Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 43 of 153
Found at i:14419124 original size:19 final size:21
Alignment explanation
Indices: 14419100--14419145 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
14419090 CTTATTTTAA
14419100 TATATTTTAAATTA-A-AACT
1 TATATTTTAAATTACATAACT
*
14419119 TATATTTTGAATTACATAACT
1 TATATTTTAAATTACATAACT
14419140 TA-ATTT
1 TATATTT
14419146 CTTCCCCGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 13 0.54
20 5 0.21
21 6 0.25
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (21 bp):
TATATTTTAAATTACATAACT
Found at i:14419325 original size:8 final size:9
Alignment explanation
Indices: 14419294--14419522 Score: 158
Period size: 9 Copynumber: 25.9 Consensus size: 9
14419284 AAATTAATAT
*
14419294 ATAATTTAC
1 ATAACTTAC
14419303 ATAACTTAC
1 ATAACTTAC
14419312 ATAACTTA-
1 ATAACTTAC
14419320 ATAACTTAC
1 ATAACTTAC
14419329 ATAA--TAC
1 ATAACTTAC
* *
14419336 ATAAATTAATAT
1 AT-AACT--TAC
*
14419348 ATAATTTATGC
1 ATAACTTA--C
*
14419359 AT--CTCAC
1 ATAACTTAC
14419366 ATAACTTAC
1 ATAACTTAC
14419375 ATAACTTA-
1 ATAACTTAC
*
14419383 ATAGCTTAC
1 ATAACTTAC
14419392 ATAA--TAC
1 ATAACTTAC
* *
14419399 ATAA-ATAT
1 ATAACTTAC
* *
14419407 ATATCATATC
1 ATAACTTA-C
*
14419417 ACAACTTAC
1 ATAACTTAC
14419426 ATAACTTAC
1 ATAACTTAC
*
14419435 ATAATTTA-
1 ATAACTTAC
14419443 ATAACTTAC
1 ATAACTTAC
14419452 ATAACTTA-
1 ATAACTTAC
*
14419460 ATAACTCAC
1 ATAACTTAC
14419469 ATAACTTAC
1 ATAACTTAC
*
14419478 ATAATTTATAC
1 ATAA-CT-TAC
*
14419489 ATAATTTA-
1 ATAACTTAC
*
14419497 ATAACTTTC
1 ATAACTTAC
14419506 ATAACTTAC
1 ATAACTTAC
14419515 ATAACTTA
1 ATAACTTA
14419523 ATTATACTTG
Statistics
Matches: 178, Mismatches: 23, Indels: 38
0.74 0.10 0.16
Matches are distributed among these distances:
7 15 0.08
8 42 0.24
9 96 0.54
10 8 0.04
11 13 0.07
12 4 0.02
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.37
Consensus pattern (9 bp):
ATAACTTAC
Found at i:14419325 original size:17 final size:18
Alignment explanation
Indices: 14419294--14419522 Score: 158
Period size: 17 Copynumber: 12.9 Consensus size: 18
14419284 AAATTAATAT
*
14419294 ATAATTTACATAACTTAC
1 ATAACTTACATAACTTAC
14419312 ATAACTTA-ATAACTTAC
1 ATAACTTACATAACTTAC
* *
14419329 ATAA--TACATAAATTAATAT
1 ATAACTTACAT-AACT--TAC
* *
14419348 ATAATTTATGCAT--CTCAC
1 ATAACTTA--CATAACTTAC
14419366 ATAACTTACATAACTTA-
1 ATAACTTACATAACTTAC
*
14419383 ATAGCTTACATAA--TAC
1 ATAACTTACATAACTTAC
* * * *
14419399 ATAA-ATATATATCATATC
1 ATAACTTACATAACTTA-C
*
14419417 ACAACTTACATAACTTAC
1 ATAACTTACATAACTTAC
*
14419435 ATAATTTA-ATAACTTAC
1 ATAACTTACATAACTTAC
*
14419452 ATAACTTA-ATAACTCAC
1 ATAACTTACATAACTTAC
*
14419469 ATAACTTACATAATTTATAC
1 ATAACTTACATAA-CT-TAC
* *
14419489 ATAATTTA-ATAACTTTC
1 ATAACTTACATAACTTAC
14419506 ATAACTTACATAACTTA
1 ATAACTTACATAACTTA
14419523 ATTATACTTG
Statistics
Matches: 163, Mismatches: 29, Indels: 38
0.71 0.13 0.17
Matches are distributed among these distances:
15 9 0.06
16 8 0.05
17 71 0.44
18 41 0.25
19 19 0.12
20 10 0.06
21 2 0.01
23 3 0.02
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.37
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Found at i:14419344 original size:24 final size:25
Alignment explanation
Indices: 14419294--14419346 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
14419284 AAATTAATAT
* *
14419294 ATAATTTACATAACTTACATAACTTA
1 ATAACTTACATAAC-TACATAAATTA
14419320 ATAACTTACATAA-TACATAAATTA
1 ATAACTTACATAACTACATAAATTA
14419344 ATA
1 ATA
14419347 TATAATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.52
26 12 0.48
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAACTTACATAACTACATAAATTA
Found at i:14419400 original size:63 final size:60
Alignment explanation
Indices: 14419301--14419455 Score: 213
Period size: 63 Copynumber: 2.5 Consensus size: 60
14419291 TATATAATTT
* *
14419301 ACATAACTTACATAACTTAATAACTTACATAATACATAAATTAATATATAATTTAT-GCATCTC
1 ACATAACTTACATAACTTAATAACTTACATAATACATAAA-T-ATATATAA--TATCACAACTC
* * *
14419364 ACATAACTTACATAACTTAATAGCTTACATAATACATAAATATATATCATATCACAACTT
1 ACATAACTTACATAACTTAATAACTTACATAATACATAAATATATATAATATCACAACTC
*
14419424 ACATAACTTACATAATTTAATAACTTACATAA
1 ACATAACTTACATAACTTAATAACTTACATAA
14419456 CTTAATAACT
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
59 3 0.04
60 34 0.40
61 7 0.08
62 1 0.01
63 39 0.46
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (60 bp):
ACATAACTTACATAACTTAATAACTTACATAATACATAAATATATATAATATCACAACTC
Found at i:14422022 original size:49 final size:49
Alignment explanation
Indices: 14421950--14422047 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
14421940 TATCAATGGA
14421950 TGTATCCCATAGAAATGTGTAGATTTATTTGTAAATTATTCATTCATTC
1 TGTATCCCATAGAAATGTGTAGATTTATTTGTAAATTATTCATTCATTC
14421999 TGTATCCCATAGAAATGTGTAGATTTATTTGTAAATTATTCATTCATTC
1 TGTATCCCATAGAAATGTGTAGATTTATTTGTAAATTATTCATTCATTC
14422048 ACCTCTATGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (49 bp):
TGTATCCCATAGAAATGTGTAGATTTATTTGTAAATTATTCATTCATTC
Found at i:14432150 original size:15 final size:15
Alignment explanation
Indices: 14432130--14432159 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14432120 GCAATGTATG
14432130 GAAAGAAAAAATATT
1 GAAAGAAAAAATATT
*
14432145 GAAAGAAAATATATT
1 GAAAGAAAAAATATT
14432160 TTTCTTTCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.23
Consensus pattern (15 bp):
GAAAGAAAAAATATT
Found at i:14433469 original size:24 final size:24
Alignment explanation
Indices: 14433430--14433501 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
14433420 GTCACCATTT
14433430 ATAAA-AATTAATATTTTAATAAAA
1 ATAAATAA-TAATATTTTAATAAAA
* * *
14433454 ATAATTAAT-ATAATTTAAAAATAA
1 ATAAATAATAATATTTTAATAA-AA
14433478 ATAAATAATAATATTTTAACTAAA
1 ATAAATAATAATATTTTAA-TAAA
14433502 GGGGTATGCA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
23 10 0.26
24 15 0.39
25 11 0.29
26 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAAATAATAATATTTTAATAAAA
Found at i:14433474 original size:20 final size:19
Alignment explanation
Indices: 14433449--14433486 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
14433439 AATATTTTAA
*
14433449 TAAAAATAATTAATATAATT
1 TAAAAATAAATAA-ATAATT
14433469 TAAAAATAAATAAATAAT
1 TAAAAATAAATAAATAAT
14433487 AATATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAAAATAAATAAATAATT
Found at i:14443229 original size:15 final size:15
Alignment explanation
Indices: 14443209--14443265 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
14443199 TTATGGAAAG
*
14443209 TCAAATATATGGTTA
1 TCAAATATATGGATA
*
14443224 TCAAATA-ATGGAAA
1 TCAAATATATGGATA
* *
14443238 GTCAAAGATATGGGTA
1 -TCAAATATATGGATA
14443254 TCAAATAT-TGGA
1 TCAAATATATGGA
14443266 AAATCAAAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
14 8 0.24
15 20 0.61
16 5 0.15
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (15 bp):
TCAAATATATGGATA
Found at i:14443237 original size:30 final size:30
Alignment explanation
Indices: 14443201--14443285 Score: 125
Period size: 30 Copynumber: 2.8 Consensus size: 30
14443191 ATCCGTATTT
* *
14443201 ATGGAAAGTCAAATATATGGTTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
14443231 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* * *
14443261 TTGGAAAATCAAAGAAATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
14443286 GAGATATTGG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:14447685 original size:15 final size:15
Alignment explanation
Indices: 14447665--14447741 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 15
14447655 TTATGGAAAG
*
14447665 TCAAATATATGGTTA
1 TCAAATATATGGATA
*
14447680 TCAAATA-ATGGAAA
1 TCAAATATATGGATA
* *
14447694 GTCAAAGATATGGGTA
1 -TCAAATATATGGATA
*
14447710 TCAAATAT-TGGAAAA
1 TCAAATATATGG-ATA
* *
14447725 TCAAAGATATGGGTA
1 TCAAATATATGGATA
14447740 TC
1 TC
14447742 GAGATATTGG
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (15 bp):
TCAAATATATGGATA
Found at i:14447693 original size:30 final size:30
Alignment explanation
Indices: 14447657--14447741 Score: 134
Period size: 30 Copynumber: 2.8 Consensus size: 30
14447647 ATCCGTATTT
* *
14447657 ATGGAAAGTCAAATATATGGTTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
14447687 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
14447717 TTGGAAAATCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
14447742 GAGATATTGG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.27
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:14447903 original size:2 final size:2
Alignment explanation
Indices: 14447896--14448004 Score: 218
Period size: 2 Copynumber: 54.5 Consensus size: 2
14447886 AAGGCATTGT
14447896 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
14447938 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
14447980 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
14448005 TTGTAAATTC
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 107 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:14465603 original size:14 final size:15
Alignment explanation
Indices: 14465586--14465614 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14465576 ATGGTTCAGT
14465586 TAATA-TTTTTATAA
1 TAATATTTTTTATAA
