Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 4 of 144
Found at i:911158 original size:30 final size:30
Alignment explanation
Indices: 911104--911297 Score: 187
Period size: 30 Copynumber: 6.4 Consensus size: 30
911094 GTTAAATTTG
*
911104 AATTTTT-AGAAACTTTAAGGGTCAAA-TCAA
1 AATTTTTGA-AAAGTTTAAGGGTCAAATTC-A
* * **
911134 AATATTTGGAAAGTTTGGGGGTCAAATTCA
1 AATTTTTGAAAAGTTTAAGGGTCAAATTCA
* *
911164 AATTTTTGAAAAGTTTATGGGTTAAATTCA
1 AATTTTTGAAAAGTTTAAGGGTCAAATTCA
* *
911194 AATTTTTGGAAAGTTTGAGGGTCAAATTCA
1 AATTTTTGAAAAGTTTAAGGGTCAAATTCA
*
911224 AATTTTTGAAAAGTTTAAGGGTCAAACTTGA
1 AATTTTTGAAAAGTTTAAGGGTCAAA-TTCA
* * * *
911255 ATTTTTTTGGAAA-TTTTAGGGATCAAATTTA
1 A-ATTTTTGAAAAGTTTAAGGG-TCAAATTCA
*
911286 AATTTTTAAAAA
1 AATTTTTGAAAA
911298 ATTTGGGGGT
Statistics
Matches: 135, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
30 104 0.77
31 17 0.13
32 14 0.10
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.39
Consensus pattern (30 bp):
AATTTTTGAAAAGTTTAAGGGTCAAATTCA
Found at i:911200 original size:90 final size:91
Alignment explanation
Indices: 911092--911293 Score: 230
Period size: 90 Copynumber: 2.2 Consensus size: 91
911082 CATTAAAACC
* * **
911092 GGGTTAAATTTGAATTTTTAGAAACTTTAAGGGTCAAA-TCAAAATATTTGGAAAGTTTGGGGGT
1 GGGTTAAATTTAAATTTTTAGAAACTTTAAGGGTCAAATTC-AAATATTTGAAAAGTTTAAGGGT
911156 CAAA-TTCAA-ATTTTTGAAAAGTTTA
65 CAAACTTCAATATTTTTGAAAAGTTTA
* * * * *
911181 TGGGTTAAATTCAAATTTTTGGAAAGTTTGAGGGTCAAATTCAAATTTTTGAAAAGTTTAAGGGT
1 -GGGTTAAATTTAAATTTTTAGAAACTTTAAGGGTCAAATTCAAATATTTGAAAAGTTTAAGGGT
* * * *
911246 CAAACTTGAATTTTTTTGGAAATTTTA
65 CAAACTTCAATATTTTTGAAAAGTTTA
*
911273 GGGATCAAATTTAAATTTTTA
1 GGG-TTAAATTTAAATTTTTA
911294 AAAAATTTGG
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
90 56 0.61
91 9 0.10
92 27 0.29
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (91 bp):
GGGTTAAATTTAAATTTTTAGAAACTTTAAGGGTCAAATTCAAATATTTGAAAAGTTTAAGGGTC
AAACTTCAATATTTTTGAAAAGTTTA
Found at i:911202 original size:60 final size:61
Alignment explanation
Indices: 911104--911311 Score: 217
Period size: 60 Copynumber: 3.4 Consensus size: 61
911094 GTTAAATTTG
* * *
911104 AATTTTT-AGAAACTTTAAGGGTCAAA--TCAAAATATTTGGAAAGTTTGGGGGTCAAATTCA
1 AATTTTTGA-AAAGTTTAAGGGTTAAACTTC-AAATTTTTGGAAAGTTTGGGGGTCAAATTCA
* *
911164 AATTTTTGAAAAGTTTATGGGTTAAA-TTCAAATTTTTGGAAAGTTTGAGGGTCAAATTCA
1 AATTTTTGAAAAGTTTAAGGGTTAAACTTCAAATTTTTGGAAAGTTTGGGGGTCAAATTCA
* * * * * * *
911224 AATTTTTGAAAAGTTTAAGGGTCAAACTTGAATTTTTTTGGAAATTTTAGGGATCAAATTTA
1 AATTTTTGAAAAGTTTAAGGGTTAAACTTCAA-ATTTTTGGAAAGTTTGGGGGTCAAATTCA
* * **
911286 AATTTTTAAAAAATTTGGGGGTTAAA
1 AATTTTTGAAAAGTTTAAGGGTTAAA
911312 AAATAATTTT
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
60 74 0.59
61 7 0.06
62 44 0.35
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.38
Consensus pattern (61 bp):
AATTTTTGAAAAGTTTAAGGGTTAAACTTCAAATTTTTGGAAAGTTTGGGGGTCAAATTCA
Found at i:918476 original size:68 final size:68
Alignment explanation
Indices: 918337--918499 Score: 209
Period size: 68 Copynumber: 2.4 Consensus size: 68
918327 GAACTTCATT
* * * * * * ** *
918337 TGTTGTCATAACCCAGCTATGGTCTTATACAATATAAACTTATGTTTATTGTCCTGGCAGATTCC
1 TGTTGCCATAACCTAGCTATGGTCTTACACAACATAAACTCATGTTTACTGTCCTAACAGACTCC
*
918402 ATA
66 AAA
* * *
918405 TGTTTCCATAGCCTGGCTATGGTCTTACACAACATAAACTCATGTTTACTGTCCTAACAGACTCC
1 TGTTGCCATAACCTAGCTATGGTCTTACACAACATAAACTCATGTTTACTGTCCTAACAGACTCC
918470 AAA
66 AAA
918473 TGTTGCCATAACCTAGCTATGGTCTTA
1 TGTTGCCATAACCTAGCTATGGTCTTA
918500 TACATTAAAC
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 79 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (68 bp):
TGTTGCCATAACCTAGCTATGGTCTTACACAACATAAACTCATGTTTACTGTCCTAACAGACTCC
AAA
Found at i:926094 original size:39 final size:39
Alignment explanation
Indices: 926040--926117 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
926030 TATACTTTTC
*
926040 TTGAACTCGAGCCTATGCCTTCTACTCATCCCACATCAT
1 TTGAACTCGAGCCTATGACTTCTACTCATCCCACATCAT
* *
926079 TTGAAC-CTGAGCCTATGACTTCTACTCCTCCCACGTCAT
1 TTGAACTC-GAGCCTATGACTTCTACTCATCCCACATCAT
926118 CTTCATTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
38 1 0.03
39 34 0.97
ACGTcount: A:0.22, C:0.36, G:0.12, T:0.31
Consensus pattern (39 bp):
TTGAACTCGAGCCTATGACTTCTACTCATCCCACATCAT
Found at i:930782 original size:30 final size:31
Alignment explanation
Indices: 930727--930809 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
930717 GCGATCAAAA
930727 CATATTATTTTGGTGAATAATTTTTTTATCT
1 CATATTATTTTGGTGAATAATTTTTTTATCT
* * *
930758 CATATTATTTTTGT-AATTATTTTTTTATTT
1 CATATTATTTTGGTGAATAATTTTTTTATCT
* **
930788 TATATTATTTTAATGAATAATT
1 CATATTATTTTGGTGAATAATT
930810 CATTTTTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 25 0.57
31 19 0.43
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (31 bp):
CATATTATTTTGGTGAATAATTTTTTTATCT
Found at i:930836 original size:6 final size:6
Alignment explanation
Indices: 930825--930866 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
930815 TTTTATGTTT
* *
930825 TTTTAG TTTTAG TTTTAG TTTTAG TTTTTAT TTTTAT TTTTA
1 TTTTAG TTTTAG TTTTAG TTTTAG -TTTTAG TTTTAG TTTTA
930867 TATCTTAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.74
Consensus pattern (6 bp):
TTTTAG
Found at i:930846 original size:18 final size:19
Alignment explanation
Indices: 930825--930866 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
930815 TTTTATGTTT
930825 TTTTAG-TTTTAGTTTTAG
1 TTTTAGTTTTTAGTTTTAG
* *
930843 TTTTAGTTTTTATTTTTAT
1 TTTTAGTTTTTAGTTTTAG
930862 TTTTA
1 TTTTA
930867 TATCTTAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.74
Consensus pattern (19 bp):
TTTTAGTTTTTAGTTTTAG
Found at i:933136 original size:17 final size:17
Alignment explanation
Indices: 933114--933148 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
933104 TTTGTAAAAA
933114 AATAATTTTAATTTTAC
1 AATAATTTTAATTTTAC
933131 AATAATTTTAATTTTAC
1 AATAATTTTAATTTTAC
