Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 109 of 190
Found at i:33148537 original size:27 final size:29
Alignment explanation
Indices: 33148476--33148543 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
33148466 GTATCGTGTT
* *
33148476 AGCCTTTGTGGCATGCTTTATATACATAT
1 AGCCTTTGTGGCATGCTCTATATACATAC
**
33148505 AGCCTTTGTGGCATGCTCTATATGGAT-C
1 AGCCTTTGTGGCATGCTCTATATACATAC
33148533 A-CCTTTGTGGC
1 AGCCTTTGTGGC
33148544 GTATTCTGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 10 0.29
28 1 0.03
29 24 0.69
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (29 bp):
AGCCTTTGTGGCATGCTCTATATACATAC
Found at i:33150816 original size:51 final size:52
Alignment explanation
Indices: 33150761--33150864 Score: 192
Period size: 51 Copynumber: 2.0 Consensus size: 52
33150751 ATTATTTAAT
33150761 TTGTTTTAAATGGTTAATTGAGTTAAAACTATTATTTAGATCAAGAAA-AAA
1 TTGTTTTAAATGGTTAATTGAGTTAAAACTATTATTTAGATCAAGAAACAAA
*
33150812 TTGTTTTAAATGGTTAATTGGGTTAAAACTATTATTTAGATCAAGAAACAAA
1 TTGTTTTAAATGGTTAATTGAGTTAAAACTATTATTTAGATCAAGAAACAAA
33150864 T
1 T
33150865 CAACCGGACA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 47 0.92
52 4 0.08
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.39
Consensus pattern (52 bp):
TTGTTTTAAATGGTTAATTGAGTTAAAACTATTATTTAGATCAAGAAACAAA
Found at i:33155327 original size:37 final size:36
Alignment explanation
Indices: 33155276--33155351 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
33155266 ATTCCAAAAA
*
33155276 TAATATTATTTTAATAGT-TTAGTATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-GTATT-AATTTAATAT
*
33155312 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTGTATTAATTTAATAT
33155349 TAA
1 TAA
33155352 AGTTGTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTGTATTAATTTAATAT
Found at i:33158028 original size:15 final size:15
Alignment explanation
Indices: 33158008--33158036 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33157998 AAATTTTTAT
33158008 TTTCGAAAAAAGTGG
1 TTTCGAAAAAAGTGG
33158023 TTTCGAAAAAAGTG
1 TTTCGAAAAAAGTG
33158037 ATTACCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (15 bp):
TTTCGAAAAAAGTGG
Found at i:33163588 original size:19 final size:19
Alignment explanation
Indices: 33163564--33163604 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
33163554 TGATTTATTT
*
33163564 TAAGATTTATCTACCTATA
1 TAAGATTTATCTACCTAAA
33163583 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
33163602 TAA
1 TAA
33163605 CTTTAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAGATTTATCTACCTAAA
Found at i:33167269 original size:16 final size:16
Alignment explanation
Indices: 33167248--33167282 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
33167238 AGAGAGCATT
33167248 TAATAAAACTGTTCTA
1 TAATAAAACTGTTCTA
33167264 TAATAAAACTGTTCTA
1 TAATAAAACTGTTCTA
33167280 TAA
1 TAA
33167283 GAGAGCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (16 bp):
TAATAAAACTGTTCTA
Found at i:33167435 original size:19 final size:19
Alignment explanation
Indices: 33167411--33167451 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
33167401 TGATTTATTC
*
33167411 TAAGATTTATATACTTAAA
1 TAAGATTTATATACCTAAA
*
33167430 TAAGATTTATCTACCTAAA
1 TAAGATTTATATACCTAAA
33167449 TAA
1 TAA
33167452 CTTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAGATTTATATACCTAAA
Found at i:33184636 original size:24 final size:24
Alignment explanation
Indices: 33184607--33184656 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
33184597 TTGTTATCAA
33184607 GTAATAAGTAAGTATCGAGTTATC
1 GTAATAAGTAAGTATCGAGTTATC
33184631 GTAATAAGTAAGTATCGAGTTATC
1 GTAATAAGTAAGTATCGAGTTATC
33184655 GT
1 GT
33184657 CTCCTCAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (24 bp):
GTAATAAGTAAGTATCGAGTTATC
Found at i:33185395 original size:16 final size:16
Alignment explanation
Indices: 33185374--33185409 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
33185364 CAATCATCCT
33185374 AGCTTAAATAAAATTA
1 AGCTTAAATAAAATTA
33185390 AGCTTAAATAAAATTA
1 AGCTTAAATAAAATTA
33185406 AGCT
1 AGCT
33185410 AACATTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (16 bp):
AGCTTAAATAAAATTA
Found at i:33186736 original size:37 final size:36
Alignment explanation
Indices: 33186685--33186760 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
33186675 ATTCAAAAAA
*
33186685 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
33186721 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
33186758 TAA
1 TAA
33186761 AGTGATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:33189369 original size:54 final size:54
Alignment explanation
Indices: 33189276--33189442 Score: 232
Period size: 54 Copynumber: 3.1 Consensus size: 54
33189266 TCGTCATTTA
* * * * *
33189276 TCTTC-TTTCCCCACATGGTACCATAGT-CCAAACTAGGTCTTACACTATGTGG
1 TCTTCTTTTCCCCATATGATGCCATAATCCCAAACTAGGTCTTACACTATATGG
33189328 TCTTCTTTTCCCCATATGATGCCATAATCCCAAACTAGGTCTTACACTATATGG
1 TCTTCTTTTCCCCATATGATGCCATAATCCCAAACTAGGTCTTACACTATATGG
* * *
33189382 TATT-TTATTCCCCATATGATGCCATAATCCCAGACTAGGTCTTACACTATATAG
1 TCTTCTT-TTCCCCATATGATGCCATAATCCCAAACTAGGTCTTACACTATATGG
33189436 TCTTCTT
1 TCTTCTT
33189443 GCCATGACCA
Statistics
Matches: 102, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
52 5 0.05
53 20 0.20
54 75 0.74
55 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (54 bp):
TCTTCTTTTCCCCATATGATGCCATAATCCCAAACTAGGTCTTACACTATATGG
Found at i:33190304 original size:38 final size:38
Alignment explanation
Indices: 33190262--33190340 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
33190252 CAGAATTGAG
33190262 TTATTTTTTACCATTGTCTGCCACTTTCCAGAACTTAC
1 TTATTTTTTACCATTGTCTGCCACTTTCCAGAACTTAC
33190300 TTATTTTTTACCATTGTCTGCCACTTTCCAGAACTTAC
1 TTATTTTTTACCATTGTCTGCCACTTTCCAGAACTTAC
33190338 TTA
1 TTA
33190341 GCTATCTCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.22, C:0.25, G:0.08, T:0.46
Consensus pattern (38 bp):
TTATTTTTTACCATTGTCTGCCACTTTCCAGAACTTAC
Found at i:33192582 original size:43 final size:42
Alignment explanation
Indices: 33192428--33192591 Score: 211
Period size: 43 Copynumber: 3.9 Consensus size: 42
33192418 TAGGGTTACC
33192428 GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAT
* * * *
33192470 GAGATTTCGTGTAAGACCATGTCTAGGACATTGGCATCGATAT
1 GAGATTACGTGTAAGACCATATCTGGGATA-TGGCATCGATAT
* * * ** *
33192513 GTGATTTCTTGTAAGACCATGGCTGGGCTATTGGCATCGATAT
1 GAGATTACGTGTAAGACCATATCTGGGATA-TGGCATCGATAT
*
33192556 GAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCAT
33192592 TTTACGGTAC
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 32 0.30
43 73 0.70
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAT
Found at i:33200028 original size:17 final size:17
Alignment explanation
Indices: 33199998--33200030 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33199988 TGGGTCCTAA
33199998 AAATGCTTCATCTCCTC
1 AAATGCTTCATCTCCTC
33200015 AAAT-CTTCAGTCTCCT
1 AAATGCTTCA-TCTCCT
33200031 ATGTGGCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATGCTTCATCTCCTC
Found at i:33200333 original size:17 final size:18
Alignment explanation
Indices: 33200313--33200347 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
33200303 TCTAAAAGTG
33200313 CTTTTGGAGCCA-AAGCA
1 CTTTTGGAGCCATAAGCA
*
33200330 CTTTTGGTGCCATAAGCA
1 CTTTTGGAGCCATAAGCA
33200348 ATAAAGAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (18 bp):
CTTTTGGAGCCATAAGCA
Found at i:33202638 original size:161 final size:162
Alignment explanation
Indices: 33202373--33202698 Score: 618
Period size: 161 Copynumber: 2.0 Consensus size: 162
33202363 TTGATGATTC
33202373 ACCTGATGATTTCAAACATGAAGCATCAATAACATTGAAAGTCAAAGAACCAACAGTAGCCTGAT
1 ACCTGATGATTTCAAACATGAAGCATCAATAACATTGAAAGTCAAAGAACCAACAGTAGCCTGAT
33202438 CTACAAAGGTAGCATTATTTGGATGTTTATCTTTCCAGGGAAAACCACCATTCTTACTACTATCG
66 CTACAAAGGTAGCATTATTTGGATGTTTATCTTTCCAGGGAAAACCACCATTCTTACTACTATCG
33202503 CTGCAGTTTGAGG-ATCGTCTTTAATGGCAAT
131 CTGCAGTTTGAGGTATCGTCTTTAATGGCAAT
33202534 ACCTGATGATTTCAAACATGAAGCATCAATAACATTGAAAGTCAAAGAACCAACAGTAGCCTGAT
1 ACCTGATGATTTCAAACATGAAGCATCAATAACATTGAAAGTCAAAGAACCAACAGTAGCCTGAT
* *
33202599 CTACAAAGGTGGCATTATTTGGATGTTTATCTTTCCAGGGAAAACCACCATTCTTGCTACTATCG
66 CTACAAAGGTAGCATTATTTGGATGTTTATCTTTCCAGGGAAAACCACCATTCTTACTACTATCG
*
33202664 CTGCAGTTTGAGGTTTCGTCTTTAATGGCAAT
131 CTGCAGTTTGAGGTATCGTCTTTAATGGCAAT
33202696 ACC
1 ACC
33202699 ACCAATATCA
Statistics
Matches: 161, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
161 141 0.88
162 20 0.12
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (162 bp):
ACCTGATGATTTCAAACATGAAGCATCAATAACATTGAAAGTCAAAGAACCAACAGTAGCCTGAT
CTACAAAGGTAGCATTATTTGGATGTTTATCTTTCCAGGGAAAACCACCATTCTTACTACTATCG
CTGCAGTTTGAGGTATCGTCTTTAATGGCAAT
Found at i:33208303 original size:35 final size:35
Alignment explanation
Indices: 33208216--33208311 Score: 104
Period size: 35 Copynumber: 2.7 Consensus size: 35
33208206 ATGAATATTT
* **
33208216 TGATTATGATTCACATGTTAAGCATGCTATTGTTC
1 TGATTATGATTCACATGTTAAGCATGCCATAATTC
** *
33208251 TGCCTATGACTT-GCATGTTAAGCATGCCATAATTC
1 TGATTATGA-TTCACATGTTAAGCATGCCATAATTC
* *
33208286 TGATTCTGATTCACATGTTAAACATG
1 TGATTATGATTCACATGTTAAGCATG
33208312 TCACTGTGTT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
34 2 0.04
35 44 0.92
36 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.39
Consensus pattern (35 bp):
TGATTATGATTCACATGTTAAGCATGCCATAATTC
Found at i:33208487 original size:49 final size:50
Alignment explanation
Indices: 33208425--33208521 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 50
33208415 TACGGAGGAA
** * * * *
33208425 GTATCTGGTAGTATATCTGTAATT-TTTGGTGGCTTGACCACAATATTTT
1 GTATCTGACAGTATATCTGCAATTATCTAGTGGCTCGACCACAATATTTT
*
33208474 GTATCTGACAGTATATCTGCAATTATCTAGTGGCTCGACCATAATATT
1 GTATCTGACAGTATATCTGCAATTATCTAGTGGCTCGACCACAATATT
33208522 CTATTTATAG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 21 0.52
50 19 0.47
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (50 bp):
GTATCTGACAGTATATCTGCAATTATCTAGTGGCTCGACCACAATATTTT
Found at i:33211560 original size:14 final size:14
Alignment explanation
Indices: 33211521--33211551 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
33211511 CATTTTAAAA
33211521 TAAATATATTTTAC
1 TAAATATATTTTAC
33211535 TAAATATATTTTAC
1 TAAATATATTTTAC
33211549 TAA
1 TAA
33211552 GTATTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAATATATTTTAC
Found at i:33217735 original size:18 final size:19
Alignment explanation
Indices: 33217689--33217735 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
33217679 AAATAATTTC
33217689 ATTCAATT-AAGTACTTCA
1 ATTCAATTCAAGTACTTCA
*
33217707 ATT-AACCTCAAGTA-TTCA
1 ATTCAA-TTCAAGTACTTCA
33217725 ATTCAATTCAA
1 ATTCAATTCAA
33217736 TCTATAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 2 0.08
18 15 0.62
19 7 0.29
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.36
Consensus pattern (19 bp):
ATTCAATTCAAGTACTTCA
Found at i:33219856 original size:37 final size:37
Alignment explanation
Indices: 33219815--33219997 Score: 228
Period size: 37 Copynumber: 5.0 Consensus size: 37
33219805 GGCGGATGTA
*
33219815 TAGCTCTTCTGAGCATTTGACGTGTTTACGGTTGGAT
1 TAGCTCTTATGAGCATTTGACGTGTTTACGGTTGGAT
*
33219852 TAGCTCTTATGAGCATTTGGCGTGTTTACGGTTGGAT
1 TAGCTCTTATGAGCATTTGACGTGTTTACGGTTGGAT
* *
33219889 TAGCTCTTATGAGCATTTGACATGTTTATGGTTGGAT
1 TAGCTCTTATGAGCATTTGACGTGTTTACGGTTGGAT
* * * *
33219926 TAGCTCTTATGAGCATTCG--GTGCGTTATTGGTTAGAT
1 TAGCTCTTATGAGCATTTGACGTG-TTTA-CGGTTGGAT
* * *
33219963 TAGCTCTTATGAGCGTTTGGCGTGTTT-CAGTTGGA
1 TAGCTCTTATGAGCATTTGACGTGTTTACGGTTGGA
33219998 CTATTTGTGT
Statistics
Matches: 127, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
35 2 0.02
36 8 0.06
37 112 0.88
38 2 0.02
39 3 0.02
ACGTcount: A:0.17, C:0.14, G:0.28, T:0.41
Consensus pattern (37 bp):
TAGCTCTTATGAGCATTTGACGTGTTTACGGTTGGAT
Found at i:33221716 original size:25 final size:24
Alignment explanation
Indices: 33221622--33221779 Score: 131
Period size: 26 Copynumber: 6.3 Consensus size: 24
33221612 CAACTCTAAT
*
33221622 GAGCGTCCCGATATATGGCTCTTCG
1 GAGCTTCCCGAT-TATGGCTCTTCG
* * *
33221647 TGAGCTTCCCGATTAAAGTCTCTTTG
1 -GAGCTTCCCGATT-ATGGCTCTTCG
* *
33221673 TGAGCTTCCTGATTAATGGCTCTCCG
1 -GAGCTTCCCGATT-ATGGCTCTTCG
* *
33221699 GAGCTTCCCGATATATGGCTATCCG
1 GAGCTTCCCGAT-TATGGCTCTTCG
33221724 GAGCTTCCCG-TTAATGGCTCTTCG
1 GAGCTTCCCGATT-ATGGCTCTTCG
* **
33221748 GAGCTACCC-ATTAGTGGCTCTTAT
1 GAGCTTCCCGATTA-TGGCTCTTCG
33221772 GAGCTTCC
1 GAGCTTCC
33221780 TGTTATACAA
Statistics
Matches: 110, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.02
24 35 0.32
25 32 0.29
26 41 0.37