14465600 TAATATTTTTTATAA
1 TAATATTTTTTATAA
14465615 AAAAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TAATATTTTTTATAA
Found at i:14474634 original size:15 final size:17
Alignment explanation
Indices: 14474609--14474642 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
14474599 TGGTTTCTCT
14474609 TTTGTCTTGA-GTATTC
1 TTTGTCTTGAGGTATTC
14474625 TTTG-CTTGAGGTATTC
1 TTTGTCTTGAGGTATTC
14474641 TT
1 TT
14474643 CACATGGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.56
Consensus pattern (17 bp):
TTTGTCTTGAGGTATTC
Found at i:14482879 original size:19 final size:19
Alignment explanation
Indices: 14482855--14482892 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14482845 GAAAATAGAG
14482855 CGAAAGCAACTCAAAAGCA
1 CGAAAGCAACTCAAAAGCA
14482874 CGAAAGCAACTCAAAAGCA
1 CGAAAGCAACTCAAAAGCA
14482893 AAGGAGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.26, G:0.16, T:0.05
Consensus pattern (19 bp):
CGAAAGCAACTCAAAAGCA
Found at i:14483538 original size:131 final size:131
Alignment explanation
Indices: 14483304--14483566 Score: 508
Period size: 131 Copynumber: 2.0 Consensus size: 131
14483294 GGTCATGAAC
14483304 TTTGATCCACAACTTGTGATAATAAAATGACTAATTGATGGATGTGCATAAAAGTTTTTTCTTTT
1 TTTGATCCACAACTTGTGATAATAAAATGACTAATTGATGGATGTGCATAAAAGTTTTTTCTTTT
*
14483369 CTCACCCAAAGATTTTTATAATTTTTATAAACCTATCATTTTTAATATTATAATATTATTCTTAA
66 CTCACCCAAAGATTTTTATAATTTTTATAAACCTATCATTTTTAATATTATAATATTAGTCTTAA
14483434 A
131 A
*
14483435 TTTGATCCACAACTTGTGATAATACAATGACTAATTGATGGATGTGCATAAAAGTTTTTTCTTTT
1 TTTGATCCACAACTTGTGATAATAAAATGACTAATTGATGGATGTGCATAAAAGTTTTTTCTTTT
14483500 CTCACCCAAAGATTTTTATAATTTTTATAAACCTATCATTTTTAATATTATAATATTAGTCTTAA
66 CTCACCCAAAGATTTTTATAATTTTTATAAACCTATCATTTTTAATATTATAATATTAGTCTTAA
14483565 A
131 A
14483566 T
1 T
14483567 AAATTATAAT
Statistics
Matches: 130, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 130 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.44
Consensus pattern (131 bp):
TTTGATCCACAACTTGTGATAATAAAATGACTAATTGATGGATGTGCATAAAAGTTTTTTCTTTT
CTCACCCAAAGATTTTTATAATTTTTATAAACCTATCATTTTTAATATTATAATATTAGTCTTAA
A
Found at i:14491207 original size:21 final size:22
Alignment explanation
Indices: 14491182--14491231 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
14491172 AATATTTTAA
* *
14491182 AACAATAGA-AAAGATTAAAGG
1 AACAACAGATAAAAATTAAAGG
14491203 AACAACAGATTCAAAAATTAAAGG
1 AACAACAGA-T-AAAAATTAAAGG
14491227 AACAA
1 AACAA
14491232 AAAATCAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
24 16 0.67
ACGTcount: A:0.62, C:0.10, G:0.14, T:0.14
Consensus pattern (22 bp):
AACAACAGATAAAAATTAAAGG
Found at i:14491243 original size:24 final size:24
Alignment explanation
Indices: 14491190--14491243 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
14491180 AAAACAATAG
* *
14491190 AAAAGATTAAAGGAACAACAGATTC
1 AAAA-ATTAAAGGAACAACAAAATC
14491215 AAAAATTAAAGGAACAA-AAAATC
1 AAAAATTAAAGGAACAACAAAATC
14491238 AGAAAA
1 A-AAAA
14491244 AAAAAATCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 5 0.19
24 17 0.65
25 4 0.15
ACGTcount: A:0.65, C:0.09, G:0.13, T:0.13
Consensus pattern (24 bp):
AAAAATTAAAGGAACAACAAAATC
Found at i:14492994 original size:58 final size:58
Alignment explanation
Indices: 14492904--14493023 Score: 240
Period size: 58 Copynumber: 2.1 Consensus size: 58
14492894 TTCGTTCCTA
14492904 AGAAAATAGTTCTGTTTCAATCAAGGTAATATGAATGACAAACATGCATAACCTATGT
1 AGAAAATAGTTCTGTTTCAATCAAGGTAATATGAATGACAAACATGCATAACCTATGT
14492962 AGAAAATAGTTCTGTTTCAATCAAGGTAATATGAATGACAAACATGCATAACCTATGT
1 AGAAAATAGTTCTGTTTCAATCAAGGTAATATGAATGACAAACATGCATAACCTATGT
14493020 AGAA
1 AGAA
14493024 GGGGGGTTGT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.28
Consensus pattern (58 bp):
AGAAAATAGTTCTGTTTCAATCAAGGTAATATGAATGACAAACATGCATAACCTATGT
Found at i:14494331 original size:18 final size:18
Alignment explanation
Indices: 14494310--14494345 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14494300 GATAATGTGG
14494310 CAAAATTCAATAAAAAAT
1 CAAAATTCAATAAAAAAT
* *
14494328 CAAATTTCAATAGAAAAT
1 CAAAATTCAATAAAAAAT
14494346 TCACTCAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.11, G:0.03, T:0.25
Consensus pattern (18 bp):
CAAAATTCAATAAAAAAT
Found at i:14498039 original size:56 final size:56
Alignment explanation
Indices: 14497932--14498040 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 56
14497922 GCATCCATTG
* * *
14497932 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATAAATAATTAAATTTGTAA
1 GATGATAAATCATCACTTTTAATTTAAATAATGCTCATAAATAATTAAATTTGTAA
*
14497988 GATGATAAATCATCACTTTTTAATTTAAATAATGCTCATGAATAATT-AATTTG
1 GATGATAAATCATCAC-TTTTAATTTAAATAATGCTCATAAATAATTAAATTTG
14498041 CAATCTATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 22 0.46
57 26 0.54
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (56 bp):
GATGATAAATCATCACTTTTAATTTAAATAATGCTCATAAATAATTAAATTTGTAA
Found at i:14503975 original size:39 final size:39
Alignment explanation
Indices: 14503921--14503998 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
14503911 TTGTTAGTGT
*
14503921 TCCATTTAATTCACAAACATCCGAATGAATTAAGTCTAA
1 TCCATTTAATTCACAAACATCCGAATGAATTAAATCTAA
14503960 TCCATTTAATTCACAAACATCCGAATGAATTAAATCTAA
1 TCCATTTAATTCACAAACATCCGAATGAATTAAATCTAA
14503999 CACTTGTGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (39 bp):
TCCATTTAATTCACAAACATCCGAATGAATTAAATCTAA
Found at i:14507964 original size:22 final size:22
Alignment explanation
Indices: 14507938--14507985 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
14507928 CTCTCTAATC
14507938 CTCTCAATTTCATTCCAAAATT
1 CTCTCAATTTCATTCCAAAATT
*
14507960 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCATTCCAAAATT
14507982 CTCT
1 CTCT
14507986 GAAACCCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.42
Consensus pattern (22 bp):
CTCTCAATTTCATTCCAAAATT
Found at i:14508106 original size:32 final size:29
Alignment explanation
Indices: 14508044--14508109 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
14508034 TCTCAAATCC
14508044 ATTTTTTAAAATAATTATAAATTTTTTAT
1 ATTTTTTAAAATAATTATAAATTTTTTAT
* * *
14508073 ATTTATTTAAAATAATTTTAATTTTTTTTT
1 ATTT-TTTAAAATAATTATAAATTTTTTAT
*
14508103 ATATTTT
1 ATTTTTT
14508110 CATAAATGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (29 bp):
ATTTTTTAAAATAATTATAAATTTTTTAT
Found at i:14509201 original size:7 final size:7
Alignment explanation
Indices: 14509189--14509213 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14509179 AGTCGATTGA
14509189 TATTTAG
1 TATTTAG
14509196 TATTTAG
1 TATTTAG
14509203 TATTTAG
1 TATTTAG
14509210 TATT
1 TATT
14509214 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:14509873 original size:18 final size:18
Alignment explanation
Indices: 14509847--14509881 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14509837 GTCTTTNTTT
* *
14509847 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
14509865 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
14509882 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:14510436 original size:29 final size:29
Alignment explanation
Indices: 14510381--14510577 Score: 232
Period size: 29 Copynumber: 6.4 Consensus size: 29
14510371 AAATAAAAAC
*
14510381 CCTAATTTAATTAAAAACCCTAACCTAACCGTAA
1 CCTAACTTAATTAAAAACCCTAA-C---CC-TAA
*
14510415 CTTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
14510444 CCTAACTTAATTAAAAACCCTAACCTTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
14510473 CCTAAATTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
14510502 CCCTAATTTAATTGAAAACCCTAACCTAACCGTAA
1 -CCTAACTTAATTAAAAACCCTAA-C---CC-TAA
*
14510537 CCTAACTTAATTAAAAACGCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
14510566 CCTAACTTAATT
1 CCTAACTTAATT
14510578 TGATAAATTT
Statistics
Matches: 146, Mismatches: 11, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
29 72 0.49
30 25 0.17
31 1 0.01
33 2 0.01
34 43 0.29
35 3 0.02
ACGTcount: A:0.44, C:0.27, G:0.02, T:0.27
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:14510691 original size:56 final size:55
Alignment explanation
Indices: 14510575--14510794 Score: 368
Period size: 56 Copynumber: 3.9 Consensus size: 55
14510565 ACCTAACTTA
14510575 ATTTGATAAATTTTACTAACCATTAACACATTTTTTGGCTTAATAATTTTAGTTT
1 ATTTGATAAATTTTACTAACCATTAACACATTTTTTGGCTTAATAATTTTAGTTT
*
14510630 ATTTGATAAATTTTACTAACCATTAACACACTTTTTGGACTTAATAATTTTAGTTT
1 ATTTGATAAATTTTACTAACCATTAACACATTTTTTGG-CTTAATAATTTTAGTTT
* *
14510686 ATTTGATAAATTTTACTAACCATTAACACAATTTTTGAACTTAATAATTTTAGTTT
1 ATTTGATAAATTTTACTAACCATTAACACATTTTTTG-GCTTAATAATTTTAGTTT
*
14510742 ATTTGATAAATTTTAGTAACCATTAACACAATTTTTTTGGCTTAATAATTTTA
1 ATTTGATAAATTTTACTAACCATTAACAC-A-TTTTTTGGCTTAATAATTTTA
14510795 CATAATTTTA
Statistics
Matches: 155, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
55 37 0.24
56 98 0.63
57 14 0.09
58 6 0.04
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (55 bp):
ATTTGATAAATTTTACTAACCATTAACACATTTTTTGGCTTAATAATTTTAGTTT
Found at i:14510801 original size:10 final size:10
Alignment explanation
Indices: 14510786--14510810 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14510776 TTTTGGCTTA
14510786 ATAATTTTAC
1 ATAATTTTAC
