Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3538007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 18
Found at i:935622 original size:20 final size:20
Alignment explanation
Indices: 935577--935622 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
935567 GCAACGAGAG
*
935577 AATCGCAACGCGAAATAAAA
1 AATCGCAACGCGAAACAAAA
935597 AA-CGCAACGCGAAACAAAA
1 AATCGCAACGCGAAACAAAA
935616 AATCGCA
1 AATCGCA
935623 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.54, C:0.24, G:0.15, T:0.07
Consensus pattern (20 bp):
AATCGCAACGCGAAACAAAA
Found at i:935645 original size:19 final size:19
Alignment explanation
Indices: 935618--935726 Score: 191
Period size: 19 Copynumber: 5.7 Consensus size: 19
935608 AAACAAAAAA
*
935618 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
935637 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
935656 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
935675 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
935695 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
935714 TCGCGTTGCGATT
1 TCGCGTTGCGATT
935727 GTCTGGTCGC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
19 68 0.79
20 18 0.21
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:935695 original size:39 final size:38
Alignment explanation
Indices: 935618--935726 Score: 191
Period size: 39 Copynumber: 2.8 Consensus size: 38
935608 AAACAAAAAA
*
935618 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
935656 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
935695 TCGCGTTGCGATTTTCATTTCGCGTTGCGATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATT
935727 GTCTGGTCGC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 30 0.45
39 37 0.55
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:935737 original size:58 final size:58
Alignment explanation
Indices: 935623--935737 Score: 187
Period size: 58 Copynumber: 2.0 Consensus size: 58
935613 AAAAATCGCA
* **
935623 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
935681 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTGTCT-GGTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATT-TCTAGGTCGCG
935738 ATAGTCATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
58 51 0.96
59 2 0.04
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (58 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
Found at i:935746 original size:33 final size:33
Alignment explanation
Indices: 935709--935796 Score: 113
Period size: 33 Copynumber: 2.6 Consensus size: 33
935699 GTTGCGATTT
* ** *
935709 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCATCGCAATAG
**
935742 TCATTTCGCGTTGCGATTCTCTCATTTCAATAG
1 TCATTTCGCGTTGCGATTCTCTCATCGCAATAG
935775 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
935797 ATTATCTCGT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 33 0.69
34 15 0.31
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.40
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCATCGCAATAG
Found at i:937905 original size:42 final size:42
Alignment explanation
Indices: 937829--937947 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
937819 GACTCGCCTG
* * * * * * *
937829 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
937871 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
937913 TCA-TCGTAGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
937948 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.22
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:939322 original size:14 final size:14
Alignment explanation
Indices: 939303--939338 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
939293 GATTGTTAAT
939303 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
939317 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
939331 TGATTTGT
1 TGATTTGT
939339 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:939507 original size:19 final size:19
Alignment explanation
Indices: 939445--939498 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 19
939435 AAAAAGTACT
*
939445 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
939464 ATCGCAACGCAAAAATGAAA
1 ATCGCAACGC-GAAATGAAA
939484 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
939499 TAAATTCGCG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:939550 original size:33 final size:32
Alignment explanation
Indices: 939507--939633 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
939497 ATTAAATTCG
939507 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
939540 CGTTGAGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
939573 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
939606 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
939634 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:939596 original size:66 final size:66
Alignment explanation
Indices: 939500--939632 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
939490 ACGCGAAATT
*
939500 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGAGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGAGATTTTCATTTCGCATTGC
939565 G
66 G
* *
939566 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGAGATTTTCATTTCGCATTGC
939631 G
66 G
939632 A
1 A
939633 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGAGATTTTCATTTCGCATTGC
G
Found at i:941942 original size:12 final size:12
Alignment explanation
Indices: 941925--941949 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
941915 TCTTCGGGGA
941925 CTTTTTCTTCTT
1 CTTTTTCTTCTT
941937 CTTTTTCTTCTT
1 CTTTTTCTTCTT
941949 C
1 C
941950 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:943259 original size:20 final size:20
Alignment explanation
Indices: 943234--943291 Score: 116
Period size: 20 Copynumber: 2.9 Consensus size: 20
943224 ATTCATTTGA
943234 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
943254 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
943274 CTATCGCAACGCGAAAAT
1 CTATCGCAACGCGAAAAT
943292 CGCAATGCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:943334 original size:14 final size:16
Alignment explanation
Indices: 943314--943387 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
943304 TGAAAATCGC
943314 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
943329 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
943346 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
943365 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
943381 -TTGCGAT
1 ATTGCGAT
943388 AGCCATTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:943351 original size:19 final size:19
Alignment explanation
Indices: 943310--943377 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
943300 AAAATGAAAA
943310 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
943326 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
943343 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
943362 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
943378 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:943513 original size:14 final size:14
Alignment explanation
Indices: 943494--943530 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
943484 CATCAATTAA
943494 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
943508 ACAAATCATCTTTT
1 ACAAATCAACATTT
943522 ACAAATCAA
1 ACAAATCAA
943531 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:945273 original size:20 final size:19
Alignment explanation
Indices: 945250--945317 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 19
945240 GAAACTTAAA
945250 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
945270 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* * **
945290 ATCACAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
945309 ATCGCAACG
1 ATCGCAACG
945318 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
19 13 0.33
20 25 0.64
21 1 0.03
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:945384 original size:14 final size:14
Alignment explanation
Indices: 945365--945422 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
945355 TTTCATTTCG
945365 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
945379 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
945395 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
945411 CGTTGCGATTTT
1 CGTTGCGATTTT
945423 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:945429 original size:33 final size:33
Alignment explanation
Indices: 945348--945438 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
945338 ACAAATCGCA
*
945348 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
945381 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
945413 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
945439 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:945457 original size:20 final size:19
Alignment explanation
Indices: 945423--945477 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
945413 TTGCGATTTT
*
945423 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
945442 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
945462 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
945478 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:945985 original size:18 final size:18
Alignment explanation
Indices: 945959--946003 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
945949 GTCGATCAGA
*
945959 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
945977 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
945995 TGATGGCTC
1 TGATGGCTC
946004 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:947348 original size:20 final size:20
Alignment explanation
Indices: 947323--947360 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
947313 AATAGTTTCT
947323 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
947343 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
947361 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:947650 original size:22 final size:22
Alignment explanation
Indices: 947625--947668 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
947615 GATGGAGTTA
947625 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
947647 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
947669 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:947917 original size:20 final size:20
Alignment explanation
Indices: 947856--947925 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
947846 GATTATGTAT
947856 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
947876 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
947896 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
*
947916 TATCTCGTTG
1 TATCGCGTTG
947926 TGATTTTGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.27
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:947962 original size:20 final size:20
