Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001497.1 Hibiscus syriacus cultivar Beakdansim tig00002919_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: 1780709
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:830 original size:20 final size:21
Alignment explanation
Indices: 805--897 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
795 TTTTCCCAAT
*
805 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
825 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
846 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
866 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
887 TCGCAATGCGA
1 TCGCAATGCGA
898 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:850 original size:41 final size:41
Alignment explanation
Indices: 805--897 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
795 TTTTCCCAAT
805 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
846 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
887 TCGCAATGCGA
1 TCGCAATGCGA
898 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:910 original size:41 final size:41
Alignment explanation
Indices: 824--958 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
814 GAATAAGTAA
* *
824 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
865 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
906 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
947 TTCGCAACGCGA
1 ATCGCAACGCGA
959 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:911 original size:20 final size:20
Alignment explanation
Indices: 886--999 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 20
876 AATTGGGAAA
*
886 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
906 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
927 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
947 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
967 TTCGCAACGCGATAAT-ACT
1 ATCGCAACGCGATACTGACT
*
986 AATCGCAATGCGAT
1 -ATCGCAACGCGAT
1000 TTCAAAGCGC
Statistics
Matches: 76, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
19 3 0.04
20 59 0.78
21 14 0.18
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1183 original size:21 final size:20
Alignment explanation
Indices: 1157--1198 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1147 CTCACTCTCA
1157 CCCCATCTCCGAGAAATCCGT
1 CCCCATC-CCGAGAAATCCGT
* *
1178 CCCCATCCGGCGAAATCCGT
1 CCCCATCCCGAGAAATCCGT
1198 C
1 C
1199 TATCTAATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.21, C:0.45, G:0.17, T:0.17
Consensus pattern (20 bp):
CCCCATCCCGAGAAATCCGT
Found at i:1425 original size:19 final size:19
Alignment explanation
Indices: 1401--1451 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
1391 ATCAACCAAG
1401 AATCGCAACGCGAAATGCA
1 AATCGCAACGCGAAATGCA
1420 AATCGCAACGCGAAATGCA
1 AATCGCAACGCGAAATGCA
1439 AATCGCAACGCGA
1 AATCGCAACGCGA
1452 TTTTAGTTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.41, C:0.27, G:0.22, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGCA
Found at i:1502 original size:20 final size:20
Alignment explanation
Indices: 1477--1514 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1467 TGCGATTCTC
1477 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
1497 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
1515 AGAAACTATT
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:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:3253 original size:18 final size:18
Alignment explanation
Indices: 3230--3268 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
3220 CTGCCAATCT
*
3230 GTTTGTTTTTGTTTTTTG
1 GTTTGTTTTTGTCTTTTG
3248 GTTTGTTTTTGTCTTTTG
1 GTTTGTTTTTGTCTTTTG
3266 GTT
1 GTT
3269 GAAGTAATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.03, G:0.23, T:0.74
Consensus pattern (18 bp):
GTTTGTTTTTGTCTTTTG
Found at i:3357 original size:20 final size:19
Alignment explanation
Indices: 3323--3387 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
3313 AGTTTACTTT
3323 TCGCAACACGAAATGACTA
1 TCGCAACACGAAATGACTA
* *
3342 TCGCAACGCGGAAATGGCTA
1 TCGCAACAC-GAAATGACTA
* **
3362 TCGCAATACGAAATGAAAA
1 TCGCAACACGAAATGACTA
3381 TCGCAAC
1 TCGCAAC
3388 GACAAAATCG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
19 21 0.57
20 16 0.43
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (19 bp):
TCGCAACACGAAATGACTA
Found at i:3396 original size:14 final size:14
Alignment explanation
Indices: 3377--3434 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
3367 ATACGAAATG
3377 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
3391 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
3407 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
3423 AAAATCGCAACG
1 AAAATCGCAACG
3435 CGAAATGAAA
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:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:3419 original size:32 final size:33
Alignment explanation
Indices: 3361--3451 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
3351 GGAAATGGCT
*
3361 ATCGCAATACGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
3394 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
3426 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
3452 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:3445 original size:19 final size:19
Alignment explanation
Indices: 3323--3456 Score: 74
Period size: 19 Copynumber: 7.6 Consensus size: 19
3313 AGTTTACTTT
* **
3323 TCGCAACACGAAATGACTA
1 TCGCAACGCGAAATGAAAA
***
3342 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
**
3362 TCGCAATACGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
3381 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
*
3395 TCGCAATGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
3413 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
3427 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
3446 TCGCAATGCGA
1 TCGCAACGCGA
3457 TTTGTGTTTC
Statistics
Matches: 91, Mismatches: 12, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 35 0.38
20 16 0.18
ACGTcount: A:0.43, C:0.23, G:0.20, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:3512 original size:32 final size:33
Alignment explanation
Indices: 3463--3540 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
3453 GCGATTTGTG
* *
3463 TTTCCCGTTGCGA-TTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTACGATTTTCA
3494 TTTCGCGTTGCGATTTTGTCGTTACGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTACGATTTTCA
*
3527 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
3541 AGCCATTTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
31 12 0.29
32 12 0.29
33 18 0.43
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.46
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTACGATTTTCA
Found at i:3559 original size:20 final size:19
Alignment explanation
Indices: 3525--3579 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
3515 TTACGATTTT
*
3525 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
3544 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
3564 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
3580 TTAAGTTTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:5665 original size:20 final size:20
Alignment explanation
Indices: 5611--5665 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
5601 GCGATTTTCA
* *
5611 TTCGCATTGCGATAACCATT
1 TTCGCGTTGCGATAGCCATT
5631 TTCGCGTTGCGATAGCCATT
1 TTCGCGTTGCGATAGCCATT
5651 TTCGCGTTGCGATAG
1 TTCGCGTTGCGATAG
5666 TCAATGAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (20 bp):
TTCGCGTTGCGATAGCCATT
Found at i:6745 original size:22 final size:23
Alignment explanation
Indices: 6709--6752 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
6699 AATTTGATCT
*
6709 TGGTCAATACCCGGACTTTGATA
1 TGGTCAATACACGGACTTTGATA
*
6732 TGGTC-ATACACGGATTTTGAT
1 TGGTCAATACACGGACTTTGAT
6753 GATGTTTCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (23 bp):
TGGTCAATACACGGACTTTGATA
Found at i:6942 original size:12 final size:12
Alignment explanation
Indices: 6925--6949 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6915 ATATAATCCT
6925 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6937 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6949 G
1 G
6950 TCCCGAAGAA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:9199 original size:19 final size:19
Alignment explanation
Indices: 9177--9307 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
9167 GGAAATTACT
9177 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
9196 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
9210 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
9229 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
9243 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
9262 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
9276 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
9295 ATCGCAACGCGAA
1 ATCGCAATGCGAA
9308 TTTAATTTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 27 0.32
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.46
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:9219 original size:33 final size:33
Alignment explanation
Indices: 9177--9303 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
9167 GGAAATTACT
9177 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
9210 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
9242 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
9276 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
9304 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:9260 original size:66 final size:66
Alignment explanation
Indices: 9178--9310 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
9168 GAAATTACTA
*
9178 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
9243 T
66 T
*
9244 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
9309 T
66 T
9310 T
1 T
9311 AATTTCGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:9377 original size:19 final size:17
Alignment explanation
Indices: 9307--9378 Score: 60
Period size: 19 Copynumber: 4.1 Consensus size: 17
9297 CGCAACGCGA
*
9307 ATTTAATTTCGCGTTGCG
1 ATTTCATTTCGC-TTGCG
9325 ATTTCATTTTCGCTTTGCG
1 ATTTCA-TTTCGC-TTGCG
*
9344 A-TTC-TCTCG-TTGCG
1 ATTTCATTTCGCTTGCG
9358 ATTTTCATTTCGCATTGCG
1 A-TTTCATTTCGC-TTGCG
9377 AT
1 AT
9379 AGTACTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
14 6 0.14
16 7 0.16
17 4 0.09
18 9 0.20
19 18 0.41
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (17 bp):
ATTTCATTTCGCTTGCG
Found at i:10970 original size:42 final size:41
Alignment explanation
