
Indices: 188433--188463 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
188423 TTGCACTCTG
188433 GATGC-AAAAATTAAA
1 GATGCAAAAAATTAAA
188448 GATGCAAAAAATTAAA
1 GATGCAAAAAATTAAA
188464 CAAAATGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.61, C:0.06, G:0.13, T:0.19
Consensus pattern (16 bp):
GATGCAAAAAATTAAA
Found at i:194468 original size:26 final size:26
Alignment explanation
Indices: 194419--194469 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
194409 CTTACGGGAT
****
194419 ATAAATGATCAATATTTTTTTATTAA
1 ATAAATGATCAATATTAAAATATTAA
194445 ATAAATGATCAATATTAAAATATTA
1 ATAAATGATCAATATTAAAATATTA
194470 TTTTATTAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (26 bp):
ATAAATGATCAATATTAAAATATTAA
Found at i:195309 original size:464 final size:464
Alignment explanation
Indices: 194419--195797 Score: 2133
Period size: 463 Copynumber: 3.0 Consensus size: 464
194409 CTTACGGGAT
194419 ATAAATGATCAATATTTTTTT-ATTAAATAAATGATCAATATTAAAATATTATTTTATTAGTAAA
1 ATAAATGATCAATATTTTTTTGATTAAATAAATGATCAATATTAAAATATTATTTTATTAGTAAA
** * * * * *
194483 TAAAAATATCTTATC-GCGCAT--G--T-CA---CA-CACCGCAACACACTGAAATATACTGTTA
66 TAAAAATATCTTATCAATGGATGAGTTTACAGTGCATGATC-CAACACACCGAAACATACTGTTA
*
194538 ATTAAATATTAGAAAGGTAAATTATACATTTAGTACTTATACTATCATTTTTATTTTGTTTTACT
130 ATTAAATATTAGAAAGGTAAATTATACATTTAGTAATTATACTATCATTTTTATTTTGTTTTACT
194603 ACCTAAA-TTCTATTTTTTAACGTCATTAACGACAATGATGATGTTTCATGACATGTCAATTTTT
195 ACCTAAACTT-TA-TTTTTAACG-CATTAACGACAATGATGATGTTTCATGACATGTCAATTTTT
* *
194667 TTAATTTCCACATCATATTTTTAATTT-TTCATCAGTATTTTAATTAATTTTATTCAACCAATTA
257 TTAATTTCCACATCATCTTTTT-ATTTCTCCATCAGTATTTTAATTAATTTTATTCAACCAATTA
* *
194731 AATGATGACATGTGTCACCAACTAT-GGGTTAAAATAAAAGAAAATATTTTTTTAGCATGAACCG
321 AATGATGACATGTGTCACCAACTATGGGGATAAAATAAAAGAAAATATTTTCTTAGCATGAACCG
* * *
194795 TACATAAATCTCTTACATGAAATGCAAGGCACTCAACCATTGAGTTAAGCTAATCATTTGTTAAT
386 TACATAAATCTCTTACATGAAATGCAAGGCACTCGATCATTGAGTTAAGCTAGTCATTTGTTAAT
194860 TTCATCATATTAAA
451 TTCATCATATTAAA
*
194874 ATAAATGATCAATATTTTTTTGATTAAATAAATGATTAATATTAAAATATTATTTTATTAGTAAA
1 ATAAATGATCAATATTTTTTTGATTAAATAAATGATCAATATTAAAATATTATTTTATTAGTAAA
*
194939 TAAAAATATCTTATCAATGGATGAGTTTACGGTGCATG-T-C-ACACACCGAAACATACTGTTAA
66 TAAAAATATCTTATCAATGGATGAGTTTACAGTGCATGATCCAACACACCGAAACATACTGTTAA
* *
195001 TTAAATATTAGTAAGGTAAATTATACATTTAGTATTTATACTATCATTTTTATTTTGTTTTACTA
131 TTAAATATTAGAAAGGTAAATTATACATTTAGTAATTATACTATCATTTTTATTTTGTTTTACTA
* *
195066 TCTAAACTTTATTTTTAACGCCATTAACGACAATGATGATGTTTTATGACATGTCAATTTTTTTT
196 CCTAAACTTTATTTTTAACG-CATTAACGACAATGATGATGTTTCATGACATGTCAA--TTTTTT
* *
195131 TAATTTTCACATCATCTTTTTATTTCTCCATCAATATTTTAATTAATTTTATTCAACCAATTAAA
258 TAATTTCCACATCATCTTTTTATTTCTCCATCAGTATTTTAATTAATTTTATTCAACCAATTAAA
* *
195196 TGATGACATGTGCCACCAACTATGGGGATAAAATAAAATAAAATATTTTCTTAGCATGAACCGTA
323 TGATGACATGTGTCACCAACTATGGGGATAAAATAAAAGAAAATATTTTCTTAGCATGAACCGTA
*
195261 CATAAATCTCTTACATCAAATGCAAGGCACTCGATCATTGAGTTAAGCTAGTCATTTGTTAATTT
388 CATAAATCTCTTACATGAAATGCAAGGCACTCGATCATTGAGTTAAGCTAGTCATTTGTTAATTT
195326 CATCATATTAAA
453 CATCATATTAAA
* *
