Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 334 of 349
Found at i:110757514 original size:36 final size:36
Alignment explanation
Indices: 110757439--110757520 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 36
110757429 ATAACTGATC
* * * *
110757439 GTTACTGAATAACTGATTGCTACTGAGCAAATGATT
1 GTTACTAAATAACTAATTGCTACTGAACAAATGAAT
** *
110757475 GTTACTAAATAACTAATTGCTACTGAATGATTGAAT
1 GTTACTAAATAACTAATTGCTACTGAACAAATGAAT
110757511 GTTACTAAAT
1 GTTACTAAAT
110757521 GAAACTGATA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (36 bp):
GTTACTAAATAACTAATTGCTACTGAACAAATGAAT
Found at i:110761692 original size:26 final size:25
Alignment explanation
Indices: 110761645--110761694 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
110761635 AAGATGCATG
110761645 TATATAAAATTTTAATAAATTAAAAA
1 TATATAAAATTTTAAT-AATTAAAAA
110761671 TATATAAAATTATTAGAT-ATTAAA
1 TATATAAAATT-TTA-ATAATTAAA
110761695 TTAATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 17 0.77
27 3 0.14
28 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
TATATAAAATTTTAATAATTAAAAA
Found at i:110766659 original size:14 final size:13
Alignment explanation
Indices: 110766640--110766676 Score: 58
Period size: 12 Copynumber: 2.8 Consensus size: 13
110766630 TATAGTTTAA
110766640 ATTTAATAATATAT
1 ATTTAATAAT-TAT
110766654 ATTTAAT-ATTAT
1 ATTTAATAATTAT
110766666 ATTTAATAATT
1 ATTTAATAATT
110766677 TTCAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.45
13 5 0.23
14 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTAATAATTAT
Found at i:110769345 original size:24 final size:27
Alignment explanation
Indices: 110769298--110769346 Score: 77
Period size: 24 Copynumber: 1.9 Consensus size: 27
110769288 ACTTATAATT
110769298 TTAATATTTAATATATATAACTTTATA
1 TTAATATTTAATATATATAACTTTATA
110769325 TTAA-ATTTAAT-T-TATAACTTTA
1 TTAATATTTAATATATATAACTTTA
110769347 CTTTTGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
25 1 0.05
26 7 0.32
27 4 0.18
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (27 bp):
TTAATATTTAATATATATAACTTTATA
Found at i:110778377 original size:21 final size:21
Alignment explanation
Indices: 110778351--110778391 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
110778341 ATCTGCTCAA
* *
110778351 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
110778372 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
110778392 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:110787154 original size:6 final size:6
Alignment explanation
Indices: 110787102--110787162 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
110787092 TGGGGCAGCT
* * * * * *
110787102 GCTGAA GCTGAA GCTGAA GCTGCA CCTGGA GCTGAA GCTGGA GCTGGA
1 GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA
110787150 GCTGGA GC-GGA GC
1 GCTGGA GCTGGA GC
110787163 CAGCAGCCAG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
5 5 0.10
6 44 0.90
ACGTcount: A:0.23, C:0.21, G:0.41, T:0.15
Consensus pattern (6 bp):
GCTGGA
Found at i:110788369 original size:15 final size:15
Alignment explanation
Indices: 110788349--110788402 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
110788339 ATACTACAAA
110788349 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
110788364 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
110788381 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
110788398 ATATT
1 ATATT
110788403 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:110788509 original size:22 final size:22
Alignment explanation
Indices: 110788484--110788529 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
110788474 TAAAAGTGAA
*
110788484 ATATTTATTAAAATAATAAATT
1 ATATTAATTAAAATAATAAATT
* * *
110788506 ATATTAATTATATTAATAATTT
1 ATATTAATTAAAATAATAAATT
110788528 AT
1 AT
110788530 TATATGACTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTAATTAAAATAATAAATT
Found at i:110788602 original size:13 final size:14
Alignment explanation
Indices: 110788580--110788611 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
110788570 TATATTGAAA
110788580 AATA-TAATATTTT
1 AATATTAATATTTT
110788593 -ATATTAATATTTT
1 AATATTAATATTTT
110788606 AATATT
1 AATATT
110788612 TTTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 9 0.53
14 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATATTAATATTTT
Found at i:110794077 original size:18 final size:18
Alignment explanation
Indices: 110794037--110794079 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
110794027 TGGGGCAGCT
*
110794037 GCTGAAGCTGAAGCTGCA
1 GCTGGAGCTGAAGCTGCA
* *
110794055 CCTGGAGCTGAAGCTGGA
1 GCTGGAGCTGAAGCTGCA
110794073 GCTGGAG
1 GCTGGAG
110794080 ATGGAGCGCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.40, T:0.16
Consensus pattern (18 bp):
GCTGGAGCTGAAGCTGCA
Found at i:110795553 original size:19 final size:18
Alignment explanation
Indices: 110795531--110795574 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
110795521 ATTATTGAAC
*
110795531 TTAAAACATATTTAAATAT
1 TTAAAACATAATTAAA-AT
*
110795550 TTAATACATAATTAAAAT
1 TTAAAACATAATTAAAAT
110795568 TATAAAA
1 T-TAAAA
110795575 AAATATTGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAAAACATAATTAAAAT
Found at i:110796474 original size:26 final size:26
Alignment explanation
Indices: 110796444--110796496 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
110796434 TTTTAAAAAG
* *
110796444 ATTGAAAATAGTGAGACAAGTAACAA
1 ATTGAAAATAGTAAGACAAATAACAA
110796470 ATTGAAAATAGTAAGACAAATAACAA
1 ATTGAAAATAGTAAGACAAATAACAA
110796496 A
1 A
110796497 AACTAAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.58, C:0.08, G:0.15, T:0.19
Consensus pattern (26 bp):
ATTGAAAATAGTAAGACAAATAACAA
Found at i:110806494 original size:15 final size:15
Alignment explanation
Indices: 110806474--110806581 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
110806464 TTTATGGAAA
110806474 ATCAAATATATGGGT
1 ATCAAATATATGGGT
* **
110806489 ATCAAATA-ATAGAA
1 ATCAAATATATGGGT
*
110806503 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
**
110806519 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
*
110806533 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
**
110806549 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
*
110806563 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
110806579 ATC
1 ATC
110806582 GAGATATTGG
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
14 12 0.18
15 44 0.65
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.27
Consensus pattern (15 bp):
ATCAAATATATGGGT
Found at i:110806515 original size:30 final size:30
Alignment explanation
Indices: 110806468--110806591 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
110806458 TCCATATTTA
* * *
110806468 TGGAAAATCAAATATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
110806498 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
110806528 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
110806558 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
110806589 TGG
1 TGG
110806592 CATAATAAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 79 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:110811182 original size:15 final size:15
Alignment explanation
Indices: 110811162--110811269 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
110811152 TTTATGGAAA
110811162 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
110811177 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
110811191 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
110811207 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
110811221 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
110811237 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
110811251 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
110811267 ATC
1 ATC
110811270 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:110811199 original size:30 final size:30
Alignment explanation
Indices: 110811156--110811279 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
110811146 TCCATATTTA
* *
110811156 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
110811186 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
110811216 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
110811246 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
110811277 TGG
1 TGG
110811280 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:110814327 original size:12 final size:12
Alignment explanation
Indices: 110814312--110814340 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
110814302 GTGAATAAAG
110814312 AAGATAAATGGA
1 AAGATAAATGGA
110814324 AAGAT-AATGGA
1 AAGATAAATGGA
110814335 AAGATA