Alignment explanation
Indices: 947856--947970 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
947846 GATTATGTAT
*
947856 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
947876 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
947896 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGATAGTCAG
* * * *
947916 TATCTCGTTGTGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
*
947937 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
947957 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
947971 TTTCCCAATT
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
19 3 0.04
20 63 0.80
21 11 0.14
22 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:947988 original size:21 final size:21
Alignment explanation
Indices: 947959--948051 Score: 91
Period size: 20 Copynumber: 4.5 Consensus size: 21
947949 ATAGTCAGTA
947959 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
947980 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
948000 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * * **
948021 TCACGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
948041 TCGCATTGCGA
1 TCGCATTGCGA
948052 ATTGGGAAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 31 0.55
21 25 0.45
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:947989 original size:41 final size:41
Alignment explanation
Indices: 947959--948051 Score: 141
Period size: 41 Copynumber: 2.3 Consensus size: 41
947949 ATAGTCAGTA
* *
947959 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
* * *
948000 TCGCATTGCGATTTTCCCAATTCACGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
948041 TCGCATTGCGA
1 TCGCATTGCGA
948052 ATTGGGAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:948807 original size:21 final size:21
Alignment explanation
Indices: 948781--948821 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
948771 TTCTTCATCT
948781 TCTTCTCGACCAAGCCACTCC
1 TCTTCTCGACCAAGCCACTCC
* * *
948802 TCTTCTTGCCCAAGGCACTC
1 TCTTCTCGACCAAGCCACTC
948822 GACCATCTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.44, G:0.12, T:0.27
Consensus pattern (21 bp):
TCTTCTCGACCAAGCCACTCC
Found at i:970394 original size:23 final size:24
Alignment explanation
Indices: 970368--970426 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
970358 CAGTCAAAAC
970368 TGCCACATAGAAT-TCCACCAAAG
1 TGCCACATAGAATATCCACCAAAG
* *
970391 TGCCACATAGAATATGCACCGAAG
1 TGCCACATAGAATATCCACCAAAG
*
970415 TGCCATATAGAA
1 TGCCACATAGAA
970427 ATGTCCCGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 13 0.41
24 19 0.59
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (24 bp):
TGCCACATAGAATATCCACCAAAG
Found at i:970444 original size:47 final size:46
Alignment explanation
Indices: 970393--970487 Score: 113
Period size: 46 Copynumber: 2.0 Consensus size: 46
970383 CACCAAAGTG
*
970393 CCACATAGA-ATATGCACCGAAGTG-CCATATAGAAATGTCCCGAAGGA
1 CCACATAGATATAT-C-CCGAAG-GACCACATAGAAATGTCCCGAAGGA
* * *
970440 CCACATAGATATATCCCGAAGGACCGCGTAGAAATGTCCTGAAGGA
1 CCACATAGATATATCCCGAAGGACCACATAGAAATGTCCCGAAGGA
970486 CC
1 CC
970488 TCCCCTCGAC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
45 1 0.02
46 27 0.64
47 10 0.24
48 4 0.10
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (46 bp):
CCACATAGATATATCCCGAAGGACCACATAGAAATGTCCCGAAGGA
Found at i:970447 original size:23 final size:23
Alignment explanation
Indices: 970393--970487 Score: 95
Period size: 23 Copynumber: 4.1 Consensus size: 23
970383 CACCAAAGTG
970393 CCACATAGAATATG-CACCGAAGTG-
1 CCACATAGAA-ATGTC-CCGAAG-GA
*
970417 CCATATAGAAATGTCCCGAAGGA
1 CCACATAGAAATGTCCCGAAGGA
* *
970440 CCACATAGATATATCCCGAAGGA
1 CCACATAGAAATGTCCCGAAGGA
* * *
970463 CCGCGTAGAAATGTCCTGAAGGA
1 CCACATAGAAATGTCCCGAAGGA
970486 CC
1 CC
970488 TCCCCTCGAC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
22 1 0.02
23 49 0.82
24 10 0.17
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (23 bp):
CCACATAGAAATGTCCCGAAGGA
Found at i:976024 original size:103 final size:101
Alignment explanation
Indices: 975843--976047 Score: 293
Period size: 103 Copynumber: 2.0 Consensus size: 101
975833 ACTTTAACTT
* * * * *
975843 TTTTTTTTGCATACTTCAAGGAGAGTTAGCTCATCACACTATCTTCCCACACTCTAAGTGAAAGG
1 TTTTTTTAGCATACTTCAAGGAGAGTCAACCCATCACACTATCATCCCACACTCTAAGTGAAAGG
* *
975908 GAGCATACCTTCCACCCCCGAGCTAGTCAGGTAGAG
66 GAGCATACATTCCACCCCCGAGCTAGTAAGGTAGAG
* * *
975944 TTTTTTTAGCACTACTTCGAGGGGAGTCAACCCATCACACCTATCATCCCACACTCTAGGTGAAA
1 TTTTTTTAGCA-TACTTCAAGGAGAGTCAACCCATCACA-CTATCATCCCACACTCTAAGTGAAA
*
976009 GGGAGTATACATTCCACCCCCGAGCTAGTAAGGTAGAG
64 GGGAGCATACATTCCACCCCCGAGCTAGTAAGGTAGAG
976047 T
1 T
976048 CATCCCGTGA
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
101 10 0.11
102 22 0.24
103 59 0.65
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (101 bp):
TTTTTTTAGCATACTTCAAGGAGAGTCAACCCATCACACTATCATCCCACACTCTAAGTGAAAGG
GAGCATACATTCCACCCCCGAGCTAGTAAGGTAGAG
Found at i:979890 original size:171 final size:171
Alignment explanation
Indices: 979605--979946 Score: 666
Period size: 171 Copynumber: 2.0 Consensus size: 171
979595 TGTCAGATTG
979605 TTATTGTGGCAATACCCCTAAGCATGAATTATAGTCATTGTCTATCCTACTCAAGCATTTATCCC
1 TTATTGTGGCAATACCCCTAAGCATGAATTATAGTCATTGTCTATCCTACTCAAGCATTTATCCC
*
979670 TTTTAGTTTATTGAAACCCTCTCTTTATCTCTAAGGTAGACAAGTTAGAACATTACCATCCCGGA
66 TTTTAGTTTATTGAAACCCTCTATTTATCTCTAAGGTAGACAAGTTAGAACATTACCATCCCGGA
979735 TCAATTCTATTGTTGACGTAGATCTATCTTAATTCTCTCAA
131 TCAATTCTATTGTTGACGTAGATCTATCTTAATTCTCTCAA
*
979776 TTATTGTGGCAATTCCCCTAAGCATGAATTATAGTCATTGTCTATCCTACTCAAGCATTTATCCC
1 TTATTGTGGCAATACCCCTAAGCATGAATTATAGTCATTGTCTATCCTACTCAAGCATTTATCCC
979841 TTTTAGTTTATTGAAACCCTCTATTTATCTCTAAGGTAGACAAGTTAGAACATTACCATCCCGGA
66 TTTTAGTTTATTGAAACCCTCTATTTATCTCTAAGGTAGACAAGTTAGAACATTACCATCCCGGA
979906 TCAATTCTATTGTTGACGTAGATCTATCTTAATTCTCTCAA
131 TCAATTCTATTGTTGACGTAGATCTATCTTAATTCTCTCAA
979947 ATCTATGAAT
Statistics
Matches: 169, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
171 169 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (171 bp):
TTATTGTGGCAATACCCCTAAGCATGAATTATAGTCATTGTCTATCCTACTCAAGCATTTATCCC
TTTTAGTTTATTGAAACCCTCTATTTATCTCTAAGGTAGACAAGTTAGAACATTACCATCCCGGA
TCAATTCTATTGTTGACGTAGATCTATCTTAATTCTCTCAA
Found at i:981156 original size:22 final size:22
Alignment explanation
Indices: 981122--981172 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
981112 CTGAGTGGCA
* *
981122 TATGAAATTTGTCCCGAAGGACC
1 TATG-AATATGTCCCGAAAGACC
*
981145 TGTGAATATGTCCCGAAAGACC
1 TATGAATATGTCCCGAAAGACC
981167 TATGAA
1 TATGAA
981173 ACCCTCGACT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (22 bp):
TATGAATATGTCCCGAAAGACC
Found at i:990574 original size:29 final size:29
Alignment explanation
Indices: 990531--990589 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
990521 TCGGGGCCAT
990531 TCGGTAATTAACCATTGCAATCGGTGTTG
1 TCGGTAATTAACCATTGCAATCGGTGTTG
* *
990560 TCGGTAATTAGCCATTGCAATTGGTGTTG
1 TCGGTAATTAACCATTGCAATCGGTGTTG
990589 T
1 T
990590 TCCGGGCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.37
Consensus pattern (29 bp):
TCGGTAATTAACCATTGCAATCGGTGTTG
Found at i:991256 original size:12 final size:12
Alignment explanation
Indices: 991239--991264 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
991229 GGATTGATTC
991239 CTTCCTCTACCT
1 CTTCCTCTACCT
991251 CTTCCTCTACCT
1 CTTCCTCTACCT
991263 CT
1 CT
991265 CTGAGATACC
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:0.08, C:0.50, G:0.00, T:0.42
Consensus pattern (12 bp):
CTTCCTCTACCT
Found at i:993181 original size:23 final size:23
Alignment explanation
Indices: 993150--993257 Score: 126
Period size: 23 Copynumber: 4.7 Consensus size: 23
993140 AATATGCACT
* *
993150 GAAGTACCATGTAGAAATGTCCC
1 GAAGGACCACGTAGAAATGTCCC
* *
993173 GAAGGACCACATAGATATGTCCC
1 GAAGGACCACGTAGAAATGTCCC
* * *
993196 GAAGAACCGCGTAGAAATGTCTC
1 GAAGGACCACGTAGAAATGTCCC
* *
993219 GAAGGACCACGTAGAATTATCCC
1 GAAGGACCACGTAGAAATGTCCC
*
993242 GAAGGACCGCGTAGAA
1 GAAGGACCACGTAGAA
993258 CCCTCGACTC
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (23 bp):
GAAGGACCACGTAGAAATGTCCC
Found at i:993211 original size:46 final size:46
Alignment explanation
Indices: 993160--993257 Score: 144
Period size: 46 Copynumber: 2.1 Consensus size: 46
993150 GAAGTACCAT
*
993160 GTAGAAATGTCCCGAAGGACCACATAG-ATATGTCCCGAAGAACCGC
1 GTAGAAATGTCCCGAAGGACCACATAGAAT-TATCCCGAAGAACCGC
* * *
993206 GTAGAAATGTCTCGAAGGACCACGTAGAATTATCCCGAAGGACCGC
1 GTAGAAATGTCCCGAAGGACCACATAGAATTATCCCGAAGAACCGC
993252 GTAGAA
1 GTAGAA
993258 CCCTCGACTC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
46 45 0.96
47 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.16
Consensus pattern (46 bp):
GTAGAAATGTCCCGAAGGACCACATAGAATTATCCCGAAGAACCGC
Found at i:993377 original size:15 final size:15
Alignment explanation
Indices: 993344--993382 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
993334 CACGTAGTTT
*
993344 ATATCACAT--ATTC
1 ATATCACATAGATTA
993357 ATATCACATAGATTA
1 ATATCACATAGATTA
993372 ATATCACATAG
1 ATATCACATAG
993383 TATGGAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.39
15 14 0.61
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (15 bp):
ATATCACATAGATTA
Found at i:999889 original size:15 final size:16
Alignment explanation
Indices: 999860--999889 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
999850 TATCTGATCG
999860 AAACGATATGATTTGT
1 AAACGATATGATTTGT
999876 AAACGATA-GATTTG
1 AAACGATATGATTTG
999890 ATTCTGATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (16 bp):
AAACGATATGATTTGT
Found at i:1001273 original size:24 final size:23
Alignment explanation
Indices: 1001246--1001308 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
1001236 TATTTCTAAA
*
1001246 TTTATGATACGTTTTTTTTATGAT
1 TTTATGATACG-TTTTTCTATGAT
*
1001270 TTTATAGCATA--TTTTTCTATGCT
1 TTTAT-G-ATACGTTTTTCTATGAT
*
1001293 TTTATGATACGATTTT
1 TTTATGATACGTTTTT
1001309 GATCGTTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
21 3 0.09
22 1 0.03
23 19 0.59
24 5 0.16
25 1 0.03
26 3 0.09
ACGTcount: A:0.22, C:0.08, G:0.11, T:0.59
Consensus pattern (23 bp):
TTTATGATACGTTTTTCTATGAT
Found at i:1004175 original size:148 final size:148
Alignment explanation
Indices: 1003991--1004283 Score: 514
Period size: 148 Copynumber: 2.0 Consensus size: 148
1003981 AAACTATTTA
* * *
1003991 AATTAGAATCAAATAATATTATAGTATTATAAATATTTATAATTAAATTTAAACAAAAACTCAAA
1 AATTAGAATCAAATAATATTAAAATATGATAAATATTTATAATTAAATTTAAACAAAAACTCAAA
*
1004056 AATTCAATTTAATTCAACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGTCAACT
66 AATTCAATTCAATTCAACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGTCAACT
1004121 ATTTTATAAACTGAACTG
131 ATTTTATAAACTGAACTG
* **