933148 A
1 A
933149 TTTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (17 bp):
AATAATTTTAATTTTAC
Found at i:933198 original size:14 final size:13
Alignment explanation
Indices: 933171--933196 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
933161 ATTTATACCA
933171 AAAATAAAATTTT
1 AAAATAAAATTTT
933184 AAAATAAAATTTT
1 AAAATAAAATTTT
933197 TATAATTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAATAAAATTTT
Found at i:934568 original size:2 final size:2
Alignment explanation
Indices: 934563--934587 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
934553 AGTTTGCGTC
934563 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
934588 TTGAAATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:939706 original size:25 final size:25
Alignment explanation
Indices: 939673--939738 Score: 100
Period size: 25 Copynumber: 2.6 Consensus size: 25
939663 TAATATCAAT
939673 TTTTAACAATAAAAATTGATAATAAA
1 TTTTAACAATAAAAATTGATAA-AAA
939699 -TTTAACAATAAAAATTGATAAAAA
1 TTTTAACAATAAAAATTGATAAAAA
939723 TTTTAACAGA-AAAAAT
1 TTTTAACA-ATAAAAAT
939739 CAACTTGTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
24 3 0.08
25 34 0.89
26 1 0.03
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (25 bp):
TTTTAACAATAAAAATTGATAAAAA
Found at i:949858 original size:15 final size:15
Alignment explanation
Indices: 949838--949868 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
949828 TTCGTACTTG
949838 CACATCACCTATCTT
1 CACATCACCTATCTT
949853 CACATCACCTATCTT
1 CACATCACCTATCTT
949868 C
1 C
949869 CTCTTTCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.42, G:0.00, T:0.32
Consensus pattern (15 bp):
CACATCACCTATCTT
Found at i:952221 original size:16 final size:18
Alignment explanation
Indices: 952200--952238 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 18
952190 GAATTGAACT
952200 ATTTTTTTAT-TTTA-AA
1 ATTTTTTTATCTTTATAA
952216 A-TTTTTTATCTTTATAA
1 ATTTTTTTATCTTTATAA
952233 ATTTTT
1 ATTTTT
952239 AAATATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.40
16 5 0.25
17 3 0.15
18 4 0.20
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTTATCTTTATAA
Found at i:959495 original size:101 final size:100
Alignment explanation
Indices: 959353--959555 Score: 273
Period size: 101 Copynumber: 2.0 Consensus size: 100
959343 GCCAACACCC
* * *
959353 CTGTTTCAAAAAAAAATTCAAAATCTTTTGTGTTGGACATCAAATGGCCGACATCCCCTTTTCTC
1 CTGTTTCAAAAAAAAATTCAAAATCTTTTGTGTTAGACATCAAATGGCCGACACCCCCTGTTCTC
* *
959418 -GAAAAAAAATTGTATTTTTGTATGTCGGCCATTG
66 AGAAAAAAAATTATATTTTTGGATGTCGGCCATTG
* * * *
959452 CTGTTTCAGAAAAAAAATTTAAATTTTTTTGGTGTTAGCCATCAAATGGCCGACACCCCCTGTTC
1 CTGTTTCA-AAAAAAAATTCAAAATCTTTT-GTGTTAGACATCAAATGGCCGACACCCCCTGTTC
* *
959517 TCGAGAAAAAAAATTATATTTTTGGGTGTTGGCCATTG
64 TC-AGAAAAAAAATTATATTTTTGGATGTCGGCCATTG
959555 C
1 C
959556 ATGGCCGACA
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
99 8 0.09
100 18 0.20
101 32 0.36
103 31 0.35
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (100 bp):
CTGTTTCAAAAAAAAATTCAAAATCTTTTGTGTTAGACATCAAATGGCCGACACCCCCTGTTCTC
AGAAAAAAAATTATATTTTTGGATGTCGGCCATTG
Found at i:959584 original size:60 final size:61
Alignment explanation
Indices: 959458--959601 Score: 177
Period size: 59 Copynumber: 2.4 Consensus size: 61
959448 ATTGCTGTTT
*
959458 CAGAAAAAAAATTTAAATTTTTTTGGTGTTAGCCATCAAATGGCCGACACCCCCTGTTCTC
1 CAGAAAAAAAATTTAAATTTTTTGGGTGTTAGCCATCAAATGGCCGACACCCCCTGTTCTC
* * * *** *
959519 GAGAAAAAAAA-TTATA-TTTTTGGGTGTTGGCCATTGCATGGCCGACACCACCCTTTTCTC
1 CAGAAAAAAAATTTAAATTTTTTGGGTGTTAGCCATCAAATGGCCGACACC-CCCTGTTCTC
959579 CAG-AAAAAAATTTCAAATTTTTT
1 CAGAAAAAAAATTT-AAATTTTTT
959602 TCGTGTTGCC
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
59 35 0.51
60 17 0.25
61 12 0.17
62 5 0.07
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (61 bp):
CAGAAAAAAAATTTAAATTTTTTGGGTGTTAGCCATCAAATGGCCGACACCCCCTGTTCTC
Found at i:963377 original size:12 final size:12
Alignment explanation
Indices: 963335--963382 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
963325 ATTTGTGTAA
*
963335 AAATTAATTTGA
1 AAATTAATTTGG
963347 AAATTAATTTAAGTTG
1 AAATTAATTT--G--G
963363 AAATTAATTTGG
1 AAATTAATTTGG
963375 AAATTAAT
1 AAATTAAT
963383 GAACATGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
12 19 0.61
14 2 0.06
16 10 0.32
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (12 bp):
AAATTAATTTGG
Found at i:963501 original size:10 final size:11
Alignment explanation
Indices: 963465--963504 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
963455 TGAAGTTGAA
*
963465 ATTTAAAATGC
1 ATTTAAAATGT
963476 ATTTAAAATGT
1 ATTTAAAATGT
*
963487 ATTTAACAT-T
1 ATTTAAAATGT
963497 ATTTAAAA
1 ATTTAAAA
963505 AAAGATAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (11 bp):
ATTTAAAATGT
Found at i:963607 original size:87 final size:83
Alignment explanation
Indices: 963513--963790 Score: 348
Period size: 82 Copynumber: 3.3 Consensus size: 83
963503 AAAAAGATAG
* * * * * *
963513 TTATTATATTACAATTTATATCAAATATTGCATTAATTTGATAATACATTATTTATCAAATTTTC
1 TTATTATATTACAATTTTTATCATATAATGTATTGATTTGATAATACATTATTTAT-TAATTTT-
963578 ATA-TTTAAAGTACAAATTATT
64 ATACTTTAAA-TA-AAATTATT
* * *
963599 ATTATTATATTATAATTTTTATTATATAATGTATTGATTTGATAATATATTATTTATTAATTTTA
1 -TTATTATATTACAATTTTTATCATATAATGTATTGATTTGATAATACATTATTTATTAATTTTA
963664 TATCTTTAAATAAAA--ATT
65 TA-CTTTAAATAAAATTATT
* *
963682 TTATTACATTACAATTTTTATCATATAATGTGTTGATTTGATAATACATTATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTATTGATTTGATAATACATTATTTATTAATTTTAT
*
963747 ATCTTTAAAT-AAATTTTT
66 A-CTTTAAATAAAATTATT
*
963765 TTATTATATTACGATTTTTATCATAT
1 TTATTATATTACAATTTTTATCATAT
963791 TTTAAATTTA
Statistics
Matches: 170, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
81 3 0.02
82 70 0.41
83 29 0.17
85 6 0.04
86 8 0.05
87 54 0.32
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (83 bp):
TTATTATATTACAATTTTTATCATATAATGTATTGATTTGATAATACATTATTTATTAATTTTAT