195338 ATAAATTATGAATATTTTTTTGATTAAATAAATGATCAATATTAAAATATTATTTTATTAGTAAA
1 ATAAATGATCAATATTTTTTTGATTAAATAAATGATCAATATTAAAATATTATTTTATTAGTAAA
*
195403 TAAAAATATCTTATTAATGGATGAGTTTACAGTGCATGTCATACACCGCAACACACCGAAACATA
66 TAAAAATATCTTATCAATGGATGAGTTTACAGTGCATG--AT----C-CAACACACCGAAACATA
* *
195468 CTGTTAATTAAATATTAAAAAGATAAATTATACATTTAGTAATTATACTATCATTTTTATTTTGT
124 CTGTTAATTAAATATTAGAAAGGTAAATTATACATTTAGTAATTATACTATCATTTTTATTTTGT
*
195533 TTTACTACCTAAACTTTA--TTT------TTAACGACAATGATGATGTTTCATGTCATGTCAATT
189 TTTACTACCTAAACTTTATTTTTAACGCATTAACGACAATGATGATGTTTCATGACATGTCAATT
*
195590 TTTTTAATTTCCACATCATCTTTTTATTTCTCCATTAGTATTTTAATTAATTTTATTCAACCAAT
254 TTTTTAATTTCCACATCATCTTTTTATTTCTCCATCAGTATTTTAATTAATTTTATTCAACCAAT
195655 TAAATGATGACATGTGTCACCAACTATGGGGATAAAATAAAAGAAAATATTTTCTTAGCATGAAC
319 TAAATGATGACATGTGTCACCAACTATGGGGATAAAATAAAAGAAAATATTTTCTTAGCATGAAC
* *
195720 CGTACATAAATCTCTTACATGAAATGCAAGGCACTCGATCATTGAATTAAGATAGTCATTTGTTA
384 CGTACATAAATCTCTTACATGAAATGCAAGGCACTCGATCATTGAGTTAAGCTAGTCATTTGTTA
195785 ATTTCATCATATT
449 ATTTCATCATATT
195798 TTTTATTTAA
Statistics
Matches: 852, Mismatches: 46, Indels: 44
0.90 0.05 0.05
Matches are distributed among these distances:
455 21 0.02
456 57 0.07
457 3 0.00
459 1 0.00
461 45 0.05
462 95 0.11
463 289 0.34
464 209 0.25
465 34 0.04
467 1 0.00
472 3 0.00
473 1 0.00
474 93 0.11
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (464 bp):
ATAAATGATCAATATTTTTTTGATTAAATAAATGATCAATATTAAAATATTATTTTATTAGTAAA
TAAAAATATCTTATCAATGGATGAGTTTACAGTGCATGATCCAACACACCGAAACATACTGTTAA
TTAAATATTAGAAAGGTAAATTATACATTTAGTAATTATACTATCATTTTTATTTTGTTTTACTA
CCTAAACTTTATTTTTAACGCATTAACGACAATGATGATGTTTCATGACATGTCAATTTTTTTAA
TTTCCACATCATCTTTTTATTTCTCCATCAGTATTTTAATTAATTTTATTCAACCAATTAAATGA
TGACATGTGTCACCAACTATGGGGATAAAATAAAAGAAAATATTTTCTTAGCATGAACCGTACAT
AAATCTCTTACATGAAATGCAAGGCACTCGATCATTGAGTTAAGCTAGTCATTTGTTAATTTCAT
CATATTAAA
Found at i:196137 original size:23 final size:23
Alignment explanation
Indices: 196093--196146 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
196083 TATTTTAACA
*
196093 TATTTATTT-TTAAAAATCATAT
1 TATTTATTTATTAAAAATAATAT
*
196115 TATTTATTTATTTAAAATAATAT
1 TATTTATTTATTAAAAATAATAT
*
196138 CATTT-TTTA
1 TATTTATTTA
196147 GATCATCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 13 0.46
23 15 0.54
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTTATTTATTAAAAATAATAT
Found at i:196457 original size:21 final size:23
Alignment explanation
Indices: 196412--196459 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
196402 TATATTAACT
* *
196412 TATTCTAAAAAGTATATTTATAA
1 TATTATAAAAAGTATATTTAAAA
196435 TATTATAAAAA-TAT-TTTAAAA
1 TATTATAAAAAGTATATTTAAAA
196456 TATT
1 TATT
196460 TATTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 10 0.43
22 3 0.13
23 10 0.43
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
TATTATAAAAAGTATATTTAAAA
Found at i:196469 original size:18 final size:20
Alignment explanation
Indices: 196446--196490 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
196436 ATTATAAAAA
196446 TATTTTAAAAT-AT-TTATT
1 TATTTTAAAATCATATTATT
196464 TATTTTTTAAAATCATATTATT