1004139 AATTAGAATCAAATAATATTAAAATATGATAAATATTTATAATTAAATTTAAACAGAAACTTGAA
1 AATTAGAATCAAATAATATTAAAATATGATAAATATTTATAATTAAATTTAAACAAAAACTCAAA
*
1004204 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGTCAACT
66 AATTCAATTCAATTCAACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGTCAACT
1004269 ATTTTATAAACTGAA
131 ATTTTATAAACTGAA
1004284 TTGAGTATTT
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
148 137 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.36
Consensus pattern (148 bp):
AATTAGAATCAAATAATATTAAAATATGATAAATATTTATAATTAAATTTAAACAAAAACTCAAA
AATTCAATTCAATTCAACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGTCAACT
ATTTTATAAACTGAACTG
Found at i:1004477 original size:35 final size:35
Alignment explanation
Indices: 1004438--1004533 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 35
1004428 AATGAATTAT
* * *
1004438 GAATTTGGGGTTGGGCATGTAATTGAAATATTTTG
1 GAATTTGGGATTGAGAATGTAATTGAAATATTTTG
* *
1004473 GAATTTGAGATTTAGAATGTAATTGAAATATTTTG
1 GAATTTGGGATTGAGAATGTAATTGAAATATTTTG
* * * *
1004508 GATTTTGGGATTTAAAATGAAATTGA
1 GAATTTGGGATTGAGAATGTAATTGA
1004534 TGATTGTGTT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.33, C:0.01, G:0.25, T:0.41
Consensus pattern (35 bp):
GAATTTGGGATTGAGAATGTAATTGAAATATTTTG
Found at i:1004845 original size:2 final size:2
Alignment explanation
Indices: 1004838--1004866 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1004828 TTCATTATGC
1004838 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1004867 CAAAAATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1007607 original size:17 final size:17
Alignment explanation
Indices: 1007585--1007625 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
1007575 AAGTCGATTC
1007585 GAGTCGAGTTTCTTTTA
1 GAGTCGAGTTTCTTTTA
*
1007602 GAGTCGAGTTTTTTTTA
1 GAGTCGAGTTTCTTTTA
*
1007619 GAATCGA
1 GAGTCGA
1007626 ATCGAGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.22, C:0.10, G:0.24, T:0.44
Consensus pattern (17 bp):
GAGTCGAGTTTCTTTTA
Found at i:1015392 original size:64 final size:64
Alignment explanation
Indices: 1015216--1015393 Score: 177
Period size: 65 Copynumber: 2.8 Consensus size: 64
1015206 GCATGAATCA
* * * * ** * *
1015216 ATGCATCGATGCACCCTTGTTTTAATT-GAACATCGAATGCCTTTCATGTACCGATGCACATACT
1 ATGCATCGATGCATCCATGTATT-ATTAAAACATCGAATGTGTTTTATGCACCGATGCACATACT
1015280 ATGCATCGATGCATTCCATGTATTATTAAAACATCGAAT-TGATTTTATGCACCGATGCACA-AG
1 ATGCATCGATGCA-TCCATGTATTATTAAAACATCGAATGTG-TTTTATGCACCGATGCACATA-
1015343 CT
63 CT
* *
1015345 ATGCATCGGTGCA-CCCTGGCTATT-TTAAAACATCGAATGTGTTTTATGC
1 ATGCATCGATGCATCCAT-G-TATTATTAAAACATCGAATGTGTTTTATGC
1015394 GTCTATGCAC
Statistics
Matches: 97, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
63 3 0.03
64 40 0.41
65 54 0.56
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCATCCATGTATTATTAAAACATCGAATGTGTTTTATGCACCGATGCACATACT
Found at i:1021150 original size:21 final size:21
Alignment explanation
Indices: 1021124--1021188 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 21
1021114 TTGTGCATAA
1021124 TGCATCGATACACTATGAAGG
1 TGCATCGATACACTATGAAGG
* *
1021145 TGCATCGATGCATCCCTATGAATG
1 TGCATCGAT--A-CACTATGAAGG
1021169 TGCATCGATACA-TCATGAAG
1 TGCATCGATACACT-ATGAAG
1021189 ATACACCGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
20 1 0.03
21 15 0.42
22 1 0.03
23 1 0.03
24 18 0.50
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (21 bp):
TGCATCGATACACTATGAAGG
Found at i:1021188 original size:45 final size:44
Alignment explanation
Indices: 1021123--1021267 Score: 168
Period size: 46 Copynumber: 3.2 Consensus size: 44
1021113 TTTGTGCATA
*
1021123 ATGCATCGATACA-CTATGAAGGTGCATCGATGCA-TCCCTATGAAT
1 ATGCATCGATACATC-ATGAAGATGCATCGATGCACT-CCT-TGAAT
* * *
1021168 GTGCATCGATACATCATGAAGATACACCGATGCACTCCTTGAAT
1 ATGCATCGATACATCATGAAGATGCATCGATGCACTCCTTGAAT
* * *
1021212 ATGCATCGATGCACTCCTTGAATATGCATCGATGCACTCCTTGAAT
1 ATGCATCGATACA-T-CATGAAGATGCATCGATGCACTCCTTGAAT
1021258 ATGCATCGAT
1 ATGCATCGAT
1021268 GCATAGAGCC
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
44 16 0.19
45 32 0.37
46 38 0.44
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (44 bp):
ATGCATCGATACATCATGAAGATGCATCGATGCACTCCTTGAAT
Found at i:1021210 original size:23 final size:23
Alignment explanation
Indices: 1021145--1021270 Score: 159
Period size: 23 Copynumber: 5.5 Consensus size: 23
1021135 ACTATGAAGG
*
1021145 TGCATCGATGCA-TCCCTATGAATG
1 TGCATCGATGCACT-CCT-TGAATA
* * *
1021169 TGCATCGATACA-T-CATGAAGA
1 TGCATCGATGCACTCCTTGAATA
* *
1021190 TACACCGATGCACTCCTTGAATA
1 TGCATCGATGCACTCCTTGAATA
1021213 TGCATCGATGCACTCCTTGAATA
1 TGCATCGATGCACTCCTTGAATA
1021236 TGCATCGATGCACTCCTTGAATA
1 TGCATCGATGCACTCCTTGAATA
1021259 TGCATCGATGCA
1 TGCATCGATGCA
1021271 TAGAGCCATG
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.15
22 2 0.02
23 62 0.70
24 12 0.13
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (23 bp):
TGCATCGATGCACTCCTTGAATA
Found at i:1023994 original size:45 final size:46
Alignment explanation
Indices: 1023910--1024017 Score: 159
Period size: 45 Copynumber: 2.4 Consensus size: 46
1023900 GTGCACATAC
*
1023910 TATGCATCGATGCACTCCAGACATTATTAAAACATCGAAT-TGATTT
1 TATGCATCGATGCACCCCAGACATTATTAAAACATCGAATGTG-TTT
*
1023956 TATGCACCGATGCACCCCAG-CTATT-TTAAAACATCGAATGTGTTT
1 TATGCATCGATGCACCCCAGAC-ATTATTAAAACATCGAATGTGTTT
1024001 TATGCATCGATGCACCC
1 TATGCATCGATGCACCC
1024018 TCAATGTATT
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 34 0.60
46 23 0.40
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (46 bp):
TATGCATCGATGCACCCCAGACATTATTAAAACATCGAATGTGTTT
Found at i:1027682 original size:13 final size:13
Alignment explanation
Indices: 1027664--1027744 Score: 77
Period size: 13 Copynumber: 6.6 Consensus size: 13
1027654 AAGGAAAAAA
1027664 AAGAAGAAGAAAG
1 AAGAAGAAGAAAG
1027677 AAGAAGAA-AAAG
1 AAGAAGAAGAAAG
1027689 -AGAA-AAG-AAG
1 AAGAAGAAGAAAG
1027699 AA-AAGAAGAAAAG
1 AAGAAGAAG-AAAG
1027712 AAGAAAGAA-AAAG
1 AAG-AAGAAGAAAG
* *
1027725 AAAAAGAAAAAAG
1 AAGAAGAAGAAAG
1027738 AA-AAGAA
1 AAGAAGAA
1027745 AAGAAAAAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 17
0.77 0.01 0.22
Matches are distributed among these distances:
10 7 0.12
11 8 0.14
12 14 0.24
13 25 0.42
15 5 0.08
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAGAAGAAGAAAG
Found at i:1027689 original size:16 final size:16
Alignment explanation
Indices: 1027664--1027752 Score: 80
Period size: 16 Copynumber: 5.5 Consensus size: 16
1027654 AAGGAAAAAA
*
1027664 AAGAAGAAGAAAGAAG
1 AAGAAAAAGAAAGAAG
1027680 AAGAAAAAGAGAA-AAG
1 AAGAAAAAGA-AAGAAG
1027696 AAGAAAAGAAGAAAAGAAG
1 AAG-AAA-AAG-AAAGAAG
1027715 AAAGAAAAAGAAA-AAG
1 -AAGAAAAAGAAAGAAG
1027731 -A-AAAAAGAAAAGAA-
1 AAGAAAAAG-AAAGAAG
1027745 AAGAAAAA
1 AAGAAAAA
1027753 ATAAAAGAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 20
0.75 0.01 0.24
Matches are distributed among these distances:
13 6 0.10
14 4 0.06
15 3 0.05
16 23 0.37
17 8 0.13
18 8 0.13
19 7 0.11
20 3 0.05
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AAGAAAAAGAAAGAAG
Found at i:1027692 original size:24 final size:23
Alignment explanation
Indices: 1027659--1027752 Score: 92
Period size: 23 Copynumber: 4.2 Consensus size: 23
1027649 TTTTAAAGGA
*
1027659 AAAAAAAGAAGAAGAAAGAAGAAG
1 AAAAAGAGAAGAAGAAAGAA-AAG
1027683 AAAAAGAGAA-AAG-AAGAAAAG
1 AAAAAGAGAAGAAGAAAGAAAAG
*
1027704 ---AAGAAAAGAAGAAAGAAAAAG
1 AAAAAGAGAAGAAGAAAG-AAAAG
*
1027725 AAAAAGA-AAAAAGAAAAGAAAAG
1 AAAAAGAGAAGAAG-AAAGAAAAG
1027748 AAAAA
1 AAAAA
1027753 ATAAAAGAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
18 6 0.10
19 3 0.05
20 3 0.05
21 8 0.13
22 5 0.08
23 18 0.30
24 17 0.28
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (23 bp):
AAAAAGAGAAGAAGAAAGAAAAG
Found at i:1027695 original size:19 final size:17
Alignment explanation
Indices: 1027673--1027762 Score: 96
Period size: 17 Copynumber: 5.1 Consensus size: 17
1027663 AAAGAAGAAG
1027673 AAAGAAGAAGAAAAAGAGA
1 AAAGAAGAA-AAAAA-AGA
*
1027692 AAAGAAG-AAAAGAAGA
1 AAAGAAGAAAAAAAAGA
1027708 AAAGAAGAAAGAAAAAGAA
1 AAAGAAGAAA-AAAAAG-A
1027727 AAAGAA-AAAAGAAAAGA
1 AAAGAAGAAAA-AAAAGA
1027744 AAAGAA-AAAATAAAAGA
1 AAAGAAGAAAA-AAAAGA
1027761 AA
1 AA
1027763 TAAAAAAATT
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
16 10 0.16
17 26 0.41
18 14 0.22
19 14 0.22
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (17 bp):
AAAGAAGAAAAAAAAGA
Found at i:1027718 original size:42 final size:42
Alignment explanation
Indices: 1027657--1027753 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
1027647 TATTTTAAAG
* *
1027657 GAAAA-AAAAGAAGAAGAAAGAAGAAGAAAAAGAGAAAAG-AA
1 GAAAAGAAAA-AAGAAGAAAGAAAAAGAAAAAGAAAAAAGAAA
1027698 GAAAAGAAGAAAAGAAGAAAGAAAAAGAAAAAGAAAAAAGAAAA
1 GAAAAGAA-AAAAGAAGAAAGAAAAAGAAAAAGAAAAAAG-AAA
1027742 GAAAAGAAAAAA
1 GAAAAGAAAAAA
1027754 TAAAAGAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
41 5 0.10
42 29 0.58
43 6 0.12
44 10 0.20
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (42 bp):
GAAAAGAAAAAAGAAGAAAGAAAAAGAAAAAGAAAAAAGAAA
Found at i:1027753 original size:24 final size:23
Alignment explanation
Indices: 1027660--1027758 Score: 96
Period size: 24 Copynumber: 4.2 Consensus size: 23
1027650 TTTAAAGGAA
*
1027660 AAAAAAGAAGAAGAAAG-AAGAAG
1 AAAAAAGAA-AAGAAAGAAAAAAG
1027683 AAAAAGAGAAAAG-AAGAAAAGAAG
1 AAAAA-AGAAAAGAAAGAAAA-AAG
*
1027707 AAAAGAAG-AAAGAAAAAGAAAAAG
1 AAAA-AAGAAAAGAAAGA-AAAAAG
*
1027731 AAAAAAGAAAAGAAAAGAAAAAAT
1 AAAAAAGAAAAG-AAAGAAAAAAG
1027755 AAAA
1 AAAA
1027759 GAAATAAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
22 3 0.05
23 17 0.27
24 36 0.56
25 8 0.12
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (23 bp):
AAAAAAGAAAAGAAAGAAAAAAG
Found at i:1027768 original size:17 final size:17
Alignment explanation
Indices: 1027689--1027771 Score: 82
Period size: 17 Copynumber: 4.8 Consensus size: 17
1027679 GAAGAAAAAG
* *
1027689 AGAAAAGAAGAAA-AGA
1 AGAAAAGAAAAAATAAA
1027705 AGAAAAGAAGAAAGA-AAA
1 AGAAAAGAA-AAA-ATAAA
*
1027723 AGAAAAAGAAAAAAGAAA
1 AG-AAAAGAAAAAATAAA
1027741 AGAAAAGAAAAAATAAA
1 AGAAAAGAAAAAATAAA
1027758 AGAAATA-AAAAAAT
1 AGAAA-AGAAAAAAT
1027772 TGAAATAGGG
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
16 9 0.15
17 29 0.49
18 14 0.24
19 7 0.12
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.04
Consensus pattern (17 bp):
AGAAAAGAAAAAATAAA
Found at i:1027769 original size:23 final size:22
Alignment explanation
Indices: 1027658--1027769 Score: 89
Period size: 22 Copynumber: 4.8 Consensus size: 22
1027648 ATTTTAAAGG
* * *
1027658 AAAAAAAAGAAGAAGAAAGAAG
1 AAAAAAAAGAAAAAAAAAGAAA
* * *
1027680 AAGAAAAAGAGAAAAGAAGAAAA
1 AAAAAAAAGAAAAAAAAAG-AAA
*
1027703 GAAGAAAAGAAGAAAGAAAAAGAAA
1 -AA-AAAA-AAGAAAAAAAAAGAAA
*
1027728 AAGAAAAAAGAAAAGAAAAGAAA
1 AA-AAAAAAGAAAAAAAAAGAAA