Indices: 10891--10971 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
10881 CGATGACAGT
* * *
10891 GGCCTCTTGAACGGTGGGAGGGACTCTCGAGGAATGATAAG
1 GGCCTCTTCAACGATAGGAGGGACTCTCGAGGAATGATAAG
* *
10932 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATA
1 GGCCTCTTCAACGATAGGAG-GGACTCTCGAGGAATGATA
10972 GGCGAGTCGG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
41 17 0.50
42 17 0.50
ACGTcount: A:0.25, C:0.17, G:0.36, T:0.22
Consensus pattern (41 bp):
GGCCTCTTCAACGATAGGAGGGACTCTCGAGGAATGATAAG
Found at i:13040 original size:33 final size:33
Alignment explanation
Indices: 12971--13063 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 33
12961 AGATAATGAG
* * *
12971 AATCGCAACGCGAAA-AACTATCGCAACGAGAG
1 AATCGCAACGCGAAATGACTATCGCAACCAGAC
*
13003 AATCGCAACGCGAAATGACTATCGCGACCAGAC
1 AATCGCAACGCGAAATGACTATCGCAACCAGAC
**
13036 AATCGCAACGCGAAATGAAAATCGCAAC
1 AATCGCAACGCGAAATGACTATCGCAAC
13064 GCGAAATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 15 0.28
33 38 0.72
ACGTcount: A:0.42, C:0.27, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGACTATCGCAACCAGAC
Found at i:13058 original size:19 final size:19
Alignment explanation
Indices: 13036--13124 Score: 160
Period size: 19 Copynumber: 4.7 Consensus size: 19
13026 GCGACCAGAC
13036 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
13055 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
13074 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
13093 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
13112 AATCGCAATGCGA
1 AATCGCAACGCGA
13125 TTTTGGTTTC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:13153 original size:19 final size:19
Alignment explanation
Indices: 13120--13200 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
13110 AAAATCGCAA
**
13120 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
13139 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
13158 TGCGA---TTA--TCTCGT
1 TGCGATTTTTATTTCGCGT
**
13172 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
13192 TGCGATTTT
1 TGCGATTTT
13201 CATTCTCGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
14 10 0.20
16 3 0.06
17 3 0.06
19 23 0.46
20 11 0.22
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.47
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:13799 original size:20 final size:20
Alignment explanation
Indices: 13714--13807 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
13704 CGCTATGTAA
* *
13714 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTTAGT
* *
13734 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTTAGT
* * ** *
13754 ATCTCGTTACGATTTTTTATT
1 ATCGCGTTGCGA-TAGTTAGT
*
13775 ATCGCATTGCGATAGTTAGT
1 ATCGCGTTGCGATAGTTAGT
*
13795 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
13808 TTTCCCAATT
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
20 47 0.80
21 12 0.20
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTTAGT
Found at i:13808 original size:41 final size:41
Alignment explanation
Indices: 13733--13810 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
13723 CGAAAGTCAG
* * *
13733 TATCGCGTTGCGAAAGTAAGTATCTCGTTACGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTACGATTTTTTAT
* * *
13774 TATCGCATTGCGATAGTTAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTACGATTTT
13811 CCCAATTCGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTACGATTTTTTAT
Found at i:21229 original size:19 final size:19
Alignment explanation
Indices: 21181--21232 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
21171 CGCATTAATC
21181 AATTATAATATTTGTGTAT
1 AATTATAATATTTGTGTAT
*
21200 -ATATATCATATTTGTGTATT
1 AAT-TATAATATTTGTGTA-T
21220 AATTATATATATT
1 AATTATA-ATATT
21233 ATGTCATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 2 0.07
19 14 0.52
20 4 0.15
21 7 0.26
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.54
Consensus pattern (19 bp):
AATTATAATATTTGTGTAT
Found at i:29870 original size:67 final size:67
Alignment explanation
Indices: 29798--29931 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
29788 TTGAAAAGTT
29798 TAGCACAAACTGTTTCTTTTATTCTATCTATAACCATCATTTCAGTACTATTGCCTATCGAATGC
1 TAGCACAAACTGTTTCTTTTATTCTATCTATAACCATCATTTCAGTACTATTGCCTATCGAATGC
29863 AC
66 AC
29865 TAGCACAAACTGTTTCTTTTATTCTATCTATAACCATCATTTCAGTACTATTGCCTATCGAATGC
1 TAGCACAAACTGTTTCTTTTATTCTATCTATAACCATCATTTCAGTACTATTGCCTATCGAATGC
29930 AC
66 AC
29932 CTCCTAAATA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (67 bp):
TAGCACAAACTGTTTCTTTTATTCTATCTATAACCATCATTTCAGTACTATTGCCTATCGAATGC
AC
Found at i:30156 original size:65 final size:65
Alignment explanation
Indices: 30052--30181 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
30042 TTTAGTTGTA
* *
30052 GCCTGTAGAATTTTGAAATAGAATGCTTTCTCATATCTGTATTCATCGACATTATGGGTATATAT
1 GCCTGTAGAATTTTGAAATAGAATGCTTTCTCATATCTGTATTCATCAACACTATGGGTATATAT
30117 GCCTGTAGAATTTTGAAATAGAATGCTTTCTCATATCTGTATTCATCAACACTATGGGTATATAT
1 GCCTGTAGAATTTTGAAATAGAATGCTTTCTCATATCTGTATTCATCAACACTATGGGTATATAT
30182 ACAAGTATAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (65 bp):
GCCTGTAGAATTTTGAAATAGAATGCTTTCTCATATCTGTATTCATCAACACTATGGGTATATAT
Found at i:34116 original size:17 final size:17
Alignment explanation
Indices: 34094--34126 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34084 CATTTTGTTT
*
34094 TAAAATTTTAATTAATG
1 TAAAATTGTAATTAATG
34111 TAAAATTGTAATTAAT
1 TAAAATTGTAATTAAT
34127 ATATTCATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (17 bp):
TAAAATTGTAATTAATG
Found at i:35242 original size:6 final size:6
Alignment explanation
Indices: 35228--35277 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
35218 AGATTAATCG
* * *
35228 AGAAGA AGAACA AGAACG AGAAGA AGAACA AGAACA AG-ACGA AGAACA
1 AGAACA AGAACA AGAACA AGAACA AGAACA AGAACA AGAAC-A AGAACA
35276 AG
1 AG
35278 TTAGGCGCAC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
5 2 0.05
6 33 0.89
7 2 0.05
ACGTcount: A:0.62, C:0.12, G:0.26, T:0.00
Consensus pattern (6 bp):
AGAACA
Found at i:35249 original size:18 final size:18
Alignment explanation
Indices: 35226--35277 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
35216 TGAGATTAAT
35226 CGAGAAGAAGAACAAGAA
1 CGAGAAGAAGAACAAGAA
35244 CGAGAAGAAGAACAAGAA
1 CGAGAAGAAGAACAAGAA
* *
35262 CAAGACGAAGAACAAG
1 CGAGAAGAAGAACAAG
35278 TTAGGCGCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.60, C:0.13, G:0.27, T:0.00
Consensus pattern (18 bp):
CGAGAAGAAGAACAAGAA
Found at i:42313 original size:3 final size:3
Alignment explanation
Indices: 42305--42330 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
42295 ATATTAGATA
42305 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
42331 GCCAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:42367 original size:8 final size:8
Alignment explanation
Indices: 42354--42395 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
42344 AAATAATAGT
42354 AATAAAAA
1 AATAAAAA
42362 AATAAAAA
1 AATAAAAA
**
42370 AGGAAAAA
1 AATAAAAA
42378 AATAAAAAA
1 AAT-AAAAA
42387 AATAAAAA
1 AATAAAAA
42395 A
1 A
42396 GGTAAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 21 0.72
9 8 0.28
ACGTcount: A:0.86, C:0.00, G:0.05, T:0.10
Consensus pattern (8 bp):
AATAAAAA
Found at i:42385 original size:25 final size:26
Alignment explanation
Indices: 42357--42408 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
42347 TAATAGTAAT
42357 AAAAAAATAAAAAAGG-AAAAAAATA
1 AAAAAAATAAAAAAGGTAAAAAAATA
*
42382 AAAAAAATAAAAAAGGTAAATAAATA
1 AAAAAAATAAAAAAGGTAAAAAAATA
42408 A
1 A
42409 GAAATGGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.12
Consensus pattern (26 bp):
AAAAAAATAAAAAAGGTAAAAAAATA
Found at i:42481 original size:22 final size:22
Alignment explanation
Indices: 42431--42489 Score: 52
Period size: 22 Copynumber: 2.7 Consensus size: 22
42421 GTTTTTAAGT
*
42431 AATAAAATAATAAT-ATGAAGA
1 AATAAAAAAATAATAATGAAGA
*
42452 AAGGAAAAAAATAATAATGATA-A
1 AA-TAAAAAAATAATAATGA-AGA
*
42475 AATAAAACAA-AATAA
1 AATAAAAAAATAATAA
42490 AATTAGAGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 7 0.23
22 16 0.52
23 7 0.23
24 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.19
Consensus pattern (22 bp):
AATAAAAAAATAATAATGAAGA
Found at i:43754 original size:38 final size:37
Alignment explanation
Indices: 43710--44014 Score: 203
Period size: 36 Copynumber: 8.5 Consensus size: 37
43700 AATATAATAT
*
43710 AAACTATATAATATATATATTTTAAAAATATTTTTTTA
1 AAACTATATAATATATATATTTTAAAAA-ATTTTTTCA
* *
43748 AAACTATAT-AT-TATAT-TCTTAAAAAA--TTTACA
1 AAACTATATAATATATATATTTTAAAAAATTTTTTCA
* **
43780 AAACTATAT-AT-TATATAGTTTTCAAAAATAATTT-A
1 AAACTATATAATATATATA-TTTTAAAAAATTTTTTCA
* * * *
43815 AAA--ATATTATATA-AGATTTCAAAAAATATTTTCA
1 AAACTATATAATATATATATTTTAAAAAATTTTTTCA
* ** *
43849 AAACTATATACTATATATATTTTTTCAAAATGATTTT-A
1 AAACTATATAATATATATA-TTTTAAAAAAT-TTTTTCA
* * *
43887 AAACTATAT-AT-TATATATTTTCAAAAGTATTTTCAA
1 AAACTATATAATATATATATTTTAAAAAATTTTTTC-A
* * * *
43923 AAACTATACATTATATATGTTTT-CAAAA-TTTTTCAA
1 AAACTATATAATATATATATTTTAAAAAATTTTTTC-A
* ** * *
43959 AAATTATATAATATATATATTTT-CGAAATGTTTTCG
1 AAACTATATAATATATATATTTTAAAAAATTTTTTCA
43995 AAACTATATAATATATATAT
1 AAACTATATAATATATATAT
44015 ATATATATAT
Statistics
Matches: 215, Mismatches: 35, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
32 20 0.09
33 17 0.08
34 22 0.10
35 22 0.10
36 79 0.37
37 14 0.07
38 36 0.17
39 5 0.02
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (37 bp):
AAACTATATAATATATATATTTTAAAAAATTTTTTCA
Found at i:43938 original size:72 final size:69
Alignment explanation
Indices: 43710--44012 Score: 269
Period size: 72 Copynumber: 4.3 Consensus size: 69
43700 AATATAATAT
* * * * *
43710 AAACTATATAATATATATATTTTAAAAATATTTTTTTAAAACTATATATTATAT-TCTT-AAAAA
1 AAACTATATATTATATATGTTTTCAAAATA---TTTTAAAACTATATATTATATATTTTCAAAAT
*
43773 ATTTACA
63 ATTTTCA
* * *
43780 AAACTATATATTATATA-GTTTTCAAAAATAATTTAAAAATAT-TA-TATA-AGATTTCAAAAAA
1 AAACTATATATTATATATGTTTTC-AAAATATTTTAAAACTATATATTATATA-TTTTC--AAAA
43841 TATTTTCA
62 TATTTTCA
*
43849 AAACTATATACTATATATATTTTTTCAAAATGATTTTAAAACTATATATTATATATTTTCAAAAG
1 AAACTATATA-T-TATATATGTTTTCAAAAT-ATTTTAAAACTATATATTATATATTTTCAAAA-
43914 TATTTTCAA
62 TATTTTC-A
* * *
43923 AAACTATACATTATATATGTTTTCAAAAT-TTTTCAAAAATTATATAATATATATATTTTCGAAA
1 AAACTATATATTATATATGTTTTCAAAATATTTT--AAAACTATAT-AT-TATATATTTTCAAAA
* *
43987 TGTTTTCG
62 TATTTTCA
*
43995 AAACTATATAATATATAT
1 AAACTATATATTATATAT
44013 ATATATATAT
Statistics
Matches: 193, Mismatches: 21, Indels: 36
0.77 0.08 0.14
Matches are distributed among these distances:
65 4 0.02
66 4 0.02
67 10 0.05
69 24 0.12
70 27 0.14
71 11 0.06
72 62 0.32