14510796 ATAATTTTAC
1 ATAATTTTAC
14510806 ATAAT
1 ATAAT
14510811 ATTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:14513618 original size:126 final size:126
Alignment explanation
Indices: 14513393--14513745 Score: 593
Period size: 126 Copynumber: 2.8 Consensus size: 126
14513383 TCCAAACTTG
14513393 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
14513458 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCA-ACAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAGA-AAAAAAATTATTTCTTACATGAC
* *
14513519 CTACTGTAGCAAAATCGCGTCCACGAGGGCGGGATTTCACAATTTCTTCTCAAATAGCATCCTTG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* * * *
14513584 TAGAAACAATTTTATACTATTTGCTCTGCAACGTCAGAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAGAAAAAAAATTATTTCTTACATGAC
* * *
14513645 CTACTATAGCAAAAACGCGTCCACGAGAGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
14513710 TAGAAGCGATTTTATACTATTTGAC-CAGAAACGTCA
66 TAGAAGCGATTTTATACTATTTG-CTCAGAAACGTCA
14513746 ACTCGATATA
Statistics
Matches: 210, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
126 208 0.99
127 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (126 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAGAAAAAAAATTATTTCTTACATGAC
Found at i:14513785 original size:126 final size:121
Alignment explanation
Indices: 14513403--14513785 Score: 385
Period size: 126 Copynumber: 3.0 Consensus size: 121
14513393 CTACTGTAGC
*
14513403 AAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCGAT
1 AAAAACGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCGAT
* * * * ** **
14513468 TTTATACTATTTGCTCAGAAACGTCAACAAAAAAATTATTTCTTACATGACCTACTGT
66 TTTATACTATTTGCTCAGAAACGTCAACAAATAATTTATTTC-GACCT-AAATACCCT
* * *
14513526 AGCAAAATCGCGTCCACGAGGGCGGGATTTCACAATTTCTTCTCAAATAGCATCCTTGTAGAAAC
1 A--AAAA-CGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGC
* * * * * * * *
14513591 AATTTTATACTATTTGCTCTGCAACGTCAGAAAAAAAATTATTTCTTACATGACCTACTATA-GC
63 GATTTTATACTATTTGCTCAGAAACGTCA-ACAAATAATT-TAT-TT-C--GACCTA-AATACCC
14513655 -
121 T
*
14513655 AAAAACGCGTCCACGAGAGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCGAT
1 AAAAACGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCGAT
*
14513720 TTTATACTATTTGAC-CAGAAACGTCAACTCGATATAATTTATTTCGGAACCTAAATACCCT
66 TTTATACTATTTG-CTCAGAAACGTCAA--C-AAATAATTTATTTC-G-ACCTAAATACCCT
14513781 AAAAA
1 AAAAA
14513786 GCTTGAACCC
Statistics
Matches: 214, Mismatches: 30, Indels: 29
0.78 0.11 0.11
Matches are distributed among these distances:
123 1 0.00
124 4 0.02
125 11 0.05
126 164 0.77
127 15 0.07
128 8 0.04
129 3 0.01
130 2 0.01
131 6 0.03
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (121 bp):
AAAAACGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCGAT
TTTATACTATTTGCTCAGAAACGTCAACAAATAATTTATTTCGACCTAAATACCCT
Found at i:14515369 original size:17 final size:17
Alignment explanation
Indices: 14515347--14515380 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14515337 TAAATAATAG
*
14515347 ATAAATCAATTTTTTTA
1 ATAAATCAATTATTTTA
*
14515364 ATAAATTAATTATTTTA
1 ATAAATCAATTATTTTA
14515381 TTTTATCTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAAATCAATTATTTTA
Found at i:14516889 original size:104 final size:104
Alignment explanation
Indices: 14516772--14516980 Score: 418
Period size: 104 Copynumber: 2.0 Consensus size: 104
14516762 TTTTTATAGT
14516772 TAAATAAGCCCTTAACTTATGGTTTTTACTCATAAAAGCCATTTATTTTAATATTAAAGTAAATA
1 TAAATAAGCCCTTAACTTATGGTTTTTACTCATAAAAGCCATTTATTTTAATATTAAAGTAAATA
14516837 TATTTTGAATTTCAAGCTCTTATCTTAATTTTTTGTTGA
66 TATTTTGAATTTCAAGCTCTTATCTTAATTTTTTGTTGA
14516876 TAAATAAGCCCTTAACTTATGGTTTTTACTCATAAAAGCCATTTATTTTAATATTAAAGTAAATA
1 TAAATAAGCCCTTAACTTATGGTTTTTACTCATAAAAGCCATTTATTTTAATATTAAAGTAAATA
14516941 TATTTTGAATTTCAAGCTCTTATCTTAATTTTTTGTTGA
66 TATTTTGAATTTCAAGCTCTTATCTTAATTTTTTGTTGA
14516980 T
1 T
14516981 GCAATAGAAA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 105 1.00
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.46
Consensus pattern (104 bp):
TAAATAAGCCCTTAACTTATGGTTTTTACTCATAAAAGCCATTTATTTTAATATTAAAGTAAATA
TATTTTGAATTTCAAGCTCTTATCTTAATTTTTTGTTGA
Found at i:14517155 original size:132 final size:132
Alignment explanation
Indices: 14517005--14517283 Score: 558
Period size: 132 Copynumber: 2.1 Consensus size: 132
14516995 ATACACTTTA
14517005 ACATCAACATAAAATCTAAAAAAGTAATTAAAAATTTCAAAAGAGTAGTTAAAAATATCATGTAT
1 ACATCAACATAAAATCTAAAAAAGTAATTAAAAATTTCAAAAGAGTAGTTAAAAATATCATGTAT
14517070 ATAAGCACTCTCAAGAAATTTTAAAATTTTATTTATTTTTATTTAATAAACTATTCTCATCAAAT
66 ATAAGCACTCTCAAGAAATTTTAAAATTTTATTTATTTTTATTTAATAAACTATTCTCATCAAAT
14517135 AC
131 AC
14517137 ACATCAACATAAAATCTAAAAAAGTAATTAAAAATTTCAAAAGAGTAGTTAAAAATATCATGTAT
1 ACATCAACATAAAATCTAAAAAAGTAATTAAAAATTTCAAAAGAGTAGTTAAAAATATCATGTAT
14517202 ATAAGCACTCTCAAGAAATTTTAAAATTTTATTTATTTTTATTTAATAAACTATTCTCATCAAAT
66 ATAAGCACTCTCAAGAAATTTTAAAATTTTATTTATTTTTATTTAATAAACTATTCTCATCAAAT
14517267 AC
131 AC
14517269 ACATCAACATAAAAT
1 ACATCAACATAAAAT
14517284 GTGAATTAGT
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 147 1.00
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (132 bp):
ACATCAACATAAAATCTAAAAAAGTAATTAAAAATTTCAAAAGAGTAGTTAAAAATATCATGTAT
ATAAGCACTCTCAAGAAATTTTAAAATTTTATTTATTTTTATTTAATAAACTATTCTCATCAAAT
AC
Found at i:14524926 original size:86 final size:86
Alignment explanation
Indices: 14524820--14525076 Score: 320
Period size: 86 Copynumber: 3.0 Consensus size: 86
14524810 AATCTGTAAC
* *
14524820 CTTTAACCAGCTCCAATGCAACCGATGGAGGCAAGGCTTTGTTTTTGATCTGCTTTGCTGTTAAT
1 CTTTAACCAGCTCC-ATGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
14524885 GCAGGAAGGCAAGATCTGCT-T
65 GCAGGAAGGCAAGATCTGCTGT
* * * * *
14524906 CTTTAACTAGCTCCACTGCAATCGATGGACGCAAGACTTTGTTTTCAATCTGCTTCGCTGTTAAT
1 CTTTAACCAGCTCCA-TGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
* **
14524971 GTAGGAAGGCAAGATCTTTTGT
65 GCAGGAAGGCAAGATCTGCTGT
* * * **
14524993 CTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTTA
1 CTTTAACCAGCTCCAT-GCAACCGATGGAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTA
14525057 ATGCAGGAAGGCAAGATCTG
63 ATGCAGGAAGGCAAGATCTG
14525077 TAACTTCATT
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
85 1 0.01
86 79 0.55
87 27 0.19
88 37 0.26
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (86 bp):
CTTTAACCAGCTCCATGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
CAGGAAGGCAAGATCTGCTGT
Found at i:14526828 original size:41 final size:42
Alignment explanation
Indices: 14526732--14526828 Score: 97
Period size: 41 Copynumber: 2.3 Consensus size: 42
14526722 TGGCCTCTTC
* * *
14526732 TTTTCTTTTCTTTACTTTTCATATTTCTATTTTGACTTTGAT
1 TTTTTTTTTTTTTTCTTTTCATATTTCTATTTTGACTTTGAT
** * * * * *
14526774 TGATTTCTCTTTTTCTTTTTAT-TTTTTATTTTGATTTTGAT
1 TTTTTTTTTTTTTTCTTTTCATATTTCTATTTTGACTTTGAT
14526815 TTTTTTTTTTTTTT
1 TTTTTTTTTTTTTT
14526829 TTCCTTTTCC
Statistics
Matches: 41, Mismatches: 14, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
41 27 0.66
42 14 0.34
ACGTcount: A:0.11, C:0.09, G:0.05, T:0.74
Consensus pattern (42 bp):
TTTTTTTTTTTTTTCTTTTCATATTTCTATTTTGACTTTGAT
Found at i:14529406 original size:19 final size:20
Alignment explanation
Indices: 14529377--14529425 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
14529367 CACTTCGTGA
* *
14529377 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAGATGCATG
*
14529396 CAATGTAATGCAGATGCATG
1 AAATGTAATGCAGATGCATG
14529416 AAATG-AATGC
1 AAATGTAATGC
14529426 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAGATGCATG
Found at i:14532570 original size:14 final size:15
Alignment explanation
Indices: 14532547--14532580 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
14532537 CAAAGAAAAA
14532547 AAAACAAAATAAGAG
1 AAAACAAAATAAGAG
14532562 AAAAC-AAATAAGAG
1 AAAACAAAATAAGAG
14532576 AAAAC
1 AAAAC
14532581 CAAGAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.74, C:0.09, G:0.12, T:0.06
Consensus pattern (15 bp):
AAAACAAAATAAGAG
Found at i:14532588 original size:14 final size:14
Alignment explanation
Indices: 14532537--14532588 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
14532527 AATAGATTTG
* *
14532537 CAAAGAAAAAAAAA
1 CAAAGAAGAGAAAA
*
14532551 CAAAATAAGAGAAAA
1 C-AAAGAAGAGAAAA
*
14532566 CAAATAAGAGAAAA
1 CAAAGAAGAGAAAA
*
14532580 CCAAGAAGA
1 CAAAGAAGA
14532589 AATAGCAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.73, C:0.10, G:0.13, T:0.04
Consensus pattern (14 bp):
CAAAGAAGAGAAAA
Found at i:14535571 original size:17 final size:16
Alignment explanation
Indices: 14535529--14535571 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
14535519 TTATTTTGAG
14535529 CTTTGAAAATTTTTAAA
1 CTTT-AAAATTTTTAAA
* *
14535546 ATTTCAAATTTCTTAAA
1 CTTTAAAATTT-TTAAA
14535563 CTTTAAAAT
1 CTTTAAAAT
14535572 GCATAAAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (16 bp):
CTTTAAAATTTTTAAA
Found at i:14540018 original size:43 final size:43
Alignment explanation
Indices: 14539923--14540087 Score: 170
Period size: 43 Copynumber: 3.8 Consensus size: 43
14539913 TTGGACAAGT
* ** * * * *
14539923 CGAAACAATTATACTGATACGCGTAGTGCATCATCAAATAAATC
1 CGAAGCAATTATACTGGCACACATAGTGCATCATCGAATATA-C