*
1027751 AAATAAAAGAAATAAAAAA
1 AAAAAAAAGAAA-AAAAAA
1027770 ATTGAAATAG
Statistics
Matches: 71, Mismatches: 14, Indels: 9
0.76 0.15 0.10
Matches are distributed among these distances:
22 23 0.32
23 23 0.32
24 9 0.13
25 6 0.08
26 10 0.14
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (22 bp):
AAAAAAAAGAAAAAAAAAGAAA
Found at i:1027770 original size:12 final size:11
Alignment explanation
Indices: 1027657--1027758 Score: 78
Period size: 12 Copynumber: 8.5 Consensus size: 11
1027647 TATTTTAAAG
1027657 GAAAAAAAAGAA
1 GAAAAAAAA-AA
*
1027669 GAAGAAAGAAGAA
1 GAA-AAA-AAAAA
1027682 GAAAAAGAGAAAA
1 GAAAAA-A-AAAA
* *
1027695 GAAGAAAAGAA
1 GAAAAAAAAAA
*
1027706 GAAAAGAAGAAA
1 GAAAA-AAAAAA
1027718 GAAAAAGAAAAA
1 GAAAAA-AAAAA
1027730 GAAAAAAGAAAA
1 GAAAAAA-AAAA
1027742 GAAAAGAAAAAA
1 GAAAA-AAAAAA
*
1027754 TAAAA
1 GAAAA
1027759 GAAATAAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 14
0.76 0.09 0.14
Matches are distributed among these distances:
11 9 0.12
12 45 0.61
13 18 0.24
14 2 0.03
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:1030175 original size:124 final size:124
Alignment explanation
Indices: 1029712--1030199 Score: 638
Period size: 124 Copynumber: 3.9 Consensus size: 124
1029702 AAGTATATGG
* * *
1029712 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTTA-TCTGATGAGGGAGAAGAATTTTA
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATTC-GATGAGGGAGAAGAAGTTCA
* * * * * *
1029776 AAATGAGAAGAACTTGTTCAACATTTTACTTGATTCTATCGCAGAAGGAGATAGATCAGC
65 TAATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAAC
* * * *
1029836 ATCAATATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATTCGATGAGGGAGAAAAAGTTTAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATTCGATGAGGGAGAAGAAGTTCAT
* * * * * *
1029901 AATGAGAATAAATTGTTCAACCTTTTTCTCTATTCTATCGCAGAAGGAGATAGATCATC
66 AATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAAC
* * *
1029960 ATCAACATTTCCAGTAGAGAGTTCATGATGAGAAAAACTCATTCGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATTCGATGAGGGAGAAGAAGTTCAT
* * * * *
1030025 AATAAGAAGAACTTGTTCAGCCTTTTGCTCGACTCTGTCGCATAAAGAGATAGATCAAC
66 AATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAAC
* * * * **
1030084 ATCAACATTTCCAATGGAGAGGTCATAATGAGAAGAACTCATTAGAAGAGAAAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATTCGATGAGGGAGAAGAAGTTCAT
* *
1030149 AATGAGAAGAACTTGTTCAACCTTTTGCTCAACTCCA-CGCAGAAGGAGATA
66 AATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATA
1030200 TATTAGCATA
Statistics
Matches: 316, Mismatches: 47, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
123 12 0.04
124 302 0.96
125 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (124 bp):
ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATTCGATGAGGGAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAAC
Found at i:1030395 original size:123 final size:122
Alignment explanation
Indices: 1030245--1030577 Score: 427
Period size: 124 Copynumber: 2.7 Consensus size: 122
1030235 AAGGAGATGG
*
1030245 ATCAACATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCATCCAAAGAGCAATAAGAAGTTCA
1 ATCAACATTTCCAATGG-AGAGTTCATAATGAGAAGAACTCATCCAAAGAG-AAGAAGAAGTTCA
* * * *
1030310 TAATTAGAAGAACTTGTTCAACATTAACTTGACTCTATAATAGAAGGAG-TTAGATCAAC
64 TAATGAGAAGAACTTGTTCAACATTAACTCGACTCTATAACAGAAGGAGATGA-ATCAAC
* * * *
1030369 ATCAACATTTCCAATGGAGAGCTCATAATGAGAAGAATTCATCCAATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAAAGA-GAAGAAGAAGTTCAT
* * ** * *
1030434 AATGAGAAAAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATGAATCAGC
65 AATGAGAAGAACTTGTTCAA-CATTAACTCGACTCTATAACAGAAGGAGATGAATCAAC
* * * *
1030493 ATCAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGAAGATGAAGAAAAAATT-AT
1 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAAAGA-GAAGAAGAAGTTCAT
1030557 AATGAGAAGAACTTGTTCAAC
65 AATGAGAAGAACTTGTTCAAC
1030578 CTTTTGCTCT
Statistics
Matches: 181, Mismatches: 25, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
122 1 0.01
123 80 0.44
124 98 0.54
125 2 0.01
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.25
Consensus pattern (122 bp):
ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAAAGAGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACATTAACTCGACTCTATAACAGAAGGAGATGAATCAAC
Found at i:1030399 original size:285 final size:285
Alignment explanation
Indices: 1029960--1030484 Score: 716
Period size: 285 Copynumber: 1.8 Consensus size: 285
1029950 ATAGATCATC
* * * * * **
1029960 ATCAACATTTCCAGTAGAGAGTTCATGATGAGAAAAACTCATTCGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAATAGAGAGTTCATAATGAGAAAAACTCATCCAAAGAGCAAGAAGAAGTTCAT
* * ** * *
1030025 AATAAGAAGAACTTGTTCAGCCTTTTGCTCGACTCTGTCGCATAAAGAGATAGATCAACATCAAC
66 AATAAGAAGAACTTGTTCAGACATTAACTCGACTCTATC-AATAAAGAGATAGATCAACATCAAC
* *
1030090 ATTTCCAATGGAGAGGTCATAATGAGAAGAACTCAT-TAGAAGAGAAAGAAGAAGTTCATAATGA
130 ATTTCCAATGGAGAGCTCATAATGAGAAGAACTCATCCA-AAGAGAAAGAAGAAGTTCATAATGA
* *
1030154 GAAGAACTTGTTCAACCTTTTGCTCAACTCCA-CGCAGAAGGAGATATATTAGCATATACATTTT
194 GAAAAACTTGTTCAACCTTTTGCTCAACTCCATCACAGAAGGAGATATATTAGCATATACATTTT
1030218 GTTAGATTCCATCACAGAAGGAGATGG
259 GTTAGATTCCATCACAGAAGGAGATGG
* * *
1030245 ATCAACATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCATCCAAAGAGCAATAAGAAGTTCA
1 ATCAACATTTCCAATAG-AGAGTTCATAATGAGAAAAACTCATCCAAAGAGCAAGAAGAAGTTCA
* * *
1030310 TAATTAGAAGAACTTGTTCA-ACATTAACTTGACTCTAT-AATAGAAGGAGTTAGATCAACATCA
65 TAATAAGAAGAACTTGTTCAGACATTAACTCGACTCTATCAATA-AA-GAGATAGATCAACATCA
* * **
1030373 ACATTTCCAATGGAGAGCTCATAATGAGAAGAATTCATCCAATGAGGGAGAAGAAGTTCATAATG
128 ACATTTCCAATGGAGAGCTCATAATGAGAAGAACTCATCCAAAGAGAAAGAAGAAGTTCATAATG
* *
1030438 AGAAAAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGAT
193 AGAAAAACTTGTTCAACCTTTTGCTCAACTCCATCACAGAAGGAGAT
1030485 GAATCAGCAT
Statistics
Matches: 206, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
283 3 0.01
284 2 0.01
285 130 0.63
286 71 0.34
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (285 bp):
ATCAACATTTCCAATAGAGAGTTCATAATGAGAAAAACTCATCCAAAGAGCAAGAAGAAGTTCAT
AATAAGAAGAACTTGTTCAGACATTAACTCGACTCTATCAATAAAGAGATAGATCAACATCAACA
TTTCCAATGGAGAGCTCATAATGAGAAGAACTCATCCAAAGAGAAAGAAGAAGTTCATAATGAGA
AAAACTTGTTCAACCTTTTGCTCAACTCCATCACAGAAGGAGATATATTAGCATATACATTTTGT
TAGATTCCATCACAGAAGGAGATGG
Found at i:1030439 original size:21 final size:21
Alignment explanation
Indices: 1030398--1030439 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1030388 AGCTCATAAT
1030398 GAGAAGAATTCATCCAATGAGG
1 GAGAAGAATTCAT-CAATGAGG
1030420 GAGAAGAAGTTCAT-AATGAG
1 GAGAAGAA-TTCATCAATGAG
1030440 AAAAACTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 8 0.42
23 5 0.26
ACGTcount: A:0.43, C:0.10, G:0.29, T:0.19
Consensus pattern (21 bp):
GAGAAGAATTCATCAATGAGG
Found at i:1030604 original size:409 final size:409
Alignment explanation
Indices: 1029836--1030787 Score: 1256
Period size: 409 Copynumber: 2.3 Consensus size: 409
1029826 ATAGATCAGC
* * * *
1029836 ATCAATATTTCCAGT-GAAGAGTTCATAATGAGAAGAACTCATTCGATGAGGGAGAAA-AAGTTT
1 ATCAATATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCATCCGAAGA-GGA-AAAGAAGTTC
* ** *
1029899 ATAATGAGAATAAATTGTTCAACCTTTTTCTCT-ATTCTATCGCAGAAGGAGATAGATCATCATC
64 ATAATGAGAATAAATTGTTCAACCTTTTACT-TGATTCTATCATAGAAGGAGATAGATCAACATC
* * * * *
1029963 AACATTTCCAGTAGAGAGTTCATGATGAGAAAAACTCATTCGATGAGGGAGAAGAAGTTCATAAT
128 AACATTTCCAATAGAGAGCTCATAATGAGAAAAACTCATCCAATGAGGGAGAAGAAGTTCATAAT
* * * * *
1030028 AAGAAGAACTTGTTCAGCCTTTTGCTCGACTCTGTCGCATAAAGAGATAGATCAACATCAACATT
193 AAGAAAAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAAGAGATAGATCAACATCAACATT
* * * *
1030093 TCCAATGGAGAGGTCATAATGAGAAGAACTCATTAGAAGAGAAAGAAGAAGTTCATAATGAGAAG
258 TCCAATAGAGAGGTCATAATGAGAAGAACTCATCAGAAGAGAAAGAAAAAATTCATAATGAGAAG
* * *
1030158 AACTTGTTCAACCTTTTGCTCAACTCCACGCAGAAGGAGATATATTAGCATATACATTTTGTTAG
323 AACTTGTTCAACCTTTTGCTCAACTCCACGCAGAAGGAGATAGATCAGCATAAACATTTTGTTAG
1030223 ATTCCATCACAGAAGGAGATGG
388 ATTCCATCACAGAAGGAGATGG
* * *
1030245 ATCAACATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCATCCAAAGAGCAATAAGAAGTTCA
1 ATCAATATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCATCCGAAGAGGAA-AAGAAGTTCA
* * * * * * * *
1030310 TAATTAGAAGAACTTGTTCAA-CATTAACTTGACTCTATAATAGAAGGAGTTAGATCAACATCAA
65 TAATGAGAATAAATTGTTCAACCTTTTACTTGATTCTATCATAGAAGGAGATAGATCAACATCAA
* * * *
1030374 CATTTCCAATGGAGAGCTCATAATGAGAAGAATTCATCCAATGAGGGAGAAGAAGTTCATAATGA
130 CATTTCCAATAGAGAGCTCATAATGAGAAAAACTCATCCAATGAGGGAGAAGAAGTTCATAATAA
* *
1030439 GAAAAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGAT-GAATCAGCATCAACATTT
195 GAAAAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAAGAGATAG-ATCAACATCAACATTT
* *
1030503 CCAATAGAGAGTTCATAATGAGAAGAACTCATCCGAAGATG-AAGAAAAAATT-ATAATGAGAAG
259 CCAATAGAGAGGTCATAATGAGAAGAACTCATCAGAAGA-GAAAGAAAAAATTCATAATGAGAAG
* * * * *
1030566 AACTTGTTCAACCTTTTGCTCTACTCTATCGTAGAAGGAGATAGATCATCATAAACATTTTGTTC
323 AACTTGTTCAACCTTTTGCTCAACTCCA-CGCAGAAGGAGATAGATCAGCATAAACATTTTGTTA
1030631 GATTCCATCACAGAAGGAGATGG
387 GATTCCATCACAGAAGGAGATGG
* * *
1030654 ATCAATATTTCCAATAGG--GAGTTCATAATGAGAAGAAATCATCTGAGGAGGAAACAGAAGTTC
1 ATCAATATTTCCAAT-GGAAGAGTTCATAATGAGAAGAACTCATCCGAAGAGGAAA-AGAAGTTC
* ** *
1030717 ATAATGAGAATAATTTGTTCAACCTTTTGTTTGATTCTATCATAGAAGGAGATAGATCAACATCG
64 ATAATGAGAATAAATTGTTCAACCTTTTACTTGATTCTATCATAGAAGGAGATAGATCAACATCA
1030782 ACATTT
129 ACATTT
1030788 TACTTGATTC
Statistics
Matches: 467, Mismatches: 66, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
407 1 0.00
408 97 0.21
409 311 0.67
410 58 0.12
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (409 bp):
ATCAATATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCATCCGAAGAGGAAAAGAAGTTCAT
AATGAGAATAAATTGTTCAACCTTTTACTTGATTCTATCATAGAAGGAGATAGATCAACATCAAC
ATTTCCAATAGAGAGCTCATAATGAGAAAAACTCATCCAATGAGGGAGAAGAAGTTCATAATAAG
AAAAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAAGAGATAGATCAACATCAACATTTCC
AATAGAGAGGTCATAATGAGAAGAACTCATCAGAAGAGAAAGAAAAAATTCATAATGAGAAGAAC
TTGTTCAACCTTTTGCTCAACTCCACGCAGAAGGAGATAGATCAGCATAAACATTTTGTTAGATT
CCATCACAGAAGGAGATGG
Found at i:1030606 original size:123 final size:122
Alignment explanation
Indices: 1030245--1030625 Score: 473
Period size: 123 Copynumber: 3.1 Consensus size: 122
1030235 AAGGAGATGG
*
1030245 ATCAACATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCATCCAAAGAGCAATAAGAAGTTCA
1 ATCAACATTTCCAATGG-AGAGTTCATAATGAGAAGAACTCATCC-AAGAG-AAGAAGAAGTTCA
* * ** * *
1030310 TAATTAGAAGAACTTGTTCAA-CATTAACT-TGACTCTATAATAGAAGGAGTTAGATCAAC
63 TAATGAGAAGAACTTGTTCAACCTTTTGCTCT-ACTCTATCATAGAAGGAGATAGATCAAC
* * *
1030369 ATCAACATTTCCAATGGAGAGCTCATAATGAGAAGAATTCATCCAATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAA-GA-GAAGAAGAAGTTCAT
* * * *