1 AAGATA
110814341 GAACGTGGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (12 bp):
AAGATAAATGGA
Found at i:110820202 original size:19 final size:20
Alignment explanation
Indices: 110820178--110820215 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
110820168 CCTACAAAAT
*
110820178 TTTTTTTTTATTTT-TTTTG
1 TTTTTTTGTATTTTATTTTG
110820197 TTTTTTTGTATTTTATTTT
1 TTTTTTTGTATTTTATTTT
110820216 TTTGTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.08, C:0.00, G:0.05, T:0.87
Consensus pattern (20 bp):
TTTTTTTGTATTTTATTTTG
Found at i:110820210 original size:15 final size:16
Alignment explanation
Indices: 110820192--110820226 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
110820182 TTTTTATTTT
*
110820192 TTTTGTTTTTTTGTA-
1 TTTTATTTTTTTGTAC
110820207 TTTTATTTTTTTGTAC
1 TTTTATTTTTTTGTAC
110820223 TTTT
1 TTTT
110820227 TTGATCACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.09, C:0.03, G:0.09, T:0.80
Consensus pattern (16 bp):
TTTTATTTTTTTGTAC
Found at i:110820642 original size:12 final size:12
Alignment explanation
Indices: 110820627--110820655 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
110820617 GTGAATAAAG
110820627 AAGATAAATGGA
1 AAGATAAATGGA
110820639 AAGAT-AATGGA
1 AAGATAAATGGA
110820650 AAGATA
1 AAGATA
110820656 GAACGTGGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (12 bp):
AAGATAAATGGA
Found at i:110825020 original size:53 final size:53
Alignment explanation
Indices: 110824839--110825083 Score: 225
Period size: 55 Copynumber: 4.6 Consensus size: 53
110824829 ATTAGGGTTT
* * *
110824839 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGTTAA-GTTTCTAAGGC
* * * * *
110824894 AAGGACATCATGTAAGACCATGTCAAGACATGGTATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGTTAAGTTTC--TAAGGC
* * *
110824949 AA-AAGT-CTCATGTAAGACCATGCCAAGGCATGGCATTGTTGAG-TTCATAAGGC
1 AAGGA-TAC-CATGTAAGACCATGCCAAGACATGGCATTGTTAAGTTTC-TAAGGC
* * *
110825002 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGTTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGTTAAGTTTCTAAGGC
** *
110825051 AAGGATACCACATAAGACCATGCCAAGTCATGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG
110825084 AAATGGTAAG
Statistics
Matches: 158, Mismatches: 25, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
49 28 0.18
52 2 0.01
53 45 0.28
54 16 0.10
55 67 0.42
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGTTAAGTTTCTAAGGC
Found at i:110825045 original size:108 final size:110
Alignment explanation
Indices: 110824847--110825095 Score: 293
Period size: 108 Copynumber: 2.3 Consensus size: 110
110824837 TTAAGGATAC
*
110824847 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGACATCATGTAAGAC
1 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGACACCATGTAAGAC
* *
110824912 CATGTCAAGACATGGTATTGATAAGTTTCTATAAGGCAAAAGTCT
66 CATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAAGTCT
* * * *
110824957 CATGTAAGACCATGCCAAGGCATGG-CATTGTTGA-G-TTCATAAGGCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGACACCATGTAAGA
* * * *
110825019 CCATGTCGAGACATGGCAATGTTAAGTTTC-AAAAGG--ATA--C-
65 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAAGTCT
** *
110825059 CACATAAGACCATGCCAAGTCATGGAAA-TGGTAAGGT
1 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGT
110825096 ATCCATGTAT
Statistics
Matches: 118, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
102 26 0.22
103 3 0.03
105 2 0.02
107 8 0.07
108 48 0.41
109 6 0.05
110 25 0.21
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (110 bp):
CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGACACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAAGTCT
Found at i:110825083 original size:49 final size:50
Alignment explanation
Indices: 110824961--110825093 Score: 126
Period size: 49 Copynumber: 2.6 Consensus size: 50
110824951 AAGTCTCATG
* * * **
110824961 TAAGACCATGCCAAGGCATGGCATTGTTGAGTTCATAAGGCAAGGATACCATG
1 TAAGACCATGCCAAGACATGGCAATGTTAAGTTCA-AA-G-AAGGATACCACA
* *
110825014 TAAGACCATGTCGAGACATGGCAATGTTAAGTTTC-AA-AAGGATACCACA
1 TAAGACCATGCCAAGACATGGCAATGTTAAG-TTCAAAGAAGGATACCACA
* * *
110825063 TAAGACCATGCCAAGTCATGGAAATGGTAAG
1 TAAGACCATGCCAAGACATGGCAATGTTAAG
110825094 GTATCCATGT
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
49 36 0.54
52 2 0.03
53 26 0.39
54 3 0.04
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (50 bp):
TAAGACCATGCCAAGACATGGCAATGTTAAGTTCAAAGAAGGATACCACA
Found at i:110832603 original size:16 final size:16
Alignment explanation
Indices: 110832584--110832614 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
110832574 CTTCTTCACT
110832584 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
110832600 TACTTACTTACTTAA
1 TACTCACTTACTTAA
110832615 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:110832620 original size:20 final size:20
Alignment explanation
Indices: 110832581--110832620 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
110832571 AAACTTCTTC
* *
110832581 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
110832601 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
110832621 TTATTAATAC
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:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:110832996 original size:55 final size:54
Alignment explanation
Indices: 110832846--110833061 Score: 267
Period size: 55 Copynumber: 4.0 Consensus size: 54
110832836 TACGCGGTAT
* * * *
110832846 CCTTTTGAAACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
* *
110832900 CCTTATG-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGGA-CCTTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTG
** * *
110832953 CCTTATTGAAACTTATTAATGCCATGTCTTGACATGGTCTTACATGATATCCTTG
1 CCTTA-TGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
* *
110833008 CCTTA-AAAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCTTATGAAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
110833062 AAACCCTAAT
Statistics
Matches: 138, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
52 2 0.01
53 46 0.33
54 14 0.10
55 74 0.54
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.35
Consensus pattern (54 bp):
CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
Found at i:110832998 original size:108 final size:109
Alignment explanation
Indices: 110832846--110833054 Score: 314
Period size: 108 Copynumber: 1.9 Consensus size: 109
110832836 TACGCGGTAT
* * **
110832846 CCTTTTGAAACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAA-C
1 CCTTTTGAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAAAAACC
110832910 TCACCAA-TGCCATGCCTTGACATGGTCTTACATGGGACCTTTG
66 TCACCAATTGCCATGCCTTGACATGGTCTTACATGGGACCTTTG
** *
110832953 CCTTATTGAAACTTATTAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAAAAAC
1 CCTT-TTGAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAAAAAC
* *
110833018 CTTACCAATTGCCATGCCTTGGCATGGTCTTACATGG
65 CTCACCAATTGCCATGCCTTGACATGGTCTTACATGG
110833055 TATCCTTAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
107 4 0.04
108 52 0.58
109 7 0.08
110 27 0.30
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (109 bp):
CCTTTTGAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAAAAACC
TCACCAATTGCCATGCCTTGACATGGTCTTACATGGGACCTTTG
Found at i:110839894 original size:61 final size:58
Alignment explanation
Indices: 110839746--110839912 Score: 194
Period size: 61 Copynumber: 2.8 Consensus size: 58
110839736 TGTAATATTA
* **
110839746 TATATTATTTTTATT-AATTCATATTTTAATAATTATTATATTAAGAATATTATTAAATTG
1 TATATTATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAA-AATAGAATTAAATTG
* *
110839806 TATATTATTATTGTTAAATTATATTTAATAATAAATT-TATTAAAATAGAATTAAATTATG
1 TATATTATTTTTATTAAATTATATTTAATAAT-AATTATATTAAAATAGAATTAAA-T-TG
* *
110839866 TATTATTGTTTTTATTAAATTATATTTAATAATAATTCTATTAAAAT
1 TA-TATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAAT
110839913 TTAATAACAA
Statistics
Matches: 93, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
58 10 0.11
59 16 0.17
60 27 0.29
61 40 0.43
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (58 bp):
TATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATAGAATTAAATTG
Found at i:110839896 original size:58 final size:57
Alignment explanation
Indices: 110839746--110839912 Score: 160
Period size: 60 Copynumber: 2.8 Consensus size: 57
110839736 TGTAATATTA
**
110839746 TATATTATTTTTATT-AATTCATATTTTAATAATTATTATATTAAGAATATTATTAAATTG
1 TATATTATTTTTATTAAATT-ATATTTTAATAA--ATTATATTAA-AATAGAATTAAATTG
* *
110839806 TATATTATTATTGTTAAATTATATTTAATAATAAATT-TATTAAAATAGAATTAAATTATG
1 TATATTATTTTTATTAAATTATATTT--TAATAAATTATATTAAAATAGAATTAAA-T-TG
* *