* *
14539967 AGAA-CAATTATACTGGCACACATAGTGCATCATTGAATATAC
1 CGAAGCAATTATACTGGCACACATAGTGCATCATCGAATATAC
* ** * * * *
14540009 CGAAGCAATTATGCTAACACATACAGTGCATTATCGGATATAC
1 CGAAGCAATTATACTGGCACACATAGTGCATCATCGAATATAC
14540052 CGAAGCAATTATACTGGCACACATAGTGCATCATCG
1 CGAAGCAATTATACTGGCACACATAGTGCATCATCG
14540088 GATAAATCAA
Statistics
Matches: 97, Mismatches: 23, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
42 4 0.04
43 90 0.93
44 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (43 bp):
CGAAGCAATTATACTGGCACACATAGTGCATCATCGAATATAC
Found at i:14540019 original size:86 final size:85
Alignment explanation
Indices: 14539923--14540085 Score: 195
Period size: 86 Copynumber: 1.9 Consensus size: 85
14539913 TTGGACAAGT
* *
14539923 CGAAACAATTATACTGATACGCGT-AGTGCATCATCAAATAAATCAGAA-CAATTATACTGGCAC
1 CGAAACAATTATACT-A-ACACATAAGTGCATCATCAAATAAA-CAGAAGCAATTATACTGGCAC
14539986 ACATAGTGCATCATTGAATATAC
63 ACATAGTGCATCATTGAATATAC
* * * ** * *
14540009 CGAAGCAATTATGCTAACACATACAGTGCATTATCGGATATACCGAAGCAATTATACTGGCACAC
1 CGAAACAATTATACTAACACATA-AGTGCATCATCAAATAAACAGAAGCAATTATACTGGCACAC
14540074 ATAGTGCATCAT
65 ATAGTGCATCAT
14540086 CGGATAAATC
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
84 4 0.06
85 5 0.08
86 56 0.86
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (85 bp):
CGAAACAATTATACTAACACATAAGTGCATCATCAAATAAACAGAAGCAATTATACTGGCACACA
TAGTGCATCATTGAATATAC
Found at i:14544998 original size:16 final size:17
Alignment explanation
Indices: 14544977--14545008 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14544967 CATTGGAAGC
14544977 AAATT-AAAAATTTTTG
1 AAATTAAAAAATTTTTG
14544993 AAATTAAAAAATTTTT
1 AAATTAAAAAATTTTT
14545009 AATTTTAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
AAATTAAAAAATTTTTG
Found at i:14547022 original size:14 final size:15
Alignment explanation
Indices: 14546989--14547017 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14546979 TTCAACTTTT
14546989 AATT-TTAAAATTTA
1 AATTATTAAAATTTA
14547003 AATTATTAAAATTTA
1 AATTATTAAAATTTA
14547018 TTTATAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTATTAAAATTTA
Found at i:14552037 original size:2 final size:2
Alignment explanation
Indices: 14552030--14552060 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14552020 ATTTATCAAG
14552030 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14552061 AATAAGGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14555071 original size:11 final size:11
Alignment explanation
Indices: 14555055--14555096 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
14555045 ATAATGGCAA
14555055 CAAAATAATAG
1 CAAAATAATAG
14555066 CAAAATAATAG
1 CAAAATAATAG
** *
14555077 TGAAATGATAG
1 CAAAATAATAG
14555088 CAAAATAAT
1 CAAAATAAT
14555097 GAAAAAATAG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.60, C:0.07, G:0.12, T:0.21
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:14555104 original size:22 final size:22
Alignment explanation
Indices: 14555056--14555102 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
14555046 TAATGGCAAC
*
14555056 AAAATAATAGCAAAATAATAGT
1 AAAATAATAGCAAAATAATAGA
* *
14555078 GAAATGATAGCAAAATAAT-GA
1 AAAATAATAGCAAAATAATAGA
14555099 AAAA
1 AAAA
14555103 ATAGTGTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.64, C:0.04, G:0.13, T:0.19
Consensus pattern (22 bp):
AAAATAATAGCAAAATAATAGA
Found at i:14555689 original size:29 final size:29
Alignment explanation
Indices: 14555648--14555703 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
14555638 TACCTTTTAC
14555648 ATAATTTTTAAATTAT-AAAAATAATTTT
1 ATAATTTTTAAATTATAAAAAATAATTTT
*
14555676 ATAATTTTTTAAATTTTAAAAAATAATT
1 ATAA-TTTTTAAATTATAAAAAATAATT
14555704 AAATGCTGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 4 0.16
29 11 0.44
30 10 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
ATAATTTTTAAATTATAAAAAATAATTTT
Found at i:14555706 original size:47 final size:47
Alignment explanation
Indices: 14555616--14555707 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 47
14555606 TAGAAAATAT
* ** * * **
14555616 TAAAAATATTTTTATAATTTTATACCTTTTACATAATTTTTAAATTA
1 TAAAAATAATTTTATAATTTTATAAATTTTAAAAAATAATTAAATTA
*
14555663 TAAAAATAATTTTATAATTTTTTAAATTTTAAAAAATAATTAAAT
1 TAAAAATAATTTTATAATTTTATAAATTTTAAAAAATAATTAAAT
14555708 GCTGACATGT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (47 bp):
TAAAAATAATTTTATAATTTTATAAATTTTAAAAAATAATTAAATTA
Found at i:14557253 original size:23 final size:23
Alignment explanation
Indices: 14557218--14557268 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
14557208 ATATTACAAT
*
14557218 AATACTTTTATATAAAATATTTA
1 AATACTTTTATATAAAATAATTA
14557241 AATA-TTTTCATATAAAATAATTA
1 AATACTTTT-ATATAAAATAATTA
14557264 AATAC
1 AATAC
14557269 AACAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (23 bp):
AATACTTTTATATAAAATAATTA
Found at i:14559723 original size:27 final size:27
Alignment explanation
Indices: 14559650--14559728 Score: 65
Period size: 27 Copynumber: 2.9 Consensus size: 27
14559640 TTTTCTCTCT
*
14559650 AAAAATGGCATAT-TCTCATAAATA-TA
1 AAAAATGGCATATATAT-ATAAATATTA
* * *
14559676 AAAGAATGACCTA-AAATTATAAATATTA
1 AAA-AATGGCATATATA-TATAAATATTA
*
14559704 AAAAATGGCATATATATATATATAT
1 AAAAATGGCATATATATATAAATAT
14559729 AAATTACTCG
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
26 3 0.08
27 29 0.73
28 8 0.20
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAAATGGCATATATATATAAATATTA
Found at i:14565661 original size:18 final size:18
Alignment explanation
Indices: 14565603--14565661 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
14565593 TGATTAGACC
* * *
14565603 CAACGTGAGTAGGAGGGT
1 CAACTTGAGCAGGAGAGT
* *
14565621 CAACATGAGCATGAGAGT
1 CAACTTGAGCAGGAGAGT
*
14565639 CAACTTGAGGAGGAGAGT
1 CAACTTGAGCAGGAGAGT
14565657 CAACT
1 CAACT
14565662 ATAAGTAAGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.34, C:0.15, G:0.34, T:0.17
Consensus pattern (18 bp):
CAACTTGAGCAGGAGAGT
Found at i:14571687 original size:35 final size:35
Alignment explanation
Indices: 14571646--14571719 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
14571636 TCACACAAAA
14571646 TATTTTTGGGCACATCCCCTTCAATTACAGATATT
1 TATTTTTGGGCACATCCCCTTCAATTACAGATATT
14571681 TATTTTTGGGCACATCCCCTTCAATTACAGATATT
1 TATTTTTGGGCACATCCCCTTCAATTACAGATATT
14571716 TATT
1 TATT
14571720 CGTGTATTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.42
Consensus pattern (35 bp):
TATTTTTGGGCACATCCCCTTCAATTACAGATATT
Found at i:14572228 original size:27 final size:27
Alignment explanation
Indices: 14572190--14572267 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
14572180 TAGTATTGAC
*
14572190 GCCTATCTCAGAAGCGCCAATGGTGGT
1 GCCTATCTCAGAGGCGCCAATGGTGGT
* **
14572217 GCCTATCTCAGAGGCGCCATTATTGGT
1 GCCTATCTCAGAGGCGCCAATGGTGGT
*
14572244 GCC-ATACTGAGAGGCGCCAATGGT
1 GCCTAT-CTCAGAGGCGCCAATGGT
14572268 CTGATTTTTC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.05
27 40 0.95
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (27 bp):
GCCTATCTCAGAGGCGCCAATGGTGGT
Found at i:14572756 original size:8 final size:8
Alignment explanation
Indices: 14572743--14572860 Score: 67
Period size: 8 Copynumber: 15.4 Consensus size: 8
14572733 CATACAAAAA
14572743 ATTACAAT
1 ATTACAAT
14572751 ATTACAAT
1 ATTACAAT
* * *
14572759 ATATCCCGAC
1 AT-T-ACAAT
14572769 ATTACAAT
1 ATTACAAT
*
14572777 ATTCATACAAA
1 A-T--TACAAT
14572788 ATTACAAT
1 ATTACAAT
14572796 ATTACAAT
1 ATTACAAT
14572804 ATT-C-AT
1 ATTACAAT
*
14572810 A--A-AAA
1 ATTACAAT
14572815 ATTACAAT
1 ATTACAAT
14572823 ATTACAAT
1 ATTACAAT
14572831 ATT-C-AT
1 ATTACAAT
*
14572837 A--A-AAA
1 ATTACAAT
14572842 ATTACAAT
1 ATTACAAT
14572850 ATTACAAT
1 ATTACAAT
14572858 ATT
1 ATT
14572861 CATACAAAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
5 4 0.05
6 6 0.07
7 4 0.05
8 55 0.66
9 3 0.04
10 5 0.06
11 6 0.07
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.34
Consensus pattern (8 bp):
ATTACAAT
Found at i:14572793 original size:19 final size:19
Alignment explanation
Indices: 14572769--14573104 Score: 146
Period size: 19 Copynumber: 18.2 Consensus size: 19
14572759 ATATCCCGAC
14572769 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
14572788 ATTACAATA-T--TACAAT
1 ATTACAATATTCATACAAA
*** *
14572804 ATT-C-ATAAAAAATTACAAT
1 ATTACAAT-ATTCA-TACAAA
*
14572823 ATTACAATATTCATAAAAA
1 ATTACAATATTCATACAAA
*
14572842 ATTACAATA-T--TACAAT
1 ATTACAATATTCATACAAA
*
14572858 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
**
14572872 ATTGTAATATTCATACAAA
1 ATTACAATATTCATACAAA
* *
14572891 ATTATAATA-T--TACAAT
1 ATTACAATATTCATACAAA
*
14572907 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
*
14572921 ATTAAAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
14572940 ATTACAATATTCATATAAAAA
1 ATTACAATATTC--ATACAAA
14572961 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
* * *
14572980 A-TACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-A-AA
*
14573000 A-TACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATACAA-A
*
14573022 ATTACAATATTCATACAAC
1 ATTACAATATTCATACAAA
* *
14573041 ATTAGAATATTCATAAAAAA
1 ATTACAATATTCAT-ACAAA