1030434 AATGAGAAAAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGAT-GAATCAGC
64 AATGAGAAGAACTTGTTCAACCTTTTGCTCTACTCTATCATAGAAGGAGATAG-ATCAAC
* * *
1030493 ATCAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGAAGATGAAGAAAAAATT-AT
1 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCC-AAGA-GAAGAAGAAGTTCAT
* *
1030557 AATGAGAAGAACTTGTTCAACCTTTTGCTCTACTCTATCGTAGAAGGAGATAGATCATC
64 AATGAGAAGAACTTGTTCAACCTTTTGCTCTACTCTATCATAGAAGGAGATAGATCAAC
*
1030616 ATAAACATTT
1 ATCAACATTT
1030626 TGTTCGATTC
Statistics
Matches: 223, Mismatches: 27, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
122 2 0.01
123 121 0.54
124 98 0.44
125 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.26
Consensus pattern (122 bp):
ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAAGAGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTTGCTCTACTCTATCATAGAAGGAGATAGATCAAC
Found at i:1030678 original size:161 final size:161
Alignment explanation
Indices: 1030493--1030824 Score: 429
Period size: 161 Copynumber: 2.1 Consensus size: 161
1030483 ATGAATCAGC
* *
1030493 ATCAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGAAGATGAAGA-AAAAATT-A
1 ATCAACATTTCCAATAGAGAGTTCATAATGAGAAGAAATCATCCGAAGAGGAA-ACAAAAATTCA
* *
1030556 TAATGAGAAGAACTTGTTCAACCTTTTGCTCT-ACTCTATCGTAGAAGGAGATAGATCATCATAA
65 TAATGAGAAGAACTTGTTCAACCTTTTG-TCTGACTCTATCATAGAAGGAGATAGATCAACATAA
*
1030620 ACATTTT-GTTCGATTCCATCACAGAAGGAGATGG
129 ACATTTTACTT-GATT-CATCACAGAAGGAGATGG
* * * * * *
1030654 ATCAATATTTCCAATAGGGAGTTCATAATGAGAAGAAATCATCTGAGGAGGAAACAGAAGTTCAT
1 ATCAACATTTCCAATAGAGAGTTCATAATGAGAAGAAATCATCCGAAGAGGAAACAAAAATTCAT
* * * * **
1030719 AATGAGAATAATTTGTTCAACCTTTTGTTTGATTCTATCATAGAAGGAGATAGATCAACATCGAC
66 AATGAGAAGAACTTGTTCAACCTTTTGTCTGACTCTATCATAGAAGGAGATAGATCAACATAAAC
* *
1030784 ATTTTACTTGATTCTTCACAGAAGGAGTTGG
131 ATTTTACTTGATTCATCACAGAAGGAGATGG
1030815 ATCAACATTT
1 ATCAACATTT
1030825 GTCATGTTAC
Statistics
Matches: 147, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
160 1 0.01
161 79 0.54
162 65 0.44
163 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (161 bp):
ATCAACATTTCCAATAGAGAGTTCATAATGAGAAGAAATCATCCGAAGAGGAAACAAAAATTCAT
AATGAGAAGAACTTGTTCAACCTTTTGTCTGACTCTATCATAGAAGGAGATAGATCAACATAAAC
ATTTTACTTGATTCATCACAGAAGGAGATGG
Found at i:1030835 original size:44 final size:43
Alignment explanation
Indices: 1030747--1030860 Score: 115
Period size: 44 Copynumber: 2.6 Consensus size: 43
1030737 AACCTTTTGT
* * * *
1030747 TTGATTCTATCATAGAAGGAGATAGATCAACATCGACATTTTAC
1 TTGATTCT-TCACAGAAGGAGTTGGATCAACATCGACATGTTAC
* *
1030791 TTGATTCTTCACAGAAGGAGTTGGATCAACATTTGTCATGTTAC
1 TTGATTCTTCACAGAAGGAGTTGGATCAACA-TCGACATGTTAC
*
1030835 TCTG--TCATTCACAGAAGAAGTTGGAT
1 T-TGATTC-TTCACAGAAGGAGTTGGAT
1030861 TAGTAACAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 22 0.37
44 36 0.60
45 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (43 bp):
TTGATTCTTCACAGAAGGAGTTGGATCAACATCGACATGTTAC
Found at i:1030916 original size:43 final size:43
Alignment explanation
Indices: 1030842--1030986 Score: 202
Period size: 43 Copynumber: 3.4 Consensus size: 43
1030832 TACTCTGTCA
* * * * **
1030842 TTCACAGAAGAAGTTGGATTAGT-AACAATATTTCACTTGATTC
1 TTCATAGAAGGAGTTGTATCAGTGAA-AATATTTCGTTTGATTC
*
1030885 TTCATAAAAGGAGTTGTATCAGTGAAAATATTTCGTTTGATTC
1 TTCATAGAAGGAGTTGTATCAGTGAAAATATTTCGTTTGATTC
1030928 TTCATAGAAGGAGTTGTATCAGTGAAAATATTTCGTTTGATTC
1 TTCATAGAAGGAGTTGTATCAGTGAAAATATTTCGTTTGATTC
*
1030971 TTCATAGAATGAGTTG
1 TTCATAGAAGGAGTTG
1030987 AATAAACGTC
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 90 0.98
44 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (43 bp):
TTCATAGAAGGAGTTGTATCAGTGAAAATATTTCGTTTGATTC
Found at i:1034292 original size:15 final size:14
Alignment explanation
Indices: 1034266--1034295 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
1034256 GTTCTGGGAA
1034266 AGAAAAAATGAAAG
1 AGAAAAAATGAAAG
1034280 AGAAAAGAATGAAAG
1 AGAAAA-AATGAAAG
1034295 A
1 A
1034296 TTTGTTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (14 bp):
AGAAAAAATGAAAG
Found at i:1039217 original size:2 final size:2
Alignment explanation
Indices: 1039210--1039267 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
1039200 TTTTGAAAAC
1039210 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1039252 AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT A
1039268 GCTTTTGAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1039295 original size:39 final size:40
Alignment explanation
Indices: 1039250--1039346 Score: 144
Period size: 39 Copynumber: 2.4 Consensus size: 40
1039240 ATATATATAT
1039250 ATATATATATATAATATAGCTTTTGAAAACATTTTGAAA-AA
1 ATATATATATAT-ATATAGCTTTTGAAAACATTTT-AAATAA
* *
1039291 ATATATATA-ATATATAGTTTTTGAAAACATTTTAAATAT
1 ATATATATATATATATAGCTTTTGAAAACATTTTAAATAA
1039330 ATATATATATATATATA
1 ATATATATATATATATA
1039347 TATATATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
38 3 0.06
39 31 0.60
40 9 0.17
41 9 0.17
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.43
Consensus pattern (40 bp):
ATATATATATATATATAGCTTTTGAAAACATTTTAAATAA
Found at i:1039333 original size:2 final size:2
Alignment explanation
Indices: 1039326--1039360 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1039316 AACATTTTAA
1039326 AT AT 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 AT AT A
1039361 GTTTTTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1040666 original size:22 final size:22
Alignment explanation
Indices: 1040639--1040699 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 22
1040629 TTTGATCTAC
*
1040639 TATTTTTTTTATTTCTTTCTTT
1 TATTTTTTTTATTTCTTTATTT
*
1040661 TATTTTTATTT-TTATTTTTATTT
1 TATTTTT-TTTATT-TCTTTATTT
1040684 TATTTTATTTTTATTT
1 TA-TTT-TTTTTATTT
1040700 AATTAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
22 9 0.28
23 12 0.38
24 7 0.22
25 4 0.12
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (22 bp):
TATTTTTTTTATTTCTTTATTT
Found at i:1040672 original size:5 final size:6
Alignment explanation
Indices: 1040644--1040699 Score: 73
Period size: 6 Copynumber: 9.5 Consensus size: 6
1040634 TCTACTATTT
1040644 TTTTTA TTTCTT- TCTTTTA TTTTTA TTTTTA TTTTTA -TTTTA -TTTTA
1 TTTTTA TTT-TTA T-TTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1040691 TTTTTA TTT
1 TTTTTA TTT
1040700 AATTAATTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
5 10 0.22
6 31 0.67
7 5 0.11
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:1052271 original size:35 final size:34
Alignment explanation
Indices: 1052218--1052350 Score: 141
Period size: 34 Copynumber: 3.9 Consensus size: 34
1052208 TTTATAAAAT
*
1052218 AAAAC-TA-ATATATTTAGTTTTTAAAATATTTGG
1 AAAACATATATATATATAGTTTTTAAAATATTT-G
*
1052251 AAAACATATATATATATAG-TTTTAAAATATTTT
1 AAAACATATATATATATAGTTTTTAAAATATTTG
* *
1052284 AAAATATATATAATATATAGTTTTCAAAAATATTTTG
1 AAAACATATAT-ATATATAGTTTT-TAAAATA-TTTG
*
1052321 AAAATATATA-ATATATA-TTTTTGAAAATAT
1 AAAACATATATATATATAGTTTTT-AAAATAT
1052351 AATATATAGT
Statistics
Matches: 87, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
33 16 0.18
34 33 0.38
35 19 0.22
36 6 0.07
37 13 0.15
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.44
Consensus pattern (34 bp):
AAAACATATATATATATAGTTTTTAAAATATTTG
Found at i:1052339 original size:92 final size:91
Alignment explanation
Indices: 1052246--1052439 Score: 252
Period size: 92 Copynumber: 2.1 Consensus size: 91
1052236 TTTTAAAATA
*
1052246 TTTGGAAAACATATATATATATAG-TTTT-AAAATATTTT-AAA-ATATATATAATATATAGTTT
1 TTTGG-AAA-ATATA-ATATATAGTTTTTGAAAACATTTTAAAACATATATATAATATAT--TTT
*
1052307 TCAAAAATATTTTGAAAATATATAATATATAT
61 TCAAAAATA-TTTGAAAATATATAACATATAT
* *
1052339 TTTTGAAAATATAATATATAGTTTTTGAAAACATTTTAAAACATATATATAATATATTTTTCGAA
1 TTTGGAAAATATAATATATAGTTTTTGAAAACATTTTAAAACATATATATAATATATTTTTCAAA
1052404 AATATTTGAAAATATATAACATATAGT
66 AATATTTGAAAATATATAACATATA-T
*
1052431 TTTTGAAAA
1 TTTGGAAAA
1052440 ATTTTGAAAT
Statistics
Matches: 92, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
90 8 0.09
91 29 0.32
92 33 0.36
93 7 0.08
94 15 0.16
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.43
Consensus pattern (91 bp):
TTTGGAAAATATAATATATAGTTTTTGAAAACATTTTAAAACATATATATAATATATTTTTCAAA
AATATTTGAAAATATATAACATATAT
Found at i:1052345 original size:23 final size:23
Alignment explanation
Indices: 1052316--1052369 Score: 85
Period size: 21 Copynumber: 2.4 Consensus size: 23
1052306 TTCAAAAATA
1052316 TTTTGAAAATATATAATATATA-T
1 TTTTGAAAA-ATATAATATATAGT
1052339 TTTTG-AAAATATAATATATAGT
1 TTTTGAAAAATATAATATATAGT
1052361 TTTTGAAAA
1 TTTTGAAAA
1052370 CATTTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 12 0.41
22 9 0.31
23 8 0.28
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (23 bp):
TTTTGAAAAATATAATATATAGT
Found at i:1052352 original size:21 final size:22
Alignment explanation
Indices: 1052316--1052369 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 22
1052306 TTCAAAAATA
1052316 TTTTGAAAATATATAATATATA-T
1 TTTTG-AAA-ATATAATATATAGT
1052339 TTTTGAAAATATAATATATAGT
1 TTTTGAAAATATAATATATAGT
1052361 TTTTGAAAA
1 TTTTGAAAA
1052370 CATTTTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 12 0.40
22 13 0.43
23 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (22 bp):
TTTTGAAAATATAATATATAGT
Found at i:1052363 original size:56 final size:58
Alignment explanation
Indices: 1052291--1052408 Score: 170
Period size: 56 Copynumber: 2.1 Consensus size: 58
1052281 TTTAAAATAT
* *
1052291 ATATAATATATAGTTTTCAAAAATATTTTGAAA-ATATATA-ATATATATTTTT-GAAA
1 ATATAATATATAGTTTTCAAAAACATTTTAAAACATATATATA-ATATATTTTTCGAAA
**
1052347 ATATAATATATAGTTTTTGAAAACATTTTAAAACATATATATAATATATTTTTCGAAA
1 ATATAATATATAGTTTTCAAAAACATTTTAAAACATATATATAATATATTTTTCGAAA
1052405 ATAT
1 ATAT
1052409 TTGAAAATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
56 29 0.53
57 17 0.31
58 9 0.16
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (58 bp):
ATATAATATATAGTTTTCAAAAACATTTTAAAACATATATATAATATATTTTTCGAAA
Found at i:1052375 original size:34 final size:34
Alignment explanation
Indices: 1052339--1052504 Score: 144
Period size: 35 Copynumber: 4.6 Consensus size: 34
1052329 TAATATATAT
1052339 TTTTGAAA-ATATA-ATATATAGTTTTTGAAAACA
1 TTTTGAAATATATATATATATAGTTTTTGAAAA-A
* *
1052372 TTTTAAAACATATATATAATATA-TTTTTCG-AAAA
1 TTTTGAAATATATATAT-ATATAGTTTTT-GAAAAA
*
1052406 TATTTGAAA-ATATATAACATATAGTTTTTGAAAAA
1 T-TTTGAAATATATAT-ATATATAGTTTTTGAAAAA
1052441 TTTTGAAATATATATATATATATATATAGTTTTTGAAAACA
1 TTTTG----A-A-ATATATATATATATAGTTTTTGAAAA-A
*
1052482 TTTTGAAAAAATATATATATATA
1 TTTTG-AAATATATATATATATA
1052505 TATATATAAT
Statistics
Matches: 111, Mismatches: 6, Indels: 29
0.76 0.04 0.20
Matches are distributed among these distances:
33 7 0.06
34 23 0.21
35 27 0.24
36 20 0.18
37 1 0.01
38 2 0.02