110839866 TATTATTGTTTTTATTAAATTATA-TTTAATAATAATTCTATTAAAAT
1 TA-TATTATTTTTATTAAATTATATTTTAAT-A-AATTATATTAAAAT
110839913 TTAATAACAA
Statistics
Matches: 91, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
58 14 0.15
59 8 0.09
60 32 0.35
61 31 0.34
62 6 0.07
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (57 bp):
TATATTATTTTTATTAAATTATATTTTAATAAATTATATTAAAATAGAATTAAATTG
Found at i:110847398 original size:83 final size:84
Alignment explanation
Indices: 110847254--110847423 Score: 245
Period size: 83 Copynumber: 2.0 Consensus size: 84
110847244 CTTTTTTATG
* * *
110847254 GGGTAGAAATAGTCAAGGTATGACCAACATGTTTAATGATAGGAAATGGTGCATTTATTTGAAGT
1 GGGTAGAAATAGTCAAGGTATGACCAACATGTTTAATGACAGGAAATAGTACATTTATTTGAAGT
110847319 TTTATTTATTTTACTAATT
66 TTTATTTATTTTACTAATT
**
110847338 GGGTAGAAATAGT-AAGGTATGATTAACATGTTTAATGACAGGAAATAGTACATATT-TTTGAAG
1 GGGTAGAAATAGTCAAGGTATGACCAACATGTTTAATGACAGGAAATAGTACAT-TTATTTGAAG
* * *
110847401 TTTTATTTGTTTTGCTCATT
65 TTTTATTTATTTTACTAATT
110847421 GGG
1 GGG
110847424 GCTGAGATTA
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
83 62 0.81
84 15 0.19
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.39
Consensus pattern (84 bp):
GGGTAGAAATAGTCAAGGTATGACCAACATGTTTAATGACAGGAAATAGTACATTTATTTGAAGT
TTTATTTATTTTACTAATT
Found at i:110847709 original size:33 final size:33
Alignment explanation
Indices: 110847671--110847737 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
110847661 AAAAATAAAA
110847671 AATCATGTCATCTATCATGGTCATACATTGATT
1 AATCATGTCATCTATCATGGTCATACATTGATT
110847704 AATCATGTCATCTATCATGGTCATACATTGATT
1 AATCATGTCATCTATCATGGTCATACATTGATT
110847737 A
1 A
110847738 TCTTTATTAC
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:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (33 bp):
AATCATGTCATCTATCATGGTCATACATTGATT
Found at i:110851056 original size:23 final size:23
Alignment explanation
Indices: 110851010--110851052 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
110851000 TACATTAATC
110851010 ATATTAATATTTTGTAATATTAA
1 ATATTAATATTTTGTAATATTAA
110851033 ATATTAATATTTT-T-ATATTA
1 ATATTAATATTTTGTAATATTA
110851053 TAAAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 1 0.05
23 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATTAATATTTTGTAATATTAA
Found at i:110856086 original size:30 final size:30
Alignment explanation
Indices: 110856022--110856084 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
110856012 AATTGATATA
* *
110856022 TTTATAATTTTTAAAAAATTAAATTAAATT
1 TTTATAATTTTTAAAAAACTAAAATAAATT
* *
110856052 TTTATATTTTTTAAAAGACTAAAATATAATT
1 TTTATAATTTTTAAAAAACTAAAATA-AATT
110856083 TT
1 TT
110856085 ATCATTACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 22 0.79
31 6 0.21
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (30 bp):
TTTATAATTTTTAAAAAACTAAAATAAATT
Found at i:110857268 original size:3 final size:3
Alignment explanation
Indices: 110857260--110857284 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
110857250 AACTATTTTT
110857260 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
110857285 CCCACACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:110857818 original size:22 final size:21
Alignment explanation
Indices: 110857791--110857832 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
110857781 ATTTCACAGC
*
110857791 AAGAAAACAAAACTAAAAAAAA
1 AAGAAAACAAAA-GAAAAAAAA
*
110857813 AAGAAAAGAAAAGAAAAAAA
1 AAGAAAACAAAAGAAAAAAA
110857833 GGAATCTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.83, C:0.05, G:0.10, T:0.02
Consensus pattern (21 bp):
AAGAAAACAAAAGAAAAAAAA
Found at i:110858510 original size:23 final size:21
Alignment explanation
Indices: 110858481--110858524 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
110858471 ATTATATTAA
*
110858481 AATTAAAATTAAAATATAAATAT
1 AATTAAAAATAAAA-A-AAATAT
110858504 AATTAAAAATAAAAAAAATAT
1 AATTAAAAATAAAAAAAATAT
110858525 TTTTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 1 0.05
23 13 0.65
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AATTAAAAATAAAAAAAATAT
Found at i:110859399 original size:98 final size:99
Alignment explanation
Indices: 110859218--110859399 Score: 253
Period size: 98 Copynumber: 1.8 Consensus size: 99
110859208 GAGTTCAATC
* * *
110859218 TATTAAGAATAAATAATATTAATTAAATTATTAATAATAGGTAAAATTTTATCAATATTATTTTT
1 TATTAAGAATAAATAATATTAATTAAATTATTAATAATAGATAAAATTTTATCAATAATATTTTA
*
110859283 TTTTGATTTTTTGTTATAAAAATCTGGTTAAAAT
66 TTTTGATTTTTTGATATAAAAATCTGGTTAAAAT
* * * *
110859317 TATTAAGAATAAGTAATGTTAATT-AATTTTTAATAATAGATAAAATTTTATTAATAATATATTT
1 TATTAAGAATAAATAATATTAATTAAATTATTAATAATAGATAAAATTTTATCAATAATAT-TTT
110859381 ATTTT-ATGTTTTT-ATATAA
65 ATTTTGAT-TTTTTGATATAA
110859400 TTGAGTTTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
98 39 0.53
99 34 0.47
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (99 bp):
TATTAAGAATAAATAATATTAATTAAATTATTAATAATAGATAAAATTTTATCAATAATATTTTA
TTTTGATTTTTTGATATAAAAATCTGGTTAAAAT
Found at i:110862622 original size:6 final size:6
Alignment explanation
Indices: 110862581--110862655 Score: 87
Period size: 6 Copynumber: 12.5 Consensus size: 6
110862571 ATACGTATAC
* * * * * **
110862581 ATACAC ATACAC ATACAC ATACAC ATACAC ATACAT ATACAT ATATGT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
110862629 ATACAT ATACAT ATACAT ATACAT ATA
1 ATACAT ATACAT ATACAT ATACAT ATA
110862656 AAGACGATAC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.49, C:0.21, G:0.01, T:0.28
Consensus pattern (6 bp):
ATACAT
Found at i:110863048 original size:219 final size:219
Alignment explanation
Indices: 110862669--110863112 Score: 834
Period size: 219 Copynumber: 2.0 Consensus size: 219
110862659 ACGATACATC
110862669 TACAGATTGCTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCACATAAATGTACAC
1 TACAGATTGCTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCACATAAATGTACAC
*
110862734 CTATGAACAAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGGTTTTCCTAGTCAAGG
66 CTATGAACAAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGCTTTTCCTAGTCAAGG
110862799 AGAAGCTATGTAGAAGTAATGCAGGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
131 AGAAGCTATGTAGAAGTAATGCAGGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
110862864 ATCATTCAAAGCTATATCAGAAAG
196 ATCATTCAAAGCTATATCAGAAAG
* * *
110862888 TACAGATTGTTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCTCATAAATTTACAC
1 TACAGATTGCTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCACATAAATGTACAC
*
110862953 CTATGAACCAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGCTTTTCCTAGTCAAGG
66 CTATGAACAAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGCTTTTCCTAGTCAAGG
*
110863018 AGAAGCTATGTAGAAGTAATGCATGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
131 AGAAGCTATGTAGAAGTAATGCAGGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
110863083 ATCATTCAAAGCTATATCAGAAAG
196 ATCATTCAAAGCTATATCAGAAAG
110863107 TACAGA
1 TACAGA
110863113 CCTCGCTTCT
Statistics
Matches: 219, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
219 219 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (219 bp):
TACAGATTGCTAGGGCTGCAGATGTTATTGAATGATATGTAATTTTTCTGCACATAAATGTACAC
CTATGAACAAAGGATAACTCTAGTTCATAATATAATATGGAGATGTATGCTTTTCCTAGTCAAGG
AGAAGCTATGTAGAAGTAATGCAGGTTGCCAACTTTTTACAAAGTTGTTGAATGTCAAATGATGG
ATCATTCAAAGCTATATCAGAAAG
Found at i:110871761 original size:37 final size:37
Alignment explanation
Indices: 110871711--110871821 Score: 213
Period size: 37 Copynumber: 3.0 Consensus size: 37
110871701 CTCCACTGTA
110871711 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
1 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
*
110871748 ACGCATGATAATGCATCAACATCCTATTTTCATTTCT
1 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
110871785 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
1 ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
110871822 GGGACTATAG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (37 bp):
ACGCATGATAATGCATCAACATCCTATTTTCATTTTT
Found at i:110876770 original size:19 final size:20
Alignment explanation
Indices: 110876733--110876772 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
110876723 AATATAAAAT
*
110876733 AATTCAAAATAATTTTTAAA
1 AATTCAAAATAACTTTTAAA
110876753 AATTCAAAAT-ACTTTTAAA
1 AATTCAAAATAACTTTTAAA
110876772 A
1 A
110876773 TTTTGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTCAAAATAACTTTTAAA
Found at i:110879833 original size:9 final size:9
Alignment explanation
Indices: 110879819--110879856 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
110879809 CAATGAGAAC
110879819 TTTTAAAAA
1 TTTTAAAAA
110879828 TTTTAAAAA