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.32
Consensus pattern (24 bp):
GAGCTTCCCGATTATGGCTCTTCG
Found at i:33221749 original size:24 final size:24
Alignment explanation
Indices: 33221622--33221784 Score: 128
Period size: 24 Copynumber: 6.5 Consensus size: 24
33221612 CAACTCTAAT
* *
33221622 GAGCGTCCCGATATATGGCTCTTCG
1 GAGCTTCCCGTTA-ATGGCTCTTCG
* * *
33221647 TGAGCTTCCCGATTAAAGTCTCTTTG
1 -GAGCTTCCCG-TTAATGGCTCTTCG
* *
33221673 TGAGCTTCCTGATTAATGGCTCTCCG
1 -GAGCTTCCCG-TTAATGGCTCTTCG
* * *
33221699 GAGCTTCCCGATATATGGCTATCCG
1 GAGCTTCCCGTTA-ATGGCTCTTCG
33221724 GAGCTTCCCGTTAATGGCTCTTCG
1 GAGCTTCCCGTTAATGGCTCTTCG
* * * **
33221748 GAGCTACCCATTAGTGGCTCTTAT
1 GAGCTTCCCGTTAATGGCTCTTCG
*
33221772 GAGCTTCCTGTTA
1 GAGCTTCCCGTTA
33221785 TACAATCTGG
Statistics
Matches: 111, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
24 40 0.36
25 31 0.28
26 38 0.34
27 2 0.02
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.33
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTCTTCG
Found at i:33221842 original size:25 final size:27
Alignment explanation
Indices: 33221799--33221857 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 27
33221789 ATCTGGATAA
33221799 GCTTCCCGTTATACAGCTC-ACAT-GG
1 GCTTCCCGTTATACAGCTCGACATAGG
* ** *
33221824 GCTTCCTGTTATATGGCTCGAGATAGG
1 GCTTCCCGTTATACAGCTCGACATAGG
33221851 GCTTCCC
1 GCTTCCC
33221858 ATTTATGTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 16 0.59
26 3 0.11
27 8 0.30
ACGTcount: A:0.17, C:0.29, G:0.24, T:0.31
Consensus pattern (27 bp):
GCTTCCCGTTATACAGCTCGACATAGG
Found at i:33229515 original size:23 final size:23
Alignment explanation
Indices: 33229487--33229534 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
33229477 TTCTTGATTA
* *
33229487 ATGGCTCTCTAGAGCTTCCCCAT
1 ATGGCTCGCTAGAACTTCCCCAT
* *
33229510 ATGGCTCGCTTGAACTTCCCGAT
1 ATGGCTCGCTAGAACTTCCCCAT
33229533 AT
1 AT
33229535 ATGGCTATCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.31, G:0.19, T:0.31
Consensus pattern (23 bp):
ATGGCTCGCTAGAACTTCCCCAT
Found at i:33229597 original size:24 final size:24
Alignment explanation
Indices: 33229560--33229607 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
33229550 TTCTCGTTAA
*
33229560 TGGCTCTTCGGAGCTACCTATTAT
1 TGGCTCTTAGGAGCTACCTATTAT
* * *
33229584 TGGCTCTTATGAGCTTCCTGTTAT
1 TGGCTCTTAGGAGCTACCTATTAT
33229608 ACAACCCGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (24 bp):
TGGCTCTTAGGAGCTACCTATTAT
Found at i:33232309 original size:36 final size:36
Alignment explanation
Indices: 33232208--33232310 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
33232198 TATGATTATC
*
33232208 GATATTCTGATTTGCATGTTAAGCATGACATATTCT
1 GATATTCTGATTTGCATGTTAAGCATGCCATATTCT
* * *
33232244 AATGTTCTGATTTGCATGTTAAGCTTGCCATATTCT
1 GATATTCTGATTTGCATGTTAAGCATGCCATATTCT
33232280 GATATTCTGATTTGCATGTTAAGCATGCCAT
1 GATATTCTGATTTGCATGTTAAGCATGCCAT
33232311 TGTGATAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (36 bp):
GATATTCTGATTTGCATGTTAAGCATGCCATATTCT
Found at i:33235986 original size:44 final size:44
Alignment explanation
Indices: 33235915--33236015 Score: 148
Period size: 44 Copynumber: 2.3 Consensus size: 44
33235905 TCTATTCTAG
* *
33235915 CTTCAGGGAGATAGGATTAATAACTTCAATATGCTCCGCTGCAA
1 CTTCAGGGAGATAGGATTAATAACTTCAACATGCTCCACTGCAA
** * *
33235959 CTTCAGGGAGATAGGATTGGTATCTTCAACCTGCTCCACTGCAA
1 CTTCAGGGAGATAGGATTAATAACTTCAACATGCTCCACTGCAA
33236003 CTTCAGGGAGATA
1 CTTCAGGGAGATA
33236016 AGGCTTGATG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (44 bp):
CTTCAGGGAGATAGGATTAATAACTTCAACATGCTCCACTGCAA
Found at i:33236057 original size:41 final size:41
Alignment explanation
Indices: 33235996--33236144 Score: 154
Period size: 41 Copynumber: 3.6 Consensus size: 41
33235986 AACCTGCTCC
* * *
33235996 ACTGCAACTTCAGGGAGATAAGGCTTGATGCGATCTTCTCT
1 ACTGCAACTTCAGAGAGATAAGACTTGATGCGATCTACTCT
* * *** * *
33236037 ACTTCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCC
1 ACTGCAACTTCAGAGAGATAAGA-CT-T-GATGCGATCTACTCT
* * *
33236081 ACTGCAACTTCAGGGAGATAAAACTGGATGCGATCTACTCT
1 ACTGCAACTTCAGAGAGATAAGACTTGATGCGATCTACTCT
33236122 ACTGCAACTTCAGAGAGATAAGA
1 ACTGCAACTTCAGAGAGATAAGA
33236145 TTTGTGGTTT
Statistics
Matches: 83, Mismatches: 22, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
41 50 0.60
42 2 0.02
43 3 0.04
44 28 0.34
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (41 bp):
ACTGCAACTTCAGAGAGATAAGACTTGATGCGATCTACTCT
Found at i:33236092 original size:44 final size:44
Alignment explanation
Indices: 33236041--33236373 Score: 231
Period size: 44 Copynumber: 7.7 Consensus size: 44
33236031 TTCTCTACTT
*
33236041 CAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTG
1 CAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTG
* * * *** ** *
33236085 CAACTTCAGGGAGATAA-AAC--TGGATGCGATCTACTCTACTG
1 CAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTG
*
33236126 CAACTTCAGAGAGATAAGATTTGTGGTTTTAATCCGCTCCACTG
1 CAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTG
* * * ** *
33236170 CAACTTCAGGGAGATAGGAT-TG-GTTTCTTCTGTCTGCTCCACTG
1 CAACTTCAGAGAGATAAGATCTGTGGTT-TT-AATCCGCTCCACTG
* *
33236214 CAACTTTAGAGAGATAAGATTTGTGGTTTTAATCCGCTCCACTG
1 CAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTG
* * * ** *
33236258 TAACTTCAGGGAGATAGGAT-TGAT--TTCTTCTGTCTGCTCCACTG
1 CAACTTCAGAGAGATAAGATCTG-TGGTT-TT-AATCCGCTCCACTG
* *** * *
33236302 CAACTTCAG-GAAGATAAGA-C--TGGATGCGATCTGCTCTACTG
1 CAACTTCAGAG-AGATAAGATCTGTGGTTTTAATCCGCTCCACTG
* *
33236343 CAACTTCAGAGGGATAAGATCTGTAGTTTTA
1 CAACTTCAGAGAGATAAGATCTGTGGTTTTA
33236374 CCGATCTGTT
Statistics
Matches: 219, Mismatches: 52, Indels: 36
0.71 0.17 0.12
Matches are distributed among these distances:
41 59 0.27
42 8 0.04
43 12 0.05
44 133 0.61
45 4 0.02
46 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (44 bp):
CAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTG
Found at i:33236245 original size:88 final size:88
Alignment explanation
Indices: 33235946--33236320 Score: 405
Period size: 85 Copynumber: 4.3 Consensus size: 88
33235936 AACTTCAATA
* * * * * *
33235946 TGCTCCGCTGCAACTTCAGGGAGATAGGATTGGT-ATCTTCAA-CCTGCTCCACTGCAACTTCAG
1 TGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGT-TTTAATCC-GCTCCACTGCAACTTCAG
* * * *
33236009 GGAGATAAGGCTT-GATGCGATCT-TC
64 GGAGAT-AGGATTGGTTTC-TTCTGTC
* * *
33236034 T-CT--ACTTCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTCAGGG
1 TGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGG
** * * *
33236096 AGATAAAACTGG---ATGC-GATC
66 AGATAGGATTGGTTTCTTCTG-TC
* *
33236116 TACTCTACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGG
1 TGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGG
33236181 AGATAGGATTGGTTTCTTCTGTC
66 AGATAGGATTGGTTTCTTCTGTC
* *
33236204 TGCTCCACTGCAACTTTAGAGAGATAAGATTTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGG
1 TGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGG
*
33236269 AGATAGGATTGATTTCTTCTGTC
66 AGATAGGATTGGTTTCTTCTGTC
33236292 TGCTCCACTGCAACTTCAG-GAAGATAAGA
1 TGCTCCACTGCAACTTCAGAG-AGATAAGA
33236321 CTGGATGCGA
Statistics
Matches: 244, Mismatches: 30, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
81 1 0.00
82 3 0.01
83 2 0.01
84 2 0.01
85 115 0.47
86 3 0.01
87 3 0.01
88 114 0.47
89 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (88 bp):
TGCTCCACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGG
AGATAGGATTGGTTTCTTCTGTC
Found at i:33247832 original size:106 final size:106
Alignment explanation
Indices: 33247634--33248053 Score: 662
Period size: 106 Copynumber: 4.0 Consensus size: 106
33247624 ATAACATGGA
* * * *
33247634 TTGAAA-TTTAAGAGGATATTTTGCAATTTGGTTGAACGAGAAATCGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
*
33247698 TACGTTTTCTCGAATTTCCAAACGCAAAATATTACCTTGCT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTACCTTGCT
* * * *
33247739 TTAAAATTTTTAAAGGATATTTGGCTATTTGGTCGAACGAGAAATTGAAACCCAGCATGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
* * * *
33247804 CACATTTTCTCGATTTTCCAAACACAAAATATTACCTTACT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTACCTTGCT
33247845 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
* * *
33247910 CACGTTTTCTCGAATTTCCAAACGTAAAATAGTGCCTTGCT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTACCTTGCT
33247951 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
* * *
33248016 CACGTTTTCTCGATTTTCGAAACGCAAAATATTGCCTT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTACCTT
33248054 TGAAATTTTT
Statistics
Matches: 286, Mismatches: 28, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
105 5 0.02
106 281 0.98
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (106 bp):
TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGG
CACGTTTTCTCGAATTTCCAAACGCAAAATATTACCTTGCT
Found at i:33250085 original size:16 final size:16
Alignment explanation
Indices: 33250066--33250129 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 16
33250056 CCTTAGACTT
33250066 TGAAAACTATAGATTC
1 TGAAAACTATAGATTC
* *
33250082 TGAAAACTAT--ACTA
1 TGAAAACTATAGATTC
33250096 TG-AAACTATAGATTC
1 TGAAAACTATAGATTC
*
33250111 -GAAAAACTATAGATAC
1 TG-AAAACTATAGATTC
33250127 TGA
1 TGA
33250130 TACTCTAGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
13 7 0.18
14 5 0.13
15 2 0.05
16 23 0.61
17 1 0.03
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (16 bp):
TGAAAACTATAGATTC
Found at i:33250993 original size:27 final size:26
Alignment explanation
Indices: 33250963--33251018 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
33250953 TCAAAGAGTT
33250963 AGTGGAGAAAACCAAAAATTTAGAGGA
1 AGTGGA-AAAACCAAAAATTTAGAGGA
* * *
33250990 AGT-GAAGAACCAAAATTTTGGAGGA
1 AGTGGAAAAACCAAAAATTTAGAGGA
33251015 AGTG
1 AGTG
33251019 AAGCGTTTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 20 0.80
26 2 0.08
27 3 0.12
ACGTcount: A:0.46, C:0.07, G:0.29, T:0.18
Consensus pattern (26 bp):
AGTGGAAAAACCAAAAATTTAGAGGA
Found at i:33251013 original size:25 final size:25
Alignment explanation
Indices: 33250972--33251021 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
33250962 TAGTGGAGAA
33250972 AACCAAAAATTTAGAGGAAGTGAAG
1 AACCAAAAATTTAGAGGAAGTGAAG
* *
33250997 AACCAAAATTTTGGAGGAAGTGAAG
1 AACCAAAAATTTAGAGGAAGTGAAG
33251022 CGTTTGGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.08, G:0.26, T:0.18
Consensus pattern (25 bp):
AACCAAAAATTTAGAGGAAGTGAAG
Found at i:33262315 original size:51 final size:51
Alignment explanation
Indices: 33262252--33262471 Score: 139
Period size: 51 Copynumber: 4.3 Consensus size: 51
33262242 GCACGGACTG
* *
33262252 TGTGTAGGCTACTATGTAAAATTGAAAGTGAT-GGTCACGTGTGTAGTACTA
1 TGTGCAGGCTACTATGT-AAATCGAAAGTGATCGGTCACGTGTGTAGTACTA
** * * * * * *
33262303 TGTGCAGGCTACTATGTGTACCGGAA-TGATGGGTCGCATGTGTAGTACTG
1 TGTGCAGGCTACTATGTAAATCGAAAGTGATCGGTCACGTGTGTAGTACTA
* * * * * *
33262353 TGTGTAGGCTACTATGCGT-ACTGGATAGT-TTCGATCACGTGTGTAGTACTA
1 TGTGCAGGCTACTAT--GTAAATCGAAAGTGATCGGTCACGTGTGTAGTACTA
** * *
33262404 TGTGCAGGCTACTACATGT--ATCGGATGGTAAT-GGTCACATGTGTAGTACTA
1 TGTGCAGGCTACT--ATGTAAATC-GAAAGTGATCGGTCACGTGTGTAGTACTA
* *
33262455 TGTGTAGGATACTATGT
1 TGTGCAGGCTACTATGT
33262472 GAACCGAACA
Statistics
Matches: 130, Mismatches: 31, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
49 8 0.06
50 35 0.27
51 81 0.62
52 4 0.03
53 2 0.02
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (51 bp):
TGTGCAGGCTACTATGTAAATCGAAAGTGATCGGTCACGTGTGTAGTACTA
Found at i:33262401 original size:101 final size:101
Alignment explanation
Indices: 33262286--33262470 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 101
33262276 AAAGTGATGG
** *
33262286 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAT-G-ATGGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGG-ATGGAAT-GGTCACATGTGTAGT
* *
33262349 ACTGTGTGTAGGCTACTATGCGTACTGGATAGTTTCGA
64 ACTATGTGTAGGATACTATGCGTACTGGATAGTTTCGA
*
33262387 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGATGG-AATGGTCACATGTGTAGTA
33262452 CTATGTGTAGGATACTATG
65 CTATGTGTAGGATACTATG
33262471 TGAACCGAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 2 0.03
101 39 0.52
102 32 0.43
103 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGATGGAATGGTCACATGTGTAGTAC
TATGTGTAGGATACTATGCGTACTGGATAGTTTCGA
Found at i:33270535 original size:25 final size:23
Alignment explanation
Indices: 33270507--33270593 Score: 75
Period size: 25 Copynumber: 3.6 Consensus size: 23
33270497 GAATTGGTAT
*
33270507 GCTCTTACGAGCTATAAATCAGTAA
1 GCTCATACGAGCTA-AAATC-GTAA
* *
33270532 GCTCATATGAGCTGAGAATCGATAA
1 GCTCATACGAGCT-AAAATCG-TAA
* **
33270557 GCTCTTACGAGCTGCAATCGGTAA
1 GCTCATACGAGCTAAAATC-GTAA
33270581 GCTCATACGAGCT