ACTTTAAATAAAATTATT
Found at i:963998 original size:20 final size:20
Alignment explanation
Indices: 963952--964000 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
963942 ACGTCCCGAT
*
963952 ACCGCCGTTGACCACCGTTG
1 ACCGCCGTTGACCAACGTTG
* *
963972 ACTGCCGTTGACCAACTTTG
1 ACCGCCGTTGACCAACGTTG
*
963992 TCCGCCGTT
1 ACCGCCGTT
964001 AATCGAGTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.14, C:0.37, G:0.22, T:0.27
Consensus pattern (20 bp):
ACCGCCGTTGACCAACGTTG
Found at i:965718 original size:24 final size:24
Alignment explanation
Indices: 965667--965720 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
965657 TCAGATTCCG
*
965667 AGCCCGAGGATGAGCCCAATGACG
1 AGCCCGAGGATGAGCCCAATGACC
* * * *
965691 AGCCCGCGGATGAGGCCGATTACC
1 AGCCCGAGGATGAGCCCAATGACC
965715 AGCCCG
1 AGCCCG
965721 GTTACGAGCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.33, G:0.33, T:0.09
Consensus pattern (24 bp):
AGCCCGAGGATGAGCCCAATGACC
Found at i:966255 original size:30 final size:30
Alignment explanation
Indices: 966193--966284 Score: 89
Period size: 30 Copynumber: 3.1 Consensus size: 30
966183 CCCCTTTACT
* *
966193 TTTTAAATTTAATTT-GTAATGTCGTT-TTTA
1 TTTTAAATTTAATTTCG-AATTTC-TTGTATA
966223 TTTTAAATTTAATTTCGAATTTCTTGTATA
1 TTTTAAATTTAATTTCGAATTTCTTGTATA
* ** * *
966253 TTTTAATTTTTCTTTCTAATTTCATGTATA
1 TTTTAAATTTAATTTCGAATTTCTTGTATA
966283 TT
1 TT
966285 CTAATTATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 2 0.04
30 50 0.94
31 1 0.02
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.61
Consensus pattern (30 bp):
TTTTAAATTTAATTTCGAATTTCTTGTATA
Found at i:967147 original size:40 final size:38
Alignment explanation
Indices: 967079--967213 Score: 96
Period size: 40 Copynumber: 3.4 Consensus size: 38
967069 ACCAGAATGG
* *
967079 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAAAGTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAG-AATAAAGTGA
* *
967119 CACCCAGTGTCTCATCGGCCTAGCCGAAG--TAAAGTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAATAAAGTGA
* * * * *
967156 TACCCAGTACCTCATCGAATCTATCCGAAGTAA-AATAATGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAG-AATAA-AGTGA
*
967197 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
967214 ACTCAAGGTC
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
37 21 0.28
38 9 0.12
40 24 0.32
41 20 0.27
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAATAAAGTGA
Found at i:967211 original size:41 final size:38
Alignment explanation
Indices: 967111--967214 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
967101 TTCGAAGCAA
* *
967111 TAAAGTGACACCCAGTGTCTCATCG-GCCTAGCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
* ** ** * *
967148 TAAAGTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
967186 TAAAATAATGACACCCAGTGTCTCATCGA
1 T--AA-AATGACACCCAGTGTCTCATCGA
967215 CTCAAGGTCG
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 21 0.41
38 10 0.20
40 2 0.04
41 18 0.35
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (38 bp):
TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
Found at i:967332 original size:6 final size:6
Alignment explanation
Indices: 967298--967365 Score: 50
Period size: 6 Copynumber: 11.5 Consensus size: 6
967288 TAATAGGGAT
* * * * *
967298 TTTCAA TTTACAA -TTC-A TATCAC TTTCAA TTTCAA CTTCAC TTTCAC
1 TTTCAA TTT-CAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA
* *
967345 TTTCAC TTTCAC TTTCAA TTT
1 TTTCAA TTTCAA TTTCAA TTT
967366 TGATCACAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
4 1 0.02
5 3 0.06
6 44 0.86
7 3 0.06
ACGTcount: A:0.26, C:0.25, G:0.00, T:0.49
Consensus pattern (6 bp):
TTTCAA
Found at i:967340 original size:18 final size:18
Alignment explanation
Indices: 967317--967365 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
967307 ACAATTCATA
967317 TCACTTTCAATTTCAAC-T
1 TCACTTTCAATTTC-ACTT
*
967335 TCACTTTCACTTTCACTT
1 TCACTTTCAATTTCACTT
967353 TCACTTTCAATTT
1 TCACTTTCAATTT
967366 TGATCACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 2 0.07
18 26 0.93
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTTCACTT
Found at i:967342 original size:12 final size:13
Alignment explanation
Indices: 967319--967361 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
967309 AATTCATATC
*
967319 ACTTTCAATTTCA
1 ACTTTCACTTTCA
967332 AC-TTCACTTTC-
1 ACTTTCACTTTCA
967343 ACTTTCACTTTC-
1 ACTTTCACTTTCA
967355 ACTTTCA
1 ACTTTCA
967362 ATTTTGATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 2 0.07
12 24 0.86
13 2 0.07
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (13 bp):
ACTTTCACTTTCA
Found at i:984646 original size:3 final size:3
Alignment explanation
Indices: 984634--984670 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
984624 TAAAATATAA
*
984634 TAT T-T TAT TAT TA- CAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
984671 ATAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 3 0.10
3 27 0.90
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:987861 original size:23 final size:24
Alignment explanation
Indices: 987815--987861 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
987805 TCGAAATTCA
*
987815 ATTTTAATATAAATCAAAAGAGATT
1 ATTTAAATATAAA-CAAAAGAGATT
*
987840 ATTTAAATATAAA-AAAATAGAT
1 ATTTAAATATAAACAAAAGAGAT
987862 AAATATACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
25 12 0.60
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.34
Consensus pattern (24 bp):
ATTTAAATATAAACAAAAGAGATT
Found at i:990264 original size:27 final size:27
Alignment explanation
Indices: 990226--990278 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
990216 GAAGTAAAGC
*
990226 GCAATCTGAGGTAAAATTTTCTTTTTT
1 GCAATCTGAGGTAAAATTTTCATTTTT
990253 GCAATCTGAGGTAAAATTTTCATTTT
1 GCAATCTGAGGTAAAATTTTCATTTT
990279 CTGTGTGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.45
Consensus pattern (27 bp):
GCAATCTGAGGTAAAATTTTCATTTTT