1 TA--TTTTAAAATCATATTATT
196486 TATTT
1 TATTT
196491 ATTTGAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 2 0.09
20 12 0.52
21 2 0.09
22 7 0.30
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTAAAATCATATTATT
Found at i:196499 original size:23 final size:22
Alignment explanation
Indices: 196448--196509 Score: 83
Period size: 23 Copynumber: 2.9 Consensus size: 22
196438 TATAAAAATA
196448 TTTTAAAAT-AT-TTATTTATT
1 TTTTAAAATAATATTATTTATT
*
196468 TTTTAAAATCATATTATTTATT
1 TTTTAAAATAATATTATTTATT
*
196490 TATTTGAAATAATATTATTT
1 T-TTTAAAATAATATTATTT
196510 TTAAATCATC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 9 0.24
21 2 0.05
22 10 0.27
23 16 0.43
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTAAAATAATATTATTTATT
Found at i:196913 original size:23 final size:24
Alignment explanation
Indices: 196886--196937 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
196876 TTGATGTATG
196886 ATTTTAGAATTTAA-AATTTTAAA
1 ATTTTAGAATTTAAGAATTTTAAA
* *
196909 ATTTTAGAATTTAAGATTTTTATA
1 ATTTTAGAATTTAAGAATTTTAAA
196933 ATTTT
1 ATTTT
196938 GGATTTATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (24 bp):
ATTTTAGAATTTAAGAATTTTAAA
Found at i:196937 original size:8 final size:8
Alignment explanation
Indices: 196886--196937 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
196876 TTGATGTATG
196886 ATTTTAGA
1 ATTTTAGA
*
196894 A-TTTAAA
1 ATTTTAGA
*
196901 ATTTTAAA
1 ATTTTAGA
196909 ATTTTAGA
1 ATTTTAGA
*
196917 ATTTAAGA
1 ATTTTAGA
* *
196925 TTTTTATA
1 ATTTTAGA
196933 ATTTT
1 ATTTT
196938 GGATTTATTG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 6 0.17
8 30 0.83
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (8 bp):
ATTTTAGA
Found at i:197210 original size:15 final size:16
Alignment explanation
Indices: 197190--197225 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
197180 TCAACCCTCG
197190 TAGAA-GGGCTTTCTA
1 TAGAAGGGGCTTTCTA
197205 TAGAAGGGGCTTTCTA
1 TAGAAGGGGCTTTCTA
197221 TAGAA
1 TAGAA
197226 TGTACCTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.31
Consensus pattern (16 bp):
TAGAAGGGGCTTTCTA
Found at i:197623 original size:15 final size:15
Alignment explanation
Indices: 197605--197683 Score: 65
Period size: 15 Copynumber: 5.3 Consensus size: 15
197595 CATAAAATAT
*
197605 AATATCAGAAATTAA
1 AATACCAGAAATTAA
* *
197620 AATAACATTAAA-TACA
1 AATACCA-GAAATTA-A
197636 AA-ACCATG-AATTAA
1 AATACCA-GAAATTAA
* *
197650 AATACCAGAAAATAT
1 AATACCAGAAATTAA
197665 AATACCAGAAATTAA
1 AATACCAGAAATTAA
197680 AATA
1 AATA
197684 ATGTAAAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
14 6 0.12
15 39 0.76
16 6 0.12
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.23
Consensus pattern (15 bp):
AATACCAGAAATTAA
Found at i:197626 original size:30 final size:30
Alignment explanation
Indices: 197590--197728 Score: 120
Period size: 30 Copynumber: 4.6 Consensus size: 30
197580 ACCCTTATAC
*
197590 AATAACATAAAATATAATATCAGAAATTAA
1 AATAACATAAAATATAATACCAGAAATTAA
* * *
197620 AATAACATTAAATACAAAACCATG-AATTAA
1 AATAACATAAAATATAATACCA-GAAATTAA
* *
197650 AATACCAGAAAATATAATACCAGAAATTAA