1 TTTTAAAAA
110879837 TTTTAAAAA
1 TTTTAAAAA
*
110879846 TTTTACAAA
1 TTTTAAAAA
110879855 TT
1 TT
110879857 GGTACATAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:110880400 original size:13 final size:13
Alignment explanation
Indices: 110880382--110880406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110880372 AAAATGTCAT
110880382 AATATTAATATTA
1 AATATTAATATTA
110880395 AATATTAATATT
1 AATATTAATATT
110880407 TACAGGCTTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATATTAATATTA
Found at i:110880428 original size:66 final size:66
Alignment explanation
Indices: 110880322--110880447 Score: 243
Period size: 66 Copynumber: 1.9 Consensus size: 66
110880312 TAGCTTCGTA
110880322 AATATTAAATATTAATATTTACAGACTTGGTTTACAAAAATAGGGTTTTGAAAATGTCATAATAT
1 AATATTAAATATTAATATTTACAGACTTGGTTTACAAAAATAGGGTTTTGAAAATGTCATAATAT
110880387 T
66 T
*
110880388 AATATTAAATATTAATATTTACAGGCTTGGTTTACAAAAATAGGGTTTTGAAAATGTCAT
1 AATATTAAATATTAATATTTACAGACTTGGTTTACAAAAATAGGGTTTTGAAAATGTCAT
110880448 TTTCAGCACT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.39
Consensus pattern (66 bp):
AATATTAAATATTAATATTTACAGACTTGGTTTACAAAAATAGGGTTTTGAAAATGTCATAATAT
T
Found at i:110893183 original size:224 final size:223
Alignment explanation
Indices: 110892793--110893244 Score: 868
Period size: 224 Copynumber: 2.0 Consensus size: 223
110892783 ATATTTGATA
110892793 AAAGAATAATCATATTACATGTGGGTGTTTGTTATGATATAAGAGTTTCATTTAATATTTTATTT
1 AAAGAATAATCATATTACATGTGGGTGTTTGTTATGATATAAGAGTTTCATTTAATATTTTATTT
*
110892858 AATTAGGCCGATTGAGTCTTGGCTCAGTTGGCATTGGTATTGTTCTCTATATAGGAAGACGTGGG
66 AATTAGGCCGATTGAGTCTTGGCTCAGTTGGCATTGGTATTGTTCTCTATACAGGAAGACGTGGG
110892923 TTCAAGTGGTGCGCTGAAGTGTATTATCCTCCTATTTATAGGTTGAGGAGAGGTTATGGGTAGTT
131 TTCAAGTGGTGCGCTGAAGTGTATTATCCTCCTATTTATAGGTTGAGGAGAGGTTATGGGTAGTT
110892988 CTAGGCATTGAGTGAAAAAAAAAGAAAAG
196 CTAGGCATTGAGTG-AAAAAAAAGAAAAG
110893017 AAAGAATAATCATATTACATGTGGGTGTTTGTTATGATATAAGAGTTTCATTTAATATTTTATTT
1 AAAGAATAATCATATTACATGTGGGTGTTTGTTATGATATAAGAGTTTCATTTAATATTTTATTT
* *
110893082 AATTAGGCCGATTGAGTCTTGGCTCAGTTGGTATTGGTATTGTTGTCTATACAGGAAGACGTGGG
66 AATTAGGCCGATTGAGTCTTGGCTCAGTTGGCATTGGTATTGTTCTCTATACAGGAAGACGTGGG
110893147 TTCAAGTGGTGCGCTGAAGTGTATTATCCTCCTATTTATAGGTTGAGGAGAGGTTATGGGTAGTT
131 TTCAAGTGGTGCGCTGAAGTGTATTATCCTCCTATTTATAGGTTGAGGAGAGGTTATGGGTAGTT
110893212 CTAGGCATTGAGTGAAAAAAAAGAAAAG
196 CTAGGCATTGAGTGAAAAAAAAGAAAAG
110893240 AAAGA
1 AAAGA
110893245 TATGATTAGA
Statistics
Matches: 225, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
223 19 0.08
224 206 0.92
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.35
Consensus pattern (223 bp):
AAAGAATAATCATATTACATGTGGGTGTTTGTTATGATATAAGAGTTTCATTTAATATTTTATTT
AATTAGGCCGATTGAGTCTTGGCTCAGTTGGCATTGGTATTGTTCTCTATACAGGAAGACGTGGG
TTCAAGTGGTGCGCTGAAGTGTATTATCCTCCTATTTATAGGTTGAGGAGAGGTTATGGGTAGTT
CTAGGCATTGAGTGAAAAAAAAGAAAAG
Found at i:110894619 original size:23 final size:23
Alignment explanation
Indices: 110894592--110894637 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
110894582 CATTTTGTAG
110894592 CAACCCTTTTAAATAAGAATTCT
1 CAACCCTTTTAAATAAGAATTCT
*
110894615 CAACCCTTTTAAATGAGAATTCT
1 CAACCCTTTTAAATAAGAATTCT
110894638 TCTTCTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.35
Consensus pattern (23 bp):
CAACCCTTTTAAATAAGAATTCT
Found at i:110901277 original size:40 final size:38
Alignment explanation
Indices: 110901206--110901334 Score: 144
Period size: 35 Copynumber: 3.5 Consensus size: 38
110901196 CATGGAAAAG
110901206 TGTGAAATGTAGGTAT-G-G-TATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTGTTATCATCCATACTGAGT
110901241 TGTGAAATGTAGGTATGGTGTTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTGTTATC--ATCCATACTGAGT
** ** *
110901281 TAAGAAATGTAGGTATGGCATT-TC--CCATACCGAGT
1 TGTGAAATGTAGGTATGGTGTTATCATCCATACTGAGT
*
110901316 TGTAAAATGTAGGTATGGT
1 TGTGAAATGTAGGTATGGT
110901335 ATTTCAATGA
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
35 41 0.51
36 1 0.01
37 1 0.01
38 4 0.05
39 2 0.03
40 31 0.39
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (38 bp):
TGTGAAATGTAGGTATGGTGTTATCATCCATACTGAGT
Found at i:110902320 original size:22 final size:21
Alignment explanation
Indices: 110902279--110902335 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
110902269 AAATATATAC
110902279 ATAATAA-TATTAA-AAT-AAA
1 ATAATAAGTA-TAATAATGAAA
110902298 ATAATAAGTGATAATAATGAAA
1 ATAATAAGT-ATAATAATGAAA
*
110902320 ATAATAGGTATAATAA
1 ATAATAAGTATAATAA
110902336 ATAATATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.21
20 4 0.12
21 11 0.33
22 11 0.33
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (21 bp):
ATAATAAGTATAATAATGAAA
Found at i:110902344 original size:21 final size:22
Alignment explanation
Indices: 110902291--110902345 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
110902281 AATAATATTA
110902291 AAATAAAATAATAAGTGATAAT
1 AAATAAAATAATAAGTGATAAT
*
110902313 -AATGAAAATAATAGGT-ATAAT
1 AAAT-AAAATAATAAGTGATAAT
*
110902334 AAATAATATAAT
1 AAATAAAATAAT
110902346 GATATATGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (22 bp):
AAATAAAATAATAAGTGATAAT
Found at i:110903948 original size:30 final size:30
Alignment explanation
Indices: 110903893--110903952 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
110903883 GTTTCTTGTG
110903893 TTTAATTTAGTGGGTTGGGCTGTTAGGTTTT
1 TTTAATTTA-TGGGTTGGGCTGTTAGGTTTT
110903924 TTTAATTT-TGGGTTTGGG-TAGTTAGGTTT
1 TTTAATTTATGGG-TTGGGCT-GTTAGGTTT
110903953 AGGTTATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 5 0.19
30 14 0.52
31 8 0.30
ACGTcount: A:0.13, C:0.02, G:0.32, T:0.53
Consensus pattern (30 bp):
TTTAATTTATGGGTTGGGCTGTTAGGTTTT
Found at i:110906885 original size:23 final size:23
Alignment explanation
Indices: 110906855--110906900 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
110906845 CAAAGAACCA
110906855 TATCGAGAAGCTCACGAAGAGCC
1 TATCGAGAAGCTCACGAAGAGCC
110906878 TATCGAGAAGCTCACGAAGAGCC
1 TATCGAGAAGCTCACGAAGAGCC
110906901 ATATATCGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.26, G:0.26, T:0.13
Consensus pattern (23 bp):
TATCGAGAAGCTCACGAAGAGCC
Found at i:110909059 original size:18 final size:20
Alignment explanation
Indices: 110909032--110909080 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
110909022 TAATTAATAA
* *
110909032 TAAAATAATAAAATATCTCAT
1 TAAAATAAT-ATATATCTAAT
110909053 TAAAATAATATATATCTAAT
1 TAAAATAATATATATCTAAT
110909073 T-AAATAAT
1 TAAAATAAT
110909081 CATAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 9 0.35
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATAATATATATCTAAT
Found at i:110909069 original size:20 final size:21
Alignment explanation
Indices: 110909032--110909091 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
110909022 TAATTAATAA
*
110909032 TAAAATAATAAAATATCTCAT
1 TAAAATAATAAAATATCTAAT
*
110909053 TAAAATAAT-ATATATCTAAT
1 TAAAATAATAAAATATCTAAT
*
110909073 TAAATAATCATAAAATATC
1 T-AA-AATAATAAAATATC
110909092 ATCAACATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.31
21 11 0.34
22 5 0.16
23 6 0.19
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATAATAAAATATCTAAT
Found at i:110909634 original size:42 final size:42
Alignment explanation
Indices: 110909575--110909659 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
110909565 TTGCTTTCCG
110909575 TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
1 TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
110909617 TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
1 TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
110909659 T
1 T
110909660 AACCCTTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.41
Consensus pattern (42 bp):
TTTAGCTCTTACGAGCTTCCGTTAACTCATATGAGTTTCAGT
Found at i:110909662 original size:20 final size:20
Alignment explanation
Indices: 110909595--110909662 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
110909585 ACGAGCTTCC
110909595 GTTAACTCATATGAGTTTCA
1 GTTAACTCATATGAGTTTCA
* * * * *
110909615 GTTTTAGCTCTTACGAGCTTCC
1 G--TTAACTCATATGAGTTTCA
110909637 GTTAACTCATATGAGTTTCA
1 GTTAACTCATATGAGTTTCA
110909657 GTTAAC
1 GTTAAC
110909663 CCTTTTGGGG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
20 21 0.58
22 15 0.42
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (20 bp):
GTTAACTCATATGAGTTTCA
Found at i:110909739 original size:39 final size:39
Alignment explanation
Indices: 110909693--110909832 Score: 226
Period size: 39 Copynumber: 3.6 Consensus size: 39
110909683 GCTCTGATAA
110909693 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