Found at i:991162 original size:15 final size:15
Alignment explanation
Indices: 991144--991175 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
991134 ATTAAAAGTA
*
991144 TTTAATTTTAGTTTC
1 TTTAATTGTAGTTTC
991159 TTTAATTGTAGTTTC
1 TTTAATTGTAGTTTC
991174 TT
1 TT
991176 ATTCCACAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.09, T:0.66
Consensus pattern (15 bp):
TTTAATTGTAGTTTC
Found at i:991210 original size:26 final size:26
Alignment explanation
Indices: 991160--991211 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
991150 TTTAGTTTCT
*
991160 TTAATTGTAGTTTCTTATTCCACAAG
1 TTAATTGTAGTTTCTTATGCCACAAG
*
991186 TTAATTTTAGTTTCTTA-GCCTACAAG
1 TTAATTGTAGTTTCTTATGCC-ACAAG
991212 AATAAAACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (26 bp):
TTAATTGTAGTTTCTTATGCCACAAG
Found at i:992494 original size:15 final size:15
Alignment explanation
Indices: 992476--992507 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
992466 AATAAAAGTA
*
992476 TTTAATTTTAGTTTC
1 TTTAATTATAGTTTC
992491 TTTAATTATAGTTTC
1 TTTAATTATAGTTTC
992506 TT
1 TT
992508 ATTCTACAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.66
Consensus pattern (15 bp):
TTTAATTATAGTTTC
Found at i:995395 original size:30 final size:30
Alignment explanation
Indices: 995361--995419 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
995351 CAATAAAAAA
995361 ATATAAGAAA-ATAATATTATT-AATATTTTG
1 ATATAAGAAATATAA-ATT-TTAAATATTTTG
*
995391 ATATATGAAATATAAATTTTAAATATTTT
1 ATATAAGAAATATAAATTTTAAATATTTT
995420 TTAAGCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 20 0.77
31 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (30 bp):
ATATAAGAAATATAAATTTTAAATATTTTG
Found at i:1000483 original size:6 final size:6
Alignment explanation
Indices: 1000472--1000513 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
1000462 AAGTCATTTT
1000472 TGGTTG TGGTTG TGGTTG TGGTTG TGGTTG TGGTTG TGGTTG
1 TGGTTG TGGTTG TGGTTG TGGTTG TGGTTG TGGTTG TGGTTG
1000514 GAAGTTGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (6 bp):
TGGTTG
Found at i:1004459 original size:24 final size:23
Alignment explanation
Indices: 1004410--1004459 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
1004400 AAAAATAGGT
* *
1004410 TATATATTATTTTTCTAATATTA
1 TATATATAATTTTTCTAATATCA
1004433 TATATTATAATTTTTACTAAT-TCA
1 TATA-TATAATTTTT-CTAATATCA
1004457 TAT
1 TAT
1004460 TTTAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 14 0.61
25 5 0.22
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (23 bp):
TATATATAATTTTTCTAATATCA
Found at i:1004487 original size:17 final size:17
Alignment explanation
Indices: 1004463--1004512 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 17
1004453 TTCATATTTT
1004463 AAAA-ATTATTATATTA
1 AAAATATTATTATATTA
*
1004479 AAAATATTATTAAATT-
1 AAAATATTATTATATTA
* *
1004495 -ATATATTATTTTATTA
1 AAAATATTATTATATTA
1004511 AA
1 AA
1004513 TTATATTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
15 12 0.44
16 4 0.15
17 11 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AAAATATTATTATATTA
Found at i:1004532 original size:16 final size:16
Alignment explanation
Indices: 1004511--1004587 Score: 51
Period size: 16 Copynumber: 5.2 Consensus size: 16
1004501 TATTTTATTA
1004511 AATTATATTTAATAAT
1 AATTATATTTAATAAT
* *
1004527 AATTAT-GTTAAAATAT
1 AATTATATTTAATA-AT
*
1004543 AATTA-AATTAAT--T
1 AATTATATTTAATAAT
* *
1004556 AA-TAT-TTTTATTA-
1 AATTATATTTAATAAT
1004569 AATTATATTTAATAAT
1 AATTATATTTAATAAT
1004585 AAT
1 AAT
1004588 CATTAAAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 16
0.65 0.12 0.23
Matches are distributed among these distances:
12 6 0.13
13 5 0.11
14 3 0.07
15 11 0.24
16 20 0.44
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (16 bp):
AATTATATTTAATAAT
Found at i:1004532 original size:58 final size:57
Alignment explanation
Indices: 1004429--1004587 Score: 178
Period size: 58 Copynumber: 2.7 Consensus size: 57
1004419 TTTTTCTAAT
* * *
1004429 ATTATATATTATAATTT-TTACTAATTCATATTTTAAAAATTATTATATTAAAAATATTATTAA
1 ATTATATATTAT--TTTATTA--AATT-ATA-TTTAATAATAATTATATT-AAAATATAATTAA
*
1004492 ATTATATATTATTTTATTAAATTATATTTAATAATAATTATGTTAAAATATAATTAA
1 ATTATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAA
*
1004549 ATTA-ATTAATATTTTTATTAAATTATATTTAATAATAAT
1 ATTATA-TATTA-TTTTATTAAATTATATTTAATAATAAT
1004588 CATTAAAATT
Statistics
Matches: 88, Mismatches: 5, Indels: 11
0.85 0.05 0.11
Matches are distributed among these distances:
56 1 0.01
57 20 0.23
58 42 0.48
59 3 0.03
60 4 0.05
61 3 0.03
62 3 0.03
63 12 0.14
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.52
Consensus pattern (57 bp):
ATTATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAA
Found at i:1004538 original size:26 final size:26
Alignment explanation
Indices: 1004506--1004587 Score: 74
Period size: 32 Copynumber: 2.9 Consensus size: 26
1004496 TATATTATTT
1004506 TATTAAATTATATTTAATAATAATTA
1 TATTAAATTATATTTAATAATAATTA
* * * *
1004532 TGTTAAAATATAATTAAATTAATTAATATTTT
1 TATT-AAAT-T-A-T-ATTTAA-TAATAATTA
1004564 TATTAAATTATATTTAATAATAAT
1 TATTAAATTATATTTAATAATAAT
1004588 CATTAAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
26 9 0.21
27 9 0.21
28 2 0.05
29 2 0.05
30 2 0.05
31 9 0.21
32 10 0.23
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (26 bp):
TATTAAATTATATTTAATAATAATTA
Found at i:1007994 original size:59 final size:59
Alignment explanation
Indices: 1007922--1008229 Score: 444
Period size: 59 Copynumber: 5.2 Consensus size: 59
1007912 ACCCGGGGGA
* * *
1007922 AAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAACGGAATTTTTTG-AGGCTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAA-TTTTGGAAAG-TTCGAGGGT
* * *
1007981 AAAATGGTAATTTTTGATGAAATCGGGATTAAAAATGGAATTTTGGAAAGTTCAAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
* *
1008040 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGG-AAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