73 18 0.09
74 32 0.17
75 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (69 bp):
AAACTATATATTATATATGTTTTCAAAATATTTTAAAACTATATATTATATATTTTCAAAATATT
TTCA
Found at i:44010 original size:2 final size:2
Alignment explanation
Indices: 43999--44028 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
43989 TTTTCGAAAC
43999 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44029 TAAAAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:44015 original size:38 final size:37
Alignment explanation
Indices: 43710--44016 Score: 233
Period size: 38 Copynumber: 8.6 Consensus size: 37
43700 AATATAATAT
* *
43710 AAACTATATA-ATATATATATTTTAAAAATATTTTTTTA
1 AAACTATATATATATATATATTTTCAAAATA--TTTTCA
* * *
43748 AAAC--TATATAT-TATAT-TCTT-AAAAAATTTACA
1 AAACTATATATATATATATATTTTCAAAATATTTTCA
* *
43780 AAACTATATAT-TATATA-GTTTTCAAAAATAATTT-A
1 AAACTATATATATATATATATTTTC-AAAATATTTTCA
*
43815 AAA--ATAT-TATATA-AGA-TTTCAAAAAATATTTTCA
1 AAACTATATATATATATATATTTTC--AAAATATTTTCA
*
43849 AAACTATATACTATATATATTTTTTCAAAATGATTTT-A
1 AAACTATATA-TATATATATATTTTCAAAAT-ATTTTCA
43887 AAAC--TATATAT-TATATATTTTCAAAAGTATTTTCAA
1 AAACTATATATATATATATATTTTCAAAA-TATTTTC-A
* *
43923 AAACTATACAT-TATATATGTTTTCAAAAT-TTTTCA
1 AAACTATATATATATATATATTTTCAAAATATTTTCA
* * * *
43958 AAAAT-TATATAATATATATATTTTCGAAATGTTTTCG
1 AAACTATATAT-ATATATATATTTTCAAAATATTTTCA
43995 AAACTATATAATATATATATAT
1 AAACTATAT-ATATATATATAT
44017 ATATATATAT
Statistics
Matches: 219, Mismatches: 21, Indels: 58
0.73 0.07 0.19
Matches are distributed among these distances:
32 14 0.06
33 19 0.09
34 44 0.20
35 16 0.07
36 50 0.23
37 13 0.06
38 51 0.23
39 8 0.04
40 4 0.02
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (37 bp):
AAACTATATATATATATATATTTTCAAAATATTTTCA
Found at i:44518 original size:84 final size:82
Alignment explanation
Indices: 44441--45384 Score: 877
Period size: 84 Copynumber: 11.3 Consensus size: 82
44431 CAGATAGCTT
* * *
44441 TTCTCGGCTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC
1 TTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
*
44506 TTTTGGTCACAGATAACCC
66 -TTTGGT-GCAGATAACCC
* * * * * * * * * * * **
44525 TTATAGCCTTGAGTTATGTTGTAAATAATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGT
1 TTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT
**
44590 CTTTGGT--AGATAGTCC
65 CTTTGGTGCAGATAACCC
*
44606 TTCTCGACTTAAGCTATACTGCAAATTTCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACT
1 TTCTCGACTTAAG-T-TA-TGC----TGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACT
* * * *
44670 CAAAGGTCTTTTGTTGGCAGACAACCT
58 CGAAGGTC-TTTGGT-GCAGATAACCC
* * * *
44697 TTCTAGACTTAAGTTGTGCTGCAAATGATATGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGT
1 TTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGT
*
44761 CTTTTGTTGTCAGATAACCC
65 C-TTTGGTG-CAGATAACCC
*
44781 TTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
1 TTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
44846 TTTGGTGACAGATAACCC
66 TTTGGTG-CAGATAACCC
* * * * * * * * * **
44864 TTCT-AACCTTGAGTTATGCTGTAGATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGG
1 TTCTCGA-CTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGG
*
44928 TCTTT-G-GCAGATAGCCC
64 TCTTTGGTGCAGATAACCC
* *
44945 TTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTGGTCGAACTCGAAGGTC
1 TTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
45010 TTTGGTTGGCAGATAACCC
66 TTTGG-T-GCAGATAACCC
* * * * * * *
45029 TTTTCGATTTAAGTTATGTTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGT
1 TTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT
*
45094 CTTTTGTGACAGATAACCC
65 CTTTGGTG-CAGATAACCC
* * * * * * * * **
45113 TTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGT
1 TTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT
*
45178 CTTT-G-GCAGATAGCCC
65 CTTTGGTGCAGATAACCC
* * *
45194 TTCTCGACTTAAGCTATACTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGT
1 TTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGT
45258 CTTTGGTTGGCAGATAACCC
65 CTTTGG-T-GCAGATAACCC
* * * *
45278 TTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGT
1 TTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT
*
45343 CTTT-GT-CAGATAGCCC
65 CTTTGGTGCAGATAACCC
* ** *
45359 TTCTCGGCTTAAACTATGCTACAAAT
1 TTCTCGACTTAAGTTATGCTGCAAAT
45385 AGTTTGTTTA
Statistics
Matches: 710, Mismatches: 119, Indels: 65
0.79 0.13 0.07
Matches are distributed among these distances:
80 56 0.08
81 118 0.17
82 5 0.01
83 51 0.07
84 331 0.47
85 87 0.12
87 24 0.03
88 19 0.03
89 1 0.00
90 1 0.00
91 17 0.02
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (82 bp):
TTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
TTTGGTGCAGATAACCC
Found at i:45171 original size:249 final size:247
Alignment explanation
Indices: 44431--45362 Score: 1185
Period size: 249 Copynumber: 3.7 Consensus size: 247
44421 TCTTCGTTGA
** *
44431 CAGATAGCTTTTCTCGGCTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGA
** * * * * * * *
44495 ACTCAAAGGTCTTTTGG-TCACAGATAACCCTTATAGCCTTGAGTTATGTTGTAAATAATGTGCC
65 ACTCAAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
** * ** * * *
44559 CTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTG-GTAGATAGTCCTTCTCGACTTAAGCTAT
129 CTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTGCAGATAACCCTTCTAGCCTTGAG-T-T
* * * * * ***
44623 ACTGCAAATTTCAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGG
192 A-TGC---TGT-AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC---T-TTGG
* * * * * * *
44687 CAGACAACCTTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCGTTGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAA
* * *
44752 CTCAAAGGTCTTTTGTTGTCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCT
66 CTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCT
* * * * *
44816 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAACCTTGAGTTAT
131 CGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTG-CAGATAACCCTTCTAGCCTTGAGTTAT
* *
44881 GCTGTAGATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
194 GCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
*
44935 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTGGTCGA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGA
* * * *
44999 ACTCGAAGGTCTTTGGTTGGCAGATAACCCTTTTCGATTTAAGTTATGTTGCAAATGATGTGCCC
65 ACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCC
45064 TCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTGACAGATAACCCTTCTAGCCTTGAGTTA
130 TCGAAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTG-CAGATAACCCTTCTAGCCTTGAGTTA
45129 TGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
193 TGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
*
45184 CAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAA
45249 CTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCT
66 CTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCT
*
45314 CGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGT-CAGATAGCCCTTCT
131 CGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTGCAGATAACCCTTCT
45363 CGGCTTAAAC
Statistics
Matches: 595, Mismatches: 71, Indels: 30
0.85 0.10 0.04
Matches are distributed among these distances:
246 13 0.02
247 2 0.00
248 117 0.20
249 263 0.44
250 5 0.01
251 12 0.02
252 24 0.04
255 37 0.06
256 102 0.17
257 4 0.01
258 16 0.03
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (247 bp):
CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAA
CTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCT
CGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTGCAGATAACCCTTCTAGCCTTGAGTTATGC
TGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
Found at i:45363 original size:165 final size:167
Alignment explanation
Indices: 44391--45384 Score: 955
Period size: 165 Copynumber: 6.0 Consensus size: 167
44381 TTGATAGGTA
* * * * * ** *
44391 CTCG-AGCTGAATGTGATCAAACTCGAAAGGTC-TTCGTTGACAGATAGCTTTTCTCGGCTTAAG
1 CTCGAAGCTGAGTGTAATCGAACTC-AAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAG
* * *
44454 CTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGA
65 TTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGT-GCAGA
* * * * * * *
44519 TAACCCTTATAGCCTTGAGTTATGTTGTAAATAATGTGCC
128 TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
*** **
44559 CTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG-T---AGATAGTCCTTCTCGACTTAAGC
1 CTCGAAGCTGAGTGTAATCGAACTCAAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAG-
* * *
44620 TATACTGCAAATTTCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGT
65 T-TA-TGC----TGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGG
* * * * *
44684 TGGCAGACAACCTTTCTAGACTTAAGTTGTGCTGCAAATGATATGCC
122 T-GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
* * * * * *
44731 GTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGTCAGATAACCCTTCTCGACTTAAGT
1 CTCGAAGCTGAGTGTAATCGAACTCAAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGT
*
44795 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATA
66 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTG-CAGATA
* * * * *
44860 ACCCTTCT-AACCTTGAGTTATGCTGTAGATGATATGCC
130 ACCCTTCTCGA-CTTAAGTTATGCTGCAAATGATGTGCC
*** * *
44898 CTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT-G--G-CAGATAGCCCTTCTCGACTTAAGC
1 CTCGAAGCTGAGTGTAATCGAACTCAAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGT
*
44959 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTGGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
66 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-T-GCAGAT
* * *
45024 AACCCTTTTCGATTTAAGTTATGTTGCAAATGATGTGCC
129 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
* * * * *
45063 CTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTG-TGACAGATAACCCTTCTAGCCTTGAGT
1 CTCGAAGCTGAGTGTAATCGAACTCAAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGT
* * * * * **
45127 TATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT-G-GCAGATA
66 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATA
* * *
45190 GCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCC
130 ACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
* * * * *
45228 GTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
1 CTCGAAGCTGAGTGTAATCGAACTCAAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGT
* * * *
45292 TATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GT-CAGATA
66 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATA
* * ** *
45355 GCCCTTCTCGGCTTAAACTATGCTACAAAT
130 ACCCTTCTCGACTTAAGTTATGCTGCAAAT
45385 AGTTTGTTTA
Statistics
Matches: 695, Mismatches: 104, Indels: 57