14573061 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
*
14573082 AGTTAGAATATTCATACAAA
1 A-TTACAATATTCATACAAA
14573102 ATT
1 ATT
14573105 TTAATCTAAA
Statistics
Matches: 241, Mismatches: 38, Indels: 76
0.68 0.11 0.21
Matches are distributed among these distances:
14 20 0.08
15 3 0.01
16 29 0.12
17 3 0.01
18 14 0.06
19 85 0.35
20 35 0.15
21 26 0.11
22 19 0.08
23 5 0.02
25 2 0.01
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:14572805 original size:27 final size:27
Alignment explanation
Indices: 14572769--14572971 Score: 242
Period size: 27 Copynumber: 8.1 Consensus size: 27
14572759 ATATCCCGAC
14572769 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
*
14572796 ATTACAATATTCATAAAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
*
14572823 ATTACAATATTCATAAAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
14572850 ATTACAATATTCATACAAAA--A-AAT
1 ATTACAATATTCATACAAAATTACAAT
*
14572874 -TGT--AATATTCATACAAAATTATAAT
1 AT-TACAATATTCATACAAAATTACAAT
14572899 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
*
14572921 ATTAAAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
14572948 ATT-C-ATA-T-A-A-AAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
14572969 ATT
1 ATT
14572972 CATACAAAAT
Statistics
Matches: 160, Mismatches: 4, Indels: 30
0.82 0.02 0.15
Matches are distributed among these distances:
21 14 0.09
22 31 0.19
23 7 0.04
24 7 0.04
25 9 0.06
26 6 0.04
27 86 0.54
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.33
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:14572889 original size:41 final size:41
Alignment explanation
Indices: 14572844--14573100 Score: 156
Period size: 49 Copynumber: 6.1 Consensus size: 41
14572834 CATAAAAAAT
**
14572844 TACAATATTACAATATTCATACAAAAAAATTGTAATATTCA
1 TACAATATTACAATATTCATACAAAAAAATTAAAATATTCA
14572885 TACAAAATTATAATATTACAATATTCATACAAAAAAATTAAAATATTCA
1 TAC--------AATATTACAATATTCATACAAAAAAATTAAAATATTCA
* * *
14572934 TACAAAATTACAATATTCATA-TAAAAAATTACAATATTCA
1 TACAATATTACAATATTCATACAAAAAAATTAAAATATTCA
* * * *
14572974 TACAA-AATACTA-ATCCA-A-AACTATAAA-TACAAATTTAATT-A
1 TACAATATTACAATATTCATACAA--AAAAATTA-AAA--T-ATTCA
* * *
14573015 TAAAATAATTACAATATTCATAC---AACATTAGAATATTCA
1 TACAAT-ATTACAATATTCATACAAAAAAATTAAAATATTCA
* * * *
14573054 TAAAAAAATTACAATATTCATACAAAAAAGTTAGAATATTCA
1 T-ACAATATTACAATATTCATACAAAAAAATTAAAATATTCA
14573096 TACAA
1 TACAA
14573101 AATTTTAATC
Statistics
Matches: 169, Mismatches: 22, Indels: 50
0.70 0.09 0.21
Matches are distributed among these distances:
37 2 0.01
38 9 0.05
39 30 0.18
40 26 0.15
41 33 0.20
42 20 0.12
43 5 0.03
44 4 0.02
45 1 0.01
49 39 0.23
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.32
Consensus pattern (41 bp):
TACAATATTACAATATTCATACAAAAAAATTAAAATATTCA
Found at i:14572900 original size:49 final size:48
Alignment explanation
Indices: 14572774--14572950 Score: 246
Period size: 49 Copynumber: 3.5 Consensus size: 48
14572764 CCGACATTAC
*
14572774 AATATTCATACAAAATTACAATATTACAATATTCATAAAAAATTACAATATT
1 AATATTCATACAAAATTACAATATTACAATATTCATACAAAA--A-AAT-TT
*
14572826 ACAATATTCATAAAAAATTACAATATTACAATATTCATACAAAAAAATTGT
1 --AATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATT-T
* *
14572877 AATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTAA
1 AATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATT-T
14572926 AATATTCATACAAAATTACAATATT
1 AATATTCATACAAAATTACAATATT
14572951 CATATAAAAA
Statistics
Matches: 115, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
49 69 0.60
50 1 0.01
51 4 0.03
52 1 0.01
54 40 0.35
ACGTcount: A:0.55, C:0.11, G:0.01, T:0.33
Consensus pattern (48 bp):
AATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTT
Found at i:14573057 original size:39 final size:41
Alignment explanation
Indices: 14573014--14573102 Score: 128
Period size: 39 Copynumber: 2.2 Consensus size: 41
14573004 AAATTTAATT
* *
14573014 ATAAAATAATTACAATATTCATAC-AACA-TTAGAATATTC
1 ATAAAAAAATTACAATATTCATACAAAAAGTTAGAATATTC
14573053 ATAAAAAAATTACAATATTCATACAAAAAAGTTAGAATATTC
1 ATAAAAAAATTACAATATTCATAC-AAAAAGTTAGAATATTC
*
14573095 ATACAAAA
1 ATAAAAAA
14573103 TTTTAATCTA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 23 0.52
41 3 0.07
42 18 0.41
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.29
Consensus pattern (41 bp):
ATAAAAAAATTACAATATTCATACAAAAAGTTAGAATATTC
Found at i:14573092 original size:61 final size:60
Alignment explanation
Indices: 14572844--14573101 Score: 188
Period size: 61 Copynumber: 4.1 Consensus size: 60
14572834 CATAAAAAAT
**
14572844 TACAATATTACAATATTCATACAAAAAAATTGTAATATTCATACAAAATTATAATATTACAATAT
1 TACAA-ATTACAATATTCAT--AAAAAAATTACAATATTCATAC-AAA--AT-A-ATTACAATAT
14572909 TCA
58 TCA
* * *
14572912 TACAAAAAAATTAAAATATTCAT-ACAAAATTACAATATTCATATAAAA-AATTACAATATTCA
1 TAC----AAATTACAATATTCATAAAAAAATTACAATATTCATACAAAATAATTACAATATTCA
* * * * *
14572974 TACAAAATACTA-ATCCA-AAACTATAAA-TACAA-ATTTAATTATAAAATAATTACAATATTCA
1 TACAAATTACAATATTCATAAA--A-AAATTACAATA-TTCA-TACAAAATAATTACAATATTCA
* *
14573035 TACAACATTAGAATATTCATAAAAAAATTACAATATTCATACAAAA-AAGTTAGAATATTCA
1 TACAA-ATTACAATATTCATAAAAAAATTACAATATTCATACAAAATAA-TTACAATATTCA
14573096 TACAAA
1 TACAAA
14573102 ATTTTAATCT
Statistics
Matches: 155, Mismatches: 18, Indels: 42
0.72 0.08 0.20
Matches are distributed among these distances:
57 5 0.03
58 7 0.05
59 9 0.06
60 13 0.08
61 44 0.28
62 29 0.19
63 6 0.04
64 3 0.02
65 1 0.01
67 3 0.02
68 20 0.13
71 13 0.08
72 2 0.01
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (60 bp):
TACAAATTACAATATTCATAAAAAAATTACAATATTCATACAAAATAATTACAATATTCA
Found at i:14573102 original size:22 final size:21
Alignment explanation
Indices: 14572850--14572980 Score: 74
Period size: 21 Copynumber: 6.0 Consensus size: 21
14572840 AAATTACAAT
*
14572850 ATTACAATATTCATACAAAAAA
1 ATTAGAATATTCATAC-AAAAA
14572872 ATT-GTAATATTCATAC--AAA
1 ATTAG-AATATTCATACAAAAA
*
14572891 ATTATAATATTACAATATTCATACAAAA
1 ATTAGAATATT-C-ATA--C--A-AAAA
*
14572919 AAATTAAAATATTCATAC--AAA
1 --ATTAGAATATTCATACAAAAA
* *
14572940 ATTACAATATTCATATAAAAA
1 ATTAGAATATTCATACAAAAA
*
14572961 ATTACAATATTCATACAAAA
1 ATTAGAATATTCATACAAAA
14572981 TACTAATCCA
Statistics
Matches: 88, Mismatches: 6, Indels: 31
0.70 0.05 0.25
Matches are distributed among these distances:
19 26 0.30
20 1 0.01
21 28 0.32
22 14 0.16
23 1 0.01
26 1 0.01
28 6 0.07
29 1 0.01
30 10 0.11
ACGTcount: A:0.56, C:0.11, G:0.01, T:0.32
Consensus pattern (21 bp):
ATTAGAATATTCATACAAAAA
Found at i:14573131 original size:61 final size:60
Alignment explanation
Indices: 14572945--14573131 Score: 166
Period size: 61 Copynumber: 3.1 Consensus size: 60
14572935 ACAAAATTAC
* *
14572945 AATATTCATATAAAAAATTACAATATTCATACAAAA-TACTAATCCAAAACTATAAATAC-A
1 AATATTCATATAAAAAATTACAATATTCATACAAAATTA-TAAT-CTAAACTATAAAAACTA
* * * * ** * *
14573005 AAT-TTAATTATAAAATAATTACAATATTCATACAACATTAGAATATTCA-TAAAAAAATTA
1 AATATTCA-TATAAAA-AATTACAATATTCATACAAAATTATAATCTAAACTATAAAAACTA
* * * *
14573065 CAATATTCATACAAAAAAGTTAGAATATTCATACAAAATTTTAATCTAAACTATAAACACTA
1 -AATATTCATATAAAAAA-TTACAATATTCATACAAAATTATAATCTAAACTATAAAAACTA
14573127 AATAT
1 AATAT
14573132 AGATAATTTA
Statistics
Matches: 97, Mismatches: 22, Indels: 15
0.72 0.16 0.11
Matches are distributed among these distances:
59 9 0.09
60 14 0.14
61 61 0.63
62 13 0.13
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.32
Consensus pattern (60 bp):
AATATTCATATAAAAAATTACAATATTCATACAAAATTATAATCTAAACTATAAAAACTA
Found at i:14573904 original size:36 final size:36
Alignment explanation
Indices: 14573835--14573905 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 36
14573825 TTTAGAACAC
*
14573835 AAATGTGTGTTTAAAAATATTATATAATAAATAATG
1 AAATGTATGTTTAAAAATATTATATAATAAATAATG
*
14573871 AAATGTATGGTTTAAAACTAATTA-ATAAT-AATAAT
1 AAATGTAT-GTTTAAAAAT-ATTATATAATAAATAAT
14573906 AACATATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.42
37 14 0.45
38 4 0.13
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.38
Consensus pattern (36 bp):
AAATGTATGTTTAAAAATATTATATAATAAATAATG
Found at i:14574519 original size:19 final size:19
Alignment explanation
Indices: 14574495--14574532 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14574485 AAATCCCGAG
14574495 TTAATCAAGTGGACGAGTC
1 TTAATCAAGTGGACGAGTC
14574514 TTAATCAAGTGGACGAGTC
1 TTAATCAAGTGGACGAGTC
14574533 ATATTTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (19 bp):
TTAATCAAGTGGACGAGTC
Found at i:14587614 original size:17 final size:17
Alignment explanation
Indices: 14587592--14587653 Score: 81
Period size: 17 Copynumber: 3.5 Consensus size: 17
14587582 ACATAACCAT
14587592 TTTAGCATAAAATTAAA
1 TTTAGCATAAAATTAAA
*
14587609 TTTAGCATAACA-TAACCA
1 TTTAGCATAAAATTAA--A
14587627 TTTTAGCATAAAATTAAA
1 -TTTAGCATAAAATTAAA
14587645 TTTAGCATA
1 TTTAGCATA
14587654 CCAATTACCT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.08
17 20 0.51
18 2 0.05
19 11 0.28
20 3 0.08
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.35
Consensus pattern (17 bp):
TTTAGCATAAAATTAAA
Found at i:14587620 original size:36 final size:36
Alignment explanation
Indices: 14587580--14587653 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