* * *
1008098 AAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTT-TAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGA-GGGT
* *
1008157 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
1008216 AAAATGGTAATTTT
1 AAAATGGTAATTTT
1008230 GGAAGTTTCG
Statistics
Matches: 226, Mismatches: 18, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
58 53 0.23
59 144 0.64
60 29 0.13
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.33
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
Found at i:1008230 original size:117 final size:117
Alignment explanation
Indices: 1007917--1008229 Score: 484
Period size: 117 Copynumber: 2.7 Consensus size: 117
1007907 TGGATACCCG
* * * *
1007917 GGGGAAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAACGGAATTTTTTGAGGCTTCGAGGGT
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAA-TTTTGGAAG-TTCGAGGGT
1007981 AAAATGGTAATTTTTGATGAAATCGGGATTAAAAATGGAATTTTGGAAAGTTCA
64 AAAATGGTAATTTTTGATGAAATCGGGATTAAAAATGGAATTTTGGAAAGTTCA
* * *
1008035 AGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTTGGGGGTAA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTCGAGGGTAA
* * *
1008100 AATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTA
66 AATGGTAATTTTTGATGAAATCGGGATTAAAAATGGAATTTTGGAAAGTTCA
* *
1008152 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTCGAGGGTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGG-AAGTTCGAGGGTA
1008217 AAATGGTAATTTT
65 AAATGGTAATTTT
1008230 GGAAGTTTCG
Statistics
Matches: 178, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
117 106 0.60
118 44 0.25
119 28 0.16
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (117 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTTCGAGGGTAA
AATGGTAATTTTTGATGAAATCGGGATTAAAAATGGAATTTTGGAAAGTTCA
Found at i:1008573 original size:162 final size:161
Alignment explanation
Indices: 1008270--1008641 Score: 530
Period size: 162 Copynumber: 2.3 Consensus size: 161
1008260 CCAAAGAGTG
* ** * * * * * *
1008270 AGTGACACGTGGCAACCCCACAGGCA-TCCAGCAGTCAAGGGATTAAATTGTAAACCTTGAAAAA
1 AGTGACACGTGGCAGCCCCTGATGCAGTCAAACAGTCAAAGGACTAAATTATAAACCTTGAAAAA
* *
1008334 TTCTTGGGCCAATTTTATAATTACATAAGAGTTGATTTGGGGATTAAATTAAAACAAATTAAAAA
66 TTATTGGGCCAATTTTATAATTAAATAAGAGTTGATTTGGGGATTAAATTAAAACAAATTAAAAA
*
1008399 TGTCAAGGACTAAATGAATAAATAATCCAAAA
131 TGTCAAGGACTAAATGAA-AAATAAGCCAAAA
*
1008431 AGTGACACGTGGCAGCCCCTGATGCAGTCAAACAGTCAAAGGACTAACTTATAAACCTTGAAAAA
1 AGTGACACGTGGCAGCCCCTGATGCAGTCAAACAGTCAAAGGACTAAATTATAAACCTTGAAAAA
*
1008496 TTATTGGGCCAATTTTGTAATTAAATAAGAGTTGATTTGGGGATTAAATTAAAACAAATTAAAAA
66 TTATTGGGCCAATTTTATAATTAAATAAGAGTTGATTTGGGGATTAAATTAAAACAAATTAAAAA
* * *
1008561 TGTCAGGGACTAAATGCAAAATAAGCGAAAA
131 TGTCAAGGACTAAATGAAAAATAAGCCAAAA
* * * * *
1008592 AGTGACACGTGGCAGCCTCTGGTGTAGTCAAACAGTTAAAGGATTAAATT
1 AGTGACACGTGGCAGCCCCTGATGCAGTCAAACAGTCAAAGGACTAAATT
1008642 GAAAAGCAAT
Statistics
Matches: 187, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
161 77 0.41
162 110 0.59
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (161 bp):
AGTGACACGTGGCAGCCCCTGATGCAGTCAAACAGTCAAAGGACTAAATTATAAACCTTGAAAAA
TTATTGGGCCAATTTTATAATTAAATAAGAGTTGATTTGGGGATTAAATTAAAACAAATTAAAAA
TGTCAAGGACTAAATGAAAAATAAGCCAAAA
Found at i:1010359 original size:11 final size:11
Alignment explanation
Indices: 1010340--1010400 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
1010330 AATGTTTAGT
*
1010340 ATTTTAATTTA
1 ATTTAAATTTA
1010351 ATTTAAATTTA
1 ATTTAAATTTA
**
1010362 AGATAAATTTAA
1 ATTTAAATTT-A
*
1010374 ATTTAAA-TAA
1 ATTTAAATTTA
* *
1010384 ATTTAAAATCA
1 ATTTAAATTTA
1010395 ATTTAA
1 ATTTAA
1010401 CTCCAAATTA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
10 8 0.20
11 27 0.66
12 6 0.15
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:1010372 original size:27 final size:26
Alignment explanation
Indices: 1010342--1010400 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
1010332 TGTTTAGTAT
* *
1010342 TTTAATTTAATTTAAATTTAAGATAAA
1 TTTAATTTAA-ATAAATTTAAAATAAA
*
1010369 TTTAAATTTAAATAAATTTAAAATCAA
1 TTT-AATTTAAATAAATTTAAAATAAA
1010396 TTTAA
1 TTTAA
1010401 CTCCAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.07
27 19 0.68
28 7 0.25
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
TTTAATTTAAATAAATTTAAAATAAA
Found at i:1010392 original size:17 final size:17
Alignment explanation
Indices: 1010350--1010390 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
1010340 ATTTTAATTT
1010350 AATTTAAATTTAAGATA
1 AATTTAAATTTAAGATA
1010367 AATTTAAATTTAA-ATA
1 AATTTAAATTTAAGATA
1010383 AATTTAAA
1 AATTTAAA
1010391 ATCAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
AATTTAAATTTAAGATA
Found at i:1010408 original size:27 final size:27
Alignment explanation
Indices: 1010354--1010408 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
1010344 TAATTTAATT
* **
1010354 TAAATTTAAGATAAATTTAAATTTAAA
1 TAAATTTAAAATAAATTTAAATCCAAA
* *
1010381 TAAATTTAAAATCAATTTAACTCCAAA
1 TAAATTTAAAATAAATTTAAATCCAAA
1010408 T
1 T
1010409 TAAAACAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (27 bp):
TAAATTTAAAATAAATTTAAATCCAAA
Found at i:1010540 original size:2 final size:2
Alignment explanation
Indices: 1010535--1010564 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1010525 ACACAGACAA
1010535 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1010565 GAACATGTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1013689 original size:29 final size:29
Alignment explanation
Indices: 1013657--1013736 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 29
1013647 AATTTGGATC
1013657 AAAAACAGAATTTTTGGACA-TCTGGGGGT
1 AAAAACAGAATTTTTGGA-AGTCTGGGGGT
* * *
1013686 AAAAAC-GTAATTTTTAGAAGTTTTGGGGTT
1 AAAAACAG-AATTTTTGGAAG-TCTGGGGGT
* *
1013716 AAAAATAGAATTTTTGAAAGT
1 AAAAACAGAATTTTTGGAAGT
1013737 TCAAGGGTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
28 2 0.05
29 16 0.39