0.81 0.12 0.07
Matches are distributed among these distances:
164 104 0.15
165 236 0.34
166 5 0.01
167 48 0.07
168 114 0.16
169 49 0.07
171 26 0.04
172 88 0.13
173 4 0.01
174 1 0.00
175 20 0.03
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (167 bp):
CTCGAAGCTGAGTGTAATCGAACTCAAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTAAGT
TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAA
CCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
Found at i:48450 original size:18 final size:19
Alignment explanation
Indices: 48410--48454 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
48400 AGTTAATGTG
48410 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
48429 AATGCAAAGAAAATAA-AA
1 AATGCAAAGAAAATAACAA
48447 AATGCAAA
1 AATGCAAA
48455 ATGTCTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.69, C:0.09, G:0.11, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:50129 original size:3 final size:3
Alignment explanation
Indices: 50121--50158 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
50111 ATATTAGATA
50121 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
50159 GCCAATATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:50197 original size:9 final size:9
Alignment explanation
Indices: 50118--50223 Score: 56
Period size: 9 Copynumber: 11.8 Consensus size: 9
50108 AAAATATTAG
50118 ATAAATAATA
1 ATAAA-AATA
*
50128 ATAATAATA
1 ATAAAAATA
*
50137 ATAATAATA
1 ATAAAAATA
*
50146 ATAATAATA
1 ATAAAAATA
*
50155 ATAAGCCAATA
1 ATAA--AAATA
* *
50166 TTTAAAA-A
1 ATAAAAATA
* *
50174 ATAATAGTA
1 ATAAAAATA
50183 AT-AAAATA
1 ATAAAAATA
50191 ATAAAAA-A
1 ATAAAAATA
** *
50199 GGAAAAAAA
1 ATAAAAATA
*
50208 ATAAAAAAA
1 ATAAAAATA
50217 ATAAAAA
1 ATAAAAA
50224 AGGTAAATAA
Statistics
Matches: 76, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
8 16 0.21
9 50 0.66
10 4 0.05
11 6 0.08
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (9 bp):
ATAAAAATA
Found at i:50214 original size:26 final size:26
Alignment explanation
Indices: 50185--50242 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
50175 TAATAGTAAT
50185 AAAATAATAAAAAAGGAAAAAAAATA
1 AAAATAATAAAAAAGGAAAAAAAATA
* * *
50211 AAAAAAATAAAAAAGGTAAATAAATA
1 AAAATAATAAAAAAGGAAAAAAAATA
50237 AGAAAT
1 A-AAAT
50243 GGTTAAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 24 0.89
27 3 0.11
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.14
Consensus pattern (26 bp):
AAAATAATAAAAAAGGAAAAAAAATA
Found at i:50222 original size:17 final size:18
Alignment explanation
Indices: 50182--50224 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
50172 AAATAATAGT
*
50182 AATAAAATAATAAAAAAG
1 AATAAAAAAATAAAAAAG
*
50200 GA-AAAAAAATAAAAAA-
1 AATAAAAAAATAAAAAAG
50216 AATAAAAAA
1 AATAAAAAA
50225 GGTAAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 19 0.90
18 1 0.05
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.12
Consensus pattern (18 bp):
AATAAAAAAATAAAAAAG
Found at i:51704 original size:100 final size:102
Alignment explanation
Indices: 51486--51795 Score: 383
Period size: 100 Copynumber: 3.0 Consensus size: 102
51476 TTGTCAACTT
** * *
51486 CAGACAATGCAAGTTCAACTTCACGACGAAAGGACCGCTGCTTGTCAACAACAACTTCCCAATCT
1 CAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA-TT-TCAAT-T
*
51551 CAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTC
63 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* *
51591 CAGACAACGCAAGTTCAATTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AATTTC-ATTCAG
1 CAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCAATTCAG
**
51654 ATTCAATTTCAACTTCACAACGAAGGATATTGGACTC
66 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* * * **
51691 GAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGTCTGGTTGTCAACAAACAATTTCCCGGT
1 CAGACAACACAAGTTCAACTTCACGACGAAGGGACCG-CTGCTTGTCAAC-AACAATTT--CAAT
* *
51755 TCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACT
62 T-CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
51796 TGGAACAATG
Statistics
Matches: 181, Mismatches: 17, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
99 2 0.01
100 79 0.44
101 4 0.02
102 6 0.03
103 2 0.01
104 3 0.02
105 50 0.28
106 35 0.19
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (102 bp):
CAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCAATTCAG
AGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
Found at i:52430 original size:37 final size:34
Alignment explanation
Indices: 52343--52441 Score: 128
Period size: 34 Copynumber: 2.8 Consensus size: 34
52333 TTCGTCCTAC
*
52343 TAGGATTCAAATTCCTAAAAATAGGATATAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATATAATTT
52377 TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 TAGGATTCAAACTCCTAAAAATAGGATATA-A-TTT
* *
52412 GCTATGATTCAAACTCCTAAAAATATGATA
1 --TAGGATTCAAACTCCTAAAAATAGGATA
52442 GAGTTCTACT
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
33 1 0.02
34 28 0.48
35 3 0.05
37 26 0.45
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.32
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATATAATTT
Found at i:52467 original size:37 final size:36
Alignment explanation
Indices: 52339--52477 Score: 140
Period size: 37 Copynumber: 3.9 Consensus size: 36
52329 ATTTTTCGTC
*
52339 CTACTAGGATTCAAATTCCTAAAAATAGGATATAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATA-AATT
52376 -T--TAGGATTCAAACTCCTAAAAATAGGATAACATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAA-ATT
* * * * *
52410 TTGCTATGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATA-AATT
* * * *
52447 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
52478 CCACAAGCAC
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
33 1 0.01
34 30 0.35
35 1 0.01
36 1 0.01
37 52 0.60
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (36 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAATT
Found at i:53125 original size:23 final size:20
Alignment explanation
Indices: 53070--53125 Score: 51
Period size: 23 Copynumber: 2.6 Consensus size: 20
53060 TCTTTATGTG
53070 TATT-TTATTTATTTATATA
1 TATTATTATTTATTTATATA
*
53089 TATTACCTTTTTTATTTTATATTTA
1 TATTA--TTATTTA-TTTATA--TA
53114 TATTATTATTTA
1 TATTATTATTTA
53126 CTATCATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
19 4 0.14
22 6 0.21
23 12 0.41
25 7 0.24
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTATTATTTATTTATATA
Found at i:53137 original size:76 final size:72
Alignment explanation
Indices: 53011--53159 Score: 162
Period size: 76 Copynumber: 2.0 Consensus size: 72
53001 TCTATTTACG
53011 TATATTACCTTTTATCATTATTATATATATTATATTTATTGCTTCATTTTCTTTATG-TGTATTT
1 TATATTACCTTTTATCATTATTATATATATTATATTTA-T-CTTCATTTTC--TATGCTGTA-TT
53075 TATTTATTTATA
61 TATTTATTTATA
* *
53087 TATATTACCTTTT-TTATT-TTATATTTATATTATTATTTA-CTATCATTTTTCTATGCTTTATT
1 TATATTACCTTTTATCATTATTATA--TATATTA-TATTTATCT-TCA-TTTTCTATGCTGTATT
53149 TATTTATTTAT
61 TATTTATTTAT
53160 TTTATTTCTT
Statistics
Matches: 65, Mismatches: 2, Indels: 14
0.80 0.02 0.17
Matches are distributed among these distances:
74 24 0.37
75 10 0.15
76 25 0.38
77 6 0.09
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.64
Consensus pattern (72 bp):
TATATTACCTTTTATCATTATTATATATATTATATTTATCTTCATTTTCTATGCTGTATTTATTT
ATTTATA
Found at i:53903 original size:32 final size:32
Alignment explanation
Indices: 53840--53984 Score: 100
Period size: 33 Copynumber: 4.3 Consensus size: 32
53830 AAATTATATA
* **
53840 ATATA-TATATATTAAAAATATTTTTTTAAAACT
1 ATATATTATATTTTAAAAATA--TTTACAAAACT
53873 ATATATTATATTCTTAAAAAT-TTTACAAAACT
1 ATATATTATATT-TTAAAAATATTTACAAAACT
53905 ATATATTATATAGTTTTCAAAAATAATTTA-AAAA-T
1 ATATA-T-TATA-TTTT-AAAAAT-ATTTACAAAACT
* * * * *
53940 ATTATATAAGATTTCAAAAAATGTTTTCAAAACT
1 A-TATATTATATTT-TAAAAATATTTACAAAACT
53974 ATATATTATAT
1 ATATATTATAT
53985 ATATTTTTTC
Statistics
Matches: 90, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
32 17 0.19
33 27 0.30
34 15 0.17
35 19 0.21
36 8 0.09
37 4 0.04
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (32 bp):
ATATATTATATTTTAAAAATATTTACAAAACT
Found at i:54102 original size:36 final size:36
Alignment explanation
Indices: 53834--54134 Score: 238
Period size: 36 Copynumber: 8.4 Consensus size: 36
53824 TAATATAAAT
* * *
53834 TATATAATATATATATATTAAAAATATTTTTTTAAAAC
1 TATATAATATATATATTTTCAAAATA--TTTTCAAAAC
*
53872 TATAT-AT-TATAT-TCTT-AAAA-ATTTTACAAAAC
1 TATATAATATATATATTTTCAAAATATTTT-CAAAAC
*
53904 TATAT-AT-TATATAGTTTTCAAAAATAATTT-AAAA-
1 TATATAATATATATA-TTTTC-AAAATATTTTCAAAAC
* * *
53938 -ATATTATATA-AGA-TTTCAAAAAATGTTTTCAAAAC
1 TATATAATATATATATTTTC--AAAATATTTTCAAAAC
*
53973 TATATATTATATATATTTTTTCAAAATGATTTT-AAAAC
1 TATATA--ATATATATATTTTCAAAAT-ATTTTCAAAAC
54011 TATAT-AT-TATATATTTTCAAAAGTATTTTCAAAAAC
1 TATATAATATATATATTTTCAAAA-TATTTTC-AAAAC
* * *
54047 TATACATTATATATGTTTTCAAAAT-TTTTCAAAAAC
1 TATATAATATATATATTTTCAAAATATTTTC-AAAAC
* * *
54083 TATATAATATATATATTTTCGAAATGTTTTCGAAAC
1 TATATAATATATATATTTTCAAAATATTTTCAAAAC
54119 TATATAATATATATAT
1 TATATAATATATATAT
54135 ATATATATTT
Statistics
Matches: 220, Mismatches: 20, Indels: 48
0.76 0.07 0.17
Matches are distributed among these distances:
31 4 0.02
32 21 0.10
33 14 0.06
34 34 0.15
35 12 0.05
36 74 0.34
37 13 0.06
38 39 0.18
39 5 0.02
40 4 0.02
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.45
Consensus pattern (36 bp):
TATATAATATATATATTTTCAAAATATTTTCAAAAC
Found at i:54198 original size:34 final size:34
Alignment explanation
Indices: 54132--54199 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
54122 ATAATATATA
* * **
54132 TATATATATATTTTTAAAAAATATTTTCAAAAAT
1 TATATATATATTATTAAAAAATATATAAAAAAAT
54166 TATAT-TATATTATTATAAAAATATATAAAAAAAT
1 TATATATATATTATTA-AAAAATATATAAAAAAAT
54200 AAATCCGGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 9 0.31
34 20 0.69
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (34 bp):
TATATATATATTATTAAAAAATATATAAAAAAAT
Found at i:60926 original size:18 final size:18
Alignment explanation
Indices: 60903--60938 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
60893 GAGATTTTTA
60903 ATATAAAATATTT-AAAAT
1 ATATAAAAT-TTTGAAAAT
60921 ATATAAAATTTTGAAAAT
1 ATATAAAATTTTGAAAAT
60939 TTTAAGGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
ATATAAAATTTTGAAAAT
Found at i:71294 original size:55 final size:55
Alignment explanation
Indices: 71206--71365 Score: 266
Period size: 55 Copynumber: 2.9 Consensus size: 55
71196 CTTGAGTTAT
* *
71206 TGATAGTTTGGTAAGAAGGAAAAGATCTGCCATTGTACCATAACTGCCATATTAG
1 TGATAGATTGGTAAGAAGGAAAAGATCTACCATTGTACCATAACTGCCATATTAG
*
71261 TGATAGATTGGTAAGAAGGAAAAGATCTACCATTGTACCATAACTGCCATATTAT