14587570 GTGAATCATG
14587580 TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
1 TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
14587616 TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
1 TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
14587652 TA
1 TA
14587654 CCAATTACCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (36 bp):
TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
Found at i:14587633 original size:19 final size:19
Alignment explanation
Indices: 14587580--14587637 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
14587570 GTGAATCATG
14587580 TAACATAACCATTTTAGCA
1 TAACATAACCATTTTAGCA
*
14587599 TAAAATTAA--A-TTTAGCA
1 TAACA-TAACCATTTTAGCA
14587616 TAACATAACCATTTTAGCA
1 TAACATAACCATTTTAGCA
14587635 TAA
1 TAA
14587638 AATTAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
16 3 0.09
17 11 0.33
18 2 0.06
19 14 0.42
20 3 0.09
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.33
Consensus pattern (19 bp):
TAACATAACCATTTTAGCA
Found at i:14588848 original size:33 final size:33
Alignment explanation
Indices: 14588811--14588877 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
14588801 AAAATTGGAA
14588811 AATTTGCCCAATGGCGACTCTCACATTTCCCTT
1 AATTTGCCCAATGGCGACTCTCACATTTCCCTT
14588844 AATTTGCCCAATGGCGACTCTCACATTTCCCTT
1 AATTTGCCCAATGGCGACTCTCACATTTCCCTT
14588877 A
1 A
14588878 CTTTACCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.22, C:0.33, G:0.12, T:0.33
Consensus pattern (33 bp):
AATTTGCCCAATGGCGACTCTCACATTTCCCTT
Found at i:14589873 original size:18 final size:18
Alignment explanation
Indices: 14589852--14589889 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14589842 TATTTGAATT
14589852 TGCATATGTATCTGTAAC
1 TGCATATGTATCTGTAAC
* *
14589870 TGCATCTGTATTTGTAAC
1 TGCATATGTATCTGTAAC
14589888 TG
1 TG
14589890 ATTTGTCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (18 bp):
TGCATATGTATCTGTAAC
Found at i:14593260 original size:46 final size:46
Alignment explanation
Indices: 14593180--14593457 Score: 450
Period size: 46 Copynumber: 6.0 Consensus size: 46
14593170 ACATTGCTAT
*
14593180 AACTCAGTATGGTTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGG-TTTTCTTCACCGAAATACCATACCTACTTTTCAC
*
14593227 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* *
14593273 AACTCAGTATGGTTTTCTTTACC-AGAATACCATACCCACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGA-AATACCATACCTACTTTTCAC
*
14593319 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* *
14593365 AACTTAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* *
14593411 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
14593457 A
1 A
14593458 CTTTGCCATG
Statistics
Matches: 218, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
45 1 0.00
46 204 0.94
47 13 0.06
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
Found at i:14597456 original size:13 final size:13
Alignment explanation
Indices: 14597438--14597462 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14597428 ATTGCTTAAA
14597438 AATAATATCCCAT
1 AATAATATCCCAT
14597451 AATAATATCCCA
1 AATAATATCCCA
14597463 ACAATTTCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAATATCCCAT
Found at i:14600823 original size:22 final size:24
Alignment explanation
Indices: 14600781--14600825 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
14600771 TAACTAAGTT
14600781 TACTTGCTTTTCTAACTTAATTCA
1 TACTTGCTTTTCTAACTTAATTCA
14600805 TACTT-CTTTTCT-ACTTAATTC
1 TACTTGCTTTTCTAACTTAATTC
14600826 CTTGCCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.43
23 7 0.33
24 5 0.24
ACGTcount: A:0.22, C:0.22, G:0.02, T:0.53
Consensus pattern (24 bp):
TACTTGCTTTTCTAACTTAATTCA
Found at i:14601334 original size:19 final size:20
Alignment explanation
Indices: 14601310--14601348 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
14601300 ATTAATAAGC
14601310 AATACATAT-TTTATTATTA
1 AATACATATGTTTATTATTA
14601329 AATACATATGTTTATTATTA
1 AATACATATGTTTATTATTA
14601349 TTCCACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (20 bp):
AATACATATGTTTATTATTA
Found at i:14602113 original size:15 final size:15
Alignment explanation
Indices: 14602093--14602144 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
14602083 AATATAAAAC
14602093 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
14602108 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
14602127 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
14602142 ATT
1 ATT
14602145 AAAATTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:14602113 original size:31 final size:34
Alignment explanation
Indices: 14602078--14602144 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
14602068 TATTTTAACC
*
14602078 TTTATAA-TAT-A-AAACATTTATTATTAATATA
1 TTTATAATTATAATAAACATTTATTATTAAAATA
* *
14602109 TTTATAATTGTAATAAATATTTATTATTAAAATA
1 TTTATAATTATAATAAACATTTATTATTAAAATA
14602143 TT
1 TT
14602145 AAAATTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 7 0.23
32 2 0.07
33 1 0.03
34 20 0.67
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (34 bp):
TTTATAATTATAATAAACATTTATTATTAAAATA
Found at i:14602303 original size:17 final size:16
Alignment explanation
Indices: 14602284--14602339 Score: 85
Period size: 17 Copynumber: 3.4 Consensus size: 16
14602274 AATTATTATA
14602284 TAAATAATATAATAAT
1 TAAATAATATAATAAT
*
14602300 ATAAATAATATGATAAT
1 -TAAATAATATAATAAT
14602317 TAAATAATATAAATAAT
1 TAAATAATAT-AATAAT
14602334 TAAATA
1 TAAATA
14602340 TGTATGTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.28
17 26 0.72
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
TAAATAATATAATAAT
Found at i:14602337 original size:8 final size:8
Alignment explanation
Indices: 14602284--14602339 Score: 53
Period size: 8 Copynumber: 6.8 Consensus size: 8
14602274 AATTATTATA
14602284 TAAATAA-
1 TAAATAAT
14602291 TATAATAAT
1 TA-AATAAT
14602300 ATAAATAA-
1 -TAAATAAT
*
14602308 TATGATAAT
1 TA-AATAAT
14602317 TAAATAAT
1 TAAATAAT
14602325 ATAAATAAT
1 -TAAATAAT
14602334 TAAATA
1 TAAATA
14602340 TGTATGTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
7 4 0.10
8 20 0.49
9 15 0.37
10 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (8 bp):
TAAATAAT
Found at i:14602891 original size:23 final size:20
Alignment explanation
Indices: 14602861--14602910 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
14602851 GTTCATTAAA
14602861 TAAAAATAACATTTAAATATCAC
1 TAAAAATAAC-TTTAAA-AT-AC
*
14602884 TAAAAATATCTTTAAAATAC
1 TAAAAATAACTTTAAAATAC
14602904 TAAAAAT
1 TAAAAAT
14602911 GTGAAACACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.35
21 2 0.08
22 6 0.23
23 9 0.35
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAATAACTTTAAAATAC
Found at i:14605236 original size:8 final size:8
Alignment explanation
Indices: 14605212--14605252 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
14605202 TATGTGGTTG
14605212 ATGTGTAT
1 ATGTGTAT
* *
14605220 ACGTATAT
1 ATGTGTAT
14605228 ATGTGTAT
1 ATGTGTAT
14605236 ATGTGTAT
1 ATGTGTAT
14605244 ATGTGTAT
1 ATGTGTAT
14605252 A
1 A
14605253 CAACTTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.46
Consensus pattern (8 bp):
ATGTGTAT
Found at i:14608686 original size:23 final size:23
Alignment explanation
Indices: 14608662--14608706 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
14608652 AATGATATAT
*
14608662 TTTAATTATT-TTAATATTTTAA
1 TTTAATTATTATTAATATCTTAA
14608684 TTTAATTATTATTAATATCTTAA
1 TTTAATTATTATTAATATCTTAA
14608707 CAATTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTAATTATTATTAATATCTTAA
Found at i:14608713 original size:25 final size:22
Alignment explanation
Indices: 14608663--14608714 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 22
14608653 ATGATATATT
* *
14608663 TTAATTATTTTAATATTTTAAT
1 TTAATTATTTTAATATTTAAAA
14608685 TTAATTATTATTAATATCTTAACAA
1 TTAATTATT-TTAATAT-TTAA-AA
14608710 TTAAT
1 TTAAT
14608715 AATAGTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.36
23 7 0.28
24 3 0.12
25 6 0.24
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATTTTAATATTTAAAA
Found at i:14612328 original size:18 final size:18
Alignment explanation
Indices: 14612305--14612347 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14612295 TTTTGTCATT
*
14612305 ATATATTTTGAAAT-TAAA
1 ATATATATT-AAATATAAA
14612323 ATATATATTAAATATAAA
1 ATATATATTAAATATAAA
*
14612341 AAATATA
1 ATATATA
14612348 ATTTTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATATATATTAAATATAAA
Found at i:14612347 original size:38 final size:38
Alignment explanation
Indices: 14612304--14612388 Score: 89
Period size: 38 Copynumber: 2.2 Consensus size: 38
14612294 TTTTTGTCAT
* *
14612304 TATATATTTTGAAATTAAAATATATATTAAATATAAAAAA
1 TATA-ATTTTGAAATAAAAAT-TATATTAAAGATAAAAAA
** * *
14612344 TATAATTTTTTAATAAAAATTATCTTAAAGATAAAATA
1 TATAATTTTGAAATAAAAATTATATTAAAGATAAAAAA
*
14612382 TAAAATT
1 TATAATT
14612389 GATGCAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
38 21 0.55
39 13 0.34
40 4 0.11
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (38 bp):
TATAATTTTGAAATAAAAATTATATTAAAGATAAAAAA
Found at i:14613265 original size:16 final size:16
Alignment explanation
Indices: 14613244--14613285 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