39 1 0.01
40 18 0.16
41 12 0.11
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (34 bp):
TTTTGAAATATATATATATATAGTTTTTGAAAAA
Found at i:1052394 original size:36 final size:37
Alignment explanation
Indices: 1052347--1052506 Score: 183
Period size: 34 Copynumber: 4.4 Consensus size: 37
1052337 ATTTTTGAAA
1052347 ATATA-ATATATAGTTTTTGAAAACATTTT-AAAACAT
1 ATATATATATATAGTTTTTGAAAACATTTTGAAAA-AT
*
1052383 ATATATA-ATATA-TTTTTCGAAAATA-TTTG-AAAAT
1 ATATATATATATAGTTTTT-GAAAACATTTTGAAAAAT
*
1052417 ATATA-ACATATAGTTTTTGAAAA-ATTTTGAAATATATAT
1 ATATATATATATAGTTTTTGAAAACATTTTG-AA-A-A-AT
1052456 ATATATATATATAGTTTTTGAAAACATTTTGAAAAAAT
1 ATATATATATATAGTTTTTGAAAACATTTTG-AAAAAT
1052494 ATATATATATATA
1 ATATATATATATA
1052507 TATATAATAT
Statistics
Matches: 109, Mismatches: 2, Indels: 24
0.81 0.01 0.18
Matches are distributed among these distances:
33 2 0.02
34 21 0.19
35 16 0.15
36 17 0.16
37 2 0.02
38 16 0.15
39 8 0.07
40 18 0.17
41 9 0.08
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.43
Consensus pattern (37 bp):
ATATATATATATAGTTTTTGAAAACATTTTGAAAAAT
Found at i:1052488 original size:51 final size:51
Alignment explanation
Indices: 1052431--1052533 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 51
1052421 AACATATAGT
* *
1052431 TTTTGAAAAATTTTGAAATATATATATATAT-ATATATAGTTTTTGAAAACA
1 TTTTGAAAAAATAT-AAATATATATATATATAATATATAGTTTTTGAAAACA
*
1052482 TTTTGAAAAAATATATATATATATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAAAATATAAATATATATATATATAATATATAGTTTTTGAAAACA
1052533 T
1 T
1052534 AAAAAATATT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
50 15 0.31
51 33 0.69
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.45
Consensus pattern (51 bp):
TTTTGAAAAAATATAAATATATATATATATAATATATAGTTTTTGAAAACA
Found at i:1052509 original size:42 final size:40
Alignment explanation
Indices: 1052347--1052510 Score: 165
Period size: 42 Copynumber: 4.3 Consensus size: 40
1052337 ATTTTTGAAA
*
1052347 ATATA-ATATATAGTTTTTGAAAACATTTT--AAAACATAT
1 ATATATATATATAGTTTTTGAAAA-ATTTTGAAAAATATAT
*
1052385 ATATA-ATATAT--TTTTCG-AAAATATTTG---AA-A-AT
1 ATATATATATATAGTTTTTGAAAAAT-TTTGAAAAATATAT
* *
1052417 ATATA-ACATATAGTTTTTGAAAAATTTTGAAATATATAT
1 ATATATATATATAGTTTTTGAAAAATTTTGAAAAATATAT
1052456 ATATATATATATAGTTTTTGAAAACATTTTGAAAAAATATAT
1 ATATATATATATAGTTTTTGAAAA-ATTTTG-AAAAATATAT
1052498 ATATATATATATA
1 ATATATATATATA
1052511 TAATATATAG
Statistics
Matches: 107, Mismatches: 6, Indels: 22
0.79 0.04 0.16
Matches are distributed among these distances:
32 12 0.11
33 1 0.01
34 13 0.12
35 11 0.10
36 5 0.05
37 1 0.01
38 12 0.11
39 7 0.07
40 17 0.16
41 6 0.06
42 22 0.21
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (40 bp):
ATATATATATATAGTTTTTGAAAAATTTTGAAAAATATAT
Found at i:1052514 original size:161 final size:161
Alignment explanation
Indices: 1052240--1052533 Score: 395
Period size: 161 Copynumber: 1.8 Consensus size: 161
1052230 TTTAGTTTTT
*
1052240 AAAATATTTGGAAAACATATATATATATAGTTTTAAAATATTTTAAAATATATATAATATATAGT
1 AAAATATTTGGAAAACATATATACATATAGTTTTAAAATATTTTAAAATATATATAATATATAGT
* * *
1052305 TTTCAAAAATATTTTGAAAATATATAATATATATTTTTGAAAATATAATATATAGTTTTTGAAAA
66 TTTCAAAAACATTTTGAAAATATATAATATATATATAT-AAAATATAATATATAGTTTTTGAAAA
1052370 CATTTTAAAACATATATATAATATATTTTTCG
130 CATTTTAAAACATATATATAATATATTTTTCG
*
1052402 AAAATATTT-GAAAATATATA-ACATATAGTTTTTGAAAA-ATTTTGAAATATATATATATATAT
1 AAAATATTTGGAAAACATATATACATATAG-TTTT-AAAATATTTT--AA-A-ATATATATA-AT
** *
1052464 ATATAGTTTTTGAAAACATTTTGAAAA-A-AT-ATATATATATAT-ATATATAATATATAGTTTT
59 ATATAGTTTTCAAAAACATTTTGAAAATATATAATATATATATATAAAATATAATATATAGTTTT
1052525 TGAAAACAT
124 TGAAAACAT
1052534 AAAAAATATT
Statistics
Matches: 117, Mismatches: 8, Indels: 15
0.84 0.06 0.11
Matches are distributed among these distances:
160 7 0.06
161 46 0.39
162 13 0.11
163 12 0.10
164 3 0.03
165 10 0.09
166 26 0.22
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (161 bp):
AAAATATTTGGAAAACATATATACATATAGTTTTAAAATATTTTAAAATATATATAATATATAGT
TTTCAAAAACATTTTGAAAATATATAATATATATATATAAAATATAATATATAGTTTTTGAAAAC
ATTTTAAAACATATATATAATATATTTTTCG
Found at i:1052587 original size:22 final size:22
Alignment explanation
Indices: 1052539--1052587 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
1052529 AACATAAAAA
1052539 ATATTTTGAAAATATATCATAT
1 ATATTTTGAAAATATATCATAT
* *
1052561 A-ATTTTTAAAA-ATATTATATT
1 ATATTTTGAAAATATATCATA-T
1052582 ATATTT
1 ATATTT
1052588 AATTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 7 0.30
21 11 0.48
22 5 0.22
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
ATATTTTGAAAATATATCATAT
Found at i:1053768 original size:9 final size:9
Alignment explanation
Indices: 1053750--1053817 Score: 59
Period size: 9 Copynumber: 7.3 Consensus size: 9
1053740 TCTAATATTT
1053750 TTTA-TTTA
1 TTTATTTTA
*
1053758 TTTCTTTTA
1 TTTATTTTA
1053767 TTTTATTTTA
1 -TTTATTTTA
1053777 TTTATATTTA
1 TTTAT-TTTA
*
1053787 TAT-TTTTA
1 TTTATTTTA
1053795 TTATATTTTTA
1 TT-TA-TTTTA
*
1053806 TTCATTTTA
1 TTTATTTTA
1053815 TTT
1 TTT
1053818 TTTATTTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
8 8 0.17
9 18 0.38
10 15 0.31
11 7 0.15
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTATTTTA
Found at i:1053779 original size:23 final size:23
Alignment explanation
Indices: 1053749--1053818 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
1053739 ATCTAATATT
1053749 TTTTATTTATTTCTTTTATTTTA
1 TTTTATTTATTTCTTTTATTTTA
* *
1053772 TTTTATTTATAT-TTATATTTTTA
1 TTTTATTTATTTCTTTTA-TTTTA
* *
1053795 TTATATTTTTATTCATTTTATTTT
1 TTTTATTTAT-TTC-TTTTATTTT
1053819 TTATTTTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
22 4 0.11
23 24 0.65
24 1 0.03
25 4 0.11
26 4 0.11
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTATTTATTTCTTTTATTTTA
Found at i:1053798 original size:11 final size:10
Alignment explanation
Indices: 1053748--1053817 Score: 56
Period size: 11 Copynumber: 6.9 Consensus size: 10
1053738 GATCTAATAT
1053748 TTTTTATTTA
1 TTTTTATTTA
*
1053758 TTTCT-TTTA
1 TTTTTATTTA
1053767 -TTTTATTTTA
1 TTTTTA-TTTA
*
1053777 TTTATATTTATA
1 TTTTTA-TT-TA
1053789 TTTTTATTATA
1 TTTTTATT-TA
*
1053800 TTTTTATTCA
1 TTTTTATTTA
1053810 -TTTTATTT
1 TTTTTATTT
1053818 TTTATTTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
8 3 0.06
9 11 0.22
10 9 0.18
11 20 0.40
12 7 0.14
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:1053826 original size:5 final size:5
Alignment explanation
Indices: 1053749--1053818 Score: 56
Period size: 5 Copynumber: 13.8 Consensus size: 5
1053739 ATCTAATATT
*
1053749 TTTTA -TTTA -TTTC TTTTA TTTTA TTTTA TTTATA TTTATA TTTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTT-TA -TTTTA
* *
1053795 TTATA TTTT- TATTCA TTTTA TTTT
1 TTTTA TTTTA T-TTTA TTTTA TTTT
1053819 TTATTTTAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
4 8 0.15
5 32 0.59
6 11 0.20
7 3 0.06
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:1053830 original size:28 final size:29
Alignment explanation
Indices: 1053752--1053826 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
1053742 TAATATTTTT
* *
1053752 TATTTATTTCTTTTATTTTA-TTTTATTTA
1 TATTTATAT-TTTTATTTTATTTTTATTCA
*
1053781 TATTTATATTTTTATTATATTTTTATTCA
1 TATTTATATTTTTATTTTATTTTTATTCA
1053810 T-TTTAT-TTTTTATTTTA
1 TATTTATATTTTTATTTTA
1053827 ATTTAATTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.24
28 14 0.34
29 17 0.41
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (29 bp):
TATTTATATTTTTATTTTATTTTTATTCA
Found at i:1059218 original size:3 final size:3
Alignment explanation
Indices: 1059205--1059249 Score: 81
Period size: 3 Copynumber: 14.7 Consensus size: 3
1059195 GTTTATTTTG
1059205 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1059250 TTATATTGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1059645 original size:17 final size:16
Alignment explanation
Indices: 1059625--1059683 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 16
1059615 TCTTATTTCA
1059625 TTTCTTTTAAATTCAAT
1 TTTCTTTT-AATTCAAT
*
1059642 TTTC-TTTCATTCAATACT
1 TTTCTTTTAATTC-A-A-T
1059660 TTTCTTTTGAATTCAAT
1 TTTCTTTT-AATTCAAT
1059677 TTTCTTT
1 TTTCTTT
1059684 CGTTCTAACC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 4 0.11
16 4 0.11
17 13 0.37
18 6 0.17
19 4 0.11
20 4 0.11
ACGTcount: A:0.22, C:0.15, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTCTTTTAATTCAAT
Found at i:1061524 original size:22 final size:22
Alignment explanation
Indices: 1061482--1061524 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1061472 GATTCCTGGA
**
1061482 AAATGCATTTTGAATGTGCATC
1 AAATGCATTAGGAATGTGCATC
1061504 AAATGCATTAGGATATG-GCAT
1 AAATGCATTAGGA-ATGTGCAT
1061525 TGAGGCAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (22 bp):
AAATGCATTAGGAATGTGCATC
Found at i:1064699 original size:39 final size:39
Alignment explanation
Indices: 1064626--1065069 Score: 292
Period size: 40 Copynumber: 10.7 Consensus size: 39
1064616 TATATATAAG
* *
1064626 ATATAATATATAATTTTTTTATAAA-ATTTTGAAAACATAT
1 ATATAATATAT-A-GTTTTTAAAAATATTTTGAAAACATAT
* *
1064666 ATATAATATTTAGTTTTTAAAAATA-TTTGGAAA-ATAT
1 ATATAATATATAGTTTTTAAAAATATTTTGAAAACATAT
* * * *
1064703 ATATCATATATAGTTTTTGAAAACATTTTAAAAACATAT
1 ATATAATATATAGTTTTTAAAAATATTTTGAAAACATAT
* *
1064742 ATATAATATATAATTTTCAAAAATATTTTG-AAA-ATAT
1 ATATAATATATAGTTTTTAAAAATATTTTGAAAACATAT
*
1064779 ATATAACATATAGTTTTTGAAAATATATATATAGTTTTTGAAAACATTTTAAAAACAT
1 ATATAATATATAGTTTTT----A-A-A-A-ATA--TTTTGAAAACA---T------AT
** *
1064837 ATATATACTATATAGTTTTCGAAAATATTTTG--AATATAT
1 ATATA-A-TATATAGTTTTTAAAAATATTTTGAAAACATAT
* * * *
1064876 ATATAACACATAGTTTTTGAAAAA-GTTTTGAATATATATATAT
1 ATATAATATATAGTTTTT-AAAAATATTTTG-A-A-A-ACATAT
* * *
1064919 ATATATATATATAGTTTTTGAAAACATTTTGAAAAAATAT
1 ATATA-ATATATAGTTTTTAAAAATATTTTGAAAACATAT
*
1064959 ATATAATATATAGTTTTTTAAAAACATTTTGAAAACATAT
1 ATATAATATATAG-TTTTTAAAAATATTTTGAAAACATAT
* * *
1064999 ATATAATATATAGTTTTTGAAAACATTTTGAAAAAAATGTAT
1 ATATAATATATAGTTTTTAAAAATATTTTG-AAAACA--TAT
* *
1065041 ATATAATATATAGTTTTTGAAAACATTTT
1 ATATAATATATAGTTTTTAAAAATATTTT
1065070 AAATATTAAT
Statistics
Matches: 328, Mismatches: 37, Indels: 76
0.74 0.08 0.17
Matches are distributed among these distances:
37 58 0.18
38 30 0.09
39 61 0.19
40 62 0.19
41 2 0.01
42 35 0.11
43 17 0.05
44 17 0.05
45 4 0.01
47 5 0.02
48 6 0.02
49 1 0.00
50 5 0.02
52 4 0.01
53 1 0.00
54 1 0.00
55 1 0.00
58 7 0.02
59 1 0.00
60 10 0.03
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (39 bp):
ATATAATATATAGTTTTTAAAAATATTTTGAAAACATAT
Found at i:1064739 original size:76 final size:76
Alignment explanation
Indices: 1064651--1064801 Score: 239
Period size: 76 Copynumber: 2.0 Consensus size: 76
1064641 TTTTTATAAA
* * * * * *
1064651 ATTTTGAAAACATATATATAATATTTAGTTTTTAAAAATATTTGGAAAATATATATCATATATAG