1 TGATAGATTGGTAAGAAGGAAAAGATCTACCATTGTACCATAACTGCCATATTAG
* * *
71316 TGATAGGTTGGTAAGAAGGGAAAGATCTACCATTGTACCATAACCGCCAT
1 TGATAGATTGGTAAGAAGGAAAAGATCTACCATTGTACCATAACTGCCAT
71366 TTCCCAATGA
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 99 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (55 bp):
TGATAGATTGGTAAGAAGGAAAAGATCTACCATTGTACCATAACTGCCATATTAG
Found at i:76185 original size:30 final size:30
Alignment explanation
Indices: 76149--76220 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
76139 TCCGAAGGAC
*
76149 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGCAA
76179 CTATCCAGAGGTCATAAAGATCCTCGGCAA
1 CTATCCAGAGGTCATAAAGATCCTCGGCAA
* *
76209 CTGTCCATAGGT
1 CTATCCAGAGGT
76221 TCCGAAGAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGCAA
Found at i:76248 original size:31 final size:31
Alignment explanation
Indices: 76210--76457 Score: 202
Period size: 31 Copynumber: 7.9 Consensus size: 31
76200 CCTCGGCAAC
* *
76210 TGTCCATAGGTTCCGAAGAACCTAGGTAAAT
1 TGTCCATATGTTCCGAAGAACATAGGTAAAT
** *
76241 TGTCCATATGTTCCTTAGAACATAGGTATAT
1 TGTCCATATGTTCCGAAGAACATAGGTAAAT
*
76272 TGTCCATATG-TCTCGAA-AGACATAGGTAATT
1 TGTCCATATGTTC-CGAAGA-ACATAGGTAAAT
** * *
76303 ATGTCCATATGTTCCTTAGAACATAGGTATAC
1 -TGTCCATATGTTCCGAAGAACATAGGTAAAT
*
76335 TGTCCATATG-TCTCGAA-AGACATAGGTAATT
1 TGTCCATATGTTC-CGAAGA-ACATAGGTAAAT
** * *
76366 CTGTCCATATGTTCCTTAGAACATAGGTATAC
1 -TGTCCATATGTTCCGAAGAACATAGGTAAAT
* *
76398 TGTCCATATG-TCTCGAA-AGACATATGTAATT
1 TGTCCATATGTTC-CGAAGA-ACATAGGTAAAT
* *
76429 CTGTCCATATGTTCCGTAGAATATAGGTA
1 -TGTCCATATGTTCCGAAGAACATAGGTA
76458 TACCCTCAAC
Statistics
Matches: 169, Mismatches: 33, Indels: 29
0.73 0.14 0.13
Matches are distributed among these distances:
30 9 0.05
31 89 0.53
32 62 0.37
33 9 0.05
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (31 bp):
TGTCCATATGTTCCGAAGAACATAGGTAAAT
Found at i:76313 original size:32 final size:31
Alignment explanation
Indices: 76260--76440 Score: 197
Period size: 32 Copynumber: 5.7 Consensus size: 31
76250 GTTCCTTAGA
*
76260 ACATAGGTATATTGTCCATATGTCTCGAAAG
1 ACATAGGTATACTGTCCATATGTCTCGAAAG
***
76291 ACATAGGTAATTA-TGTCCATATGT-TCCTTAG
1 ACATAGGT-A-TACTGTCCATATGTCTCGAAAG
76322 AACATAGGTATACTGTCCATATGTCTCGAAAG
1 -ACATAGGTATACTGTCCATATGTCTCGAAAG
* ***
76354 ACATAGGTAATTCTGTCCATATGT-TCCTTAG
1 ACATAGGT-ATACTGTCCATATGTCTCGAAAG
76385 AACATAGGTATACTGTCCATATGTCTCGAAAG
1 -ACATAGGTATACTGTCCATATGTCTCGAAAG
* *
76417 ACATATGTAATTCTGTCCATATGT
1 ACATAGGT-ATACTGTCCATATGT
76441 TCCGTAGAAT
Statistics
Matches: 125, Mismatches: 16, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
30 2 0.02
31 57 0.46
32 64 0.51
33 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (31 bp):
ACATAGGTATACTGTCCATATGTCTCGAAAG
Found at i:76318 original size:63 final size:63
Alignment explanation
Indices: 76232--76460 Score: 397
Period size: 63 Copynumber: 3.7 Consensus size: 63
76222 CCGAAGAACC
* *
76232 TAGGTAAAT-TGTCCATATGTTCCTTAGAACATAGGTATATTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
*
76294 TAGGTAATTATGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
76357 TAGGTAATTCTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
* * *
76420 TATGTAATTCTGTCCATATGTTCCGTAGAATATAGGTATAC
1 TAGGTAATTCTGTCCATATGTTCCTTAGAACATAGGTATAC
76461 CCTCAACTCT
Statistics
Matches: 160, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
62 8 0.05
63 152 0.95
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (63 bp):
TAGGTAATTCTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
Found at i:76402 original size:94 final size:95
Alignment explanation
Indices: 76208--76459 Score: 232
Period size: 94 Copynumber: 2.7 Consensus size: 95
76198 ATCCTCGGCA
* * * **
76208 ACTGTCCATAGGTTCCGAAGAACCTAGGTAAATTGTCCATATGTTCCTTAGAACATAGGTATATT
1 ACTGTCCATATGTTCCGAAGAACATAGGTAAACTGTCCATATGTTCCAAAGAACATAGGTATATT
*
76273 GTCCATATGTCTCGAAAGACATAGGTAATT
66 GTCCATATGTCTCCAAAGACATAGGTAATT
** * *
76303 A-TGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAG-ACATAGGTA-AT
1 ACTGTCCATATGTTCCGAAGAACATAGGTAAACTGTCCATATGT-TCCAAAGAACATAGGTATA-
**
76365 TCTGTCCATATGT-TCCTTAGAACATAGGT-A-T
64 T-TGTCCATATGTCTCCAAAG-ACATAGGTAATT
* * ** *
76396 ACTGTCCATATG-TCTCGAA-AGACATATGTAATTCTGTCCATATGTTCCGTAGAATATAGGTAT
1 ACTGTCCATATGTTC-CGAAGA-ACATAGGTAA-ACTGTCCATATGTTCCAAAGAACATAGGTAT
76459 A
63 A
76460 CCCTCAACTC
Statistics
Matches: 126, Mismatches: 21, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
93 6 0.05
94 75 0.60
95 44 0.35
96 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (95 bp):
ACTGTCCATATGTTCCGAAGAACATAGGTAAACTGTCCATATGTTCCAAAGAACATAGGTATATT
GTCCATATGTCTCCAAAGACATAGGTAATT
Found at i:77765 original size:64 final size:64
Alignment explanation
Indices: 77613--77769 Score: 153
Period size: 64 Copynumber: 2.5 Consensus size: 64
77603 CAATAAGGGT
* * ** *
77613 ATGCATCGATGCACTA-CTGATGCATCGGTGCATAAAATACATTCGATGTTGTATTATTATTGGG
1 ATGCATCGATGCACTACCTG-TGCATCGATGCATAAAATACATTCGATGTTCTATTATTAAAGAG
* * * *
77677 ATGCATCGATGCA-TGCCTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATT-TTAAA-
1 ATGCATCGATGCACTACC-TGTGCATCGATGCA-TAAAATACATTCGATG-TTCTATTATTAAAG
77738 AG
63 AG
77740 AGTGCATCGATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCACTACCTGTGCATCGAT
77770 ACACCTTCAA
Statistics
Matches: 76, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
63 3 0.04
64 62 0.82
65 11 0.14
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACCTGTGCATCGATGCATAAAATACATTCGATGTTCTATTATTAAAGAG
Found at i:93168 original size:38 final size:37
Alignment explanation
Indices: 93113--93188 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 37
93103 AAATTTTACT
93113 TATCCAAAAAAAAGAGTTTGTTGACTTTTATTATGAA
1 TATCCAAAAAAAAGAGTTTGTTGACTTTTATTATGAA
93150 TATCCAAAAAAAAAGAGTTTGTTGACTTTTATTATGAA
1 TATCC-AAAAAAAAGAGTTTGTTGACTTTTATTATGAA
93188 T
1 T
93189 TTATTGCTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 5 0.13
38 33 0.87
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (37 bp):
TATCCAAAAAAAAGAGTTTGTTGACTTTTATTATGAA
Found at i:94180 original size:20 final size:21
Alignment explanation
Indices: 94143--94183 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
94133 CCATTAAAAT
* *
94143 TTTAAATTTTTTAGTTTATTC
1 TTTAAACTTTTGAGTTTATTC
94164 TTTAAACTTTTGA-TTTATTC
1 TTTAAACTTTTGAGTTTATTC
94184 CTAAGTTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.63
Consensus pattern (21 bp):
TTTAAACTTTTGAGTTTATTC
Found at i:100231 original size:15 final size:15
Alignment explanation
Indices: 100184--100241 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 15
100174 TAAACCACCC
100184 ATAAAATT-TTAAAA
1 ATAAAATTATTAAAA
*
100198 ACTAAATTATATAATTAAAG
1 A-TAAA--AT-T-ATTAAAA
100218 ATAAAATTATTAAAA
1 ATAAAATTATTAAAA
100233 ATAAAATTA
1 ATAAAATTA
100242 AATAAAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
14 1 0.03
15 19 0.53
16 1 0.03
17 4 0.11
18 1 0.03
19 4 0.11
20 6 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (15 bp):
ATAAAATTATTAAAA
Found at i:100753 original size:21 final size:20
Alignment explanation
Indices: 100669--100824 Score: 82
Period size: 21 Copynumber: 7.7 Consensus size: 20
100659 ATGACCAAAC
** *
100669 AAATCGCAACGCGA-AATAA
1 AAATCGCAACGCGATTTTCA
***
100688 AAATCGCAACGCGATCCCCA
1 AAATCGCAACGCGATTTTCA
* ** *
100708 GAATCGCAAATC-AGTTTCCA
1 AAATCGCAACGCGA-TTTTCA
*
100728 AAATCGCAACGCGATTCTTGA
1 AAATCGCAACGCGATT-TTCA
* * *
100749 AAATCGCAATGCGATAGTACA
1 AAATCGCAACGCGAT-TTTCA
* **
100770 AATTCGCATTGCGATTTTCCA
1 AAATCGCAACGCGATTTT-CA
* * *
100791 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGATTTTCA
100811 AAATCGCAACGCGA
1 AAATCGCAACGCGA
100825 ACACATAAAT
Statistics
Matches: 103, Mismatches: 28, Indels: 11
0.73 0.20 0.08
Matches are distributed among these distances:
19 15 0.15
20 41 0.40
21 47 0.46
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGATTTTCA
Found at i:100853 original size:20 final size:20
Alignment explanation
Indices: 100791--101060 Score: 269
Period size: 20 Copynumber: 13.5 Consensus size: 20
100781 CGATTTTCCA
* ** *
100791 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
100811 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
100831 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
100851 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
100871 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
100891 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
100911 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
100931 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
100951 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
100971 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
100991 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
101011 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
101031 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
101051 AAATCACAAC
1 AAATCGCAAC
101061 ACTGAAATTT
Statistics
Matches: 210, Mismatches: 32, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 206 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:101782 original size:24 final size:23
Alignment explanation
Indices: 101743--101788 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
101733 AAATTTGGTC
101743 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGA-TTTGATA
101767 TTGGTCAATA-CACGGATTTGAT
1 TTGGTCAATATC-CGGATTTGAT
101789 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (23 bp):
TTGGTCAATATCCGGATTTGATA
Found at i:104274 original size:19 final size:19
Alignment explanation
Indices: 104253--104376 Score: 168
Period size: 19 Copynumber: 6.7 Consensus size: 19
104243 TCCCAACATG
104253 AAATCGCAATGCGGAAATGA
1 AAATCGCAATGC-GAAATGA
104273 AAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGA
104292 AAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGA
104311 AAATCGCAATGCGAAATGA
1 AAATCGCAATGCGAAATGA
*
104330 AAATCGCAA--CG---GGA
1 AAATCGCAATGCGAAATGA
* *
104344 GAATCGCAATGCGAAATTA
1 AAATCGCAATGCGAAATGA
*
104363 AAATCGCATTGCGA
1 AAATCGCAATGCGA
104377 TTCTCCCGTT
Statistics
Matches: 93, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
14 10 0.11
16 2 0.02
17 2 0.02
19 67 0.72
20 12 0.13
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (19 bp):
AAATCGCAATGCGAAATGA
Found at i:104278 original size:51 final size:54
Alignment explanation
Indices: 104223--104338 Score: 159
Period size: 57 Copynumber: 2.1 Consensus size: 54
104213 GCAACGAGAG
104223 AATCGCAATGCGAAATG-AAATCCCAA-C-ATG-AAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAAGCAATGAAAATCGCAATGC-GAAATGAA