30 22 0.54
31 1 0.02
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.34
Consensus pattern (29 bp):
AAAAACAGAATTTTTGGAAGTCTGGGGGT
Found at i:1013719 original size:30 final size:29
Alignment explanation
Indices: 1013681--1013958 Score: 198
Period size: 29 Copynumber: 9.5 Consensus size: 29
1013671 TGGACATCTG
*
1013681 GGGGTAAAAACGTAATTTTTAGAAGTTTT
1 GGGGTAAAAATGTAATTTTTAGAAGTTTT
**
1013710 GGGGTTAAAAATAG-AATTTTT-GAAAGTTCA
1 GGGG-TAAAAAT-GTAATTTTTAG-AAGTTTT
* * * *
1013740 AGGGTAAAAATGTATTTTTTGGAAGTTTC
1 GGGGTAAAAATGTAATTTTTAGAAGTTTT
* * *
1013769 GAGGTCAAAAATGGAATTTTT-GAAAG-TTC
1 GGGGT-AAAAATGTAATTTTTAG-AAGTTTT
* *
1013798 GAGAGTAAAAATGTAA-TTTTGGAAGTTTT
1 G-GGGTAAAAATGTAATTTTTAGAAGTTTT
*
1013827 GGGGTTAAAAATAG-AATTTTT-GAAAGTTTA
1 GGGG-TAAAAAT-GTAATTTTTAG-AAGTTTT
* *
1013857 GGGGTCAAAAATGGAATTTTTCA-AAGTTTA
1 GGGGT-AAAAATGTAATTTTT-AGAAGTTTT
*
1013887 GGGGT-AAAATGTAATTTTTAAAAGTTTT
1 GGGGTAAAAATGTAATTTTTAGAAGTTTT
* **
1013915 AGGGTAAAAATGTAA-TTTTAGAGAGTTCA
1 GGGGTAAAAATGTAATTTTTAGA-AGTTTT
*
1013944 GAGGTAAAAATGTAA
1 GGGGTAAAAATGTAA
1013959 ATCTTGGACA
Statistics
Matches: 203, Mismatches: 25, Indels: 42
0.75 0.09 0.16
Matches are distributed among these distances:
27 1 0.00
28 39 0.19
29 82 0.40
30 80 0.39
31 1 0.00
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (29 bp):
GGGGTAAAAATGTAATTTTTAGAAGTTTT
Found at i:1013720 original size:59 final size:59
Alignment explanation
Indices: 1013623--1013941 Score: 273
Period size: 59 Copynumber: 5.4 Consensus size: 59
1013613 AGACATTCAG
** * * * *
1013623 GGGT-AAAATGGTAATTTTTAGAAAAATTT-GGATCAAAAACAGAATTTTTGGACA--TCTGG
1 GGGTAAAAAT-GTAATTTTTAG-AAGTTTTGGGGTCAAAAATAGAATTTTT-GAAAGTTC-GA
* * *
1013682 GGGTAAAAACGTAATTTTTAGAAGTTTTGGGGTTAAAAATAGAATTTTTGAAAGTTCAA
1 GGGTAAAAATGTAATTTTTAGAAGTTTTGGGGTCAAAAATAGAATTTTTGAAAGTTCGA
* * * * *
1013741 GGGTAAAAATGTATTTTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGAAAGTTCGA
1 GGGTAAAAATGTAATTTTTAGAAGTTTTGGGGTCAAAAATAGAATTTTTGAAAGTTCGA
* * * *
1013800 GAGTAAAAATGTAA-TTTTGGAAGTTTTGGGGTTAAAAATAGAATTTTTGAAAGTT-TA
1 GGGTAAAAATGTAATTTTTAGAAGTTTTGGGGTCAAAAATAGAATTTTTGAAAGTTCGA
* * * **
1013857 GGGGTCAAAAATGGAATTTTTCA-AAGTTTAGGGGT--AAAAT-GTAATTTTTAAAAGTTTTA
1 -GGGT-AAAAATGTAATTTTT-AGAAGTTTTGGGGTCAAAAATAG-AATTTTTGAAAGTTCGA
1013916 GGGTAAAAATGTAA-TTTTAGAGAGTT
1 GGGTAAAAATGTAATTTTTAGA-AGTT
1013942 CAGAGGTAAA
Statistics
Matches: 218, Mismatches: 30, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
55 1 0.00
56 5 0.02
57 15 0.07
58 70 0.32
59 106 0.49
60 21 0.10
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (59 bp):
GGGTAAAAATGTAATTTTTAGAAGTTTTGGGGTCAAAAATAGAATTTTTGAAAGTTCGA
Found at i:1013747 original size:29 final size:29
Alignment explanation
Indices: 1013682--1013958 Score: 199
Period size: 30 Copynumber: 9.5 Consensus size: 29
1013672 GGACATCTGG
* ***
1013682 GGGTAAAAACGTAATTTTT-AGAAGTTTTG
1 GGGTAAAAATGTAATTTTTGA-AAGTTCAA
1013711 GGGTTAAAAATAG-AATTTTTGAAAGTTCAA
1 GGG-TAAAAAT-GTAATTTTTGAAAGTTCAA
* * *
1013741 GGGTAAAAATGTATTTTTTGGAAGTTTCGA
1 GGGTAAAAATGTAATTTTTGAAAG-TTCAA
* *
1013771 -GGTCAAAAATGGAATTTTTGAAAGTTCGA
1 GGGT-AAAAATGTAATTTTTGAAAGTTCAA
* * ***
1013800 GAGTAAAAATGTAA-TTTTGGAAGTTTTG
1 GGGTAAAAATGTAATTTTTGAAAGTTCAA
* *
1013828 GGGTTAAAAATAG-AATTTTTGAAAGTTTAG
1 GGG-TAAAAAT-GTAATTTTTGAAAGTTCAA
* * * *
1013858 GGGTCAAAAATGGAATTTTTCAAAGTTTAG
1 GGGT-AAAAATGTAATTTTTGAAAGTTCAA
* **
1013888 GGGT-AAAATGTAATTTTTAAAAGTTTTA
1 GGGTAAAAATGTAATTTTTGAAAGTTCAA
* *
1013916 GGGTAAAAATGTAATTTTAGAGAGTTC-A
1 GGGTAAAAATGTAATTTTTGAAAGTTCAA
1013944 GAGGTAAAAATGTAA
1 G-GGTAAAAATGTAA
1013959 ATCTTGGACA
Statistics
Matches: 206, Mismatches: 28, Indels: 28
0.79 0.11 0.11
Matches are distributed among these distances:
28 39 0.19
29 79 0.38
30 86 0.42
31 2 0.01
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.35
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTTGAAAGTTCAA
Found at i:1013816 original size:88 final size:88
Alignment explanation
Indices: 1013715--1013955 Score: 269
Period size: 88 Copynumber: 2.8 Consensus size: 88
1013705 GTTTTGGGGT
** * * *
1013715 TAAAAATAG-AATTTTTGAAAGTTCAAGGGTAAAAATGTATTTTTTGGAAGTTTCGAGGTCAAAA
1 TAAAAAT-GTAATTTTTGAAAGTTTTAGGGTAAAAATGTAATTTTTGAAAGTTTAGAGGTCAAAA
*
1013779 ATGGAATTTTTGAAAGTTCGA-GAG
65 ATGGAATTTTTCAAAGTT-GAGGAG
* * *
1013803 TAAAAATGTAA-TTTTGGAAGTTTTGGGGTTAAAAATAG-AATTTTTGAAAGTTTAGGGGTCAAA
1 TAAAAATGTAATTTTTGAAAGTTTTAGGG-TAAAAAT-GTAATTTTTGAAAGTTTAGAGGTCAAA
* *
1013866 AATGGAATTTTTCAAAGTTTAGGGG
64 AATGGAATTTTTCAAAGTTGAGGAG
* * * *
1013891 T-AAAATGTAATTTTTAAAAGTTTTAGGGTAAAAATGTAATTTTAGAGAGTTCAGAGGT-AAAAA
1 TAAAAATGTAATTTTTGAAAGTTTTAGGGTAAAAATGTAATTTTTGAAAGTTTAGAGGTCAAAAA
1013954 TG
66 TG
1013956 TAAATCTTGG
Statistics
Matches: 129, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
86 8 0.06
87 48 0.37
88 72 0.56
89 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (88 bp):
TAAAAATGTAATTTTTGAAAGTTTTAGGGTAAAAATGTAATTTTTGAAAGTTTAGAGGTCAAAAA
TGGAATTTTTCAAAGTTGAGGAG
Found at i:1015117 original size:13 final size:13
Alignment explanation
Indices: 1015099--1015156 Score: 59
Period size: 13 Copynumber: 4.6 Consensus size: 13
1015089 TATTAAAATA
*
1015099 AATATTAATTATT
1 AATATTATTTATT
1015112 AATATTATTTATT
1 AATATTATTTATT
*
1015125 AA-A-TACTTATT
1 AATATTATTTATT
1015136 AA-ATCTATTTATT
1 AATAT-TATTTATT
*
1015149 ACTATTAT
1 AATATTAT
1015157 AACGTTTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
11 10 0.26
12 1 0.03
13 25 0.66
14 2 0.05
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.53
Consensus pattern (13 bp):
AATATTATTTATT
Found at i:1015207 original size:24 final size:24
Alignment explanation
Indices: 1015170--1015218 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1015160 GTTTTCACTA
* * *
1015170 ATATTATCATTAATAATATTTATT
1 ATATTATAAATAATAATATTAATT
*
1015194 ATATTATAAATAATATTATTAATT
1 ATATTATAAATAATAATATTAATT
1015218 A
1 A