14613234 CGTTCGGTTC
*
14613244 GCTGTAATGGAATAGA
1 GCTGTAATAGAATAGA
14613260 GCTGTAATAGAATAGA
1 GCTGTAATAGAATAGA
14613276 GGC-GTAATAG
1 -GCTGTAATAG
14613286 TAATTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 22 0.92
17 2 0.08
ACGTcount: A:0.38, C:0.07, G:0.31, T:0.24
Consensus pattern (16 bp):
GCTGTAATAGAATAGA
Found at i:14613629 original size:13 final size:12
Alignment explanation
Indices: 14613605--14613645 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
14613595 TATAATACTA
14613605 TAAAATATAATT
1 TAAAATATAATT
14613617 TAAAATAATAATT
1 TAAAAT-ATAATT
*
14613630 ATTAAATATAATT
1 -TAAAATATAATT
14613643 TAA
1 TAA
14613646 NCATTATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:14617266 original size:18 final size:18
Alignment explanation
Indices: 14617243--14617285 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14617233 TTTTGTCATT
*
14617243 ATATATTTTGAAAT-TAAA
1 ATATATATT-AAATATAAA
14617261 ATATATATTAAATATAAA
1 ATATATATTAAATATAAA
*
14617279 AAATATA
1 ATATATA
14617286 ATTTTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATATATATTAAATATAAA
Found at i:14617285 original size:38 final size:38
Alignment explanation
Indices: 14617242--14617326 Score: 89
Period size: 38 Copynumber: 2.2 Consensus size: 38
14617232 TTTTTGTCAT
* *
14617242 TATATATTTTGAAATTAAAATATATATTAAATATAAAAAA
1 TATA-ATTTTGAAATAAAAAT-TATATTAAAGATAAAAAA
** * *
14617282 TATAATTTTTTAATAAAAATTATCTTAAAGATAAAATA
1 TATAATTTTGAAATAAAAATTATATTAAAGATAAAAAA
*
14617320 TAAAATT
1 TATAATT
14617327 GATGCAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
38 21 0.55
39 13 0.34
40 4 0.11
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (38 bp):
TATAATTTTGAAATAAAAATTATATTAAAGATAAAAAA
Found at i:14618203 original size:16 final size:16
Alignment explanation
Indices: 14618182--14618223 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
14618172 CGTTCGGTTC
*
14618182 GCTGTAATGGAATAGA
1 GCTGTAATAGAATAGA
14618198 GCTGTAATAGAATAGA
1 GCTGTAATAGAATAGA
14618214 GGC-GTAATAG
1 -GCTGTAATAG
14618224 TAATTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 22 0.92
17 2 0.08
ACGTcount: A:0.38, C:0.07, G:0.31, T:0.24
Consensus pattern (16 bp):
GCTGTAATAGAATAGA
Found at i:14618493 original size:12 final size:12
Alignment explanation
Indices: 14618478--14618503 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14618468 AATATATAAT
14618478 TTAATAAAATTA
1 TTAATAAAATTA
14618490 TTAATAAAATTA
1 TTAATAAAATTA
14618502 TT
1 TT
14618504 CATATATGAA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTAATAAAATTA
Found at i:14618661 original size:12 final size:12
Alignment explanation
Indices: 14618644--14618670 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14618634 TTCTACAATA
14618644 AATATATAATTT
1 AATATATAATTT
14618656 AATATATAATTT
1 AATATATAATTT
14618668 AAT
1 AAT
14618671 TATTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATATATAATTT
Found at i:14618954 original size:32 final size:32
Alignment explanation
Indices: 14618918--14618979 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
14618908 TCATGTTGGT
14618918 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
14618950 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
14618980 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:14619576 original size:15 final size:15
Alignment explanation
Indices: 14619565--14619596 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
14619555 AATAAATTGG
14619565 AATATTAAAAATAAA
1 AATATTAAAAATAAA
14619580 AATATTAAAAATAAA
1 AATATTAAAAATAAA
14619595 AA
1 AA
14619597 AAATTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AATATTAAAAATAAA
Found at i:14619716 original size:23 final size:23
Alignment explanation
Indices: 14619669--14619716 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
14619659 TTTTTATTTT
**
14619669 AACTTGAATTACAAAAATATCCA
1 AACTTGAATTACAAAAATAAACA
14619692 AACTTGAATTACAAAAATAAACA
1 AACTTGAATTACAAAAATAAACA
14619715 AA
1 AA
14619717 TGCATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.58, C:0.15, G:0.04, T:0.23
Consensus pattern (23 bp):
AACTTGAATTACAAAAATAAACA
Found at i:14619848 original size:21 final size:24
Alignment explanation
Indices: 14619821--14619867 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
14619811 TTAAAAATAA
* *
14619821 TAAAAATA-AATTTAATTATTTTT
1 TAAATATATAATTTAATTAGTTTT
14619844 TAAATATATAATTTAATTAGTTTT
1 TAAATATATAATTTAATTAGTTTT
14619868 ATGCATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TAAATATATAATTTAATTAGTTTT
Found at i:14619867 original size:23 final size:23
Alignment explanation
Indices: 14619821--14619868 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
14619811 TTAAAAATAA
*
14619821 TAAAAATAAATTTAATTATTTTT
1 TAAAAATAAATTTAATTATGTTT
*
14619844 TAAATATATAATTTAATTA-GTTT
1 TAAAAATA-AATTTAATTATGTTT
14619867 TA
1 TA
14619869 TGCATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TAAAAATAAATTTAATTATGTTT
Found at i:14619993 original size:222 final size:222
Alignment explanation
Indices: 14619607--14620052 Score: 847
Period size: 222 Copynumber: 2.0 Consensus size: 222
14619597 AAATTAATTT
*
14619607 AATTTAATTAATTTTTAAATATATAATTTAATTATTTTTATGCATTTAATTATTTTTATTTTAAC
1 AATTTAATTAATTTTTAAATATATAATTTAATTAGTTTTATGCATTTAATTATTTTTATTTTAAC
14619672 TTGAATTACAAAAATATCCAAACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGA
66 TTGAATTACAAAAATATCCAAACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGA
14619737 AAAACAATTGCATAAAACCAATCCATAACAATAAAATTAAAACTAGAATAATAATTGAAAAATAA
131 AAAACAATTGCATAAAACCAATCCATAACAATAAAATTAAAACTAGAATAATAATTGAAAAATAA
14619802 TAGTTAAAATTAAAAATAATAAAAATA
196 TAGTTAAAATTAAAAATAATAAAAATA
*
14619829 AATTTAATTATTTTTTAAATATATAATTTAATTAGTTTTATGCATTTAATTATTTTTATTTTAAC
1 AATTTAATTAATTTTTAAATATATAATTTAATTAGTTTTATGCATTTAATTATTTTTATTTTAAC
* *
14619894 TTGAATTTCAAAAATATCCAAACTTGAATTACAAAAATAAACAATTGCATTATTTAGTAAATTGA
66 TTGAATTACAAAAATATCCAAACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGA
*
14619959 AAAACAATTGCATAAAACCAATCCATAACAATAAAATTAAAACTTGAATAATAATTGAAAAATAA
131 AAAACAATTGCATAAAACCAATCCATAACAATAAAATTAAAACTAGAATAATAATTGAAAAATAA
14620024 TAGTTAAAATTAAAAATAATAAAAATA
196 TAGTTAAAATTAAAAATAATAAAAATA
14620051 AA
1 AA
14620053 CTGTTTTGCA
Statistics
Matches: 219, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
222 219 1.00
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.37
Consensus pattern (222 bp):
AATTTAATTAATTTTTAAATATATAATTTAATTAGTTTTATGCATTTAATTATTTTTATTTTAAC
TTGAATTACAAAAATATCCAAACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGA
AAAACAATTGCATAAAACCAATCCATAACAATAAAATTAAAACTAGAATAATAATTGAAAAATAA
TAGTTAAAATTAAAAATAATAAAAATA
Found at i:14621193 original size:17 final size:18
Alignment explanation
Indices: 14621160--14621196 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
14621150 ATCGAGTCAT
14621160 AAAATTTCATTAATTATTA
1 AAAATTTCA-TAATTATTA
14621179 AAAATTTCA-AATTATTA
1 AAAATTTCATAATTATTA
14621196 A
1 A
14621197 CATGCGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATTTCATAATTATTA
Found at i:14623110 original size:33 final size:33
Alignment explanation
Indices: 14623069--14623131 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
14623059 TTTGGTCCTA
14623069 ATCCATCCATTTTCCTTAGTTTCTAGATCATTC
1 ATCCATCCATTTTCCTTAGTTTCTAGATCATTC
*
14623102 ATCCATCCATTTTTCTTAGTTTCTAGATCA
1 ATCCATCCATTTTCCTTAGTTTCTAGATCA
14623132 ATCCACCCTT
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:0.22, C:0.25, G:0.06, T:0.46
Consensus pattern (33 bp):
ATCCATCCATTTTCCTTAGTTTCTAGATCATTC
Found at i:14623679 original size:25 final size:25
Alignment explanation
Indices: 14623643--14623701 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
14623633 ATAGAAACGG
*
14623643 AAAACATCAACTTAATACAGAAACC
1 AAAACATGAACTTAATACAGAAACC
14623668 AAAACATGAACTTAATACAGAAACC
1 AAAACATGAACTTAATACAGAAACC
14623693 AAAACATGA
1 AAAACATGA
14623702 CCATTATAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.58, C:0.20, G:0.07, T:0.15
Consensus pattern (25 bp):
AAAACATGAACTTAATACAGAAACC
Found at i:14624590 original size:5 final size:5
Alignment explanation
Indices: 14624580--14624605 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14624570 TTGATTTTAC
14624580 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
14624606 ACAGGGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:14624614 original size:15 final size:14
Alignment explanation
Indices: 14624581--14624632 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 14
14624571 TGATTTTACA
* *
14624581 GAAAAGAAAAGAAAA
1 GAAAAGAAAA-ACAG
14624596 GAAAAGAAAAACAGG
1 GAAAAGAAAAACA-G
14624611 GAAAGAGAAAAACAG
1 GAAA-AGAAAAACAG
14624626 GAAAAGA
1 GAAAAGA
14624633 GTGCGAGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 5 0.15
15 19 0.58
16 9 0.27
ACGTcount: A:0.71, C:0.04, G:0.25, T:0.00
Consensus pattern (14 bp):
GAAAAGAAAAACAG
Found at i:14624619 original size:16 final size:16
Alignment explanation
Indices: 14624596--14624633 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
14624586 GAAAAGAAAA
14624596 GAAA-AGAAAAACAGG
1 GAAAGAGAAAAACAGG
14624611 GAAAGAGAAAAACAGG