1 GCTCATACGAGCT
33270594 GAGTATCGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
24 20 0.39
25 30 0.59
26 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (23 bp):
GCTCATACGAGCTAAAATCGTAA
Found at i:33270593 original size:49 final size:49
Alignment explanation
Indices: 33270482--33270629 Score: 179
Period size: 49 Copynumber: 3.0 Consensus size: 49
33270472 GTACATGTAT
* * * * * ** *
33270482 GCTCATACGACCTGTGAATTGGTATGCTCTTACGAGCTATAAATCAGTAA
1 GCTCATACGAGCTGAGAATCGATAAGCTCTTACGAGCT-GCAATCGGTAA
*
33270532 GCTCATATGAGCTGAGAATCGATAAGCTCTTACGAGCTGCAATCGGTAA
1 GCTCATACGAGCTGAGAATCGATAAGCTCTTACGAGCTGCAATCGGTAA
* * *
33270581 GCTCATACGAGCTGAGTATCGATAAGCTCTCACGAGCTGCAATTGGTAA
1 GCTCATACGAGCTGAGAATCGATAAGCTCTTACGAGCTGCAATCGGTAA
33270630 TCCCTAATGA
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 53 0.62
50 32 0.38
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (49 bp):
GCTCATACGAGCTGAGAATCGATAAGCTCTTACGAGCTGCAATCGGTAA
Found at i:33270607 original size:25 final size:24
Alignment explanation
Indices: 33270529--33270619 Score: 105
Period size: 25 Copynumber: 3.7 Consensus size: 24
33270519 TATAAATCAG
*
33270529 TAAGCTCATATGAGCTGAGAATCGA
1 TAAGCTCATACGAGCTGAG-ATCGA
* *
33270554 TAAGCTCTTACGAGCTGCA-ATCGG
1 TAAGCTCATACGAGCTG-AGATCGA
33270578 TAAGCTCATACGAGCTGAGTATCGA
1 TAAGCTCATACGAGCTGAG-ATCGA
33270603 TAAGCTC-TCACGAGCTG
1 TAAGCTCAT-ACGAGCTG
33270620 CAATTGGTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
23 1 0.02
24 21 0.37
25 34 0.60
26 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (24 bp):
TAAGCTCATACGAGCTGAGATCGA
Found at i:33276881 original size:25 final size:26
Alignment explanation
Indices: 33276839--33276889 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
33276829 ATTTTTTTTA
*
33276839 AAATTTTATAATTTTTTTAAAAATAT
1 AAATTTTATAATTATTTTAAAAATAT
*
33276865 AAATTTTA-AATTATTTTATAAATAT
1 AAATTTTATAATTATTTTAAAAATAT
33276890 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
AAATTTTATAATTATTTTAAAAATAT
Found at i:33276881 original size:27 final size:28
Alignment explanation
Indices: 33276837--33276911 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 28
33276827 AGATTTTTTT
33276837 TAAAATTTTATAATT-TTTT-TAAAAATA
1 TAAAATTTTA-AATTATTTTATAAAAATA
* *
33276864 T-AAATTTTAAATTATTTTATAAATATT
1 TAAAATTTTAAATTATTTTATAAAAATA
33276891 TAAAATTTTAAAAATTATTTT
1 TAAAATTTT--AAATTATTTT
33276912 GATTTTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
25 4 0.10
26 12 0.29
27 8 0.20
28 7 0.17
30 10 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TAAAATTTTAAATTATTTTATAAAAATA
Found at i:33276886 original size:19 final size:17
Alignment explanation
Indices: 33276834--33276906 Score: 60
Period size: 19 Copynumber: 4.1 Consensus size: 17
33276824 TTTAGATTTT
*
33276834 TTTTAAAATTTTATAATTT
1 TTTTAAAATTTTATAA--A
*
33276853 TTTTAAAA--ATATAAA
1 TTTTAAAATTTTATAAA
33276868 TTTTAAATTATTTTATAAA
1 TTTTAAA--ATTTTATAAA
*
33276887 TATTTAAAATTTTAAAAA
1 T-TTTAAAATTTTATAAA
33276905 TT
1 TT
33276907 ATTTTGATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
15 7 0.16
17 7 0.16
18 10 0.22
19 15 0.33
20 6 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTAAAATTTTATAAA
Found at i:33278567 original size:44 final size:44
Alignment explanation
Indices: 33278504--33279036 Score: 377
Period size: 44 Copynumber: 11.9 Consensus size: 44
33278494 TCATGGTGAA
33278504 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
* *
33278548 TCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGCCACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
* * ** *
33278592 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATATTGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA--CAAG
* * * * *
33278637 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTATAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC----CA-CA-AG
* * * *
33278687 ATCTTATCTCTCTGAAGTTGTAGTAGAGCAGA-TCATAG-CA-AA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACAAG
*
33278729 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
* * * ** *
33278773 TCTCATCTCCCTGAAGTTGCAGAGGAGCAGACTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAG
* * * * *
33278818 TCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAATTACATA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC-------CACA-AG
* * *
33278869 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCATAG-CA-AAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACAAG
* * **
33278911 T-TTATCTCCCTAAAGTTGCAGTAGG-GCAGGTTGAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGCCACAAG
* * * ** * *
33278954 TCTTATCTACCTGAAGTTGCAATGGAGCAGACTGAAGATAGAGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA-AG
* * * *
33278999 TCTTATTTCCCTGAAGTTACAGTGGAACAGATTAAAGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
33279037 TATAAATTGA
Statistics
Matches: 387, Mismatches: 70, Indels: 63
0.74 0.13 0.12
Matches are distributed among these distances:
41 56 0.14
42 10 0.03
43 9 0.02
44 143 0.37
45 96 0.25
46 3 0.01
48 2 0.01
49 2 0.01
50 4 0.01
51 59 0.15
52 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
Found at i:33278744 original size:41 final size:42
Alignment explanation
Indices: 33278687--33278984 Score: 176
Period size: 41 Copynumber: 6.8 Consensus size: 42
33278677 TAAATTATAG
* *
33278687 ATCTTATCTCTCTGAAGTTGTAGTAGAGCAGA-TCATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTCATAGCAA
* * *
33278728 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGA-AGCCACA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTCATAG-CA-A
* **
33278771 AGTCTCATCTCCCTGAAGTTGCAG-AGGAGCAGACTGAAGATAGCAA
1 A-TCTTATCTCCCTGAAGTTGCAGTA-GAGCAGA-T--TCATAGCAA
* * * * * *
33278817 ATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAATTACAT
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT----C-AT--A--GCAA
33278868 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTCATAGCAA
* * * *
33278909 A-CTTTATCTCCCTAAAGTTGCAGTAGGGCAGGTTGA-AGTTACAA
1 ATC-TTATCTCCCTGAAGTTGCAGTAGAGCAGATTCATAG---CAA
* * * *
33278953 GTCTTATCTACCTGAAGTTGCAATGGAGCAGA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA
33278985 CTGAAGATAG
Statistics
Matches: 197, Mismatches: 35, Indels: 47
0.71 0.13 0.17
Matches are distributed among these distances:
40 1 0.01
41 61 0.31
42 6 0.03
43 3 0.02
44 54 0.27
45 29 0.15
46 3 0.02
47 6 0.03
48 2 0.01
49 1 0.01
50 1 0.01
51 30 0.15
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (42 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTCATAGCAA
Found at i:33278753 original size:92 final size:91
Alignment explanation
Indices: 33278503--33279044 Score: 385
Period size: 89 Copynumber: 6.0 Consensus size: 91
33278493 ATCATGGTGA
* * *
33278503 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACAAGTCTTATCTCCCTAAAGTTG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCATAG-CA-AA-TCTTATCTCCCTGAAGTTG
* * * * *
33278567 CAATGGAGCAGATTGAAGC----CA-CAAG
62 CAGTGGAACAGATTAAAGCTATAAATTAAG
* * * * *
33278592 -TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGA-AGATATTGAATCTTATTTCCCTGAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCATAG-CA---AATCTTATCTCCCTGAAGTT
33278655 GCAGTGGAACAGATTAAAGCTATAAATTATAG
61 GCAGTGGAACAGATTAAAGCTATAAATTA-AG
* * *
33278687 ATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCATAGCAAATCTTATCTCCTTGAAGTTGCAGT
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAAATCTTATCTCCCTGAAGTTGCAGT
* * * *
33278752 GGAGCAGATTGAAGC----CA-CAAG
66 GGAACAGATTAAAGCTATAAATTAAG
* * *
33278773 -TCTCATCTCCCTGAAGTTGCAG-AGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGTA-GAGCAGA-T---CATAGCAAATCTTATCTCCCTGAAGTT
* *
33278836 GTAGTGGAACAGATTAAAGCTATAAATTACAT
61 GCAGTGGAACAGATTAAAGCTATAAATTA-AG
*
33278868 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAAA-CTTTATCTCCCTAAAGTTGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAAATC-TTATCTCCCTGAAGTTGCAG
* * * *
33278932 TAGG-GCAGGTTGAAG-T-T--A-CAAG
65 T-GGAACAGATTAAAGCTATAAATTAAG
* * * * *
33278954 -TCTTATCTACCTGAAGTTGCAATGGAGCAGACTGAAGATAG-AGAATCTTATTTCCCTGAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-T---CATAGCA-AATCTTATCTCCCTGAAGTT
*
33279017 ACAGTGGAACAGATTAAAGCTATAAATT
61 GCAGTGGAACAGATTAAAGCTATAAATT
33279045 GAAGTGTTTT
Statistics
Matches: 359, Mismatches: 57, Indels: 69
0.74 0.12 0.14
Matches are distributed among these distances:
84 1 0.00
85 54 0.15
86 5 0.01
87 2 0.01
88 41 0.11
89 106 0.30
90 5 0.01
91 3 0.01
92 70 0.19
93 5 0.01
94 2 0.01
95 7 0.02
96 57 0.16
97 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (91 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAAATCTTATCTCCCTGAAGTTGCAGT
GGAACAGATTAAAGCTATAAATTAAG
Found at i:33278768 original size:181 final size:181
Alignment explanation
Indices: 33278503--33279044 Score: 804
Period size: 181 Copynumber: 3.0 Consensus size: 181
33278493 ATCATGGTGA
* *
33278503 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACAAGTCTTATCTCCCTAAAGTTG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCATAG-CA-AA-TCTTATCTCCCTAAAGTTG
* *
33278567 CAATGGAGCAGATTGAAGCCACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATA
62 CAGTGGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
** *
33278632 TTGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTATAG
127 GAGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAG
* * * *
33278687 ATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCATAGCAAATCTTATCTCCTTGAAGTTGCAGT
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAAATCTTATCTCCCTAAAGTTGCAGT
* *
33278752 GGAGCAGATTGAAGCCACAAGTCTCATCTCCCTGAAGTTGCAGAGGAGCAGACTGAAGATAGCA-
66 GGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG-AG
* *
33278816 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAATTACAT
130 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAG
33278868 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAAA-CTTTATCTCCCTAAAGTTGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAAATC-TTATCTCCCTAAAGTTGCAG
* ** * *
33278932 TAGG-GCAGGTTGAAGTTACAAGTCTTATCTACCTGAAGTTGCAATGGAGCAGACTGAAGATAGA
65 T-GGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGA
*
33278996 GAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTAAAGCTATAAATT
129 GAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATT
33279045 GAAGTGTTTT
Statistics
Matches: 325, Mismatches: 28, Indels: 13
0.89 0.08 0.04
Matches are distributed among these distances:
180 2 0.01
181 284 0.87
182 4 0.01
183 4 0.01
184 31 0.10
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (181 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAAATCTTATCTCCCTAAAGTTGCAGT
GGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAGA
ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAG
Found at i:33278960 original size:225 final size:221
Alignment explanation
Indices: 33278502--33278990 Score: 510
Period size: 225 Copynumber: 2.2 Consensus size: 221
33278492 CATCATGGTG
*
33278502 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTTATCTCCCTAAAGTTG
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTCATCTCCCTAAAGTTG
* * * * *
33278567 CAATGGAGCAGATTGAAGCCACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATA
65 CAATGGAGCAGACTGAAGACACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAGATA
* * * *
33278632 TTGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTATAGATCTTATCTC
130 TTCAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCAAAGCTATAAATTATA-ATC-T-TCTC
* * *
33278697 TCTGAAGTTGTAGTAGAGCAGATCATAGCA
192 TCTAAAGTTGCAGTAGAGCAGATAATAGCA
*
33278727 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTCATCTCCCTGAAGTTG
1 AATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTCATCTCCCTAAAGTTG
* * * * *
33278792 CAGA-GGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGC
65 CA-ATGGAGCAGACTGAAGACA-CAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAG-
* * *
33278856 TATAAATTACATATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGC-A-AACTT-T-ATC
127 -AT--ATT-CA-ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCAAAGCTATAAATTATAATC
* *
33278917 -TC-C-CTAAAGTTGCAGTAGGGCAGGTTGAAGTTA-CA
187 TTCTCTCTAAAGTTGCAGTAGAGCA-GAT-AA--TAGCA
* * *
33278952 AGTCTTATCTACCTGAAGTTGCAATGGAGCAGACTGAAG
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAG
33278991 ATAGAGAATC
Statistics
Matches: 223, Mismatches: 27, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
222 16 0.07
223 3 0.01
224 5 0.02
225 111 0.50
226 39 0.17
227 3 0.01
228 2 0.01
229 1 0.00
230 7 0.03
231 2 0.01
232 34 0.15
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (221 bp):
AATCTTATCTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTCATCTCCCTAAAGTTGC
AATGGAGCAGACTGAAGACACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAGATAT
TCAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCAAAGCTATAAATTATAATCTTCTCTCTA
AAGTTGCAGTAGAGCAGATAATAGCA
Found at i:33280449 original size:51 final size:49
Alignment explanation
Indices: 33280316--33280505 Score: 220
Period size: 51 Copynumber: 3.8 Consensus size: 49
33280306 ATTATTATCA
* * *
33280316 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACT
1 TTCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACC
* *
33280365 TTCCAATTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAGCC
1 TT-CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA-CC
* * * * * *
33280416 TTCTGGTACACATAGTAGCCTGCACATTGTACTACACAAGTGACCATTATC
1 TTC-GATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-AACC
33280467 TATCGATACACGTAGTAGCCTGCA-ATTAGTACTACACAC
1 T-TCGATACACGTAGTAGCCTGCACA-TAGTACTACACAC
33280506 ATGTTTATAG
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
49 2 0.02
50 43 0.36
51 70 0.59
52 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (49 bp):
TTCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACC
Found at i:33281980 original size:44 final size:43
Alignment explanation
Indices: 33281875--33282174 Score: 286
Period size: 44 Copynumber: 6.8 Consensus size: 43
33281865 TAAATTGCAG
* * * *
33281875 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATAG-CA-A
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGATACA
* * *
33281916 ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
33281959 AGTCTTATCTCCCTGAAGTTGCTA-TGGAGCAGATTGAAGACAGGATACAA
1 A-TCTTATCTCCCTGAAGTTGC-AGTGGAGCAGATT---GA-A-GATAC-A
* * **
33282009 ATCTTATCTCCCTGAAGTTTCAGTGGAGCAGATTAAAGCCACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAC-A
* * * *
33282053 ACCTTATATCCCTGAAGTTGCAGTAGAGCAGGTTGAAGATACCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* *
33282097 ATCTTATCTCGCTGAAGTTGCAGTGGAGCATATTGAA-ACTACTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TAC-A
*
33282141 ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
33282175 AAAACGATGA
Statistics
Matches: 214, Mismatches: 30, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
41 30 0.14
42 3 0.01
43 4 0.02
44 133 0.62
45 3 0.01
46 1 0.00
47 2 0.01
48 2 0.01
49 34 0.16
50 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
Found at i:33282124 original size:137 final size:129
Alignment explanation
Indices: 33281875--33282177 Score: 394
Period size: 137 Copynumber: 2.3 Consensus size: 129
33281865 TAAATTGCAG
* * * * *
33281875 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAACCTTATATCCCTGAAGTTGCAGT
* *
33281940 GGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCTATGGAGCAGATTGAAGACAGGAT
66 AGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCTATGGAGCAGATTGAA-AC----T
33282005 ACAA
126 ACAA
*
33282009 ATCTTATCTCCCTGAAGTTTCAGTGGAGCAGATTAAAGCCACAAACCTTATATCCCTGAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG---CAAACCTTATATCCCTGAAGTTGC
* *
33282074 AGTAGAGCAGGTTGAAGATACCAA-TCTTATCTCGCTGAAGTTGC-AGTGGAGCATATTGAAACT
63 AGTAGAGCAGGTTGAAGATA-CAAGTCTTATCTCCCTGAAGTTGCTA-TGGAGCAGATTGAAACT
*
33282137 ACTA
126 ACAA
*
33282141 ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
33282178 ACGATGAATC
Statistics
Matches: 151, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
132 39 0.26
134 33 0.22
136 3 0.02
137 73 0.48
138 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (129 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAACCTTATATCCCTGAAGTTGCAGT
AGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCTATGGAGCAGATTGAAACTACAA
Found at i:33282228 original size:132 final size:136
Alignment explanation
Indices: 33281879--33282266 Score: 343
Period size: 137 Copynumber: 2.9 Consensus size: 136
33281869 TTGCAGATCT
* * * * * * * *
33281879 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATA--GCAAACCTTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAAACCTTATATCCCTGAAGTTACAGTA
* * *
33281941 GAGCAGGTTGAAGTTA-C-AAGTCTTATCTCCCTGAAGTTGCTA-TGGAGCAGATTGAAGACAGG
66 GAGCAGGTTAAAGATACCAAAGTCTTATCTCCCTGAAGTTGC-AGTGGAGCATATTGAAGAC---
*
33282003 ATACAAATCT
127 ATACAAATCC
* * *
33282013 TATCTCCCTGAAGTTTCAGTGGAGCAGATTAAAGCCACAAACCTTATATCCCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAAACCTTATATCCCTGAAGTTACAGTA
* *
33282078 GAGCAGGTTGAAGATACC-AA-TCTTATCTCGCTGAAGTTGCAGTGGAGCATATTGAA-AC-TAC
66 GAGCAGGTTAAAGATACCAAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGACATAC
*
33282139 TAATCC
131 AAATCC
* * * *
33282145 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGATGAATCC-TATA-CCTCTGAGGTTACAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-CAAACCTTATATCC-CTGAAGTTACAG
** ** *
33282208 TAG-GTTGGATTAAATCTACCATAGTAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCATA
64 TAGAGCAGG-TTAAAGATACC--A--AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCATA
33282267 CTAAAACCGC
Statistics
Matches: 212, Mismatches: 28, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
131 5 0.02
132 66 0.31
133 4 0.02
134 25 0.12
135 2 0.01
136 3 0.01
137 75 0.35
138 32 0.15
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (136 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAAACCTTATATCCCTGAAGTTACAGTA
GAGCAGGTTAAAGATACCAAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGACATAC
AAATCC
Found at i:33287487 original size:42 final size:42
Alignment explanation
Indices: 33287426--33287508 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
33287416 ATTTAAAAAG
*
33287426 TTAGTTGAAAGGTTCATCAAGATGGGCATCGTGAAGTTTGAA
1 TTAGTTGAAAGGTTCATCAAGATAGGCATCGTGAAGTTTGAA
*
33287468 TTAGTTGAAAGGTTTATCAAGATAGGCATCGTGAAGTTTGA
1 TTAGTTGAAAGGTTCATCAAGATAGGCATCGTGAAGTTTGA
33287509 CGATCTATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.33
Consensus pattern (42 bp):
TTAGTTGAAAGGTTCATCAAGATAGGCATCGTGAAGTTTGAA
Found at i:33289643 original size:41 final size:44
Alignment explanation
Indices: 33289586--33290019 Score: 140
Period size: 44 Copynumber: 9.7 Consensus size: 44
33289576 AATTATAGAT
* *
33289586 CTTATCCCTCTGAAGTTGCAGTAGAGCAGATCATAG-CA-AA-C
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAGCCACAAGC
* * *
33289627 CTTATCTC-CATGAAGTTGCAGTGGAGCAGATTAAAGCCACAAGT
1 CTTATCTCTC-TGAAGTTGCAGTAGAGCAGATCAAAGCCACAAGC
* * ** *
33289671 CTTATCTCTCTGAAGTTGCAGTAGAGTAGA-CTGAAGATAGCGAA-T
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATC-AAAGCCA-C-AAGC
* * * * * * *
33289716 CTTATTTCCCTGAAGTTGCAGT-GCAACAGATTAAAGCTATAAATTACAGA
1 CTTATCTCTCTGAAGTTGCAGTAG-AGCAGATCAAAGC----CA-CA-AGC
* * * *
33289766 TTCTATCTCCCTGAAGTTGCAGTCA-AGAAGATCATAG-CA-AA-C
1 CT-TATCTCTCTGAAGTTGCAGT-AGAGCAGATCAAAGCCACAAGC
* * * ** ** *
33289808 CTTATCTCTCTGAAGTTGCAGTGGGGCAGGTTGAAGTTACAAGT
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAGCCACAAGC
* * * ***
33289852 CTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTT
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CA-A-AGC-CA-C--A-AGC
* * *
33289905 CTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATAG-CA-AA-A
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAGCCACAAGC
* * * * * ** *
33289946 TTTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAGCCACAAGT
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAGCCACAAGC
* *
33289990 CTTATCTCTCGGAAGTTGCAGTGGAGCAGA
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA
33290020 CTGAAGATAG
Statistics
Matches: 287, Mismatches: 71, Indels: 67
0.68 0.17 0.16
Matches are distributed among these distances:
40 1 0.00
41 82 0.29
42 6 0.02
43 8 0.03
44 85 0.30
45 31 0.11
46 3 0.01
47 2 0.01
48 3 0.01
49 5 0.02
50 2 0.01
51 28 0.10
52 2 0.01
53 29 0.10
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (44 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAGCCACAAGC
Found at i:33289885 original size:181 final size:181
Alignment explanation
Indices: 33289574--33289903 Score: 515
Period size: 181 Copynumber: 1.8 Consensus size: 181
33289564 TAGAACAAAT
* *
33289574 TAAATTATAGATCTTATCCCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCATG
1 TAAATTACAGATCTTATCCCTCTGAAGTTGCAGTAGAGAAGATCATAGCAAACCTTATCTCCATG
*
33289639 AAGTTGCAGTGGAGCAGATTAAAGCCACAAGTCTTATCTCTCTGAAGTTGCAGTAGAGTAGACTG
66 AAGTTGCAGTGGAGCAGATTAAAGCCACAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTG
33289704 AAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGCAACAGATTAAAGCTA
131 AAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGCAACAGATTAAAGCTA
33289755 TAAATTACAGAT-TCTATCTCC-CTGAAGTTGCAGTCA-AGAAGATCATAGCAAACCTTATCTCT
1 TAAATTACAGATCT-TATC-CCTCTGAAGTTGCAGT-AGAGAAGATCATAGCAAACCTTATCTC-
* * * ** *
33289817 C-TGAAGTTGCAGTGGGGCAGGTTGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAG
62 CATGAAGTTGCAGTGGAGCAGATTAAAGCCACAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAG
33289881 ACTGAAGATAGCGAATCTTATTT
127 ACTGAAGATAGCGAATCTTATTT
33289904 TCTTATCTCT
Statistics
Matches: 136, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
180 1 0.01
181 131 0.96
182 4 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (181 bp):
TAAATTACAGATCTTATCCCTCTGAAGTTGCAGTAGAGAAGATCATAGCAAACCTTATCTCCATG
AAGTTGCAGTGGAGCAGATTAAAGCCACAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTG
AAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGCAACAGATTAAAGCTA
Found at i:33289939 original size:138 final size:138
Alignment explanation
Indices: 33289769--33290041 Score: 458
Period size: 138 Copynumber: 2.0 Consensus size: 138
33289759 TTACAGATTC
* *
33289769 TATCTCCCTGAAGTTGCAGTCAAGAAGATCATAGCAAACCTTATCTCTCTGAAGTTGCAGTGGGG
1 TATCTCCCTGAAGTTGCAGTCAAGAAGATCATAGCAAAACTTATCTCCCTGAAGTTGCAGTGGGG
** *
33289834 CAGGTTGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCT
66 CAGGTTGAAGCCACAAGTCTTATCTCTCGGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCT
33289899 TATTTTCT
131 TATTTTCT
* * *
33289907 TATCTCTCTGAAGTTGCAGT-AGAGTAGATCATAGCAAAATTTATCTCCCTGAAGTTGCAGTGGG
1 TATCTCCCTGAAGTTGCAGTCA-AGAAGATCATAGCAAAACTTATCTCCCTGAAGTTGCAGTGGG
33289971 GCAGGTTGAAGCCACAAGTCTTATCTCTCGGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATC
65 GCAGGTTGAAGCCACAAGTCTTATCTCTCGGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATC
33290036 TTATTT
130 TTATTT
33290042 CCCTGAAGTT
Statistics
Matches: 126, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
137 1 0.01
138 125 0.99
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (138 bp):
TATCTCCCTGAAGTTGCAGTCAAGAAGATCATAGCAAAACTTATCTCCCTGAAGTTGCAGTGGGG
CAGGTTGAAGCCACAAGTCTTATCTCTCGGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCT
TATTTTCT
Found at i:33290057 original size:89 final size:89
Alignment explanation
Indices: 33289904--33290742 Score: 565
Period size: 89 Copynumber: 9.3 Consensus size: 89
33289894 AATCTTATTT
* * *
33289904 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-T---CATAGCAAAAT-TTATCTCCCTGAAGTTG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC-AAATCTTATCTCCCTGAAGTTG
* *
33289964 CAGTGGGGCAGGTTGAAGCCACAAG
65 CAGTGGAGCAGGTTGAAGCAACAAG
* * *
33289989 TCTTATCTCTCGGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
* * * *
33290054 AGTGCAACAGGTTAAAGCTATAAATTACAG
66 AGTGGAGCAGGTTGAAGC----AA-CA-AG
* * ** * *
33290084 ATCTTATCTCTCTGAAGTTGCAGT-CA--AGA-AGATCATATCAAACCTTATCTCCCTGAAGTTG
1 -TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTG
* ***
33290145 CAGTAGAGCAGGTTGAATTTACAAG
65 CAGTGGAGCAGGTTGAAGCAACAAG
* * *
33290170 TCTTACCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
* * * *
33290235 AGTGGAACAGATTAAAGCTATAAATTACAG
66 AGTGGAGCAGGTTGAAGC----AA-CA-AG
* * *
33290265 ATTTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATAGCAAAAT-TTATCTCCCTGAAGTT
1 -TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC-AAATCTTATCTCCCTGAAGTT
* *
33290325 GCAGTGGGGCAGGTTGAAGCCACAAG
64 GCAGTGGAGCAGGTTGAAGCAACAAG
* * * *
33290351 TCTTACCT-TCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTG
1 TCTTATCTCT-CTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTG
* * * * *
33290415 TAGTGGAACAGATTGAAACTATAAATTACAG
65 CAGTGGAGCAGGTTGAAGC----AA-CA-AG
* * * * *
33290446 ATCTTATCTCTCTGAAGTTGTAGTAGAGTAGA-T---CATAGCAAACCTTATCTCCCTGAAGTTG
1 -TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTG
***
33290507 CAGTGGAGCAGGTTGAATTTACAAG
65 CAGTGGAGCAGGTTGAAGCAACAAG
* * * ** * * *
33290532 TCTTATCTCCCTGAAGTTGCAATGGAGTAGACAAAAGATAACCAAGCTTATCTCCCTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
* *
33290597 AGTGGAGCAGATTGAAGACAGGCTACAAA
66 AGTGGAGCAGGTTGAAG-CA----ACAAG
* * * * * * * * *