1015219 CTACTAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATTATAAATAATAATATTAATT
Found at i:1015922 original size:17 final size:16
Alignment explanation
Indices: 1015896--1015944 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 16
1015886 TTGGATTTTT
1015896 AATTAAATTTAAAATA
1 AATTAAATTTAAAATA
1015912 AATTCAAATTTAAAATA
1 AATT-AAATTTAAAATA
1015929 AATTTAAATTTAAAAT
1 AA-TTAAATTTAAAAT
1015945 GGTTTGGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 4 0.13
17 25 0.81
18 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAAATTTAAAATA
Found at i:1016202 original size:15 final size:15
Alignment explanation
Indices: 1016178--1016207 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1016168 AAATAAATGC
*
1016178 AAACATGAACAAACT
1 AAACACGAACAAACT
1016193 AAACACGAACAAACT
1 AAACACGAACAAACT
1016208 TAAAAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.23, G:0.07, T:0.10
Consensus pattern (15 bp):
AAACACGAACAAACT
Found at i:1024127 original size:28 final size:28
Alignment explanation
Indices: 1024090--1024181 Score: 107
Period size: 31 Copynumber: 3.2 Consensus size: 28
1024080 CTTCTTCCTT
*
1024090 AAAAACCTAGGAAAGTATCTACCAAAAA
1 AAAAACCTAGGAAAGTATCTACAAAAAA
*
1024118 AAAAACCTAGGAAAGTATCTATAAAAAAAAA
1 AAAAACCTAGGAAAGTATC--T-ACAAAAAA
*
1024149 AAAAACCTAGGAAAG-A-CAACAAAAACA
1 AAAAACCTAGGAAAGTATCTACAAAAA-A
1024176 AAAAAC
1 AAAAAC
1024182 TAGAATAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
26 6 0.11
27 7 0.12
28 19 0.34
29 1 0.02
30 2 0.04
31 21 0.38
ACGTcount: A:0.64, C:0.15, G:0.10, T:0.11
Consensus pattern (28 bp):
AAAAACCTAGGAAAGTATCTACAAAAAA
Found at i:1024143 original size:27 final size:28
Alignment explanation
Indices: 1024090--1024150 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
1024080 CTTCTTCCTT
1024090 AAAAACCTAGGAAAGTATCTACCAAAAA
1 AAAAACCTAGGAAAGTATCTACCAAAAA
**
1024118 AAAAACCTAGGAAAGTATCTATAAAAAA
1 AAAAACCTAGGAAAGTATCTACCAAAAA
1024146 AAAAA
1 AAAAA
1024151 AAACCTAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.62, C:0.13, G:0.10, T:0.15
Consensus pattern (28 bp):
AAAAACCTAGGAAAGTATCTACCAAAAA
Found at i:1028199 original size:13 final size:14
Alignment explanation
Indices: 1028181--1028209 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1028171 TTTCCTTATT
1028181 ATTACTTTTTT-AA
1 ATTACTTTTTTCAA
1028194 ATTACTTTTTTCAA
1 ATTACTTTTTTCAA
1028208 AT
1 AT
1028210 AATAGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTACTTTTTTCAA
Found at i:1035922 original size:15 final size:16
Alignment explanation
Indices: 1035894--1035923 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1035884 ATACAAAAAT
1035894 AAATAAATACAATGAC
1 AAATAAATACAATGAC
1035910 AAATAAA-ACAATGA
1 AAATAAATACAATGA
1035924 TATCATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (16 bp):
AAATAAATACAATGAC
Found at i:1039399 original size:51 final size:51
Alignment explanation
Indices: 1039324--1039458 Score: 189
Period size: 51 Copynumber: 2.6 Consensus size: 51
1039314 GGAATTTATA
* * * *
1039324 TACTCACGATGACACTGAGTCATCGGACCTTTAATTCGTCATGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* * *
1039375 TACTCACGATGATACTTAGACATCGGACTTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
*
1039426 TACTCATGATGACACTTAGTCATCGGACTCTTT
1 TACTCACGATGACACTTAGTCATCGGAC-CTTT
1039459 CGTTTATAGC
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 69 0.96
52 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
Found at i:1041914 original size:24 final size:23
Alignment explanation
Indices: 1041835--1041922 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 23
1041825 TTAATGTTCA
* *
1041835 CGAACATGTTCATTTAAC-TTAAT
1 CGAACATATTCA-TGAACATTAAT
* *
1041858 CGAACATGTTCATGAACATTAAA
1 CGAACATATTCATGAACATTAAT
1041881 CGAACATATTCATGAACATATAAT
1 CGAACATATTCATGAACAT-TAAT
* *
1041905 TGAACATATTCACGAACA
1 CGAACATATTCATGAACA
1041923 ATGTTAATGA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.07
23 34 0.60
24 19 0.33
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (23 bp):
CGAACATATTCATGAACATTAAT
Found at i:1048610 original size:18 final size:19
Alignment explanation
Indices: 1048584--1048625 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
1048574 AATAAAAACG
*
1048584 TTTTTTTAATA-TAT-TAT
1 TTTTTTTAAAATTATATAT
1048601 TTTTTATTAAAATTATATAT
1 TTTTT-TTAAAATTATATAT
1048621 TTTTT
1 TTTTT
1048626 CAAAACTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.24
18 5 0.24
19 3 0.14
20 8 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTTAAAATTATATAT
Found at i:1051276 original size:17 final size:17
Alignment explanation
Indices: 1051251--1051283 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1051241 CATTAGGTTT
*
1051251 TTAATATATATTTTTTA
1 TTAAAATATATTTTTTA
1051268 TTAAAATATATTTTTT
1 TTAAAATATATTTTTT
1051284 CAAAACTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTAAAATATATTTTTTA
Found at i:1052229 original size:24 final size:24
Alignment explanation
Indices: 1052202--1052249 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
1052192 ACCATCAGCA
1052202 GCTCTTGCTCCACCAACTCATTCT
1 GCTCTTGCTCCACCAACTCATTCT
* *
1052226 GCTCTTGCTCCACCAGCTCTTTCT
1 GCTCTTGCTCCACCAACTCATTCT
1052250 CAAATAGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.12, C:0.42, G:0.10, T:0.35
Consensus pattern (24 bp):
GCTCTTGCTCCACCAACTCATTCT
Found at i:1063330 original size:31 final size:31
Alignment explanation
Indices: 1063292--1063354 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
1063282 TCCTAAAGGA
*
1063292 TAAGATTGTATAGAGTTTAAATCTCTAAGAC
1 TAAGATTGTATAGAGTTTAAATCCCTAAGAC
1063323 TAAGATTGTATAGAGTTTAAATCCCTAAGAC
1 TAAGATTGTATAGAGTTTAAATCCCTAAGAC
1063354 T
1 T
1063355 CTCATCTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (31 bp):
TAAGATTGTATAGAGTTTAAATCCCTAAGAC
Found at i:1066011 original size:16 final size:18
Alignment explanation
Indices: 1065990--1066029 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