1 GAAAGAGAAAAACAGG
*
14624627 AAAAGAG
1 GAAAGAG
14624634 TGCGAGCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.66, C:0.05, G:0.29, T:0.00
Consensus pattern (16 bp):
GAAAGAGAAAAACAGG
Found at i:14624703 original size:19 final size:17
Alignment explanation
Indices: 14624668--14624708 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
14624658 AAATGGAGAA
*
14624668 AAGAAAAGAAACGTGAG
1 AAGAAAAGAAACATGAG
14624685 AAGAAAAGAAACATATGAG
1 AAGAAAAGAAAC--ATGAG
14624704 AAGAA
1 AAGAA
14624709 GAAGCAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
19 9 0.43
ACGTcount: A:0.63, C:0.05, G:0.24, T:0.07
Consensus pattern (17 bp):
AAGAAAAGAAACATGAG
Found at i:14636926 original size:14 final size:14
Alignment explanation
Indices: 14636907--14636935 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14636897 ACCTATGATA
14636907 ATACTGTAATAGAC
1 ATACTGTAATAGAC
14636921 ATACTGTAATAGAC
1 ATACTGTAATAGAC
14636935 A
1 A
14636936 AATCTATTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (14 bp):
ATACTGTAATAGAC
Found at i:14637805 original size:9 final size:9
Alignment explanation
Indices: 14637791--14637818 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
14637781 TTTTGTTGCA
14637791 ACAATTAAT
1 ACAATTAAT
14637800 ACAATTAAT
1 ACAATTAAT
14637809 ACAATTAAT
1 ACAATTAAT
14637818 A
1 A
14637819 GTTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:14638079 original size:9 final size:9
Alignment explanation
Indices: 14638065--14638092 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
14638055 TTTTGTTGCA
14638065 ACAATTAAT
1 ACAATTAAT
14638074 ACAATTAAT
1 ACAATTAAT
14638083 ACAATTAAT
1 ACAATTAAT
14638092 A
1 A
14638093 GTTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:14638091 original size:274 final size:274
Alignment explanation
Indices: 14637602--14638149 Score: 1096
Period size: 274 Copynumber: 2.0 Consensus size: 274
14637592 TAAAAAACGG
14637602 ACCGGGCCTCGGGCAAGATTTTTTGGCCCGGGCCCGGCTCGAAAAATATTAAATATATTTTTTTA
1 ACCGGGCCTCGGGCAAGATTTTTTGGCCCGGGCCCGGCTCGAAAAATATTAAATATATTTTTTTA
14637667 TTTTTAAAATATAATAGTTTTTTATTTTAAGTTTATTTACTTTCATTTCCTTGACTAGTGTTACA
66 TTTTTAAAATATAATAGTTTTTTATTTTAAGTTTATTTACTTTCATTTCCTTGACTAGTGTTACA
14637732 AAATAATAATAATAAAACATCAAGTTTGTTTTACTAATCAAATGTTAGATTTTGTTGCAACAATT
131 AAATAATAATAATAAAACATCAAGTTTGTTTTACTAATCAAATGTTAGATTTTGTTGCAACAATT
14637797 AATACAATTAATACAATTAATAGTTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACA
196 AATACAATTAATACAATTAATAGTTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACA
14637862 ATTAATACAATTAA
261 ATTAATACAATTAA
14637876 ACCGGGCCTCGGGCAAGATTTTTTGGCCCGGGCCCGGCTCGAAAAATATTAAATATATTTTTTTA
1 ACCGGGCCTCGGGCAAGATTTTTTGGCCCGGGCCCGGCTCGAAAAATATTAAATATATTTTTTTA
14637941 TTTTTAAAATATAATAGTTTTTTATTTTAAGTTTATTTACTTTCATTTCCTTGACTAGTGTTACA
66 TTTTTAAAATATAATAGTTTTTTATTTTAAGTTTATTTACTTTCATTTCCTTGACTAGTGTTACA
14638006 AAATAATAATAATAAAACATCAAGTTTGTTTTACTAATCAAATGTTAGATTTTGTTGCAACAATT
131 AAATAATAATAATAAAACATCAAGTTTGTTTTACTAATCAAATGTTAGATTTTGTTGCAACAATT
14638071 AATACAATTAATACAATTAATAGTTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACA
196 AATACAATTAATACAATTAATAGTTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACA
14638136 ATTAATACAATTAA
261 ATTAATACAATTAA
14638150 TAGTTTGATA
Statistics
Matches: 274, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
274 274 1.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (274 bp):
ACCGGGCCTCGGGCAAGATTTTTTGGCCCGGGCCCGGCTCGAAAAATATTAAATATATTTTTTTA
TTTTTAAAATATAATAGTTTTTTATTTTAAGTTTATTTACTTTCATTTCCTTGACTAGTGTTACA
AAATAATAATAATAAAACATCAAGTTTGTTTTACTAATCAAATGTTAGATTTTGTTGCAACAATT
AATACAATTAATACAATTAATAGTTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACA
ATTAATACAATTAA
Found at i:14638143 original size:59 final size:59
Alignment explanation
Indices: 14638074--14638267 Score: 370
Period size: 59 Copynumber: 3.3 Consensus size: 59
14638064 AACAATTAAT
14638074 ACAATTAATACAATTAATAGTTTGATAAATTTACTAATCAAATGTTAGATTTTATTACA
1 ACAATTAATACAATTAATAGTTTGATAAATTTACTAATCAAATGTTAGATTTTATTACA
14638133 ACAATTAATACAATTAATAGTTTGATAAATTTACTAATCAAATGTTAGATTTTATTACA
1 ACAATTAATACAATTAATAGTTTGATAAATTTACTAATCAAATGTTAGATTTTATTACA
*
14638192 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACA
1 ACAATTAATACAATTAATAGTTTGATAAATTTACTAATCAAATGTTAGATTTTATTACA
*
14638251 ATAATTAATACAATTAA
1 ACAATTAATACAATTAA
14638268 CAATTAATAA
Statistics
Matches: 133, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 133 1.00
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (59 bp):
ACAATTAATACAATTAATAGTTTGATAAATTTACTAATCAAATGTTAGATTTTATTACA
Found at i:14638304 original size:16 final size:16
Alignment explanation
Indices: 14638283--14638324 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
14638273 AATAATTTGA
*
14638283 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
14638299 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
14638315 TAGTTTTAAT
1 TAATTTTAAT
14638325 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:14638308 original size:22 final size:23
Alignment explanation
Indices: 14638298--14638353 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
14638288 TTACTAACAA
* * *
14638298 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
14638320 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
14638343 TTAATTTTAAT
1 TTAATTTTAAT
14638354 TTAAAACGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:14639230 original size:21 final size:21
Alignment explanation
Indices: 14639196--14639283 Score: 70
Period size: 21 Copynumber: 4.2 Consensus size: 21
14639186 CTTTCTATTT
* *
14639196 AGCTCTTA-AGAGCTTTTGTTC
1 AGCTCTTATA-AGCTTCTGTTA
*
14639217 AGCTCTTATAAGCTTCTGTTT
1 AGCTCTTATAAGCTTCTGTTA
* * *
14639238 GGTTCTTACAAGCTTCTGTTA
1 AGCTCTTATAAGCTTCTGTTA
* * * *
14639259 AGCTTTTATGAGCTGCTATTA
1 AGCTCTTATAAGCTTCTGTTA
14639280 AGCT
1 AGCT
14639284 TTCAAGCTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
21 52 0.98
22 1 0.02
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (21 bp):
AGCTCTTATAAGCTTCTGTTA
Found at i:14640555 original size:21 final size:22
Alignment explanation
Indices: 14640530--14640570 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
14640520 TCTAACATGA
14640530 ATGTTATATT-ATATG-AAACAT
1 ATGTT-TATTGATATGTAAACAT
14640551 ATGTTTATTGATATGTAAAC
1 ATGTTTATTGATATGTAAAC
14640571 TCCGACAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ATGTTTATTGATATGTAAACAT
Found at i:14642128 original size:22 final size:22
Alignment explanation
Indices: 14642085--14642131 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
14642075 AAAAACAAAA
* * *
14642085 AAATAGTAGCAATATAATAATG
1 AAATAGTAGCAAAACAACAATG
*
14642107 AAATGGTAGCAAAACAACAATG
1 AAATAGTAGCAAAACAACAATG
14642129 AAA
1 AAA
14642132 CAACTGATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.57, C:0.09, G:0.15, T:0.19
Consensus pattern (22 bp):
AAATAGTAGCAAAACAACAATG
Found at i:14642494 original size:25 final size:25
Alignment explanation
Indices: 14642465--14642515 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
14642455 TAAACTCGAG
14642465 ATTTTGAGATCTGTAAGTAAAACTA
1 ATTTTGAGATCTGTAAGTAAAACTA
14642490 ATTTTGAGATCTGTAAGTAAAACTA
1 ATTTTGAGATCTGTAAGTAAAACTA
14642515 A
1 A
14642516 AAAAAAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (25 bp):
ATTTTGAGATCTGTAAGTAAAACTA
Found at i:14646256 original size:58 final size:60
Alignment explanation
Indices: 14646171--14646299 Score: 138
Period size: 58 Copynumber: 2.2 Consensus size: 60
14646161 TATACATTTT
* * * * * * *
14646171 GGTACCTGAACTTGGTTTCAAGTTTTAATTTAGTACTT-AA-TTGTTTTTT-CTCCAATAA
1 GGTACTTGAACGTGGCTTAAAGGTTTAACTTAGCACTTCAAGTT-TTTTTTGCTCCAATAA
* * *
14646229 GGTACTTGAACGTGGCTTAAAGGTTTAACTTGGCACTTCAAGTTTTTTTTGGTCCAATTA
1 GGTACTTGAACGTGGCTTAAAGGTTTAACTTAGCACTTCAAGTTTTTTTTGCTCCAATAA
14646289 GGTACTTGAAC
1 GGTACTTGAAC
14646300 TTGCTTGCGT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
58 30 0.52
59 8 0.14
60 20 0.34
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (60 bp):
GGTACTTGAACGTGGCTTAAAGGTTTAACTTAGCACTTCAAGTTTTTTTTGCTCCAATAA
Found at i:14652158 original size:5 final size:5
Alignment explanation
Indices: 14652144--14652192 Score: 82
Period size: 5 Copynumber: 10.0 Consensus size: 5
14652134 CGAAATAGTA
*
14652144 ATTA- ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAA ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
14652193 TTTCTTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
4 4 0.10
5 38 0.90
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATTAT
Found at i:14656407 original size:25 final size:25
Alignment explanation
Indices: 14656356--14656442 Score: 99
Period size: 25 Copynumber: 3.5 Consensus size: 25
14656346 TATCGATTTT
* *
14656356 AGCTCTTATGAGCTTACCGA-TACTC
1 AGCTCGTATGAGCTTACC-ATTATTC
14656381 AGCTCGTATGAGCTTACCATTATTC
1 AGCTCGTATGAGCTTACCATTATTC
* *
14656406 AGCTCAG-AAGAGCTTACCATT-TAC
1 AGCTC-GTATGAGCTTACCATTATTC
14656430 AGCTCGTATGAGC
1 AGCTCGTATGAGC
14656443 ATATATGTAC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
23 1 0.02
24 13 0.24
25 39 0.72
26 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCATTATTC
Done.