*
104274 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA-GC--AATGAAAATCGCAATGCGAAATGAA
104331 AATCGCAA
1 AATCGCAA
104339 CGGGAGAATC
Statistics
Matches: 57, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
51 17 0.30
52 8 0.14
54 1 0.02
57 19 0.33
58 12 0.21
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.16
Consensus pattern (54 bp):
AATCGCAATGCGAAATGAAAATCCCAAGCAATGAAAATCGCAATGCGAAATGAA
Found at i:104355 original size:52 final size:54
Alignment explanation
Indices: 104253--104376 Score: 162
Period size: 52 Copynumber: 2.3 Consensus size: 54
104243 TCCCAACATG
*
104253 AAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGA
1 AAATCGCAATGC-GAAATGAAAATCGCAA-GCG--AGGAAAATCGCAATGCGAAATGA
* *
104311 AAATCGCAATGCGAAATGAAAATCGCAA-CG-GGAGAATCGCAATGCGAAATTA
1 AAATCGCAATGCGAAATGAAAATCGCAAGCGAGGAAAATCGCAATGCGAAATGA
*
104363 AAATCGCATTGCGA
1 AAATCGCAATGCGA
104377 TTCTCCCGTT
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
52 32 0.52
55 2 0.03
57 16 0.26
58 12 0.19
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (54 bp):
AAATCGCAATGCGAAATGAAAATCGCAAGCGAGGAAAATCGCAATGCGAAATGA
Found at i:104425 original size:19 final size:19
Alignment explanation
Indices: 104385--104481 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
104375 GATTCTCCCG
104385 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
104405 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
104424 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
104438 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
104456 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
104475 TTGCGAT
1 TTGCGAT
104482 AGTCAATTTT
Statistics
Matches: 70, Mismatches: 2, Indels: 11
0.84 0.02 0.13
Matches are distributed among these distances:
14 6 0.09
15 3 0.04
16 8 0.11
17 3 0.04
18 6 0.09
19 29 0.41
20 15 0.21
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:104477 original size:51 final size:53
Alignment explanation
Indices: 104366--104481 Score: 209
Period size: 51 Copynumber: 2.2 Consensus size: 53
104356 GAAATTAAAA
104366 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
*
104419 TCGCATTGCGATTCTCTCGTTGCGA-TTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
104470 TCGCATTGCGAT
1 TCGCATTGCGAT
104482 AGTCAATTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
51 30 0.48
52 8 0.13
53 24 0.39
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:104607 original size:14 final size:14
Alignment explanation
Indices: 104588--104624 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
104578 CATCAATTAC
104588 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
104602 ACAAATCATCTTTT
1 ACAAATCAACTTTT
104616 ACAAATCAA
1 ACAAATCAA
104625 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:106078 original size:20 final size:21
Alignment explanation
Indices: 106019--106078 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
106009 GTGAATCGGG
106019 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAATGGTGGGAGGGAC
* * **
106040 CTCTTCAATGATGACAGGG-C
1 CTCTTGAATGGTGGGAGGGAC
*
106060 CTCTTGAACGGTGGGAGGG
1 CTCTTGAATGGTGGGAGGG
106079 GACTCTCGAG
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.20, C:0.18, G:0.38, T:0.23
Consensus pattern (21 bp):
CTCTTGAATGGTGGGAGGGAC
Found at i:106610 original size:14 final size:14
Alignment explanation
Indices: 106591--106647 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
106581 GCGAAATGAA
*
106591 AATCGCAACGACAG
1 AATCGCAACGAAAG
106605 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
106622 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
106638 AATCGCAACG
1 AATCGCAACG
106648 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:106618 original size:33 final size:33
Alignment explanation
Indices: 106572--106664 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
106562 GCGAAACCAA
*
106572 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
106605 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
106638 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
106665 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:106629 original size:19 final size:19
Alignment explanation
Indices: 106535--106669 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
106525 TAGTTTACTT
* *
106535 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
106555 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
106574 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
106593 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
106607 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
106626 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
106640 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
106659 TCGCAATGCGA
1 TCGCAACGCGA
106670 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:106687 original size:19 final size:19
Alignment explanation
Indices: 106665--106793 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
106655 AAAATCGCAA
106665 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
106684 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
106698 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
106717 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
106731 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
106750 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
106769 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
106789 TGCGA
1 TGCGA
106794 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:106707 original size:33 final size:33
Alignment explanation
Indices: 106665--106756 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
106655 AAAATCGCAA
106665 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
106698 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
106731 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
106757 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:107110 original size:92 final size:93
Alignment explanation
Indices: 106841--107122 Score: 541
Period size: 93 Copynumber: 3.1 Consensus size: 93
106831 ATGGATTGCA
106841 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
106905 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
106933 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
106998 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
107026 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
107090 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
107118 TTACT
1 TTACT
107123 AAGCAATCTA
Statistics
Matches: 188, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
92 81 0.43
93 107 0.57
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:108843 original size:14 final size:14
Alignment explanation
Indices: 108824--108913 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
108814 TTGAAATGAA
108824 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
108838 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
108857 AATCGCAACTAGAG
1 AATCGCAACGAGAG
*
108871 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
108890 AATCGCAACGAGAG
1 AATCGCAACGAGAG
108904 AATCGCAACG
1 AATCGCAACG
108914 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 30 0.50
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 20 0.33
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:108856 original size:33 final size:33
Alignment explanation
Indices: 108816--108930 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
108806 TCTTTTGGTT
108816 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
108849 GAAATGAAAATCGCAACTAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
108882 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
108915 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
108931 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:108862 original size:19 final size:19
Alignment explanation
Indices: 108838--108935 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
108828 GCAACGAGAG
108838 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
108857 AATCGCAA--C--TA-GAG
1 AATCGCAACGCGAAATGAA
108871 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
108890 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
108904 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
108923 AATCGCAATGCGA
1 AATCGCAACGCGA
108936 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 32 0.52
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:108966 original size:14 final size:14
Alignment explanation
Indices: 108947--109003 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
108937 TTTGGTTTCG
108947 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
108961 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
108980 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
108994 CGTTGCGATT
1 CGTTGCGATT
109004 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:108979 original size:33 final size:33
Alignment explanation
Indices: 108931--109011 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
108921 AAAATCGCAA
**
108931 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
108964 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
108997 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
109012 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:109014 original size:21 final size:21
Alignment explanation
Indices: 108988--109063 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
108978 CGCGTTGCGA
108988 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
109009 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
109029 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
109050 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
109064 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:109044 original size:41 final size:41
Alignment explanation
Indices: 108987--109064 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
108977 TCGCGTTGCG
*
108987 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
109028 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
109065 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:109185 original size:33 final size:33
Alignment explanation
Indices: 109143--109213 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
109133 AATACTAACT
*
109143 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
109176 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
109209 TGAAA
1 TGAAA
109214 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:109470 original size:22 final size:22
Alignment explanation
Indices: 109403--109462 Score: 120