33290626 TCTCATCTC-CTTAAAGTTGCCGTGGAGCATATTAAAGACA-CAAACCTTATATCCCTGAAGTTG
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTG
* *
33290689 CAGTGGAGAAGGTTAAAG-ATACCAA-
65 CAGTGGAGCAGGTTGAAGCA-A-CAAG
33290714 TCTTATCTC-CTTGAAGTTGCAGTGGAGCA
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCA
33290743 TATTGAAGCT
Statistics
Matches: 585, Mismatches: 120, Indels: 95
0.73 0.15 0.12
Matches are distributed among these distances:
84 1 0.00
85 101 0.17
86 9 0.02
87 3 0.01
88 40 0.07
89 153 0.26
91 1 0.00
92 112 0.19
93 46 0.08
94 36 0.06
95 9 0.02
96 73 0.12
97 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (89 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
AGTGGAGCAGGTTGAAGCAACAAG
Found at i:33290107 original size:181 final size:181
Alignment explanation
Indices: 33289904--33290742 Score: 1051
Period size: 181 Copynumber: 4.6 Consensus size: 181
33289894 AATCTTATTT
*
33289904 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATAGCAAAATTTATCTCCCTGAAGTTGCAGTG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATAGCAAAACTTATCTCCCTGAAGTTGCAGTG
* * * *
33289969 GGGCAGGTTGAAGCCACAAGTCTTATCTCTCGGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA
66 GAGCAGGTTGAAGCCACAAGTCTTACCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA
* *
33290034 TCTTATTTCCCTGAAGTTGCAGTGCAACAGGTTAAAGCTATAAATTACAGA
131 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGA
* * *
33290085 TCTTATCTCTCTGAAGTTGCAGTCA-AGAAGATCATATCAAACCTTATCTCCCTGAAGTTGCAGT
1 TCTTATCTCTCTGAAGTTGCAGT-AGAGTAGATCATAGCAAAACTTATCTCCCTGAAGTTGCAGT
* *** *
33290149 AGAGCAGGTTGAATTTACAAGTCTTACCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAA
65 GGAGCAGGTTGAAGCCACAAGTCTTACCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGA
33290214 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGA
130 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGA
* * *
33290266 TTTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAATTTATCTCCCTGAAGTTGCAGTG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATAGCAAAACTTATCTCCCTGAAGTTGCAGTG
* * *
33290331 GGGCAGGTTGAAGCCACAAGTCTTACCTTCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA
66 GAGCAGGTTGAAGCCACAAGTCTTACCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA
*
33290396 TCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAA-CTATAAATTACAGA
131 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATT-AAAGCTATAAATTACAGA
* *
33290447 TCTTATCTCTCTGAAGTTGTAGTAGAGTAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATAGCAAAACTTATCTCCCTGAAGTTGCAGTG
*** * * * ** * *
33290512 GAGCAGGTTGAATTTACAAGTCTTATCTCCCTGAAGTTGCAATGGAGTAGACAAAAGATAACCAA
66 GAGCAGGTTGAAGCCACAAGTCTTACCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA
* * * * * *** *
33290577 GCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--ACAGGCTACAAA
131 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGA
* * * * * * * * *
33290626 TCTCATCTC-CTTAAAGTTGCCGTGGAGCATATTAAAGACACAAACCTTATATCCCTGAAGTTGC
1 TCTTATCTCTC-TGAAGTTGCAGTAGAGTAGATCATAG-CA-AAA-CTTATCTCCCTGAAGTTGC
* * ** * *
33290690 AGTGGAGAAGGTTAAAGATACCAA-TCTTATCTCCTTGAAGTTGCAGTGGAGCA
62 AGTGGAGCAGGTTGAAGCCA-CAAGTCTTACCTCCCTGAAGTTGCAGTGGAGCA
33290743 TATTGAAGCT
Statistics
Matches: 574, Mismatches: 75, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
178 1 0.00
179 33 0.06
180 5 0.01
181 468 0.82
182 64 0.11
183 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (181 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATAGCAAAACTTATCTCCCTGAAGTTGCAGTG
GAGCAGGTTGAAGCCACAAGTCTTACCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA
TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGA
Found at i:33290157 original size:92 final size:92
Alignment explanation
Indices: 33289989--33290520 Score: 416
Period size: 92 Copynumber: 5.8 Consensus size: 92
33289979 AAGCCACAAG
* * ** * * *
33289989 TCTTATCTCTCGGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGT--AG-AGA-AGATCATAGCAAACCTTATCTCCCTGAAGTTGC
*
33290054 AGTGCAACAGGTTAAAGCTATAAATTACAGA
62 AGTGGAACAGGTTAAAGCTATAAATTACAGA
*
33290085 TCTTATCTCTCTGAAGTTGCAGTCA-AGAAGATCATATCAAACCTTATCTCCCTGAAGTTGCAGT
1 TCTTATCTCTCTGAAGTTGCAGT-AGAGAAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGT
* * *
33290149 AGAGCAGGTT---G----AATTTACA-A
65 GGAACAGGTTAAAGCTATAAATTACAGA
* * * ** * *
33290169 GTCTTACCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTG
1 -TCTTATCTCTCTGAAGTTGCAGT--AG-AGA-AGATCATAGCAAACCTTATCTCCCTGAAGTTG
*
33290234 CAGTGGAACAGATTAAAGCTATAAATTACAGA
61 CAGTGGAACAGGTTAAAGCTATAAATTACAGA
* * **
33290266 TTTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAATTTATCTCCCTGAAGTTGCAGTG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGAAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTG
** * * *
33290331 GGGCAGGTTGAAGC----CA-CA-AG-
66 GAACAGGTTAAAGCTATAAATTACAGA
* * * ** * * *
33290351 TCTTACCT-TCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTG
1 TCTTATCTCT-CTGAAGTTGCAGT--AG-AGA-AGATCATAGCAAACCTTATCTCCCTGAAGTTG
* *
33290415 TAGTGGAACAGATTGAAA-CTATAAATTACAGA
61 CAGTGGAACAGGTT-AAAGCTATAAATTACAGA
* *
33290447 TCTTATCTCTCTGAAGTTGTAGTAGAGTAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGAAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTG
*
33290512 GAGCAGGTT
66 GAACAGGTT
33290521 GAATTTACAA
Statistics
Matches: 336, Mismatches: 73, Indels: 58
0.72 0.16 0.12
Matches are distributed among these distances:
84 2 0.01
85 46 0.14
86 3 0.01
87 3 0.01
88 6 0.02
89 74 0.22
90 2 0.01
92 115 0.34
93 8 0.02
94 5 0.01
95 3 0.01
96 67 0.20
97 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (92 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGAAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTG
GAACAGGTTAAAGCTATAAATTACAGA
Found at i:33290169 original size:319 final size:319
Alignment explanation
Indices: 33289585--33290222 Score: 1071
Period size: 319 Copynumber: 2.0 Consensus size: 319
33289575 AAATTATAGA
*
33289585 TCTTATCCCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCATGAAGTTGCAGTG
1 TCTTATCCCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAACTTATCTCCATGAAGTTGCAGTG
* *
33289650 GAGCAGATTAAAGCCACAAGTCTTATCTCTCTGAAGTTGCAGTAGAGTAGACTGAAGATAGCGAA
66 GAGCAGATTAAAGCCACAAGTCTTATCTCTCGGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAA
33289715 TCTTATTTCCCTGAAGTTGCAGTGCAACAGATTAAAGCTATAAATTACAGATTCTATCTCCCTGA
131 TCTTATTTCCCTGAAGTTGCAGTGCAACAGATTAAAGCTATAAATTACAGATTCTATCTCCCTGA
* * *
33289780 AGTTGCAGTCAAGAAGATCATAGCAAACCTTATCTCTCTGAAGTTGCAGTGGGGCAGGTTGAAGT
196 AGTTGCAGTCAAGAAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGT
* * *
33289845 TACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTT
261 TACAAGTCTTACCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
* * * *
33289904 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATAGCAAAATTTATCTCCCTGAAGTTGCAGTG
1 TCTTATCCCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAACTTATCTCCATGAAGTTGCAGTG
* * * *
33289969 GGGCAGGTTGAAGCCACAAGTCTTATCTCTCGGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA
66 GAGCAGATTAAAGCCACAAGTCTTATCTCTCGGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAA
* *
33290034 TCTTATTTCCCTGAAGTTGCAGTGCAACAGGTTAAAGCTATAAATTACAGA-TCTTATCTCTCTG
131 TCTTATTTCCCTGAAGTTGCAGTGCAACAGATTAAAGCTATAAATTACAGATTC-TATCTCCCTG
* *
33290098 AAGTTGCAGTCAAGAAGATCATATCAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAT
195 AAGTTGCAGTCAAGAAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAG
33290163 TTACAAGTCTTACCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
260 TTACAAGTCTTACCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
33290223 CCCTGAAGTT
Statistics
Matches: 297, Mismatches: 21, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
318 2 0.01
319 295 0.99
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (319 bp):
TCTTATCCCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAACTTATCTCCATGAAGTTGCAGTG
GAGCAGATTAAAGCCACAAGTCTTATCTCTCGGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAA
TCTTATTTCCCTGAAGTTGCAGTGCAACAGATTAAAGCTATAAATTACAGATTCTATCTCCCTGA
AGTTGCAGTCAAGAAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGT
TACAAGTCTTACCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
Found at i:33290310 original size:362 final size:362
Alignment explanation
Indices: 33289906--33290609 Score: 1171
Period size: 362 Copynumber: 1.9 Consensus size: 362
33289896 TCTTATTTTC
*
33289906 TTATCTCTCTGAAGTTGCAGTAGAGTAGATCATAGCAAAATTTATCTCCCTGAAGTTGCAGTGGG
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAATTTATCTCCCTGAAGTTGCAGTGGG
* *
33289971 GCAGGTTGAAGCCACAAGTCTTATC-TCTCGGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAAT
66 GCAGGTTGAAGCCACAAGTCTTACCTTC-CGAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAAT
*
33290035 CTTATTTCCCTGAAGTTGCAGTGCAACAGGTT-AAAGCTATAAATTACAGATCTTATCTCTCTGA
130 CTTATTTCCCTGAAGTTGCAGTGCAACAGATTGAAA-CTATAAATTACAGATCTTATCTCTCTGA
*
33290099 AGTTGCAGTCA-AGAAGATCATATCAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAT
194 AGTTGCAGT-AGAGAAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAT
* ** * * *
33290163 TTACAAGTCTTACCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTG
258 TTACAAGTCTTACCTCCCTGAAGTTGCAATGGAGCAGACAAAAGATAACAAAGCTTATCTCCCTG
33290228 AAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATT
323 AAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATT
33290268 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAATTTATCTCCCTGAAGTTGCAGTGGG
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAATTTATCTCCCTGAAGTTGCAGTGGG
*
33290333 GCAGGTTGAAGCCACAAGTCTTACCTTCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATC
66 GCAGGTTGAAGCCACAAGTCTTACCTTCCGAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATC
* *
33290398 TTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAACTATAAATTACAGATCTTATCTCTCTGAAG
131 TTATTTCCCTGAAGTTGCAGTGCAACAGATTGAAACTATAAATTACAGATCTTATCTCTCTGAAG
* * *
33290463 TTGTAGTAGAGTAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAATTTA
196 TTGCAGTAGAGAAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAATTTA
* * *
33290528 CAAGTCTTATCTCCCTGAAGTTGCAATGGAGTAGACAAAAGATAACCAAGCTTATCTCCCTGAAG
261 CAAGTCTTACCTCCCTGAAGTTGCAATGGAGCAGACAAAAGATAACAAAGCTTATCTCCCTGAAG
*
33290593 TTGCAGTGGAGCAGATT
326 TTGCAGTGGAACAGATT
33290610 GAAGACAGGC
Statistics
Matches: 318, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
361 1 0.00
362 312 0.98
363 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (362 bp):
TTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAATTTATCTCCCTGAAGTTGCAGTGGG
GCAGGTTGAAGCCACAAGTCTTACCTTCCGAAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATC
TTATTTCCCTGAAGTTGCAGTGCAACAGATTGAAACTATAAATTACAGATCTTATCTCTCTGAAG
TTGCAGTAGAGAAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAATTTA
CAAGTCTTACCTCCCTGAAGTTGCAATGGAGCAGACAAAAGATAACAAAGCTTATCTCCCTGAAG
TTGCAGTGGAACAGATTAAAGCTATAAATTACAGATT
Found at i:33290651 original size:138 final size:137
Alignment explanation
Indices: 33290492--33290750 Score: 329
Period size: 138 Copynumber: 1.9 Consensus size: 137
33290482 AGCAAACCTT
* * * *** ** *
33290492 ATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAATTTACAAGTCTTATCTCCCTGAAGTTGCAATGG
1 ATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGACACAAACCTTATATCCCTGAAGTTGCAATGG
*
33290557 AGTAGACAAAAGATAACCAAGCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGGCTA
66 AGAAGACAAAAGAT-ACCAAGCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGGCTA
33290622 CAAATCTC
130 CAAATCTC
* * * *
33290630 ATCTCCTTAAAGTTGCCGTGGAGCATATTAAAGACACAAACCTTATATCCCTGAAGTTGCAGTGG
1 ATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGACACAAACCTTATATCCCTGAAGTTGCAATGG
*** * * *
33290695 AGAAGGTTAAAGATACCAATCTTATCTCCTTGAAGTTGCAGTGGAGCATATTGAAG
66 AGAAGACAAAAGATACCAAGCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
33290751 CTATTATTCC
Statistics
Matches: 101, Mismatches: 20, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
137 39 0.39
138 62 0.61
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (137 bp):
ATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGACACAAACCTTATATCCCTGAAGTTGCAATGG
AGAAGACAAAAGATACCAAGCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGGCTAC
AAATCTC
Found at i:33290806 original size:44 final size:44
Alignment explanation
Indices: 33290630--33290806 Score: 101
Period size: 44 Copynumber: 4.0 Consensus size: 44
33290620 TACAAATCTC
* * * * *
33290630 ATCTCCTTAAAGTTGCCGTGGAGCATATTAAAGAC-A-CAAACCTT
1 ATCTCCGTAAAGTTGCAGTGGAGCAGATTAAA-ACGATGAATCC-T