110909732 GCTTCAGTTAGCCTTCGGACTTCCGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
110909771 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
110909810 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
110909833 AGATCATGAT
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.13, C:0.26, G:0.24, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:110926205 original size:31 final size:31
Alignment explanation
Indices: 110926170--110926228 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
110926160 ACAATTATTA
110926170 AACTATTCGAAAA-TTTTCATTTAAGTCATTG
1 AACTATTC-AAAAGTTTTCATTTAAGTCATTG
*
110926201 AACTATTCAAAAGTTTTTATTTAAGTCA
1 AACTATTCAAAAGTTTTCATTTAAGTCA
110926229 CTAGGCTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.42
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATTTAAGTCATTG
Found at i:110931599 original size:3 final size:3
Alignment explanation
Indices: 110931591--110931615 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
110931581 CCACATAGTA
110931591 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
110931616 TCCGCATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:110931854 original size:15 final size:14
Alignment explanation
Indices: 110931834--110931880 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
110931824 TTTATCAGTA
110931834 AATAATATATAAAAT
1 AATAATAT-TAAAAT
110931849 AATAATATTGAAAAT
1 AATAATATT-AAAAT
* *
110931864 AATTATTTTAAAAT
1 AATAATATTAAAAT
110931878 AAT
1 AAT
110931881 TAAAAATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 9 0.31
15 20 0.69
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
AATAATATTAAAAT
Found at i:110931970 original size:26 final size:27
Alignment explanation
Indices: 110931936--110931990 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
110931926 ATAGTAGTTC
*
110931936 TTTACTTAA-TTATTTTTTGAAGTTAG
1 TTTAATTAATTTATTTTTTGAAGTTAG
*
110931962 TTTAATTAATTTTTTTTTTGAAGTTAG
1 TTTAATTAATTTATTTTTTGAAGTTAG
110931989 TT
1 TT
110931991 ATTTCAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.62
Consensus pattern (27 bp):
TTTAATTAATTTATTTTTTGAAGTTAG
Found at i:110932239 original size:5 final size:5
Alignment explanation
Indices: 110932229--110932281 Score: 106
Period size: 5 Copynumber: 10.6 Consensus size: 5
110932219 CAAATTACTT
110932229 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
110932279 ATA
1 ATA
110932282 GAGGTAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:110940449 original size:21 final size:21
Alignment explanation
Indices: 110940414--110940468 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
110940404 TTTAGTTTTC
110940414 GTTTGATGTCACTAAAATTAGTT
1 GTTTGAT-T-ACTAAAATTAGTT
* *
110940437 GTTTGTTTACTAAATTTAGTT
1 GTTTGATTACTAAAATTAGTT
110940458 GTTTGATTACT
1 GTTTGATTACT
110940469 CGTTATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 22 0.76
22 1 0.03
23 6 0.21
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.51
Consensus pattern (21 bp):
GTTTGATTACTAAAATTAGTT
Found at i:110944033 original size:14 final size:14
Alignment explanation
Indices: 110944010--110944039 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
110944000 TTGAAAATAT
110944010 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
110944024 GTTGATTTGGATTG
1 GTTGAATTGGATTG
110944038 GT
1 GT
110944040 CTCGATATAA
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:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:110947906 original size:18 final size:18
Alignment explanation
Indices: 110947883--110947923 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
110947873 TACTTTTCTC
110947883 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
110947901 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
110947919 TTTCT
1 TTTCT
110947924 TTTTATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:110948089 original size:39 final size:39
Alignment explanation
Indices: 110948036--110948170 Score: 107
Period size: 39 Copynumber: 3.4 Consensus size: 39
110948026 ACCAATATGG
* *
110948036 CACCTAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
110948075 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
110948113 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATTTAG-TGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAA--TAGTTGA
*
110948154 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
110948171 ACTCGAGGTC
Statistics
Matches: 74, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
38 19 0.26
39 34 0.46
40 3 0.04
41 16 0.22
42 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:110949114 original size:25 final size:24
Alignment explanation
Indices: 110949069--110949124 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 24
110949059 CCCTATTTTC
* * *
110949069 TCTTTTTCTTTCTTTTTTTTTACT
1 TCTTTTACTTTCATTTGTTTTACT
*
110949093 TCTTTTACGTTTCATTTGTTTTATT
1 TCTTTTAC-TTTCATTTGTTTTACT
*
110949118 TATTTTA
1 TCTTTTA
110949125 TGTTATATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.11, C:0.12, G:0.04, T:0.73
Consensus pattern (24 bp):
TCTTTTACTTTCATTTGTTTTACT
Found at i:110954285 original size:14 final size:14
Alignment explanation
Indices: 110954262--110954291 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
110954252 TTGAAAATAT
110954262 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
110954276 GTTGATTTGGATTG
1 GTTGAATTGGATTG
110954290 GT
1 GT
110954292 CTCGATATAA
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:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:110956485 original size:45 final size:45
Alignment explanation
Indices: 110956421--110956520 Score: 164
Period size: 45 Copynumber: 2.2 Consensus size: 45
110956411 TTGTGTCGAC
* * *
110956421 TACTGTTACTGTTCCGGATTCGTTTCGAAGAGGTACTCTGTACTT
1 TACTGTTACTGTTCCGGATTCGTTCCGAAAAGGTACTCTGTACCT
*
110956466 TACTGTTACTGTTTCGGATTCGTTCCGAAAAGGTACTCTGTACCT
1 TACTGTTACTGTTCCGGATTCGTTCCGAAAAGGTACTCTGTACCT
110956511 TACTGTTACT
1 TACTGTTACT
110956521 ATTAATGTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (45 bp):
TACTGTTACTGTTCCGGATTCGTTCCGAAAAGGTACTCTGTACCT
Found at i:110956557 original size:57 final size:59
Alignment explanation
Indices: 110956461--110956595 Score: 159
Period size: 57 Copynumber: 2.3 Consensus size: 59
110956451 AGGTACTCTG
* * * *
110956461 TACT-TTACTGTTACTGTTTCGGATTCGTTCCGAAAAGGTAC-TCTGTACC-TTACTGT
1 TACTATTAATGTTACTGTTCCAGATTCGTTCCGAAAAGGTACTTCTGTACCGCTACTGT
* ** *
110956517 TACTATTAATGTTACTGTTCCAGATTTGTTCCGATGAGGTACTTTGTGTACCGCTACTGT
1 TACTATTAATGTTACTGTTCCAGATTCGTTCCGAAAAGGTAC-TTCTGTACCGCTACTGT
*
110956577 TACTATTATTGTTACTGTT
1 TACTATTAATGTTACTGTT
110956596 ACCGTTATTG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
56 4 0.06
57 31 0.47
59 7 0.11
60 24 0.36
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.44
Consensus pattern (59 bp):
TACTATTAATGTTACTGTTCCAGATTCGTTCCGAAAAGGTACTTCTGTACCGCTACTGT
Found at i:110956603 original size:18 final size:18
Alignment explanation
Indices: 110956571--110956605 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
110956561 TGTGTACCGC
*
110956571 TACTGTTACTATTATTGT
1 TACTGTTACCATTATTGT
*
110956589 TACTGTTACCGTTATTG
1 TACTGTTACCATTATTG
110956606 ACACAGTGTA
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:0.20, C:0.14, G:0.14, T:0.51
Consensus pattern (18 bp):
TACTGTTACCATTATTGT
Found at i:110956751 original size:18 final size:18
Alignment explanation
Indices: 110956728--110956776 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
110956718 TATTAAAGAC
* *
110956728 TGACTGCTACTGAATAAT
1 TGACTGTTACTGAATAAA
110956746 TGACTGTTACTGAATAAA
1 TGACTGTTACTGAATAAA
*
110956764 TGATTGTTACTGA
1 TGACTGTTACTGA
110956777 TTAACCAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (18 bp):
TGACTGTTACTGAATAAA
Found at i:110960239 original size:6 final size:6
Alignment explanation
Indices: 110960208--110960268 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
110960198 ATAGAAGAAC
* * * * * *
110960208 AAGATG AAAATG AAGAT- AACGTTG AAGATG AATATG GAGATG GAGGTG
1 AAGATG AAGATG AAGATG AA-GATG AAGATG AAGATG AAGATG AAGATG
110960256 AAGATG AAGATG A
1 AAGATG AAGATG A
110960269 TAATAATGAT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
5 2 0.05
6 39 0.91
7 2 0.05
ACGTcount: A:0.46, C:0.02, G:0.33, T:0.20
Consensus pattern (6 bp):
AAGATG
Found at i:110964057 original size:20 final size:20
Alignment explanation
Indices: 110964032--110964071 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
110964022 TTTCAAAAAG
110964032 TTAGAAAAGATCAGACATGA
1 TTAGAAAAGATCAGACATGA
*
110964052 TTAGAAAAGATCGGACATGA
1 TTAGAAAAGATCAGACATGA
110964072 CTCACAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (20 bp):