1 ATTTTAAAAACATATATATAATATATAATTTTCAAAAATATTTGGAAAATATATATAACATATAG
1064716 TTTTTGAAAAC
66 TTTTTGAAAAC
*
1064727 ATTTTAAAAACATATATATAATATATAATTTTCAAAAATATTTTGAAAATATATATAACATATAG
1 ATTTTAAAAACATATATATAATATATAATTTTCAAAAATATTTGGAAAATATATATAACATATAG
1064792 TTTTTGAAAA
66 TTTTTGAAAA
1064802 TATATATATA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 68 1.00
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (76 bp):
ATTTTAAAAACATATATATAATATATAATTTTCAAAAATATTTGGAAAATATATATAACATATAG
TTTTTGAAAAC
Found at i:1064818 original size:97 final size:98
Alignment explanation
Indices: 1064703--1064898 Score: 340
Period size: 97 Copynumber: 2.0 Consensus size: 98
1064693 TGGAAAATAT
1064703 ATATCATATATAGTTTTTGAAAACATTTTAAAAACATATATATAATATATAATTTTCAAAAATAT
1 ATATCATATATAGTTTTTGAAAACATTTTAAAAACATATATATAATATATAATTTTCAAAAATAT
*
1064768 TTTGAAAATATATATAACATATAGTTTTTGAAA
66 TTTGAAAATATATATAACACATAGTTTTTGAAA
* * *
1064801 ATAT-ATATATAGTTTTTGAAAACATTTTAAAAACATATATATACTATATAGTTTTCGAAAATAT
1 ATATCATATATAGTTTTTGAAAACATTTTAAAAACATATATATAATATATAATTTTCAAAAATAT
*
1064865 TTTGAATATATATATAACACATAGTTTTTGAAA
66 TTTGAAAATATATATAACACATAGTTTTTGAAA
1064898 A
1 A
1064899 AGTTTTGAAT
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
97 89 0.96
98 4 0.04
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (98 bp):
ATATCATATATAGTTTTTGAAAACATTTTAAAAACATATATATAATATATAATTTTCAAAAATAT
TTTGAAAATATATATAACACATAGTTTTTGAAA
Found at i:1064828 original size:58 final size:61
Alignment explanation
Indices: 1064742--1064864 Score: 162
Period size: 58 Copynumber: 2.1 Consensus size: 61
1064732 AAAAACATAT
* * * *
1064742 ATATAATATATAATTTTCAAAAATATTTTGAAAATATATATA-AC-ATATAGTTTTTGAAA
1 ATATAATATATAATTTTCAAAAACATTTTAAAAACATATATATACTATATAGTTTTCGAAA
* **
1064801 ATAT-ATATATAGTTTTTGAAAACATTTTAAAAACATATATATACTATATAGTTTTCGAAA
1 ATATAATATATAATTTTCAAAAACATTTTAAAAACATATATATACTATATAGTTTTCGAAA
1064861 ATAT
1 ATAT
1064865 TTTGAATATA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
58 31 0.56
59 6 0.11
60 18 0.33
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (61 bp):
ATATAATATATAATTTTCAAAAACATTTTAAAAACATATATATACTATATAGTTTTCGAAA
Found at i:1064914 original size:2 final size:2
Alignment explanation
Indices: 1064907--1064931 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1064897 AAAGTTTTGA
1064907 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1064932 GTTTTTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1065169 original size:22 final size:23
Alignment explanation
Indices: 1065135--1065182 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
1065125 TTTTTAAAAT
*
1065135 ATAATATAATAATATTATTTA-A
1 ATAATATAATAATATAATTTATA
1065157 ATAA-ATAATTAATATAATTTATA
1 ATAATATAA-TAATATAATTTATA
1065180 ATA
1 ATA
1065183 TTTTTATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 15 0.65
23 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
ATAATATAATAATATAATTTATA
Found at i:1066095 original size:18 final size:18
Alignment explanation
Indices: 1066068--1066102 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1066058 TCTCATTCTC
1066068 CTTCCACTTCATCTTCAT
1 CTTCCACTTCATCTTCAT
* *
1066086 CTTCCTCTTCTTCTTCA
1 CTTCCACTTCATCTTCA
1066103 GCAGCAACGA
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:0.11, C:0.40, G:0.00, T:0.49
Consensus pattern (18 bp):
CTTCCACTTCATCTTCAT
Found at i:1076690 original size:156 final size:156
Alignment explanation
Indices: 1076406--1076723 Score: 636
Period size: 156 Copynumber: 2.0 Consensus size: 156
1076396 ATGTCCTGTT
1076406 GTTTATAGAGTTTTAGTGAGAGATATTGGTTTTTTGTTAAGAGATCTAAATGGTATTATTAGATG
1 GTTTATAGAGTTTTAGTGAGAGATATTGGTTTTTTGTTAAGAGATCTAAATGGTATTATTAGATG
1076471 GGTTCCTAGATCAGCTAATGTTGAGGCTGACAGCTTAGCTAAGGCCGGTATCGGTTAGTTCTCAG
66 GGTTCCTAGATCAGCTAATGTTGAGGCTGACAGCTTAGCTAAGGCCGGTATCGGTTAGTTCTCAG
1076536 TGTGTATGGATTCTTTCAGCATTTGG
131 TGTGTATGGATTCTTTCAGCATTTGG
1076562 GTTTATAGAGTTTTAGTGAGAGATATTGGTTTTTTGTTAAGAGATCTAAATGGTATTATTAGATG
1 GTTTATAGAGTTTTAGTGAGAGATATTGGTTTTTTGTTAAGAGATCTAAATGGTATTATTAGATG
1076627 GGTTCCTAGATCAGCTAATGTTGAGGCTGACAGCTTAGCTAAGGCCGGTATCGGTTAGTTCTCAG
66 GGTTCCTAGATCAGCTAATGTTGAGGCTGACAGCTTAGCTAAGGCCGGTATCGGTTAGTTCTCAG
1076692 TGTGTATGGATTCTTTCAGCATTTGG
131 TGTGTATGGATTCTTTCAGCATTTGG
1076718 GTTTAT
1 GTTTAT
1076724 TATTGTAAGG
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
156 162 1.00
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.39
Consensus pattern (156 bp):
GTTTATAGAGTTTTAGTGAGAGATATTGGTTTTTTGTTAAGAGATCTAAATGGTATTATTAGATG
GGTTCCTAGATCAGCTAATGTTGAGGCTGACAGCTTAGCTAAGGCCGGTATCGGTTAGTTCTCAG
TGTGTATGGATTCTTTCAGCATTTGG
Found at i:1084426 original size:25 final size:25
Alignment explanation
Indices: 1084392--1084441 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
1084382 TGTAGCTTGA
*
1084392 GGACACATATGATACAACTAAATCG
1 GGACACATATAATACAACTAAATCG
1084417 GGACACATATAATACAACTAAATCG
1 GGACACATATAATACAACTAAATCG
1084442 TGTATCGGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (25 bp):
GGACACATATAATACAACTAAATCG
Found at i:1090703 original size:202 final size:203
Alignment explanation
Indices: 1090356--1090789 Score: 525
Period size: 202 Copynumber: 2.1 Consensus size: 203
1090346 TTTTTTTTTG
* * *
1090356 TAATTTATAAGATTAGAGGCGTAATATTGGAATTTATCTTTCAGTTGAGGCCACTATCGACACAT
1 TAATTTATAAGATTAGAGGCGTAATATTGGAACTTATCTTTCAATTGAGGCCAATATCGACACAT
* * * * * *
1090421 ATAAGATGTTGTAAGCAAGTTAAAAATCGCGTTGAAAATTGTTCCAAAGCTTGTTTTGTGCATGA
66 ACAAGATATTGTAAGCAAGTTAAAAATCACGTTGAAAATGGTTCCAAAGCTTGTTTTATACATGA
* * * * *
1090486 AAAAAAAAGCTAAAATCGTTTGATAGGCATATTTGAGGAGTTTTTTTAGGGTAGTTAATCT-AAC
131 AAAAAAAAGCTAAAATCGCTTGATAGGCATACTCGAGGAGTATTTTT-GGGAAGTTAATCTGAAC
1090550 AATTTTC-AC
195 -ATTTTCTAC
* ** *
1090559 -AATTTATAAGATTAGAGGCGTAATATTGTAACTTATCTTTCAATTGAGGGTAATATCGGCACAT
1 TAATTTATAAGATTAGAGGCGTAATATTGGAACTTATCTTTCAATTGAGGCCAATATCGACACAT
* * *
1090623 ACAAGATATTGTAATCGAGTTAAAAATTACGTTGAAAATGGTTCCAAAGCTTGGTTTTATACATG
66 ACAAGATATTGTAAGCAAGTTAAAAATCACGTTGAAAATGGTTCCAAAGCTT-GTTTTATACATG
** * * * *
1090688 ATGAAGAAA-CTAAAATGGCTTGATAGGCATGCTCGGGGAGTATTTTTGGGAAGTTAATCTGAAC
130 AAAAAAAAAGCTAAAATCGCTTGATAGGCATACTCGAGGAGTATTTTTGGGAAGTTAATCTGAAC
* *
1090752 TTTTTCTTC
195 ATTTTCTAC
* *
1090761 TTAATTTATAAGATTATAGGCGTAGTATT
1 -TAATTTATAAGATTAGAGGCGTAATATT
1090790 TTCGTAATTT
Statistics
Matches: 195, Mismatches: 31, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
201 17 0.09
202 137 0.70
203 16 0.08
204 25 0.13
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (203 bp):
TAATTTATAAGATTAGAGGCGTAATATTGGAACTTATCTTTCAATTGAGGCCAATATCGACACAT
ACAAGATATTGTAAGCAAGTTAAAAATCACGTTGAAAATGGTTCCAAAGCTTGTTTTATACATGA
AAAAAAAAGCTAAAATCGCTTGATAGGCATACTCGAGGAGTATTTTTGGGAAGTTAATCTGAACA
TTTTCTAC
Found at i:1091504 original size:530 final size:530
Alignment explanation
Indices: 1090503--1091569 Score: 1854
Period size: 530 Copynumber: 2.0 Consensus size: 530
1090493 AGCTAAAATC
**
1090503 GTTTGATAGGCATATTTGAGGAGTTTTTTTAGGGTAGTTAATCTAACAATTTTCACAATTTATAA
1 GTTTGATAAACATATTTGAGGAGTTTTTTTAGGGTAGTTAATCTAACAATTTTCACAATTTATAA
* * *
1090568 GATTAGAGGCGTAATATTGTAACTTATCTTTCAATTGAGGGTAATATCGGCACATACAAGATATT
66 AATTAGAGGCGTAATATTGGAACTTATATTTCAATTGAGGGTAATATCGGCACATACAAGATATT
* *
1090633 GTAATCGAGTTAAAAATTACGTTGAAAATGGTTCCAAAGCTTGGTTTTATACATGATGAAGAAAC
131 GTAATCGAGTTAAAAATCACGTTGAAAATGGTTCCAAAGCTTGGTTTTATACATGAAGAAGAAAC
*
1090698 TAAAATGGCTTGATAGGCATGCTCGGGGAGTATTTTTGGGAAGTTAATCTGAACTTTTTCTTCTT
196 TAAAATGGCTTGATAGGCATGCTCGGGGAGTATTTTTGGGAAGTTAATATGAACTTTTTCTTCTT
*
1090763 AATTTATAAGATTATAGGCGTAGTATTTTCGTAATTTATAGTTTTGTACATACAAGACATTCTAA
261 AATTTATAAGATTAGAGGCGTAGTATTTTCGTAATTTATAGTTTTGTACATACAAGACATTCTAA
1090828 GCAGTGTAAAAATCGAGTTGAAAATGGTTCGAAACAAAAAGAAATTGAAAAAACTAATATATTTT
326 GCAGTGTAAAAATCGAGTTGAAAATGGTTCGAAACAAAAAGAAATTGAAAAAACTAATATATTTT
1090893 GTTAATTACAAAAGTAGTACAACGAAAAAACACAATTAATCAATACGAGGACGTGACTACTTAGG
391 GTTAATTACAAAAGTAGTACAACGAAAAAACACAATTAATCAATACGAGGACGTGACTACTTAGG
1090958 ATATTTGTTTTTCATGTGT-TCAAGATTCCTACAAATAGTGCATAGTTTCGGCTCTCCAGTTCAT
456 ATATTTGTTTTTCATGTGTCT-AAGATTCCTACAAATAGTGCATAGTTTCGGCTCTCCAGTTCAT
1091022 GAGATAAGTGA
520 GAGATAAGTGA
*
1091033 GTTTGATAAACATATTTGAGGAGTTTTTTTAGGGTAGTTAATCTGACAATTTTCACAATTTATAA
1 GTTTGATAAACATATTTGAGGAGTTTTTTTAGGGTAGTTAATCTAACAATTTTCACAATTTATAA
* *
1091098 AATTAGAGGTGTAATATTGGAACTTATATTTCAATTGA-GGTAATATCGGCACATACAGGATATT
66 AATTAGAGGCGTAATATTGGAACTTATATTTCAATTGAGGGTAATATCGGCACATACAAGATATT
*
1091162 GTAATCGAGTTAAAAATCACGTTGAAAATGGTTCCAAAGCTTGGTTTTATATATGAAGAAGAAAC
131 GTAATCGAGTTAAAAATCACGTTGAAAATGGTTCCAAAGCTTGGTTTTATACATGAAGAAGAAAC
*
1091227 TAAAATGGCTTGATAGGCATGTTCGGGGAGTATTTTTGGGAAGTTAATATGAACTTTTTCTTCTT
196 TAAAATGGCTTGATAGGCATGCTCGGGGAGTATTTTTGGGAAGTTAATATGAACTTTTTCTTCTT
1091292 -ATTTATAAGATTAGAGGCGTAGTATTTTCGTAATTTATAGTTTTGTACATA-AGAGACATTCTA
261 AATTTATAAGATTAGAGGCGTAGTATTTTCGTAATTTATAGTTTTGTACATACA-AGACATTCTA
* * *
1091355 AGCGGTGTAAAAATCGTGTTGAAAATGGTTCGAAACAAAAATAAATTGAAAACTAACTAATATAT
325 AGCAGTGTAAAAATCGAGTTGAAAATGGTTCGAAACAAAAAGAAATTGAAAA--AACTAATATAT
* * * * * *
1091420 TTTTTTAATTACAAAAGTATTACAATGAAAAAGCACAATTAATCAATACGGGGACGTGACTTCTT
388 TTTGTTAATTACAAAAGTAGTACAACGAAAAAACACAATTAATCAATACGAGGACGTGACTACTT
*
1091485 AGGATATTTGTTTTTCATGTGTCTAAGATTCCTACAAATAGTGCATAGTTTCGGCTCTCCGGTTC
453 AGGATATTTGTTTTTCATGTGTCTAAGATTCCTACAAATAGTGCATAGTTTCGGCTCTCCAGTTC
1091550 ATGAGATAAGTGA
518 ATGAGATAAGTGA
1091563 GTTTGAT
1 GTTTGAT
1091570 GGAACAAGAA
Statistics
Matches: 509, Mismatches: 24, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
527 1 0.00
528 109 0.21
529 150 0.29
530 248 0.49
531 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (530 bp):
GTTTGATAAACATATTTGAGGAGTTTTTTTAGGGTAGTTAATCTAACAATTTTCACAATTTATAA
AATTAGAGGCGTAATATTGGAACTTATATTTCAATTGAGGGTAATATCGGCACATACAAGATATT
GTAATCGAGTTAAAAATCACGTTGAAAATGGTTCCAAAGCTTGGTTTTATACATGAAGAAGAAAC
TAAAATGGCTTGATAGGCATGCTCGGGGAGTATTTTTGGGAAGTTAATATGAACTTTTTCTTCTT
AATTTATAAGATTAGAGGCGTAGTATTTTCGTAATTTATAGTTTTGTACATACAAGACATTCTAA
GCAGTGTAAAAATCGAGTTGAAAATGGTTCGAAACAAAAAGAAATTGAAAAAACTAATATATTTT
GTTAATTACAAAAGTAGTACAACGAAAAAACACAATTAATCAATACGAGGACGTGACTACTTAGG
ATATTTGTTTTTCATGTGTCTAAGATTCCTACAAATAGTGCATAGTTTCGGCTCTCCAGTTCATG
AGATAAGTGA
Found at i:1093147 original size:14 final size:13
Alignment explanation
Indices: 1093120--1093154 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
1093110 ATAGTTTTCA
1093120 TATTTTTTAATTT
1 TATTTTTTAATTT
*
1093133 TATTTTTATATTTT
1 TATTTTT-TAATTT
1093147 TATTTTTT
1 TATTTTTT
1093155 TCATTATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TATTTTTTAATTT
Found at i:1093822 original size:3 final size:3
Alignment explanation
Indices: 1093801--1093843 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