* * * * * * *
33290674 ATATCCCTGAAGTTGCAGTGGAGAAGGTT-AAA-GATACCAATCTT
1 ATCTCCGTAAAGTTGCAGTGGAGCAGATTAAAACGAT--GAATCCT
* * * * * * * *
33290718 ATCTCCTTGAAGTTGCAGTGGAGCATATTGAAGCTATTATTCCT
1 ATCTCCGTAAAGTTGCAGTGGAGCAGATTAAAACGATGAATCCT
*
33290762 ATCTCCGTAAAGTTGCAGTGGAGCGGATTAAAACGATGAATCCT
1 ATCTCCGTAAAGTTGCAGTGGAGCAGATTAAAACGATGAATCCT
33290806 A
1 A
33290807 CACCTCTGAG
Statistics
Matches: 99, Mismatches: 28, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 87 0.88
45 6 0.06
46 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
ATCTCCGTAAAGTTGCAGTGGAGCAGATTAAAACGATGAATCCT
Found at i:33291097 original size:15 final size:16
Alignment explanation
Indices: 33291077--33291109 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
33291067 GATCAGGCCC
*
33291077 AAATCAGAC-CAAAAA
1 AAATCAAACACAAAAA
33291092 AAATCAAACACAAAAA
1 AAATCAAACACAAAAA
33291108 AA
1 AA
33291110 TGAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.73, C:0.18, G:0.03, T:0.06
Consensus pattern (16 bp):
AAATCAAACACAAAAA
Found at i:33296386 original size:7 final size:7
Alignment explanation
Indices: 33296374--33296412 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
33296364 TAACATTTCT
33296374 TTTTAGA
1 TTTTAGA
33296381 TTTTAGA
1 TTTTAGA
33296388 TTTTAGA
1 TTTTAGA
*
33296395 TTTTATA
1 TTTTAGA
33296402 TTTTAGA
1 TTTTAGA
33296409 TTTT
1 TTTT
33296413 TTTTAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (7 bp):
TTTTAGA
Found at i:33298304 original size:20 final size:20
Alignment explanation
Indices: 33298279--33298337 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
33298269 AACATTACAT
33298279 TAACTTTAATATTAAGATAA
1 TAACTTTAATATTAAGATAA
33298299 TAACTTTAATATTAA-ATTAA
1 TAACTTTAATATTAAGA-TAA
* *
33298319 TAA-ATTACTATTAAGATAA
1 TAACTTTAATATTAAGATAA
33298338 GTATTAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 13 0.37
20 22 0.63
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (20 bp):
TAACTTTAATATTAAGATAA
Found at i:33300005 original size:16 final size:16
Alignment explanation
Indices: 33299984--33300014 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33299974 CTATGCATGC
*
33299984 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
33300000 AAAATACAAAAGACA
1 AAAATACAAAAGACA
33300015 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:33306009 original size:17 final size:17
Alignment explanation
Indices: 33305987--33306023 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
33305977 TCCCTCCTCC
33305987 TTTTTCCATCACTTCAA
1 TTTTTCCATCACTTCAA
33306004 TTTTTCCATCACTTCAA
1 TTTTTCCATCACTTCAA
33306021 TTT
1 TTT
33306024 AATCATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTTTCCATCACTTCAA
Found at i:33307550 original size:19 final size:18
Alignment explanation
Indices: 33307526--33307564 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
33307516 ACTTATTTCA
33307526 AATTATTCTTCTAAAAAAT
1 AATTATT-TTCTAAAAAAT
* *
33307545 AATTATTTTTTCAAAAAT
1 AATTATTTTCTAAAAAAT
33307563 AA
1 AA
33307565 CATAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTATTTTCTAAAAAAT
Found at i:33307595 original size:2 final size:2
Alignment explanation
Indices: 33307588--33307613 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33307578 AAAATAAAAC
33307588 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
33307614 TCCAATCATT
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):
AT
Found at i:33311191 original size:14 final size:14
Alignment explanation
Indices: 33311172--33311204 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
33311162 AAAGGGACCG
33311172 TTTGATTTTAGGGA
1 TTTGATTTTAGGGA
33311186 TTTGATTTTAGGGA
1 TTTGATTTTAGGGA
33311200 TTTGA
1 TTTGA
33311205 GAGCTTTGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (14 bp):
TTTGATTTTAGGGA
Found at i:33314108 original size:3 final size:3
Alignment explanation
Indices: 33314102--33314137 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
33314092 AGATTATTAA
*
33314102 ATG ATG ATG ATG ATG ATG ATG ATG ATG ACG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
33314138 GTGACAAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:33314615 original size:2 final size:2
Alignment explanation
Indices: 33314608--33314638 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
33314598 AAGAAAATGT
*
33314608 GA GA GA GA AA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
33314639 TTTCTTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:33319207 original size:12 final size:12
Alignment explanation
Indices: 33319190--33319215 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33319180 AAAAAATTAA
33319190 AATTAATAAAAT
1 AATTAATAAAAT
33319202 AATTAATAAAAT
1 AATTAATAAAAT
33319214 AA
1 AA
33319216 CAAGTACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATTAATAAAAT
Found at i:33320144 original size:15 final size:15
Alignment explanation
Indices: 33320122--33320156 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
33320112 AAAGAATCAC
*
33320122 ATTTTTTTTTAATTTG
1 ATTTTTTTGT-ATTTG
33320138 ATTTTTTTGTATTTG
1 ATTTTTTTGTATTTG
33320153 ATTT
1 ATTT
33320157 CTCTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (15 bp):
ATTTTTTTGTATTTG
Found at i:33323914 original size:18 final size:17
Alignment explanation
Indices: 33323888--33323922 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33323878 GTAATTTAAA
33323888 TTTTATTATATGTATATG
1 TTTTATTATAT-TATATG
*
33323906 TTTTTTTATATTATATG
1 TTTTATTATATTATATG
33323923 CAAATGATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (17 bp):
TTTTATTATATTATATG
Found at i:33326137 original size:2 final size:2
Alignment explanation
Indices: 33326130--33326157 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
33326120 TATCAACATC
33326130 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
33326158 TTCATTCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33326937 original size:21 final size:21
Alignment explanation
Indices: 33326907--33326991 Score: 84
Period size: 21 Copynumber: 4.0 Consensus size: 21
33326897 CGAAAACGCC
*
33326907 AACAAAAGCTCATAAGAGCTG
1 AACAATAGCTCATAAGAGCTG
*
33326928 AACAATAGCTCAAAAGAGCTG
1 AACAATAGCTCATAAGAGCTG
* * *
33326949 AAC-ATAAGCTCGTGAGAGCTA
1 AACAAT-AGCTCATAAGAGCTG
*
33326970 AACAGAT-GCTCGTAAGAGCTG
1 AACA-ATAGCTCATAAGAGCTG
33326991 A
1 A
33326992 TCCACCCGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.04
21 49 0.92
23 2 0.04
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.16
Consensus pattern (21 bp):
AACAATAGCTCATAAGAGCTG
Found at i:33327396 original size:17 final size:18
Alignment explanation
Indices: 33327356--33327397 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
33327346 GATCTAAATT
* *
33327356 AATAATTTCATTCAATAT
1 AATAATTTCATACAATAA
*
33327374 ATTAATTT-ATACAATAA
1 AATAATTTCATACAATAA
33327391 AATAATT
1 AATAATT
33327398 CATTTCATGC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAATTTCATACAATAA
Found at i:33338844 original size:31 final size:31
Alignment explanation
Indices: 33338807--33338868 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
33338797 AATAGTCATA
*
33338807 GAACTATTCGAAAGTTCTCATTTAAGCCATT
1 GAACTATTCAAAAGTTCTCATTTAAGCCATT
* * *
33338838 GAACTATTCAAAAGTTTTTATTTAAGTCATT
1 GAACTATTCAAAAGTTCTCATTTAAGCCATT
33338869 AGATTGTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (31 bp):
GAACTATTCAAAAGTTCTCATTTAAGCCATT
Found at i:33339967 original size:18 final size:19
Alignment explanation
Indices: 33339934--33339969 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33339924 ATTTTTTTTA
*
33339934 ATTTTATTTATGTAATTAG
1 ATTTTATTTATATAATTAG
33339953 ATTTT-TTTATATAATTA
1 ATTTTATTTATATAATTA
33339970 AAGGTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
ATTTTATTTATATAATTAG
Found at i:33340428 original size:16 final size:16
Alignment explanation
Indices: 33340394--33340428 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
33340384 CCAAATTAAG
*
33340394 TTTTATATGTTCATAA
1 TTTTATATGTGCATAA
*
33340410 TTTTATATGTGCATTA
1 TTTTATATGTGCATAA
33340426 TTT
1 TTT
33340429 CATTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.60
Consensus pattern (16 bp):
TTTTATATGTGCATAA
Found at i:33353364 original size:2 final size:2
Alignment explanation
Indices: 33353359--33353393 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
33353349 TCCTTTTATT
33353359 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
33353394 TCATATTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:33357403 original size:20 final size:19
Alignment explanation
Indices: 33357358--33357404 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
33357348 ATATGTATGT
* **
33357358 ATATATGTATATATAAATT
1 ATATAAGTATATATAAAAA
33357377 ATA-AAGTATATATAAAAAA
1 ATATAAGTATATAT-AAAAA
33357396 ATATAAGTA
1 ATATAAGTA
33357405 CGTACATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 9 0.39
19 9 0.39
20 5 0.22
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (19 bp):
ATATAAGTATATATAAAAA
Found at i:33357450 original size:18 final size:18
Alignment explanation
Indices: 33357427--33357466 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
33357417 AAAATTAAAA
33357427 ATATGTAAGTATGTATAT
1 ATATGTAAGTATGTATAT
33357445 ATATGTAAGTATGTATAT
1 ATATGTAAGTATGTATAT
33357463 ATAT
1 ATAT
33357467 AACAAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (18 bp):
ATATGTAAGTATGTATAT
Found at i:33357505 original size:3 final size:3
Alignment explanation
Indices: 33357497--33357592 Score: 104
Period size: 3 Copynumber: 30.7 Consensus size: 3
33357487 TAAATGGGTA
33357497 AAT AAT AAT AAT AAT AAGGT AAGT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AA--T AA-T AAT AAT AAT AAT AAT AAT AAT AAT
* ** *
33357545 AAT AAT AA- AACT AAT TAT TTT AAT AAT AAT AAT AAT AAAT AAC AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
33357591 AA
1 AA
33357593 CGAGACTAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
2 2 0.02
3 68 0.83
4 9 0.11
5 3 0.04
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33358748 original size:19 final size:19
Alignment explanation
Indices: 33358712--33358763 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
33358702 TTTTATTCGG
*
33358712 GTTTGGGCCACAT-TTTTAT
1 GTTTGGGCCAC-TGGTTTAT
33358731 GTTTGGGCCACTGGTTTAT
1 GTTTGGGCCACTGGTTTAT
*
33358750 TTATTGGGCC-CTGG
1 GT-TTGGGCCACTGG
33358764 CAAATGGGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 1 0.03
19 21 0.72
20 7 0.24
ACGTcount: A:0.12, C:0.17, G:0.29, T:0.42
Consensus pattern (19 bp):
GTTTGGGCCACTGGTTTAT
Found at i:33362454 original size:2 final size:2
Alignment explanation
Indices: 33362447--33362481 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
33362437 GTCTCAAACA
33362447 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33362482 ATTTATGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33372349 original size:2 final size:2
Alignment explanation
Indices: 33372342--33372380 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
33372332 AATGTATAAG
33372342 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33372381 AAGTATAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:33374785 original size:25 final size:27
Alignment explanation
Indices: 33374755--33374808 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 27
33374745 GATACATTTA
* *
33374755 AAATATTCATGA-TAAATTAAAA-AAT
1 AAATATACATGACTAAATCAAAATAAT
33374780 AAATATACATGACTAAATCAAAATAAT
1 AAATATACATGACTAAATCAAAATAAT
33374807 AA
1 AA
33374809 TCCATAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 11 0.44
26 9 0.36
27 5 0.20
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.28
Consensus pattern (27 bp):
AAATATACATGACTAAATCAAAATAAT
Found at i:33376327 original size:41 final size:41
Alignment explanation
Indices: 33376268--33376727 Score: 196
Period size: 44 Copynumber: 10.8 Consensus size: 41
33376258 AGTGGCTTTA
* *
33376268 ATCTACTCCACTGTAACTTCAGGGAGATAAGACTAGATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
* * * * * ***
33376309 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TAGATGCG
* * * ** *
33376353 ATCCGCTCCACTGTAGCTTCAGGGAGATAGGATTGACT-TCTTCTG
1 ATCTGCTCCACTGCAACTTCAGGGAGATA--A--GACTAGATGC-G
33376398 -TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
* ** *
33376438 ATCTGCTCTACTGCAACTTCAGATAAATAAGA-TATG-TG-G
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTA-GATGCG
* * * * * * *
33376477 TTTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTGGCTTCTTCTG
1 -----ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG---ATGC-G
* * *
33376527 -TCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
* * * * * ***