TTAGAAAAGATCAGACATGA
Found at i:110967071 original size:5 final size:5
Alignment explanation
Indices: 110967061--110967092 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
110967051 CTATCTGTGA
110967061 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
110967093 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:110967086 original size:9 final size:9
Alignment explanation
Indices: 110967062--110967092 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
110967052 TATCTGTGAA
110967062 AAATAAAAT
1 AAATAAAAT
110967071 AAAATAAAAT
1 -AAATAAAAT
110967081 AAATAAAAT
1 AAATAAAAT
110967090 AAA
1 AAA
110967093 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:110970673 original size:29 final size:30
Alignment explanation
Indices: 110970614--110970671 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
110970604 TCCGAGCCTT
*
110970614 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
110970644 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
110970672 AGAGTCGAGG
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:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:110970901 original size:13 final size:13
Alignment explanation
Indices: 110970883--110970914 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
110970873 TTTCCAGCAA
110970883 TTATGAATTTATT
1 TTATGAATTTATT
110970896 TTATGAATTTATT
1 TTATGAATTTATT
*
110970909 TGATGA
1 TTATGA
110970915 TGATCTAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:110971084 original size:50 final size:50
Alignment explanation
Indices: 110971009--110971201 Score: 296
Period size: 50 Copynumber: 3.8 Consensus size: 50
110970999 ATTTGGGTAA
110971009 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
110971059 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
110971109 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
110971159 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
110971202 TGTTATTATC
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 95 0.74
51 34 0.26
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:110978203 original size:29 final size:30
Alignment explanation
Indices: 110978144--110978201 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
110978134 TCCGAGCCTT
*
110978144 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
110978174 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
110978202 AGAGTCGAGG
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:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:110978431 original size:13 final size:13
Alignment explanation
Indices: 110978413--110978444 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
110978403 TTTCCAGCAA
110978413 TTATGAATTTATT
1 TTATGAATTTATT
110978426 TTATGAATTTATT
1 TTATGAATTTATT
*
110978439 TGATGA
1 TTATGA
110978445 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:110978711 original size:50 final size:50
Alignment explanation
Indices: 110978539--110978785 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
110978529 ATTTGGGTAA
* *
110978539 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATC-
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-CG
* *
110978592 ATGGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCA-CGAGACG
1 A--GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* *
110978643 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * *
110978693 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-GACG
** *
110978743 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
110978786 TGTTATTATC
Statistics
Matches: 168, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
49 39 0.23
50 51 0.30
51 38 0.23
53 2 0.01
55 38 0.23
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:111008452 original size:27 final size:26
Alignment explanation
Indices: 111008392--111008452 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
111008382 CATGCTTTTC
111008392 TTAAA-ATTCCTTTCCTTTTTTTATTT
1 TTAAATATTCCTTT-CTTTTTTTATTT
**
111008418 TTTCATATTCCTTT-TTTTTTTCCATTT
1 TTAAATATTCCTTTCTTTTTTT--ATTT
111008445 TTAAATAT
1 TTAAATAT
111008453 ATAAAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
25 7 0.25
26 3 0.11
27 18 0.64
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.66
Consensus pattern (26 bp):
TTAAATATTCCTTTCTTTTTTTATTT
Found at i:111017774 original size:13 final size:13
Alignment explanation
Indices: 111017728--111017782 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
111017718 AAATTTCTTA
111017728 AAAATATCTTTAT
1 AAAATATCTTTAT
* * *
111017741 AAAAAATATCTACT
1 AAAATATCTTTA-T
*
111017755 TAAATATCTTTAT
1 AAAATATCTTTAT
111017768 AAAATATCTTTAT
1 AAAATATCTTTAT
111017781 AA
1 AA
111017783 GAAAAGGTTA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
13 24 0.73
14 9 0.27
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (13 bp):
AAAATATCTTTAT
Found at i:111020746 original size:56 final size:56
Alignment explanation
Indices: 111020684--111020799 Score: 223
Period size: 56 Copynumber: 2.1 Consensus size: 56
111020674 ATATTTCTGG
111020684 TTTTGTTGTATGGTATACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
1 TTTTGTTGTATGGTATACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
*
111020740 TTTTGTTGTATGGTGTACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
1 TTTTGTTGTATGGTATACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
111020796 TTTT
1 TTTT
111020800 CTTATTTTAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.22, C:0.07, G:0.23, T:0.48
Consensus pattern (56 bp):
TTTTGTTGTATGGTATACTGAGTTTGAGATGTTTGATTTTCAGAAGCCATATGATT
Found at i:111024810 original size:30 final size:30
Alignment explanation
Indices: 111024745--111024819 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 30
111024735 AAATTTTAAA
*
111024745 TTAATAAA-GATAAAATTGTACTTTATCTCT
1 TTAA-AAATGATAAAATTGTAATTTATCTCT
* *
111024775 CTAAAAATGATAAAATTTTAATTTAATCT-T
1 TTAAAAATGATAAAATTGTAATTT-ATCTCT
* *
111024805 TTAAAATTTATAAAA
1 TTAAAAATGATAAAA
111024820 ATATAAACTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
29 3 0.08
30 30 0.81
31 4 0.11
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.43
Consensus pattern (30 bp):
TTAAAAATGATAAAATTGTAATTTATCTCT
Found at i:111028451 original size:60 final size:60
Alignment explanation
Indices: 111028341--111028491 Score: 239
Period size: 60 Copynumber: 2.5 Consensus size: 60
111028331 ATTTGACCTA
* * * *
111028341 AAAAAAGCTTAGGTACCAAATTAGAAAAAAAAATAGCAAGTTCAAGTATCAAATTGGACCC
1 AAAAAAGTTTAGGTACCAAATTAG-GAAAAAAATACCAAGTTCAAGTATCAAATTAGACCC
* *
111028402 AACAAAGTTTAGGTACCAAATTAGGAAAAAAATACCAAGTTCAATTATCAAATTAGACCC
1 AAAAAAGTTTAGGTACCAAATTAGGAAAAAAATACCAAGTTCAAGTATCAAATTAGACCC
111028462 AAAAAAGTTTAGGTACCAAATTAGGAAAAA
1 AAAAAAGTTTAGGTACCAAATTAGGAAAAA
111028492 TGTCAAGTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
60 61 0.73
61 22 0.27
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (60 bp):
AAAAAAGTTTAGGTACCAAATTAGGAAAAAAATACCAAGTTCAAGTATCAAATTAGACCC
Found at i:111028502 original size:30 final size:31
Alignment explanation
Indices: 111028466--111028531 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
111028456 AGACCCAAAA
* **
111028466 AAGTTTAGGTACCAAATT-AGGAAAAATGTC
1 AAGTTTAGATACCAAATTAAAAAAAAATGTC
111028496 AAGTTTAGATACCAAATTAAAAAAAAATGTC
1 AAGTTTAGATACCAAATTAAAAAAAAATGTC
111028527 AAGTT
1 AAGTT
111028532 CATATATCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 17 0.53
31 15 0.47
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.27
Consensus pattern (31 bp):
AAGTTTAGATACCAAATTAAAAAAAAATGTC
Found at i:111031114 original size:12 final size:12
Alignment explanation
Indices: 111031099--111031141 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
111031089 ATATTGTTAT
* *
111031099 TATTATTCCTAA
1 TATTATTACTAC
*
111031111 TATTATTAATAC
1 TATTATTACTAC
*
111031123 TATTATTTCTAC
1 TATTATTACTAC
111031135 TATTATT
1 TATTATT
111031142 GTTATTATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTATTACTAC
Found at i:111031279 original size:29 final size:29
Alignment explanation
Indices: 111031212--111031279 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
111031202 TTACTATTTT
111031212 TAGTATTATTATTATATGTAATATTAGTA
1 TAGTATTATTATTATATGTAATATTAGTA
* *
111031241 TAGGTTTTATTA-TATATGTACGTATATA-TA
1 TA-GTATTATTATTATATGTA-ATAT-TAGTA
111031271 TAGTATTAT
1 TAGTATTAT
111031280 CTTAATTACT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 16 0.48
30 15 0.45
31 2 0.06
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.51
Consensus pattern (29 bp):
TAGTATTATTATTATATGTAATATTAGTA
Found at i:111031879 original size:20 final size:20