1093791 ATGTCTACCC
* * * *
1093801 CAT CAT TAT CAT CAG CAT CAT CAC CAT CAT CAT AAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1093844 TTTGTCATCG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.35, C:0.33, G:0.02, T:0.30
Consensus pattern (3 bp):
CAT
Found at i:1095318 original size:18 final size:18
Alignment explanation
Indices: 1095292--1095334 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
1095282 AATCGTTGCA
1095292 AAATAAAAAAATTATCAT
1 AAATAAAAAAATTATCAT
*
1095310 AAATTAAAAAATTATCAT
1 AAATAAAAAAATTATCAT
1095328 AAA-AAAA
1 AAATAAAA
1095335 TTACAATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAAAAAAATTATCAT
Found at i:1095358 original size:18 final size:19
Alignment explanation
Indices: 1095291--1095358 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
1095281 AAATCGTTGC
*
1095291 AAAATAAAAAAATTATCAT
1 AAAATAAAACAATTATCAT
*
1095310 AAATTAAAA-AATTATCAT
1 AAAATAAAACAATTATCAT
*
1095328 AAAA-AAATTACAA-TAACAT
1 AAAATAAA--ACAATTATCAT
1095347 AAAATAAAACAA
1 AAAATAAAACAA
1095359 AAGTTCAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
17 3 0.07
18 16 0.38
19 18 0.43
20 5 0.12
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATAAAACAATTATCAT
Found at i:1097914 original size:21 final size:21
Alignment explanation
Indices: 1097888--1097932 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
1097878 GATAAAAAAA
*
1097888 TTATTTAAAATATTATTATTT
1 TTATTTAAAATATTAATATTT
1097909 TTATTTAAAATATTAATATTT
1 TTATTTAAAATATTAATATTT
1097930 TTA
1 TTA
1097933 ATATTTTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTTAAAATATTAATATTT
Found at i:1100825 original size:27 final size:24
Alignment explanation
Indices: 1100768--1100839 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
1100758 AAAAAAGTAT
*
1100768 TGTCTCCTCTAAATAGGTGATAAA
1 TGTCTCCTCCAAATAGGTGATAAA
*
1100792 TGTCTCCTCCAAATAGGTTATAAA
1 TGTCTCCTCCAAATAGGTGATAAA
* * *
1100816 TGTCCCCTCCAAATATGTAATAAA
1 TGTCTCCTCCAAATAGGTGATAAA
1100840 ATCATTTCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (24 bp):
TGTCTCCTCCAAATAGGTGATAAA
Found at i:1102398 original size:52 final size:53
Alignment explanation
Indices: 1102320--1102426 Score: 207
Period size: 52 Copynumber: 2.0 Consensus size: 53
1102310 TATTCTGTCA
1102320 ATAATTTACACTAAACACACTACTTGAACCAGAGT-AATAACAACATTTCTCT
1 ATAATTTACACTAAACACACTACTTGAACCAGAGTAAATAACAACATTTCTCT
1102372 ATAATTTACACTAAACACACTACTTGAACCAGAGTAAATAACAACATTTCTCT
1 ATAATTTACACTAAACACACTACTTGAACCAGAGTAAATAACAACATTTCTCT
1102425 AT
1 AT
1102427 GCAATATTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 35 0.65
53 19 0.35
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (53 bp):
ATAATTTACACTAAACACACTACTTGAACCAGAGTAAATAACAACATTTCTCT
Found at i:1109930 original size:175 final size:174
Alignment explanation
Indices: 1109639--1109992 Score: 591
Period size: 175 Copynumber: 2.0 Consensus size: 174
1109629 GTTTGAAGCA
* * *
1109639 AAAACTCAAGTGTGAACACAGCATGGTATATTCGGTTATTAGGATTTTCAATTAGGGGTTTAGGG
1 AAAACTCAAGTGTGAACACACCATGGTATATTCGGCTATCAGGATTTTCAATTAGGGGTTTAGGG
* * * *
1109704 TTTTGATGATATTAAAGTGTTCATGTTGGTTGCCATCATCTAATCTTCATTTTGATGGTAAAATC
66 TTTTGATGAAATTAAACTGCTCATGTTGGTTGCCATCATCTAAGCTTCATTTTGATGGTAAAATC
*
1109769 ATTAAAATTTGGAATTAAAATGTGAAAACCCCTAATTTGGTCCTT
131 ATT-AAATTTGGAATTAAAATGTGAAAACCCCTAACTTGGTCCTT
1109814 AAAACTCAAGTGTGAACACACCATGGTATATTCGGCTATCAGGATTTTCAATTAGGGGTTTAGGG
1 AAAACTCAAGTGTGAACACACCATGGTATATTCGGCTATCAGGATTTTCAATTAGGGGTTTAGGG
* * *
1109879 TTTTGATGAAATTGAACTGCTCATGTTGGTTGCCATCATCTAAGCTTCATTTTGATTGTAAAATT
66 TTTTGATGAAATTAAACTGCTCATGTTGGTTGCCATCATCTAAGCTTCATTTTGATGGTAAAATC
*
1109944 ATTAAATTTGGAATTGAAATGTGAAAACCCCTAACTTGGTCCTT
131 ATTAAATTTGGAATTAAAATGTGAAAACCCCTAACTTGGTCCTT
1109988 AAAAC
1 AAAAC
1109993 CCTAATAGAG
Statistics
Matches: 167, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
174 44 0.26
175 123 0.74
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (174 bp):
AAAACTCAAGTGTGAACACACCATGGTATATTCGGCTATCAGGATTTTCAATTAGGGGTTTAGGG
TTTTGATGAAATTAAACTGCTCATGTTGGTTGCCATCATCTAAGCTTCATTTTGATGGTAAAATC
ATTAAATTTGGAATTAAAATGTGAAAACCCCTAACTTGGTCCTT
Found at i:1110742 original size:56 final size:56
Alignment explanation
Indices: 1110655--1110768 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
1110645 TCCTCCATCC
*
1110655 GAATGCTAGAATGTGTAGGTTCCCCTAAACCATACACCACATGTACACCTGAAAAT
1 GAATGCTAGAATGTGTAGGTTCCCCTAAACCATACACCACATGTACACCCGAAAAT
* *
1110711 GAATGCTAGAATGTGTAGGTTCCCCTGAACCATACACCACATGTACACCCGACAAT
1 GAATGCTAGAATGTGTAGGTTCCCCTAAACCATACACCACATGTACACCCGAAAAT
1110767 GA
1 GA
1110769 CTTTATACTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (56 bp):
GAATGCTAGAATGTGTAGGTTCCCCTAAACCATACACCACATGTACACCCGAAAAT
Found at i:1110839 original size:39 final size:39
Alignment explanation
Indices: 1110796--1110886 Score: 139
Period size: 39 Copynumber: 2.3 Consensus size: 39
1110786 AATGGCCTAT
*
1110796 GGTAAGGACTTACCTTGTGCACAAAGCAAAGGAG-TCTAC
1 GGTAAGGACTTACCCTGTGCACAAAGCAAAGGAGCT-TAC
* *
1110835 GGTAAGGACTTACCCTGTGCACAAAGCAGAGGAGCTTGC
1 GGTAAGGACTTACCCTGTGCACAAAGCAAAGGAGCTTAC
1110874 GGTAAGGACTTAC
1 GGTAAGGACTTAC
1110887 AAGTCATAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
39 47 0.98
40 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.20
Consensus pattern (39 bp):
GGTAAGGACTTACCCTGTGCACAAAGCAAAGGAGCTTAC
Found at i:1111082 original size:24 final size:25
Alignment explanation
Indices: 1111036--1111084 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
1111026 AAATCATACA
1111036 TTTAAATCAAAAAAAATAGATTCAGT
1 TTTAAATCAAAAAAAATA-ATTCAGT
*
1111062 TTTAAATCAGAAAAAAT-ATTCAG
1 TTTAAATCAAAAAAAATAATTCAG
1111085 ATGGATATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
26 16 0.73
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (25 bp):
TTTAAATCAAAAAAAATAATTCAGT
Found at i:1111728 original size:21 final size:21
Alignment explanation
Indices: 1111704--1112013 Score: 198
Period size: 21 Copynumber: 14.9 Consensus size: 21
1111694 ACTTCGACTA
*
1111704 TCGCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
1111725 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
1111746 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
** **
1111767 TCGCGTTGCGAATA-TGGAAAC
1 TCGCGTTGCG-ATAGTCCAAGT
** **
1111788 T-GATTTGCGATAGTTGAAGT
1 TCGCGTTGCGATAGTCCAAGT
* * *
1111808 TCGCGTTGCGATTTATTACAAAT
1 TCGCGTTGCGA--TAGTCCAAGT
*
1111831 T--CGTTGCGATAGTCTAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
1111850 T--CGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
* * *
1111869 TCGCATTGCGATTTATTCCAAAT
1 TCGCGTTGCGA--TAGTCCAAGT
* *
1111892 T--CATTGCGATAGTCAAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
1111911 TCGCGTTGCGATTTATTCCAAGT
1 TCGCGTTGCGA--TAGTCCAAGT
*
1111934 T--CGTTGCGATTTATTCCAAGT
1 TCGCGTTGCGA--TAGTCCAAGT
*
1111955 T--CGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
1111974 TCGCGTTGCGATTTATTCCAAGT
1 TCGCGTTGCGA--TAGTCCAAGT
1111997 T--CGTTGCGATAGTCCAA
1 TCGCGTTGCGATAGTCCAA
1112014 AATCGCAACG
Statistics
Matches: 236, Mismatches: 36, Indels: 36
0.77 0.12 0.12
Matches are distributed among these distances:
19 52 0.22
20 11 0.05
21 137 0.58
22 3 0.01
23 33 0.14
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGT
Found at i:1111879 original size:61 final size:61
Alignment explanation
Indices: 1111709--1111985 Score: 251
Period size: 61 Copynumber: 4.4 Consensus size: 61
1111699 GACTATCGCA
* * * *
1111709 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGA--TAGTCGAAGTTCGCG
1 TTGCGATAGTCAAAGTTC-CGTTGCGATAGTCGAAGTTCGC-TTGCGATTTATTCCAAATT--CG
* * *** * *
1111772 TTGCGAATA-TGGAAA-CTGATTTGCGATAGTTGAAGTTCGCGTTGCGATTTATTACAAATTCG
1 TTGCG-ATAGT-CAAAGTTCCGTTGCGATAGTCGAAGTTCGC-TTGCGATTTATTCCAAATTCG
* *
1111834 TTGCGATAGTCTAAGTT-CGTTGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCA
1 TTGCGATAGTCAAAGTTCCGTTGCGATAGTCGAAGTTCGC-TTGCGATTTATTCCAAATTCG
* * *
1111895 TTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAGTTCG-TTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCAAAGTTC-CGTTGCGA--TAGTCGAAGTTCGCTTGCGATTTATTCCAAATTCG
*
1111958 TTGCGATAGTCGAAGTTCGCGTTGCGAT
1 TTGCGATAGTCAAAGTTC-CGTTGCGAT
1111986 TTATTCCAAG
Statistics
Matches: 178, Mismatches: 26, Indels: 22
0.79 0.12 0.10
Matches are distributed among these distances:
61 60 0.34
62 35 0.20
63 60 0.34
64 12 0.07
65 11 0.06
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (61 bp):
TTGCGATAGTCAAAGTTCCGTTGCGATAGTCGAAGTTCGCTTGCGATTTATTCCAAATTCG
Found at i:1111950 original size:63 final size:63
Alignment explanation
Indices: 1111811--1112006 Score: 283
Period size: 63 Copynumber: 3.1 Consensus size: 63
1111801 TTGAAGTTCG
* * * *
1111811 CGTTGCGATTTATTACAAATTCGTTGCGATAGTCTAAGTT--CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAGTT
*
1111870 CGCATTGCGATTTATTCCAAATTCATTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CG--TTGCGATTTATTCCAAATTCGTTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAGTT
* *
1111935 CGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAGTT
1111998 CGTTGCGAT
1 CGTTGCGAT
1112007 AGTCCAAAAT
Statistics
Matches: 123, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
59 2 0.02
61 35 0.28
63 75 0.61
65 11 0.09
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (63 bp):
CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAGTT
Found at i:1112114 original size:6 final size:6
Alignment explanation
Indices: 1112103--1112144 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
1112093 GACACGTTTT
1112103 ACCACG ACCACG ACCACG ACCACG A-CACG A-CACG A-CACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1112145 CGAGACGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 15 0.43
6 20 0.57
ACGTcount: A:0.36, C:0.48, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1112133 original size:5 final size:5
Alignment explanation
Indices: 1112105--1112162 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
1112095 CACGTTTTAC
* *
1112105 CACGA CCACGA CCACGA CCACGA CACGA CACGA CACGA CCCGA GACGA
1 CACGA -CACGA -CACGA -CACGA CACGA CACGA CACGA CACGA CACGA
* *
1112153 GACGA GACGA
1 CACGA CACGA
1112163 GACGGACGGC
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
5 32 0.65
6 17 0.35
ACGTcount: A:0.36, C:0.40, G:0.24, T:0.00
Consensus pattern (5 bp):
CACGA
Found at i:1112792 original size:5 final size:5
Alignment explanation
Indices: 1112778--1112810 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
1112768 CCGCCGCCTC
1112778 CGTC- CGTCT CGTCT CGTCT CGTCT CGTGCT CGT
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGT-CT CGT
1112811 GGTCGTGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.00, C:0.39, G:0.24, T:0.36
Consensus pattern (5 bp):
CGTCT
Done.