33376567 ATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TAGATGCG
* * * * * *
33376611 ATCTGCTCCACTGCAATTTCAGTGAGATAGGATTAGCTTCTTCTG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG---ATGC-G
* * * *
33376656 -TTTGCTCCACTGTAACTTCAGGAAGATAAGACTGGATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
* *
33376696 ATCTGCTCTACTGCAACTTCAGAGAGATAAGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA
33376728 TCTGTGGTGA
Statistics
Matches: 311, Mismatches: 76, Indels: 64
0.69 0.17 0.14
Matches are distributed among these distances:
39 1 0.00
40 10 0.03
41 118 0.38
42 3 0.01
44 171 0.55
45 2 0.01
46 1 0.00
47 1 0.00
48 3 0.01
50 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (41 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
Found at i:33376468 original size:129 final size:129
Alignment explanation
Indices: 33376273--33376961 Score: 736
Period size: 129 Copynumber: 5.2 Consensus size: 129
33376263 CTTTAATCTA
* *
33376273 CTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
* *
33376338 AGATCTGTGGTTTTAATCCGCTCCACTGTAGCTTCAGGGAGATAGGATTGACTTCTTCTGTCTG
66 AGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGACTTCTTCTGTCTG
* *
33376402 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGATAAATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
* * *
33376467 AGATATGTGGTTTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTGGCTTCTTCTGTCTG
66 AGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGACTTCTTCTGTCTG
* * * *
33376531 CTCCACTACAACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTTAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
* * * *
33376596 AGATCTGTGGTTTTAATCTGCTCCACTGCAATTTCAGTGAGATAGGATT-AGCTTCTTCTGTTTG
66 AGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGA-CTTCTTCTGTCTG
* * *
33376660 CTCCACTGTAACTTCAGGAAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
* * * * * *
33376725 AGATCTGTGGTGATTTGTAGCTTTAATCTGTTCCACTGCAACGTCAGAGAAATAAGATTCG-CTA
66 AGATC--T-GTG----GT---TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT-GACT-
*
33376789 TCTTCAGTCTG
119 TCTTCTGTCTG
** * * * * * * * *
33376800 CTCTGCTGTAACTTCAGGGAGATAAGACTTGTAACTTCAATCCGCTCCACTGCAACTTCAGGGAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAG--A-TGCGATCTGCTCTACTGCAACTTCAGAGAG
* * * * ** * * * *
33376865 ATAGGAT-TATTGGCTTTAATCTGCTCCACTGCAACTTCAATGAGATAAGATTCGCCATCTTCAG
63 ATAAGATCT-GTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT-GACTTCTTCTG
33376929 TCTG
126 TCTG
* * * *
33376933 CCCCATTGCAACTTTAGGGGGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
33376962 TGCTTTCTTT
Statistics
Matches: 480, Mismatches: 62, Indels: 32
0.84 0.11 0.06
Matches are distributed among these distances:
129 300 0.62
131 1 0.00
132 3 0.01
133 68 0.14
134 1 0.00
136 3 0.01
139 34 0.07
140 39 0.08
142 1 0.00
143 30 0.06
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (129 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
AGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGACTTCTTCTGTCTG
Found at i:33376618 original size:85 final size:85
Alignment explanation
Indices: 33376238--33376639 Score: 275
Period size: 85 Copynumber: 4.7 Consensus size: 85
33376228 ATTCCGCTGT
* * * *
33376238 AACTTCATGA-AGATAAG-GCTAGTGGCTTTAATCTACTCCACTGTAACTTCAGGGAGATAAGAC
1 AACTTCA-GAGAGATAAGATCT-GTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAC
* * *
33376301 TAGATGCGATCTACTCTACTGC
64 TGGATGCAATCTGCTCTACTGC
* * * * *
33376323 AACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAGCTTCAGGGAGATAGGA-TT
1 AACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTG
* *
33376387 GACTTC-TTCTGTCTGCTCCACTGC
66 GA-TGCAATCTG-CT-CT--ACTGC
* * * *** * ** *
33376411 AACTTCAGGGAGATAAGA-C--TAGATGCGATCTGCTCTACTGCAACTTCAGATAAATAAGATAT
1 AACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG--A-
* * ** * *
33376473 GTGGTTTTAATCCGCTCCACTGC
63 CTGGATGCAATCTGCTCTACTGC
* * ** *
33376496 AACTTCAG-GAAGATAGGAT-TG-GCTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGATAAGA
1 AACTTCAGAG-AGATAAGATCTGTGGTT-TT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGA
33376558 CTGGATGCAATCTGCTCTACTGC
63 CTGGATGCAATCTGCTCTACTGC
* * *
33376581 AACTTTAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAATTTCAGTGAGATA
1 AACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
33376640 GGATTAGCTT
Statistics
Matches: 239, Mismatches: 57, Indels: 42
0.71 0.17 0.12
Matches are distributed among these distances:
84 9 0.04
85 157 0.66
86 11 0.05
87 6 0.03
88 51 0.21
89 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (85 bp):
AACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTG
GATGCAATCTGCTCTACTGC
Found at i:33376857 original size:44 final size:45
Alignment explanation
Indices: 33376749--33376959 Score: 167
Period size: 44 Copynumber: 4.7 Consensus size: 45
33376739 TTGTAGCTTT
* * * *
33376749 AATCTGTTCCACTGCAACGTCAGAGAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTC
* ** * *
33376794 AGTCTGCTCTGCTGTAACTTCAGGGAGATAAGACTT-G-TAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTATCTTC
* * * ** ** *
33376838 AATCCGCTCCACTGCAACTTCAGGGAAATAGGATT-ATTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTC
** *
33376882 AATCTGCTCCACTGCAACTTCAATGAGATAAGATTCGCCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTC
* * * * *
33376927 AGTCTGCCCCATTGCAACTTTAGGGGGATAAGA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA
33376960 CTTGCTTTCT
Statistics
Matches: 125, Mismatches: 38, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
43 2 0.02
44 66 0.53
45 55 0.44
46 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTC
Found at i:33383184 original size:14 final size:13
Alignment explanation
Indices: 33383158--33383208 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
33383148 GTTTATTTGA
33383158 AATATAATAATAT
1 AATATAATAATAT
33383171 AATATAATTAATAT
1 AATATAA-TAATAT
* *
33383185 AAT-TTACAATAT
1 AATATAATAATAT
*
33383197 AATAAAATAATA
1 AATATAATAATA
33383209 ATATACTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 8 0.26
13 14 0.45
14 9 0.29
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
AATATAATAATAT
Found at i:33384372 original size:16 final size:16
Alignment explanation
Indices: 33384351--33384381 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33384341 TCTTCAAGTG
33384351 AAGAAAGAATACGCCC
1 AAGAAAGAATACGCCC
*
33384367 AAGAAAGAGTACGCC
1 AAGAAAGAATACGCC
33384382 TCAAAGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.23, G:0.23, T:0.06
Consensus pattern (16 bp):
AAGAAAGAATACGCCC
Found at i:33386586 original size:102 final size:103
Alignment explanation
Indices: 33386420--33386621 Score: 293
Period size: 102 Copynumber: 2.0 Consensus size: 103
33386410 CCAGTGATTT
* * *
33386420 GGGGAATCAGCACTTAGCAACTCCTTTCACATTCACAGATATGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACTCCCTTCACATTCACAAATACGGTGGAATCAGCACTTAGCAACC
* *
33386485 ACCAATGATTC-GAGGAATCAACACTTAGCAGCCCCTTG
66 ACCAATGAATCAG-GGAATCAACACTTAGCAACCCCTTG
* *
33386523 GGGGAATCAGCACTTAGCAAAC-CCCTTCACATTTA-AAATACGGTGGGATCAGCACTTAGCAAC
1 GGGGAATCAGCACTTAGC-AACTCCCTTCACATTCACAAATACGGTGGAATCAGCACTTAGCAAC
*
33386586 CACCAATGAATCAGGGAATCAGCACTTAGCAACCCC
65 CACCAATGAATCAGGGAATCAACACTTAGCAACCCC
33386622 CTTTATATTC
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
102 56 0.63
103 30 0.34
104 3 0.03
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACTCCCTTCACATTCACAAATACGGTGGAATCAGCACTTAGCAACC
ACCAATGAATCAGGGAATCAACACTTAGCAACCCCTTG
Found at i:33386612 original size:33 final size:33
Alignment explanation
Indices: 33386570--33386698 Score: 132
Period size: 33 Copynumber: 3.6 Consensus size: 33
33386560 ATACGGTGGG
*
33386570 ATCAGCACTTAGCAACCACCAATGAATCAGGGA
1 ATCAGCACTTAGCAACCCCCAATGAATCAGGGA
* *
33386603 ATCAGCACTTAGCAACCCCCTTTATATTCAAAGATACGGTGGA
1 ATCAGCACTTAGCAACCCCC---A-A-T--GA-AT-CAG-GGA
*
33386646 ATCAGCACTTAGCAACCCCCGATGAATCAGGGA
1 ATCAGCACTTAGCAACCCCCAATGAATCAGGGA
33386679 ATCAGCACTTAGCAACCCCC
1 ATCAGCACTTAGCAACCCCC
33386699 TTTATATTCA
Statistics
Matches: 80, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
33 42 0.52
34 2 0.03
35 2 0.03
36 2 0.03
37 1 0.01
38 2 0.03
39 1 0.01
40 1 0.01
41 2 0.03
42 2 0.03
43 23 0.29
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.19
Consensus pattern (33 bp):
ATCAGCACTTAGCAACCCCCAATGAATCAGGGA
Found at i:33386661 original size:43 final size:43
Alignment explanation
Indices: 33386600--33386738 Score: 172
Period size: 43 Copynumber: 3.5 Consensus size: 43
33386590 AATGAATCAG
33386600 GGAATCAGCACTTAGCAACCCCCTTTATATTCAAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTTATATTCAAAGATACGGT
* * *
33386643 GGAATCAGCACTTAGCAACCCCC----GA-T--GA-AT-CAG-
1 GGAATCAGCACTTAGCAACCCCCTTTATATTCAAAGATACGGT
*
33386676 GGAATCAGCACTTAGCAACCCCCTTTATATTCAAGGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTTATATTCAAAGATACGGT
33386719 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
33386739 ATCAATGAGT
Statistics
Matches: 79, Mismatches: 7, Indels: 20
0.75 0.07 0.19
Matches are distributed among these distances:
33 23 0.29
34 2 0.03
35 2 0.03
36 1 0.01
37 1 0.01
38 2 0.03
39 1 0.01
41 2 0.03
42 2 0.03
43 43 0.54
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (43 bp):
GGAATCAGCACTTAGCAACCCCCTTTATATTCAAAGATACGGT
Found at i:33386661 original size:76 final size:76
Alignment explanation
Indices: 33386524--33386785 Score: 409
Period size: 76 Copynumber: 3.5 Consensus size: 76
33386514 AGCCCCTTGG
* * * * *
33386524 GGGAATCAGCACTTAGCAAACCCCTTCACATTTAAA-ATACGGTGGGATCAGCACTTAGCAACCA
1 GGGAATCAGCACTTAGCAACCCCCTTTATATTCAAAGATACGGTGGAATCAGCACTTAGCAACCA
33386588 CCAATGAATCA
66 CCAATGAATCA
*
33386599 GGGAATCAGCACTTAGCAACCCCCTTTATATTCAAAGATACGGTGGAATCAGCACTTAGCAACCC
1 GGGAATCAGCACTTAGCAACCCCCTTTATATTCAAAGATACGGTGGAATCAGCACTTAGCAACCA
*
33386664 CCGATGAATCA
66 CCAATGAATCA
*
33386675 GGGAATCAGCACTTAGCAACCCCCTTTATATTCAAGGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGAATCAGCACTTAGCAACCCCCTTTATATTCAAAGATACGGTGGAATCAGCACTTAGCAACCA
* * *
33386740 TCAATGAGTCG
66 CCAATGAATCA
*
33386751 GGGAATCAACACTTAGCAACCCCCTTTATATTCAA
1 GGGAATCAGCACTTAGCAACCCCCTTTATATTCAA
33386786 TGTACTCCGG
Statistics
Matches: 172, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
75 32 0.19
76 140 0.81
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (76 bp):
GGGAATCAGCACTTAGCAACCCCCTTTATATTCAAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCA
Found at i:33394214 original size:102 final size:103
Alignment explanation
Indices: 33394029--33394225 Score: 297
Period size: 102 Copynumber: 1.9 Consensus size: 103
33394019 CCAGTGATTC
* * * *
33394029 GGGGAATTAGCACTTCGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
* * *
33394094 ACCAATTATTCGGTGAATCAGCACTTAGCAGCCCCTTG
66 ACCAATGAATCGGGGAATCAGCACTTAGCAGCCCCTTG
* * *
33394132 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAA-ATACGGTGGGATCAGCTCTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
33394196 ACCAATGAATCGGGGAATCAGCACTTAGCA
66 ACCAATGAATCGGGGAATCAGCACTTAGCA
33394226 ACGCCCTTTA
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
102 51 0.61
103 33 0.39
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
ACCAATGAATCGGGGAATCAGCACTTAGCAGCCCCTTG
Found at i:33394227 original size:75 final size:70
Alignment explanation
Indices: 33394104--33394312 Score: 269
Period size: 70 Copynumber: 2.9 Consensus size: 70
33394094 ACCAATTATT
* * * *
33394104 CGGT-GAATCAGCACTTAGCAGCCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAA
1 CGGTGGAATCAGCACTTAGCAACCCCTTCGGGGAATCAGCACTTAGCAACCCCCTTTACATTCAA
33394168 A-ATA
66 AGATA
* * * *
33394172 CGGTGGGATCAGCTCTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACGCCCTTTAT
1 CGGTGGAATCAGCACTTAGCAACC-CC--T---TCGGGGAATCAGCACTTAGCAACCCCCTTTAC
33394237 ATTCAAAGATA
60 ATTCAAAGATA
*
33394248 CGGTGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTTACATTCAA
1 CGGTGGAATCAGCACTTAGCAACCCCTTCGGGGAATCAGCACTTAGCAACCCCCTTTACATTCAA
33394313 TGTACTCCGA
Statistics
Matches: 120, Mismatches: 13, Indels: 14
0.82 0.09 0.10
Matches are distributed among these distances:
68 4 0.03
69 16 0.13
70 37 0.31
72 1 0.01
73 1 0.01
75 36 0.30
76 25 0.21
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (70 bp):
CGGTGGAATCAGCACTTAGCAACCCCTTCGGGGAATCAGCACTTAGCAACCCCCTTTACATTCAA
AGATA
Found at i:33395392 original size:4 final size:4
Alignment explanation
Indices: 33395383--33395428 Score: 92
Period size: 4 Copynumber: 11.5 Consensus size: 4
33395373 AGATATTAAA
33395383 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