Period size: 22 Copynumber: 2.7 Consensus size: 22
109393 GGGATTTCGC
109403 CGGAGATGGGGACGGAAATCTT
1 CGGAGATGGGGACGGAAATCTT
109425 CGGAGATGGGGACGGAAATCTT
1 CGGAGATGGGGACGGAAATCTT
109447 CGGAGATGGGGACGGA
1 CGGAGATGGGGACGGA
109463 TTTCTTCGCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.27, C:0.13, G:0.45, T:0.15
Consensus pattern (22 bp):
CGGAGATGGGGACGGAAATCTT
Found at i:109642 original size:20 final size:20
Alignment explanation
Indices: 109617--109790 Score: 199
Period size: 20 Copynumber: 8.7 Consensus size: 20
109607 CTTTAAATAT
109617 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
109637 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
109659 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
109678 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
109698 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
109718 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
109738 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
109758 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
109778 CGCGTTGCGATTT
1 CGCGTTGCGATTT
109791 TGGAAAATCG
Statistics
Matches: 133, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 114 0.86
21 15 0.11
22 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:109807 original size:21 final size:21
Alignment explanation
Indices: 109777--109859 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
109767 ATTTTCATAT
*
109777 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
109798 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
109819 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
109840 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
109860 TTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:109850 original size:42 final size:43
Alignment explanation
Indices: 109757--109855 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
109747 ATTTATGTGT
* *
109757 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
109798 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
109840 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
109856 GAAATTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:111267 original size:31 final size:31
Alignment explanation
Indices: 111229--111300 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
111219 GTAAAAAAAG
*
111229 TAATTGATTATTTTACTTGTTGTTAAGAGT-T
1 TAATTGATTATTTTACTTGATG-TAAGAGTCT
* *
111260 TAATTGATTATTTTATTTGATGTAAGGGTCT
1 TAATTGATTATTTTACTTGATGTAAGAGTCT
111291 TAATTGATTA
1 TAATTGATTA
111301 CAAAGTATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 6 0.16
31 31 0.84
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.53
Consensus pattern (31 bp):
TAATTGATTATTTTACTTGATGTAAGAGTCT
Found at i:115997 original size:18 final size:18
Alignment explanation
Indices: 115942--115987 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
115932 ACATCCTAAT
115942 AATTTAATTAGTAAATTC
1 AATTTAATTAGTAAATTC
115960 AATTTAATTAGTAAATTC
1 AATTTAATTAGTAAATTC
115978 AATTTAATTA
1 AATTTAATTA
115988 TATTTATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (18 bp):
AATTTAATTAGTAAATTC
Found at i:116303 original size:27 final size:27
Alignment explanation
Indices: 116254--116305 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
116244 AATAAAATTC
* *
116254 CAAAATCTTATTAGTTTTCTAATTGAT
1 CAAAATATTATTAGTTTTATAATTGAT
116281 CAAAATATTATTTAG-TTTATAATTG
1 CAAAATATTA-TTAGTTTTATAATTG
116306 CTAAGTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.48
Consensus pattern (27 bp):
CAAAATATTATTAGTTTTATAATTGAT
Found at i:117635 original size:2 final size:2
Alignment explanation
Indices: 117628--117653 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
117618 TAATATTTGT
117628 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
117654 AGTATATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:118050 original size:16 final size:16
Alignment explanation
Indices: 118029--118066 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
118019 CTAAAAACTA
118029 ATATTTT-ATAAATATT
1 ATATTTTAATAAAT-TT
*
118045 ATATTTTAATTAATTT
1 ATATTTTAATAAATTT
118061 ATATTT
1 ATATTT
118067 ATATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTTTAATAAATTT
Found at i:118056 original size:11 final size:12
Alignment explanation
Indices: 118042--118132 Score: 70
Period size: 11 Copynumber: 7.8 Consensus size: 12
118032 TTTTATAAAT
118042 ATTATATTT-TA
1 ATTATATTTATA
118053 ATTA-ATTTATA
1 ATTATATTTATA
* *
118064 TTTATATTTTTA
1 ATTATATTTATA
118076 ATTA-ATTTATA
1 ATTATATTTATA
*
118087 ATTATACGTT-TA
1 ATTATA-TTTATA
118099 A-TAT-TTTATA
1 ATTATATTTATA
118109 ATTTAATATTTATA
1 A-TT-ATATTTATA
118123 GATTA-ATTTA
1 -ATTATATTTA
118133 ATGGTGATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
9 2 0.03
10 7 0.11
11 22 0.34
12 19 0.30
13 5 0.08
14 8 0.12
15 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.58
Consensus pattern (12 bp):
ATTATATTTATA
Found at i:118078 original size:23 final size:23
Alignment explanation
Indices: 118043--118132 Score: 94
Period size: 23 Copynumber: 3.9 Consensus size: 23
118033 TTTATAAATA
118043 TTATA-TTTTAATTAATTTATAT
1 TTATATTTTTAATTAATTTATAT
*
118065 TTATATTTTTAATTAATTTATAA
1 TTATATTTTTAATTAATTTATAT
** *
118088 TTATACGTTTAA-TATTTTATAAT
1 TTATATTTTTAATTAATTTAT-AT
*
118111 TTAATATTTATAGATTAATTTA
1 TT-ATATTTTTA-ATTAATTTA
118133 ATGGTGATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
22 12 0.22
23 29 0.54
24 6 0.11
25 1 0.02
26 6 0.11
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (23 bp):
TTATATTTTTAATTAATTTATAT
Found at i:118348 original size:2 final size:2
Alignment explanation
Indices: 118341--118382 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
118331 AAACTTTGGG
118341 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
118383 AATTGCAGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:119634 original size:27 final size:27
Alignment explanation
Indices: 119604--119678 Score: 143
Period size: 27 Copynumber: 2.8 Consensus size: 27
119594 TTGAACGAGG
119604 AAAAAAGAAAATTATCATAATAAAAGA
1 AAAAAAGAAAATTATCATAATAAAAGA
119631 AAAAAAGAAAATTATCATAATAAAAGA
1 AAAAAAGAAAATTATCATAATAAAAGA
119658 AAAAAAGAAAATTATCA-AATA
1 AAAAAAGAAAATTATCATAATA
119679 TTAATTGATT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 4 0.08
27 44 0.92
ACGTcount: A:0.71, C:0.04, G:0.07, T:0.19
Consensus pattern (27 bp):
AAAAAAGAAAATTATCATAATAAAAGA
Found at i:123905 original size:2 final size:2
Alignment explanation
Indices: 123898--123932 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
123888 ACTACTTAAC
123898 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
123933 TTTAATTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:124299 original size:2 final size:2
Alignment explanation
Indices: 124294--124331 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
124284 GCGCACACAC
124294 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
124332 GAAGATTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127382 original size:60 final size:60
Alignment explanation
Indices: 127294--127457 Score: 197
Period size: 60 Copynumber: 2.8 Consensus size: 60
127284 TTTGGATGAA
* * * * *
127294 TTTGAGAATGAAATTAGAATATTCAAAAGTTTAGGGACTAATTTAGAAAGAGGGTCATCG
1 TTTGAGGATGAAATTAAAATATTCAAAAGTTTAGGAACTAATTTAGAAAGAGAGTCATAG
* * * * *
127354 TTT-AGGGATGAAATTAAAATGTTTAAAAGTTTAAGAACTGATTTAGAATGAGAGTCATAG
1 TTTGA-GGATGAAATTAAAATATTCAAAAGTTTAGGAACTAATTTAGAAAGAGAGTCATAG
* *
127414 TTTGAGGATAAAATTAAAATATTCAAAAGTTTA-GAACCAATTTA
1 TTTGAGGATGAAATTAAAATATTCAAAAGTTTAGGAACTAATTTA
127458 AAATGAAGGT
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
59 10 0.11
60 76 0.87
61 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (60 bp):
TTTGAGGATGAAATTAAAATATTCAAAAGTTTAGGAACTAATTTAGAAAGAGAGTCATAG
Found at i:129336 original size:3 final size:3
Alignment explanation
Indices: 129325--129402 Score: 140
Period size: 3 Copynumber: 26.3 Consensus size: 3
129315 TTTTACCCAC
*
129325 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
129373 ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
129403 AATATATATT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 70 0.97
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:129890 original size:16 final size:15
Alignment explanation
Indices: 129860--129895 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
129850 AATCAGTAGC
*
129860 AAAGAAACAGAAGAG
1 AAAGAAAAAGAAGAG
129875 AAAGAAAAAGGAAGAG
1 AAAGAAAAA-GAAGAG
129891 AAAGA
1 AAAGA
129896 CTTACCGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.69, C:0.03, G:0.28, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAAGAG
Found at i:130745 original size:20 final size:20
Alignment explanation
Indices: 130716--130766 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
130706 TTTATTTTTA
**
130716 TTTTATTATATTGTTAAATAT
1 TTTTA-TATATTCATAAATAT
130737 TTTTATATATTCATAAATAT
1 TTTTATATATTCATAAATAT
* *
130757 ATATATATAT
1 TTTTATATAT
130767 ATATATATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTATATATTCATAAATAT
Found at i:142512 original size:16 final size:16
Alignment explanation
Indices: 142486--142530 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
142476 TTTGAATACA
*
142486 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
142503 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
142518 ATTCAATTTATTT
1 ATTCAATTTATTT
142531 TTGGAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:144182 original size:84 final size:84
Alignment explanation
Indices: 143276--144172 Score: 1565
Period size: 84 Copynumber: 10.7 Consensus size: 84
143266 TGGAACAAAT
*
143276 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACATAACC
1 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
143341 AATCATTGAATTTGGAAGA
66 AATCATTGAATTTGGAAGA
*
143360 ATAATGTGCTCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
1 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
143425 AATCATTGAATTTGGAAG-
66 AATCATTGAATTTGGAAGA
* *
143443 ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACCGAAC
1 AT-AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
143508 CAATCATTGAATTTGGAACAAA
65 CAATCATTGAATTTGG-A-AGA
143530 TATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 -ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
143595 CAATCATTGAATTTGGAAGA
65 CAATCATTGAATTTGGAAGA
*
143615 ATAATGTGCTCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
1 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
143680 AATCATTGAATTTGGAAG-
66 AATCATTGAATTTGGAAGA
* * * *