1 AATAACATAAAATATAATACCAGAAATTAA
** * * *
197680 AATAATGTAAAATACAAAACTATG-AATTAA
1 AATAACATAAAATATAATACCA-GAAATTAA
* * *
197710 AATACCAGAAAATACAATA
1 AATAACATAAAATATAATA
197729 GTAGAAAATA
Statistics
Matches: 85, Mismatches: 21, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
29 1 0.01
30 82 0.96
31 2 0.02
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.23
Consensus pattern (30 bp):
AATAACATAAAATATAATACCAGAAATTAA
Found at i:197668 original size:60 final size:60
Alignment explanation
Indices: 197598--197728 Score: 208
Period size: 60 Copynumber: 2.2 Consensus size: 60
197588 ACAATAACAT
* *
197598 AAAATATAATATCAGAAATTAAAATAACATTAAATACAAAACCATGAATTAAAATACCAG
1 AAAATATAATACCAGAAATTAAAATAACATAAAATACAAAACCATGAATTAAAATACCAG
** *
197658 AAAATATAATACCAGAAATTAAAATAATGTAAAATACAAAACTATGAATTAAAATACCAG
1 AAAATATAATACCAGAAATTAAAATAACATAAAATACAAAACCATGAATTAAAATACCAG
*
197718 AAAATACAATA
1 AAAATATAATA
197729 GTAGAAAATA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.23
Consensus pattern (60 bp):
AAAATATAATACCAGAAATTAAAATAACATAAAATACAAAACCATGAATTAAAATACCAG
Found at i:197735 original size:60 final size:59
Alignment explanation
Indices: 197598--197753 Score: 195
Period size: 60 Copynumber: 2.6 Consensus size: 59
197588 ACAATAACAT
*
197598 AAAATATAATATCAGAAATTAAAATAACATTAAATACAAAACCATGAATTAAAATACCAG
1 AAAATATAATAT-AGAAATTAAAATAACATAAAATACAAAACCATGAATTAAAATACCAG
* ** *
197658 AAAATATAATACCAGAAATTAAAATAATGTAAAATACAAAACTATGAATTAAAATACCAG
1 AAAATATAATA-TAGAAATTAAAATAACATAAAATACAAAACCATGAATTAAAATACCAG
* * * * *
197718 AAAATACAATAGTAGAAAATACAATATCATATAATA
1 AAAATATAATA-TAGAAATTAAAATAACATAAAATA
197754 AAACTATATA
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
60 81 1.00
ACGTcount: A:0.60, C:0.10, G:0.06, T:0.24
Consensus pattern (59 bp):
AAAATATAATATAGAAATTAAAATAACATAAAATACAAAACCATGAATTAAAATACCAG
Found at i:207757 original size:3 final size:3
Alignment explanation
Indices: 207749--207787 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
207739 AAATATATAT
* *
207749 TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
207788 ATTTACATGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:208763 original size:16 final size:16
Alignment explanation
Indices: 208742--208772 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
208732 GAGAATTCTA
208742 AACTCCCTCTGCCCTC
1 AACTCCCTCTGCCCTC
*
208758 AACTCCCTCTTCCCT
1 AACTCCCTCTGCCCT
208773 TGTTTCTTTG
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:0.13, C:0.55, G:0.03, T:0.29
Consensus pattern (16 bp):
AACTCCCTCTGCCCTC
Found at i:211463 original size:14 final size:14
Alignment explanation
Indices: 211444--211470 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
211434 TTTTCATTTG
211444 CATTTGCATCTTTA
1 CATTTGCATCTTTA
211458 CATTTGCATCTTT
1 CATTTGCATCTTT
211471 GCATAATTAT
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:0.19, C:0.22, G:0.07, T:0.52
Consensus pattern (14 bp):
CATTTGCATCTTTA
Found at i:214530 original size:8 final size:8
Alignment explanation
Indices: 214517--214541 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