33395429 TGAAATGTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:33401402 original size:40 final size:40
Alignment explanation
Indices: 33401331--33401466 Score: 141
Period size: 42 Copynumber: 3.3 Consensus size: 40
33401321 AGCTCTCACA
* *
33401331 AGCTTTTGTTCAA-CTTATATGAGTTTCCGTTCAGCT-TTATTG
1 AGCTTCTGTTCAACCCT-TATG-GTTT-CGTTCAGCTCTTA-TG
* * *
33401373 AGCTTCTGTTTAACCCTTATGGTTTCGTTCAGGTCTTACG
1 AGCTTCTGTTCAACCCTTATGGTTTCGTTCAGCTCTTATG
* *
33401413 AGCTTCTGTTCAACCCTTATGGGTTTCTGTTTAGCTCTCATG
1 AGCTTCTGTTCAACCCTTAT-GGTTTC-GTTCAGCTCTTATG
33401455 AGCTTCTGTTCA
1 AGCTTCTGTTCA
33401467 GCCTTTGGGC
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
40 28 0.35
41 13 0.16
42 37 0.46
43 2 0.03
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.44
Consensus pattern (40 bp):
AGCTTCTGTTCAACCCTTATGGTTTCGTTCAGCTCTTATG
Found at i:33401440 original size:21 final size:21
Alignment explanation
Indices: 33401376--33401443 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
33401366 TTTATTGAGC
*
33401376 TTCTGTTTAACCCTTAT-GGT
1 TTCTGTTCAACCCTTATGGGT
*** * * *
33401396 TTC-GTTCAGGTCTTACGAGC
1 TTCTGTTCAACCCTTATGGGT
33401416 TTCTGTTCAACCCTTATGGGT
1 TTCTGTTCAACCCTTATGGGT
33401437 TTCTGTT
1 TTCTGTT
33401444 TAGCTCTCAT
Statistics
Matches: 33, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
19 8 0.24
20 7 0.21
21 18 0.55
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (21 bp):
TTCTGTTCAACCCTTATGGGT
Found at i:33406262 original size:33 final size:33
Alignment explanation
Indices: 33406211--33406506 Score: 175
Period size: 33 Copynumber: 8.7 Consensus size: 33
33406201 TTATCCGTTA
* *
33406211 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
33406245 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATACAATGGT
1 TCGGGGAATCAGCACTTAGCAA---C---CAC---CAATGAT
* *
33406287 ACGGTGGAATCAGCACTTAGCAACCACCAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
* * * *
33406321 TCGGGGAATCAACATTTATCAACCACCAATGAA
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
* **
33406354 TCGGGGAATCATCACTTAGCAACC-CC-CCG--
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
* *
33406383 --GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAAT
1 TCGGGGAATCAGCACTTAGCAA-CCAC--CA-A--T--GAT
* *
33406422 ACGGTGGAATCAGCACTTAGCAACCACCAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
33406456 TCGGGGAATCAGCACTTAGCAACC-CC-----T
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
*
33406483 TGGGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
33406507 CCCTTTATAT
Statistics
Matches: 212, Mismatches: 25, Indels: 57
0.72 0.09 0.19
Matches are distributed among these distances:
27 42 0.20
28 2 0.01
29 1 0.00
31 2 0.01
32 4 0.02
33 84 0.40
34 16 0.08
36 2 0.01
37 3 0.01
38 1 0.00
39 5 0.02
40 1 0.00
41 5 0.02
42 26 0.12
43 18 0.08
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:33406391 original size:27 final size:27
Alignment explanation
Indices: 33406356--33406407 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
33406346 CCAATGAATC
*
33406356 GGGGAATCATCACTTAGCAACCCCCCG
1 GGGGAATCAGCACTTAGCAACCCCCCG
33406383 GGGGAATCAGCACTTAGCAACCCCC
1 GGGGAATCAGCACTTAGCAACCCCC
33406408 TTCACATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.37, G:0.23, T:0.13
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCCCG
Found at i:33406459 original size:102 final size:102
Alignment explanation
Indices: 33406325--33406511 Score: 320
Period size: 102 Copynumber: 1.8 Consensus size: 102
33406315 AATGAATCGG
* * *
33406325 GGAATCAACATTTATCAACCACCAATGAATCGGGGAATCATCACTTAGCAACCCCCCGGGGGAAT
1 GGAATCAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCCGGGGGAAT
33406390 CAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
66 CAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
* **
33406427 GGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAAT
1 GGAATCAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCCGGGGGAAT
33406492 CAGCACTTAGCAACCCCCTT
66 CAGCACTTAGCAACCCCCTT
33406512 TATATTCAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 79 1.00
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (102 bp):
GGAATCAACACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCCGGGGGAAT
CAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
Found at i:33413220 original size:70 final size:72
Alignment explanation
Indices: 33413086--33413292 Score: 258
Period size: 70 Copynumber: 2.8 Consensus size: 72
33413076 TATCCGTTAT
* * *
33413086 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATTAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCA-T-A-TCGGGGAATCAGCACTTAGCAACCCCCTTCAC
*
33413151 ATACAATGATA
63 ATACAA-AATA
* * *
33413162 CGGTGGAATCAGCACTTAGCAACC-CC-T-TGGGGGAATCAGCACATAGCAACCCCCTTCACATT
1 CGGTGGAATCAGCACTTAGCAACCACCATATCGGGGAATCAGCACTTAGCAACCCCCTTCACATA
*
33413224 TAAAATA
66 CAAAATA
33413231 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACC-AT--ATCGGGGAATCAGCACTTAGCAACCCCCTT
33413293 TATATTCAAT
Statistics
Matches: 115, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
69 27 0.23
70 34 0.30
72 1 0.01
73 1 0.01
75 29 0.25
76 23 0.20
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.21
Consensus pattern (72 bp):
CGGTGGAATCAGCACTTAGCAACCACCATATCGGGGAATCAGCACTTAGCAACCCCCTTCACATA
CAAAATA
Found at i:33416883 original size:13 final size:12
Alignment explanation
Indices: 33416852--33416884 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
33416842 ATAAAATTTA
33416852 GAATTTTTCCAT
1 GAATTTTTCCAT
33416864 GAATTTTTCCAT
1 GAATTTTTCCAT
33416876 GAATTTTTC
1 GAATTTTTC
33416885 ATCTTTACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (12 bp):
GAATTTTTCCAT
Found at i:33422320 original size:50 final size:49
Alignment explanation
Indices: 33422261--33422402 Score: 137
Period size: 50 Copynumber: 2.9 Consensus size: 49
33422251 CATTGGGATT
* *
33422261 ATGAGAGGTCCCGTGTAAGACCATGTCTAGGACATGGCATTGGCACTC-AG
1 ATGAAAGGTCCC-TGTAAGACCATGTCTGGGACATGGCATTGGCAC-CGAG
** * *
33422311 ATGAAAGGTCTCCCATAAGACCATGTC-GGGACATGGCATGGGCACCGAT
1 ATGAAAGGTC-CCTGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* * *
33422360 ATGAGAA-CTCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 ATGA-AAGGTCCC-TGTAAGACCATGTCTGGGACATGGCATTGG
33422403 TAGTACAGAA
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
48 3 0.04
49 34 0.45
50 36 0.48
51 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (49 bp):
ATGAAAGGTCCCTGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
Found at i:33422379 original size:49 final size:50
Alignment explanation
Indices: 33422260--33422443 Score: 148
Period size: 49 Copynumber: 3.7 Consensus size: 50
33422250 TCATTGGGAT
** * * *
33422260 TATGAGAGGTCCCGTGTAAGACCATGTCTAGGACATGGCATTGGCACTCA
1 TATGAGAACTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTCA
*
33422310 GATGA-AAGGTCTCCCA--TAAGACCATGTC-GGGACATGGCATGGGCAC-CGA
1 TATGAGAA---CTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTC-A
* * * * *
33422359 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGTAGT-A
1 TATGAGAACTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTCA
* * *
33422408 CA-GAAAACATCCCATGTAAGACTATGTCTGGGACAT
1 TATGAGAAC-TCCCATGTAAGACCATGTCTGGGACAT
33422444 AGCTTTGGCA
Statistics
Matches: 107, Mismatches: 17, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
47 6 0.06
48 6 0.06
49 59 0.55
50 32 0.30
52 4 0.04
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (50 bp):
TATGAGAACTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTCA
Found at i:33422679 original size:20 final size:20
Alignment explanation
Indices: 33422654--33422692 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33422644 TGAGTTATTT
33422654 AAGTAAGAAAGTAAGTGAAC
1 AAGTAAGAAAGTAAGTGAAC
**
33422674 AAGTAAGTGAGTAAGTGAA
1 AAGTAAGAAAGTAAGTGAA
33422693 GCGAGTAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.28, T:0.18
Consensus pattern (20 bp):
AAGTAAGAAAGTAAGTGAAC
Found at i:33429683 original size:52 final size:52
Alignment explanation
Indices: 33429626--33429733 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
33429616 GTTCCCCGCG
*
33429626 TAACAGAGATAAAAAAAGGGACCCCTTTTACAACTCCAGAAACTGTCCCCGA
1 TAACAGAGATAAAAAAAGGGACCCATTTTACAACTCCAGAAACTGTCCCCGA
*
33429678 TAACAGAGATAAAAAAAGGGACCCATTTTACAACTCCAGAAACTGTCTCCGA
1 TAACAGAGATAAAAAAAGGGACCCATTTTACAACTCCAGAAACTGTCCCCGA
33429730 TAAC
1 TAAC
33429734 CAGTGGCCAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.19
Consensus pattern (52 bp):
TAACAGAGATAAAAAAAGGGACCCATTTTACAACTCCAGAAACTGTCCCCGA
Found at i:33430959 original size:26 final size:26
Alignment explanation
Indices: 33430897--33430960 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
33430887 GGTCTTGACA
* * *
33430897 CAATTCACATAACCATTTCATGTAAG
1 CAATTCATATAACCATTTCATATAAC
* *
33430923 C-ATTCCCTATAACCATTTCGTATAAC
1 CAATT-CATATAACCATTTCATATAAC
33430949 CAATTCATATAA
1 CAATTCATATAA
33430961 TTGTTTCATC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
25 3 0.10
26 24 0.80
27 3 0.10
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
CAATTCATATAACCATTTCATATAAC
Found at i:33432739 original size:207 final size:207
Alignment explanation
Indices: 33432384--33432796 Score: 763
Period size: 207 Copynumber: 2.0 Consensus size: 207
33432374 TTGGAAGAAG
*
33432384 ATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACATAATTAC
1 ATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACACAATTAC
*
33432449 AATTATACCCTTTTAATTTACACTCAAATCTTAACGTTTTCAAGTCTAAAACCGTCCACTACTAA
66 AATTATACCCTTTTAATTTACACCCAAATCTTAACGTTTTCAAGTCTAAAACCGTCCACTACTAA
33432514 CCATGATGGTTTAATTACCATTCTAGTCCATAAATTTTCCTTTTTAACTAATAAAACTATCTTTT
131 CCATGATGGTTTAATTACCATTCTAGTCCATAAATTTTCCTTTTTAACTAATAAAACTATCTTTT
33432579 TCGATCTTTACA
196 TCGATCTTTACA
33432591 ATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACACAATTAC
1 ATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACACAATTAC
* *
33432656 AATTATACCCTTTTAATTTACACCCAAATCTTAATGTTTTCAAGTCTAAAATCGTCCACTACTAA
66 AATTATACCCTTTTAATTTACACCCAAATCTTAACGTTTTCAAGTCTAAAACCGTCCACTACTAA
*
33432721 CCATGATGGTTTAATTACCATTCTAGTCCTTAAATTTTCCTTTTTAACTAATAAAACTATCTTTT
131 CCATGATGGTTTAATTACCATTCTAGTCCATAAATTTTCCTTTTTAACTAATAAAACTATCTTTT
**
33432786 TTTATCTTTAC
196 TCGATCTTTAC
33432797 GATTAGTCCT
Statistics
Matches: 199, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
207 199 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (207 bp):
ATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACACAATTAC
AATTATACCCTTTTAATTTACACCCAAATCTTAACGTTTTCAAGTCTAAAACCGTCCACTACTAA
CCATGATGGTTTAATTACCATTCTAGTCCATAAATTTTCCTTTTTAACTAATAAAACTATCTTTT
TCGATCTTTACA
Found at i:33434184 original size:19 final size:21
Alignment explanation
Indices: 33434160--33434209 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 21
33434150 CAGCATCTGT
33434160 ATGTATA-TC-ATTCCGAGAA
1 ATGTATATTCTATTCCGAGAA
33434179 ATGTATAAAATTCTATTCCGAGAA
1 ATGTAT---ATTCTATTCCGAGAA
33434203 ATGTATA
1 ATGTATA
33434210 AAATTTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 6 0.23
21 1 0.04
22 1 0.04
23 2 0.08
24 16 0.62
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (21 bp):
ATGTATATTCTATTCCGAGAA
Found at i:33434197 original size:24 final size:24
Alignment explanation
Indices: 33434169--33434214 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
33434159 TATGTATATC
33434169 ATTCCGAGAAATGTATAAAATTCT
1 ATTCCGAGAAATGTATAAAATTCT
33434193 ATTCCGAGAAATGTATAAAATT
1 ATTCCGAGAAATGTATAAAATT
33434215 TTATCTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (24 bp):
ATTCCGAGAAATGTATAAAATTCT
Found at i:33436639 original size:42 final size:42
Alignment explanation
Indices: 33436576--33436657 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
33436566 TGTTAAAAAG
*
33436576 ATTATGTATCAAAATAGTACATCCAAAGAGGTGGAAGGTGAA
1 ATTATGTACCAAAATAGTACATCCAAAGAGGTGGAAGGTGAA
33436618 ATTATGTACCAAAAT-GATACATCCAAAGAGGTGGAAGGTG
1 ATTATGTACCAAAATAG-TACATCCAAAGAGGTGGAAGGTG
33436658 GTACAAATTC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 1 0.03
42 37 0.97
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.23
Consensus pattern (42 bp):
ATTATGTACCAAAATAGTACATCCAAAGAGGTGGAAGGTGAA
Found at i:33448327 original size:27 final size:27
Alignment explanation
Indices: 33448297--33448352 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
33448287 TTAACATTTA
*
33448297 TAATTTTTAAAAAATAATTTATTGTTT
1 TAATTTTTAAAAAATAATTTATGGTTT
* **
33448324 TAATTTTTATAAAATTTTTTATGGTTT
1 TAATTTTTAAAAAATAATTTATGGTTT
33448351 TA
1 TA
33448353 TAAATGAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (27 bp):
TAATTTTTAAAAAATAATTTATGGTTT
Done.