Alignment explanation
Indices: 111031856--111031894 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
111031846 CCCATGTATA
*
111031856 TATTATTATTACATTTATTT
1 TATTACTATTACATTTATTT
* *
111031876 TATTCCTATTATATTTATT
1 TATTACTATTACATTTATT
111031895 ATTAGTACAT
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:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTACTATTACATTTATTT
Found at i:111033121 original size:13 final size:13
Alignment explanation
Indices: 111033103--111033139 Score: 60
Period size: 12 Copynumber: 3.0 Consensus size: 13
111033093 CTGGCCCACC
111033103 TATATTAATTTTT
1 TATATTAATTTTT
111033116 TATATT-ATTTTT
1 TATATTAATTTTT
111033128 TATA-TAATTTTT
1 TATATTAATTTTT
111033140 AAATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.04
12 16 0.70
13 6 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATATTAATTTTT
Found at i:111033138 original size:11 final size:12
Alignment explanation
Indices: 111033103--111033140 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
111033093 CTGGCCCACC
111033103 TATATTAATTTTT
1 TATATTAA-TTTT
*
111033116 TATATTATTTTT
1 TATATTAATTTT
111033128 TATA-TAATTTT
1 TATATTAATTTT
111033139 TA
1 TA
111033141 AATATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 8 0.35
12 8 0.35
13 7 0.30
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:111034179 original size:21 final size:21
Alignment explanation
Indices: 111034155--111034213 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
111034145 TATTTATTAA
111034155 ATTTAATTAGAATATTTAAAT
1 ATTTAATTAGAATATTTAAAT
* * *
111034176 ATTTAAATATAATAATTAAAT
1 ATTTAATTAGAATATTTAAAT
111034197 ATTTGTAATTAG-ATATT
1 A-TT-TAATTAGAATATT
111034214 GACACAATTG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 19 0.63
22 6 0.20
23 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (21 bp):
ATTTAATTAGAATATTTAAAT
Found at i:111035802 original size:30 final size:32
Alignment explanation
Indices: 111035750--111035810 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
111035740 AATATTTGAA
* **
111035750 ATTTTTTTGTTTCAATTTGATAT-TGAATTTG
1 ATTTTATTGTTTCAATCCGATATATGAATTTG
111035781 ATTTTATTG-TTCAATCCGATATATGAATTT
1 ATTTTATTGTTTCAATCCGATATATGAATTT
111035811 TCTTTTGTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.56
Consensus pattern (32 bp):
ATTTTATTGTTTCAATCCGATATATGAATTTG
Found at i:111037127 original size:18 final size:19
Alignment explanation
Indices: 111037074--111037138 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 19
111037064 TACAAAATAA
111037074 TCAAAATAATTTTCAAAAAT
1 TCAAAATAATTTT-AAAAAT
*
111037094 TCAAAATAAATTTAAAAA-
1 TCAAAATAATTTTAAAAAT
111037112 TCAAAAT-ATTTATAAAAAT
1 TCAAAATAATTT-TAAAAAT
111037131 TCTAAAAT
1 TC-AAAAT
111037139 TTATATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.08
18 13 0.32
19 7 0.17
20 17 0.43
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
TCAAAATAATTTTAAAAAT
Found at i:111037140 original size:18 final size:18
Alignment explanation
Indices: 111037072--111037143 Score: 60
Period size: 18 Copynumber: 3.9 Consensus size: 18
111037062 AATACAAAAT
111037072 AATCAAAATAATTT-TCAAA
1 AATCAAAAT-ATTTAT-AAA
*
111037091 AATTCAAAATAAATT-TAAA
1 AA-TCAAAAT-ATTTATAAA
111037110 AATCAAAATATTTATAAA
1 AATCAAAATATTTATAAA
*
111037128 AATTCTAAA-ATTTATA
1 AA-TCAAAATATTTATA
111037144 TTTTTAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
17 3 0.06
18 20 0.43
19 12 0.26
20 12 0.26
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (18 bp):
AATCAAAATATTTATAAA
Found at i:111038725 original size:17 final size:16
Alignment explanation
Indices: 111038707--111038784 Score: 65
Period size: 17 Copynumber: 4.9 Consensus size: 16
111038697 CTTCACACCT
111038707 TTTTGTTTTCTTTTTC
1 TTTTGTTTTCTTTTTC
* *
111038723 TTTTATTTTCATATTTC
1 TTTTGTTTTC-TTTTTC
111038740 TTTTG--TT-TTTTTC
1 TTTTGTTTTCTTTTTC
* *
111038753 TTTTATTTTCATATTTC
1 TTTTGTTTTC-TTTTTC
111038770 TTTT-TTTTACTTTTT
1 TTTTGTTTT-CTTTTT
111038785 TATTTTGTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
13 9 0.18
15 4 0.08
16 17 0.35
17 19 0.39
ACGTcount: A:0.09, C:0.10, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTGTTTTCTTTTTC
Found at i:111038753 original size:30 final size:29
Alignment explanation
Indices: 111038712--111038790 Score: 115
Period size: 30 Copynumber: 2.7 Consensus size: 29
111038702 CACCTTTTTG
*
111038712 TTTTCTTTTTCTTTTATTTTCATATTTCT
1 TTTTTTTTTTCTTTTATTTTCATATTTCT
111038741 TTTGTTTTTTTCTTTTATTTTCATATTTCT
1 TTT-TTTTTTTCTTTTATTTTCATATTTCT
*
111038771 TTTTTTTACTT-TTTTATTTT
1 TTTTTTT-TTTCTTTTATTTT
111038791 GTTCCTTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 16 0.35
30 30 0.65
ACGTcount: A:0.10, C:0.10, G:0.01, T:0.78
Consensus pattern (29 bp):
TTTTTTTTTTCTTTTATTTTCATATTTCT
Found at i:111038824 original size:17 final size:17
Alignment explanation
Indices: 111038804--111038881 Score: 61
Period size: 16 Copynumber: 4.4 Consensus size: 17
111038794 CCTTAATAAA
111038804 TTTTATCTTTTTATTTT
1 TTTTATCTTTTTATTTT
111038821 TTTTA-CTTTTT-TTATT
1 TTTTATCTTTTTATT-TT
*
111038837 TTTTTTCTTATTTCATTTT
1 TTTTATCTT-TTT-ATTTT
* *
111038856 GTTTATTTTGTTTTATTTT
1 TTTTA-TCT-TTTTATTTT
111038875 TTATTAT
1 TT-TTAT
111038882 TAACTTTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
15 2 0.04
16 12 0.25
17 8 0.17
18 3 0.06
19 12 0.25
20 10 0.21
21 1 0.02
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTATCTTTTTATTTT
Found at i:111038840 original size:26 final size:26
Alignment explanation
Indices: 111038804--111038876 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 26
111038794 CCTTAATAAA
*
111038804 TTTTATCTTTTTATTTTTTTT-ACTTT
1 TTTTATTTTTTTATTTTTTTTCA-TTT
* *
111038830 TTTTATTTTTTT-TCTTATTTCATTT
1 TTTTATTTTTTTATTTTTTTTCATTT
111038855 TGTTTATTTTGTTTTATTTTTT
1 T-TTTA-TTT-TTTTATTTTTT
111038877 ATTATTAACT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
25 10 0.27
26 16 0.43
27 3 0.08
28 4 0.11
29 4 0.11
ACGTcount: A:0.11, C:0.05, G:0.03, T:0.81
Consensus pattern (26 bp):
TTTTATTTTTTTATTTTTTTTCATTT
Found at i:111038872 original size:10 final size:9
Alignment explanation
Indices: 111038811--111038882 Score: 74
Period size: 9 Copynumber: 7.9 Consensus size: 9
111038801 AAATTTTATC
111038811 TTTTTATTT
1 TTTTTATTT
*
111038820 TTTTTACTT
1 TTTTTATTT
111038829 TTTTTATTT
1 TTTTTATTT
*
111038838 TTTTT-CTT
1 TTTTTATTT
* *
111038846 ATTTCATTT
1 TTTTTATTT
*
111038855 TGTTTATTT
1 TTTTTATTT
111038864 TGTTTTATTT
1 T-TTTTATTT
111038874 TTTATTATT
1 TTT-TTATT
111038883 AACTTTAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
8 5 0.10
9 32 0.64
10 13 0.26
ACGTcount: A:0.12, C:0.04, G:0.03, T:0.81
Consensus pattern (9 bp):
TTTTTATTT
Found at i:111038875 original size:35 final size:33
Alignment explanation
Indices: 111038804--111038876 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 33
111038794 CCTTAATAAA
* *
111038804 TTTTATCTTTTTATTTTTTTTACTTTTTTTATT
1 TTTTTTCTTTTTATTTTGTTTACTTTTTTTATT
*
111038837 TTTTTTCTTATTTCATTTTGTTTATTTTGTTTTATT
1 TTTTTTCTT-TTT-ATTTTGTTTACTTT-TTTTATT
111038873 TTTT
1 TTTT
111038877 ATTATTAACT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 8 0.24
34 3 0.09
35 12 0.35
36 11 0.32
ACGTcount: A:0.11, C:0.05, G:0.03, T:0.81
Consensus pattern (33 bp):
TTTTTTCTTTTTATTTTGTTTACTTTTTTTATT
Found at i:111039003 original size:28 final size:28
Alignment explanation
Indices: 111038892--111039005 Score: 85
Period size: 28 Copynumber: 4.2 Consensus size: 28
111038882 TAACTTTAAA
*
111038892 ATGATACAATATAATATATTTTTTAATT
1 ATGATATAATATAATATATTTTTTAATT
* ** *
111038920 ATGATATAATATAAT-TATGTGGT-GTCT
1 ATGATATAATATAATATATTTTTTAAT-T
* * * * *
111038947 A--ATATCATTTTATTTTTTTATTTAA-T
1 ATGATATAATATAATATATTT-TTTAATT
111038973 ATGATATAATATAATATATTTTTTAATT
1 ATGATATAATATAATATATTTTTTAATT
111039001 ATGAT
1 ATGAT
111039006 TGGATTTTAA
Statistics
Matches: 61, Mismatches: 18, Indels: 14
0.66 0.19 0.15
Matches are distributed among these distances:
25 9 0.15
26 6 0.10
27 13 0.21
28 33 0.54
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (28 bp):
ATGATATAATATAATATATTTTTTAATT
Found at i:111039421 original size:18 final size:18
Alignment explanation
Indices: 111039399--111039449 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
111039389 ATTTTTAAAA
*
111039399 TTTAATTTTTTATA-TAT
1 TTTAATTTTTTAAATTAT
111039416 TCTTAATTATTTTAAATTAT
1 T-TTAATT-TTTTAAATTAT
*
111039436 TTTAAATTTTTAAA
1 TTTAATTTTTTAAA
111039450 ATTAATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 1 0.03
18 13 0.45
19 11 0.38
20 4 0.14
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTAATTTTTTAAATTAT
Found at i:111039433 original size:10 final size:10
Alignment explanation
Indices: 111039420--111039453 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
111039410 ATATATTCTT
111039420 AATTATTTTA
1 AATTATTTTA
111039430 AATTATTTTA
1 AATTATTTTA
*
111039440 AATT-TTTAA
1 AATTATTTTA
111039449 AATTA
1 AATTA
111039454 ATTAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
AATTATTTTA
Found at i:111039783 original size:28 final size:29
Alignment explanation
Indices: 111039733--111039794 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 29
111039723 AGATAAACCA
111039733 ATCATAATTAAAAAAATATATTATATTAT
1 ATCATAATTAAAAAAATATATTATATTAT
111039762 ATCATAATT-AAAAAATATATTATATTAT
1 ATCATAATTAAAAAAATATATTATATTAT
111039790 ATCAT
1 ATCAT
111039795 TTTAAAGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 24 0.73
29 9 0.27
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (29 bp):
ATCATAATTAAAAAAATATATTATATTAT
Found at i:111039840 original size:24 final size:22
Alignment explanation
Indices: 111039813--111039856 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
111039803 TAATAATAAA
111039813 AAATAAGACAAAATAAACAAAATG
1 AAATAAGA-AAAA-AAACAAAATG
*
111039837 AAATAAGAAAAAAATCAAAA
1 AAATAAGAAAAAAAACAAAA
111039857 AAGTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 4 0.21
24 8 0.42
ACGTcount: A:0.75, C:0.07, G:0.07, T:0.11
Consensus pattern (22 bp):
AAATAAGAAAAAAAACAAAATG
Found at i:111039858 original size:9 final size:8
Alignment explanation
Indices: 111039810--111039881 Score: 54
Period size: 9 Copynumber: 8.4 Consensus size: 8
111039800 AGTTAATAAT
111039810 AAAAAATA
1 AAAAAATA
111039818 AGACAAAATA
1 A-A-AAAATA
*
111039828 AACAAAATG
1 AA-AAAATA
* *
111039837 AAATAAGA
1 AAAAAATA
111039845 AAAAAATCA
1 AAAAAAT-A
*
111039854 AAAAAGTAA
1 AAAAAAT-A
111039863 AAAAAATA
1 AAAAAATA
*
111039871 AAAAGATA
1 AAAAAATA
111039879 AAA
1 AAA
111039882 TTTATTAAGG
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
8 20 0.39
9 24 0.47
10 7 0.14
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:111039922 original size:23 final size:22
Alignment explanation
Indices: 111039896--111039965 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
111039886 TTAAGGAACA
111039896 AAATA-AAAAAGTAAAAATAAAAG
1 AAATATAAAAA-TAAAAA-AAAAG
* *
111039919 AAATATGAAAATAAAAAAAAAC
1 AAATATAAAAATAAAAAAAAAG
* * *
111039941 AAA-AGAAATATGAAAATAAAAG
1 AAATATAAAAAT-AAAAAAAAAG
111039963 AAA
1 AAA
111039966 AAGGAAACAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
21 5 0.13
22 18 0.47
23 11 0.29
24 4 0.11
ACGTcount: A:0.77, C:0.01, G:0.09, T:0.13
Consensus pattern (22 bp):
AAATATAAAAATAAAAAAAAAG
Found at i:111039931 original size:17 final size:17
Alignment explanation
Indices: 111039909--111039965 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 17
111039899 TAAAAAAGTA
111039909 AAAATAAAAGAAATATG
1 AAAATAAAAGAAATATG
111039926 AAAAT---A-AAA-A--
1 AAAATAAAAGAAATATG
*
111039936 AAAACAAAAGAAATATG
1 AAAATAAAAGAAATATG
111039953 AAAATAAAAGAAA
1 AAAATAAAAGAAA
111039966 AAGGAAACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
10 4 0.13
12 1 0.03
13 4 0.13
14 4 0.13
15 1 0.03
17 17 0.55
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAATAAAAGAAATATG
Found at i:111039944 original size:27 final size:28
Alignment explanation
Indices: 111039902--111039967 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 28
111039892 AACAAAATAA
*
111039902 AAAAGTAAAAATAAAAGAAATATGAAAAT
1 AAAAG-AAAAACAAAAGAAATATGAAAAT
111039931 AAAA-AAAAACAAAAGAAATATGAAAAT
1 AAAAGAAAAACAAAAGAAATATGAAAAT
111039958 AAAAGAAAAA
1 AAAAGAAAAA
111039968 GGAAACAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 26 0.74
28 5 0.14
29 4 0.11
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.12
Consensus pattern (28 bp):
AAAAGAAAAACAAAAGAAATATGAAAAT
Found at i:111039972 original size:17 final size:17
Alignment explanation
Indices: 111039936--111039977 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
111039926 AAAATAAAAA
* *
111039936 AAAACAAAAGAAATATG
1 AAAACAAAAGAAAAAGG
*
111039953 AAAATAAAAGAAAAAGG
1 AAAACAAAAGAAAAAGG
111039970 -AAACAAAA
1 AAAACAAAA
111039978 AGGTGTCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.76, C:0.05, G:0.12, T:0.07
Consensus pattern (17 bp):
AAAACAAAAGAAAAAGG
Found at i:111041404 original size:20 final size:18
Alignment explanation
Indices: 111041379--111041447 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 18
111041369 ATCGCAAAAT
111041379 AATTCAAAATCATTTTCAAA
1 AATTCAAAAT-ATTTT-AAA
*
111041399 AATTCAAAATAATTTTTAA
1 AATTCAAAAT-ATTTTAAA
* *
111041418 AAGTCAAAATATTTAGAAA
1 AATTCAAAATATTT-TAAA
111041437 AATTCCAAAAT
1 AATT-CAAAAT
111041448 TTATATTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
18 4 0.10
19 16 0.39
20 21 0.51
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (18 bp):
AATTCAAAATATTTTAAA
Found at i:111041424 original size:19 final size:20
Alignment explanation
Indices: 111041382--111041428 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
111041372 GCAAAATAAT
* *
111041382 TCAAAATCATTTTCAAAAAT
1 TCAAAATAATTTTCAAAAAG
*
111041402 TCAAAATAATTTT-TAAAAG
1 TCAAAATAATTTTCAAAAAG
111041421 TCAAAATA
1 TCAAAATA
111041429 TTTAGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.34
Consensus pattern (20 bp):
TCAAAATAATTTTCAAAAAG
Found at i:111058864 original size:14 final size:14
Alignment explanation
Indices: 111058845--111058875 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
111058835 GGCTCAATTG
111058845 TTTTATTTTATTTA
1 TTTTATTTTATTTA
111058859 TTTTATTTTATTTA
1 TTTTATTTTATTTA
111058873 TTT
1 TTT
111058876 AGATAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:111058966 original size:30 final size:31
Alignment explanation
Indices: 111058915--111058977 Score: 110
Period size: 30 Copynumber: 2.0 Consensus size: 31
111058905 CTTGTAAAAA
111058915 TTATGAAATTTCCAAATATTTTGTCAAACTTT
1 TTATGAAATTTCC-AATATTTTGTCAAACTTT
111058947 TTATGAAATTTCC-ATATTTTGTCAAACTTT
1 TTATGAAATTTCCAATATTTTGTCAAACTTT
111058977 T
1 T
111058978 CATTGTCACC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 18 0.58
32 13 0.42
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.49
Consensus pattern (31 bp):
TTATGAAATTTCCAATATTTTGTCAAACTTT
Found at i:111059208 original size:6 final size:6
Alignment explanation
Indices: 111059194--111059223 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
111059184 AAGTAATTAC
*
111059194 AATATA AATACA AATACA AATACA AATACA
1 AATACA AATACA AATACA AATACA AATACA
111059224 TGTATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (6 bp):
AATACA
Found at i:111063759 original size:25 final size:25
Alignment explanation
Indices: 111063727--111063842 Score: 89
Period size: 24 Copynumber: 4.7 Consensus size: 25
111063717 TCTTCGTGAA
111063727 CTTCCTGATTAATGGCTCTCTAGAG
1 CTTCCTGATTAATGGCTCTCTAGAG
* * * *
111063752 CTTCCTGA-TACTGGCTCACTTGAAC
1 CTTCCTGATTAATGGCTCTCTAG-AG
* *
111063777 CTTCCTGA-TATTGGCTC-GTATGAG
1 CTTCCTGATTAATGGCTCTCTA-GAG
* *
111063801 CTTCCCG-TTAATGGCTTTCTAGAG
1 CTTCCTGATTAATGGCTCTCTAGAG
*
111063825 CTTTCT-ATTATATGGCTC
1 CTTCCTGATTA-ATGGCTC
111063843 GAAAGAGCTT
Statistics
Matches: 70, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
24 36 0.51
25 34 0.49
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (25 bp):
CTTCCTGATTAATGGCTCTCTAGAG
Found at i:111063802 original size:49 final size:50
Alignment explanation
Indices: 111063690--111063816 Score: 127
Period size: 49 Copynumber: 2.5 Consensus size: 50
111063680 ACACACCATA
* *
111063690 GCTCTTATGAGCGTCCCGATACATGGCTCTTCGTGAACTTCCTGATTAATG
1 GCTC-TATGAGCTTCCCGATACATGGCTCTACGTGAACTTCCTGATTAATG
* * * *
111063741 GCTCTCTAGAGCTTCCTGATAC-TGGCTC-ACTTGAACCTTCCTGA-TATTG
1 GCTCTAT-GAGCTTCCCGATACATGGCTCTACGTGAA-CTTCCTGATTAATG
*
111063790 GCTCGTATGAGCTTCCCGTTA-ATGGCT
1 GCTC-TATGAGCTTCCCGATACATGGCT
111063817 TTCTAGAGCT
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
49 29 0.46
50 18 0.29
51 16 0.25
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (50 bp):
GCTCTATGAGCTTCCCGATACATGGCTCTACGTGAACTTCCTGATTAATG
Found at i:111063880 original size:26 final size:25
Alignment explanation
Indices: 111063821--111063880 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
111063811 ATGGCTTTCT
*
111063821 AGAGCTTTCTATTATATGGCTCGAA
1 AGAGCTTCCTATTATATGGCTCGAA
111063846 AGAGCTTCCTATT-TATGTGCTCGAA
1 AGAGCTTCCTATTATATG-GCTCGAA
*
111063871 TGAGCATTCC
1 AGAGC-TTCC
111063881 CGAATATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 4 0.13
25 23 0.74
26 4 0.13
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (25 bp):
AGAGCTTCCTATTATATGGCTCGAA
Done.