214507 GAAAGAGATG
214517 AGAAATGA
1 AGAAATGA
214525 AGAAATGA
1 AGAAATGA
214533 AGAAATGA
1 AGAAATGA
214541 A
1 A
214542 AGGAAATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (8 bp):
AGAAATGA
Found at i:215679 original size:90 final size:90
Alignment explanation
Indices: 215526--215691 Score: 226
Period size: 90 Copynumber: 1.8 Consensus size: 90
215516 TATATTATTA
* * * * *
215526 TATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAAATGGTTAATCGCCCCGGCTTTATGGATA
1 TATATACAATAAAGATTGAGCTGTCCCTCTAGAACAAATGGTTAATAGCCCCGACTTTATGGATA
215591 A-TATTCAACTAACCTATTATACTAT
66 AGT-TTCAACTAACCTATTATACTAT
* * * * *
215616 TATATGCAATAAAGATTGAGCTGTCCCTCTAGAACAATTGGTTAATAGCCCTGATTTTTTGGATA
1 TATATACAATAAAGATTGAGCTGTCCCTCTAGAACAAATGGTTAATAGCCCCGACTTTATGGATA
215681 AGTTTCAACTA
66 AGTTTCAACTA
215692 GCATGATAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
90 64 0.98
91 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (90 bp):
TATATACAATAAAGATTGAGCTGTCCCTCTAGAACAAATGGTTAATAGCCCCGACTTTATGGATA
AGTTTCAACTAACCTATTATACTAT
Found at i:218435 original size:41 final size:42
Alignment explanation
Indices: 218342--218437 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
218332 ATTTGTTAGT
* * ** * * *
218342 CCTTCGGGCCATCTGTAAGTTTTTTGAGCATGATGCTTAAAT
1 CCTTCGGGTCATCTATAAGCCTTTCGAGCAAGATGCTTAAAG
**
218384 CCTTTAGGTCATCTATAAGCCTTTCGAGCAAGATG-TTAAAG
1 CCTTCGGGTCATCTATAAGCCTTTCGAGCAAGATGCTTAAAG
218425 CCTTCGGGTCATC
1 CCTTCGGGTCATC
218438 CATAGGACCT
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
41 16 0.37
42 27 0.63
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (42 bp):
CCTTCGGGTCATCTATAAGCCTTTCGAGCAAGATGCTTAAAG
Found at i:218685 original size:172 final size:174
Alignment explanation
Indices: 218425--218763 Score: 540
Period size: 172 Copynumber: 2.0 Consensus size: 174
218415 GATGTTAAAG
* *
218425 CCTTCGGGTCATCCATAGGACCTTCAGTACAATATGTTTTCAAATGAGATTTTAGAAACTAAGCC
1 CCTTCGGGTCATCCATAAGACCTTCAGTACAAGATGTTTTCAAATGAGATTTTAGAAACTAAGCC
* ***
218490 TTTTAGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGTTAAGCCT-TTTAAGGGGTCC
66 TTTTAGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTAACAAAGGGGTCC
*
218554 CTTGACAACTAAGAAACTAAGCCTTC-AGGGTTTCTTGATAAGT
131 CTTAACAACTAAGAAACTAAGCCTTCGAGGGTTTCTTGATAAGT
* *
218597 CCTTCGGG-CAATCCATAAGACCTTTAGTACAGGATGTTTTCAAATGAGATTTTAGAAACTAAGC
1 CCTTCGGGTC-ATCCATAAGACCTTCAGTACAAGATGTTTTCAAATGAGATTTTAGAAACTAAGC
* *
218661 CTTTTAGGGGTTTTTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTAACAAAGGGGTT
65 CTTTTAGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTAACAAAGGGGTC
*
218726 CCTTAACAACTAAGAAACTAAGCCTTCGGGGGTTTCTT
130 CCTTAACAACTAAGAAACTAAGCCTTCGAGGGTTTCTT
218764 TATTTTTAAA
Statistics
Matches: 152, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
171 1 0.01
172 109 0.72
173 33 0.22
174 9 0.06
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (174 bp):
CCTTCGGGTCATCCATAAGACCTTCAGTACAAGATGTTTTCAAATGAGATTTTAGAAACTAAGCC
TTTTAGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTAACAAAGGGGTCC
CTTAACAACTAAGAAACTAAGCCTTCGAGGGTTTCTTGATAAGT
Done.