143698 ATGAATATGCTCAATAGCATCTTCTGGAAGTGTTGTTTGAGTTATCTGATCTGGTTAGACCGAAC
1 AT-AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
143763 CAATCATTGAATTTGGAAGA
65 CAATCATTGAATTTGGAAGA
143783 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
1 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
143848 AATCATTGAATTTGGAAGA
66 AATCATTGAATTTGGAAGA
*
143867 ATAATGTGCTCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
1 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
143932 AATCATTGAATTTGGAAG-
66 AATCATTGAATTTGGAAGA
143950 ATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGG-CAGAA
1 AT-AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GGACAGAA
144014 CCAATCATTGAATTTGGAAGA
64 CCAATCATTGAATTTGGAAGA
144035 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAGAAC
1 ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAAC
144099 CAATCATTGAATTTGGAAG-
65 CAATCATTGAATTTGGAAGA
144118 ATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 AT-AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
144173 TGGTAAGAAC
Statistics
Matches: 780, Mismatches: 21, Indels: 26
0.94 0.03 0.03
Matches are distributed among these distances:
82 2 0.00
83 49 0.06
84 638 0.82
85 11 0.01
86 2 0.00
87 76 0.10
88 2 0.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.35
Consensus pattern (84 bp):
ATAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACC
AATCATTGAATTTGGAAGA
Found at i:145021 original size:24 final size:23
Alignment explanation
Indices: 144978--145022 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
144968 GTTCATAATG
*
144978 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
145001 AGAAGAAGTTCATAATG-AGAAG
1 AGAAGAA-TTCAT-ATGAAGAAG
145023 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 10 0.53
25 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.27, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:145105 original size:114 final size:113
Alignment explanation
Indices: 144843--145682 Score: 1272
Period size: 114 Copynumber: 7.4 Consensus size: 113
144833 TGGATTGACA
* *
144843 TTTCAAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
1 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * *
144908 AGAATTTGTTCAACCTTCTGCCT-AATTCTATCACTTGATGGATCAGCT
66 AGAATTTGTTCAACCTTTTGCCTGAATTC-ATCAATTGATGGATCATCT
*
144956 TTTCCAGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* *
145021 AGAATTTGTTCAACCTTTTTCCTGAATTCATCAAATTGATGGATTATCT
66 AGAATTTGTTCAACCTTTTGCCTGAATTCATC-AATTGATGGATCATCT
*
145070 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
1 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * *
145135 AGAATTTGTTCAACCTTCTGCCT-AATTCTATCACTTGATGGATCAGCT
66 AGAATTTGTTCAACCTTTTGCCTGAATTC-ATCAATTGATGGATCATCT
145183 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* *
145248 AGAATTTGTTCAACCTTTTTCCTGAATTCATCAAATTGATGGATTATCT
66 AGAATTTGTTCAACCTTTTGCCTGAATTCATC-AATTGATGGATCATCT
145297 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
** *
145362 AGAATTTGTTCAACCTTTTTTCTGAATTCATCAAATTGATGGATTATCT
66 AGAATTTGTTCAACCTTTTGCCTGAATTCATC-AATTGATGGATCATCT
145411 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * * * * *
145476 AGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGGATCAACA
66 AGAATTTGTTCAACCTTTTGCCTGAATTCATCAATTGATGGATCATCT
* *
145524 TTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 TTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * * * *
145588 GAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGGATCATCA
62 GAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCAATTGATGGATCATCT
** *
145640 TCCCCAGCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
1 TTTCCAG-AGAAGGTTCATAATGAGAAGAACTCATCTGAAGAA
145683 AGAGAAAAAT
Statistics
Matches: 678, Mismatches: 38, Indels: 21
0.92 0.05 0.03
Matches are distributed among these distances:
112 3 0.00
113 227 0.33
114 340 0.50
115 2 0.00
116 87 0.13
117 17 0.03
118 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAATTTGTTCAACCTTTTGCCTGAATTCATCAATTGATGGATCATCT
Found at i:145224 original size:227 final size:227
Alignment explanation
Indices: 144829--145682 Score: 1313
Period size: 227 Copynumber: 3.7 Consensus size: 227
144819 AATCTATCAT
*
144829 TTGATGGATTGA-CATTTCAAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATT-ATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
144893 AAATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCT-AATTCTATCACTTGATGGATCAGCTT
65 AAATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCTGAATTC-ATCACTTGATGGATCAGCTT
*
144957 TTCCAGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
129 TTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
145022 GAATTTGTTCAACCTTTTTCCTGAATTCATCAAA
194 GAATTTGTTCAACCTTTTTCCTGAATTCATCAAA
*
145056 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
145121 AATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCT-AATTCTATCACTTGATGGATCAGCTTT
66 AATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCTGAATTC-ATCACTTGATGGATCAGCTTT
145185 TCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
130 TCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
145250 AATTTGTTCAACCTTTTTCCTGAATTCATCAAA
195 AATTTGTTCAACCTTTTTCCTGAATTCATCAAA
*
145283 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* * ** * * *
145348 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTCATCAAATTGATGGATTATCTTT
66 AATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCTGAATTCATC-ACTTGATGGATCAGCTTT
145413 TCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
130 TCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
* * * * *
145478 AACTTGTTCAATCTTTTGCTTGAATTCATC-AT
195 AATTTGTTCAACCTTTTTCCTGAATTCATCAAA
* * * *
145510 TTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAG
1 TTGATGGATTATCATTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAG
* * * * * * *
145574 AAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGGATCATC
62 AAGAAATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCTGAATTCATCACTTGATGGATCAGC
* ** *
145639 ATCCCCAGCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
127 TTTTCCAG-AGAAGGTTCATAATGAGAAGAACTCATCTGAAGAA
145683 AGAGAAAAAT
Statistics
Matches: 588, Mismatches: 31, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
226 4 0.01
227 358 0.61
228 111 0.19
229 19 0.03
230 96 0.16
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (227 bp):
TTGATGGATTATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCTGAATTCATCACTTGATGGATCAGCTTTT
CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
ATTTGTTCAACCTTTTTCCTGAATTCATCAAA
Found at i:145443 original size:341 final size:341
Alignment explanation
Indices: 144821--145682 Score: 1365
Period size: 341 Copynumber: 2.5 Consensus size: 341
144811 AAGATTCAAA
* *
144821 TCTATCATTTGATGGAT-TGACATTTCAAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAA
1 TCTATCATTTGATGGATCAG-CATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAA
* * *
144885 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCT-AATTCTATCACTTGATGG
65 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTC-ATCAATTGATGG
* *
144949 ATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAGTTCAT
129 ATCATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
145014 AATGAGAAGAATTTGTTCAACCTTTTTCCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAG
194 AATGAGAAGAATTTGTTCAACCTTTTTCCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAG
*
145079 AAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
259 AAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGT
145144 TCAACCTTCTGCCT-AAT
324 TCAACCTTCTGCCTGAAT
* *
145161 TCTATCACTTGATGGATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 TCTATCATTTGATGGATCAGCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAG
*
145226 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTCCTGAATTCATCAAATTGATGGA
66 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATC-AATTGATGGA
*
145291 TTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
130 TCATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
*
145356 ATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGA
195 ATGAGAAGAATTTGTTCAACCTTTTTCCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGA
*
145421 AGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
260 AGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTT
* * *
145486 CAATCTTTTGCTTGAAT
325 CAACCTTCTGCCTGAAT
* * *
145503 TC-ATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAA
1 TCTATCATTTGATGGATCAGCATTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAA
* * * *
145566 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGAT
62 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCAATTGAT
* ** *
145631 GGATCATCATCCCCAGCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
127 GGATCATCTTTTCCAG-AGAAGGTTCATAATGAGAAGAACTCATCTGAAGAA
145683 AGAGAAAAAT
Statistics
Matches: 481, Mismatches: 32, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
340 107 0.22
341 253 0.53
342 5 0.01
343 19 0.04
344 97 0.20
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (341 bp):
TCTATCATTTGATGGATCAGCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAG
GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCAATTGATGGAT
CATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
TGAGAAGAATTTGTTCAACCTTTTTCCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAA
GGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTC
AACCTTCTGCCTGAAT
Found at i:145840 original size:3 final size:3
Alignment explanation
Indices: 145829--145892 Score: 110
Period size: 3 Copynumber: 21.3 Consensus size: 3
145819 TTTTACCCAC
* *
145829 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
145877 ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
145893 AATATATATT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:145904 original size:11 final size:11
Alignment explanation
Indices: 145888--145912 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
145878 TTATTATTAT
145888 TATTAAATATA
1 TATTAAATATA
145899 TATTAAATATA
1 TATTAAATATA
145910 TAT
1 TAT
145913 ATATAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TATTAAATATA
Found at i:146484 original size:16 final size:15
Alignment explanation
Indices: 146454--146489 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
146444 AATCAGTAGC
*
146454 AAAGAAACAGAAGAG
1 AAAGAAAAAGAAGAG
146469 AAAGAAAAAGGAAGAG
1 AAAGAAAAA-GAAGAG
146485 AAAGA
1 AAAGA
146490 CTTACCGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.69, C:0.03, G:0.28, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAAGAG
Done.