1065980 ATATTTTAAT
*
1065990 TAATAATATTATTATAATA
1 TAATAATATTAATA-AATA
1066009 TAATAATATTAATAAATA
1 TAATAATATTAATAAATA
1066027 TAA
1 TAA
1066030 AAGAAGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAATATTAATAAATA
Found at i:1068925 original size:52 final size:52
Alignment explanation
Indices: 1068847--1069085 Score: 388
Period size: 52 Copynumber: 4.6 Consensus size: 52
1068837 TAAATGAAAA
*
1068847 AGGTCCGATGACTATGTGTCATCGTGAGTATATTAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
1068899 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATTCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
1068951 AGGTCCGATGACTATGTGTCATCATGAATATATGAATTCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
1069003 AGGCCCGATGACTATGTGTCATCGTGAGTATATGATTCCTTTACGAATTAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
1069055 AGGTCCAATGACTATGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
1069086 TAATTGAAAT
Statistics
Matches: 174, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 174 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.35
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:1073329 original size:15 final size:16
Alignment explanation
Indices: 1073297--1073330 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1073287 TATTCATCTC
*
1073297 ATTTGCATTTAGGTTA
1 ATTTGCATCTAGGTTA
1073313 ATTTGCATCTA-GTTA
1 ATTTGCATCTAGGTTA
1073328 ATT
1 ATT
1073331 AATTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (16 bp):
ATTTGCATCTAGGTTA
Found at i:1076378 original size:22 final size:21
Alignment explanation
Indices: 1076346--1076387 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
1076336 GATCTATAAT
1076346 GGTATCACGATACTCAACCTTG
1 GGTATCACGATA-TCAACCTTG
* *
1076368 GGTATCGCGATATCCACCTT
1 GGTATCACGATATCAACCTT
1076388 AAGGACACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (21 bp):
GGTATCACGATATCAACCTTG
Found at i:1077882 original size:13 final size:13
Alignment explanation
Indices: 1077858--1077901 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
1077848 CTGCAAAGAC
1077858 GAAAAAA-A-AGA
1 GAAAAAAGACAGA
1077869 GAAAAAAGACAGA
1 GAAAAAAGACAGA
* *
1077882 GAAGAAAGACAAA
1 GAAAAAAGACAGA
1077895 GAAAAAA
1 GAAAAAA
1077902 ACAAAAACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 7 0.25
12 1 0.04
13 20 0.71
ACGTcount: A:0.75, C:0.05, G:0.20, T:0.00
Consensus pattern (13 bp):
GAAAAAAGACAGA
Found at i:1079050 original size:29 final size:30
Alignment explanation
Indices: 1079018--1079114 Score: 121
Period size: 29 Copynumber: 3.3 Consensus size: 30
1079008 CCCCTGAACT
1079018 TTTC-AAAAATT-CAATTTTAACCCTCAAAC
1 TTTCTAAAAATTAC-ATTTTAACCCTCAAAC
* *
1079047 TTTCTAAAAATTACA-TTTAACCGTTAAAC
1 TTTCTAAAAATTACATTTTAACCCTCAAAC
1079076 TTTCTAAAAATTACATTTTAACCC-CTAAAC
1 TTTCTAAAAATTACATTTTAACCCTC-AAAC
*
1079106 TTTCCAAAA
1 TTTCTAAAA
1079115 TTTTGATTTG
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
29 31 0.53
30 27 0.46
31 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.01, T:0.36
Consensus pattern (30 bp):
TTTCTAAAAATTACATTTTAACCCTCAAAC
Found at i:1079116 original size:29 final size:30
Alignment explanation
Indices: 1078992--1079114 Score: 128
Period size: 30 Copynumber: 4.1 Consensus size: 30
1078982 CGAAATTCCC
** * *
1078992 AAAAATTTGATTTTGACCCCTGAACTTT-T
1 AAAAATTACATTTTAACCCCTAAACTTTCT
1079021 CAAAAATT-CAATTTTAA-CCCTCAAACTTTCT
1 -AAAAATTAC-ATTTTAACCCCT-AAACTTTCT
**
1079052 AAAAATTACA-TTTAACCGTTAAACTTTCT
1 AAAAATTACATTTTAACCCCTAAACTTTCT
*
1079081 AAAAATTACATTTTAACCCCTAAACTTTCC
1 AAAAATTACATTTTAACCCCTAAACTTTCT
1079111 AAAA
1 AAAA
1079115 TTTTGATTTG
Statistics
Matches: 79, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
29 28 0.35
30 49 0.62
31 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAAATTACATTTTAACCCCTAAACTTTCT
Found at i:1079128 original size:29 final size:29
Alignment explanation
Indices: 1078942--1079128 Score: 108
Period size: 30 Copynumber: 6.3 Consensus size: 29
1078932 AAAAATTCAA
**
1078942 ATTTGACCTTTAAA-TTTCCCAAAAATTTTG
1 ATTTGACCCCTAAACTTT-CCAAAAA-TTTG
* * *
1078972 TTTTGACCCTCGAAA-TTCCCAAAAATTTG
1 ATTTGACCC-CTAAACTTTCCAAAAATTTG
* * **
1079001 ATTTTGACCCCTGAACTTTTCAAAAATTCA
1 A-TTTGACCCCTAAACTTTCCAAAAATTTG
* * * **
1079031 ATTTTAACCCTCAAACTTTCTAAAAATTAC
1 ATTTGACCCCT-AAACTTTCCAAAAATTTG
* ** * **
1079061 ATTTAACCGTTAAACTTTCTAAAAATTAC
1 ATTTGACCCCTAAACTTTCCAAAAATTTG
* *
1079090 ATTTTAACCCCTAAACTTTCCAAAATTTTG
1 A-TTTGACCCCTAAACTTTCCAAAAATTTG
1079120 ATTTGACCC
1 ATTTGACCC
1079129 TATTTTTTCC
Statistics
Matches: 122, Mismatches: 30, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
29 41 0.34
30 76 0.62
31 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (29 bp):
ATTTGACCCCTAAACTTTCCAAAAATTTG
Found at i:1083252 original size:15 final size:15
Alignment explanation
Indices: 1083232--1083265 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
1083222 AACCCAAGGG
1083232 AAAAAAGAAAAAGAA
1 AAAAAAGAAAAAGAA
1083247 AAAAAAGAAAAAGAA
1 AAAAAAGAAAAAGAA
1083262 AAAA
1 AAAA
1083266 TCAAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAGAA
Found at i:1084695 original size:112 final size:111
Alignment explanation
Indices: 1084466--1084787 Score: 397
Period size: 112 Copynumber: 2.9 Consensus size: 111
1084456 AAATTTTGTC
* *
1084466 ATTTTTAATCTTTTCATTCAGATGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
1 ATTTTTAATCTTTTCATTCACACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
* * *
1084531 -----T-AAGCATTTTTGCATCGAAATAGCGGTTACTGGACCAATG
66 CCTGTTCAAGCATTTTTGCATTGAAATAACGGTTAGTGGACCAATG
** * * * *
1084571 ATTCGTAATCTTTTCATTCATACGAGCTTTGCCTCTAATGAAATTCAATTTTATCCACCTTTCAA
1 ATTTTTAATCTTTTCATTCACACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
*
1084636 CCTTGTTCAAGCATTTTTTCATTGAAATAACGGTTAGTGGACCAATG
66 CC-TGTTCAAGCATTTTTGCATTGAAATAACGGTTAGTGGACCAATG
* * * * * *
1084683 GTTTTTATTCTTTTCATTCACGCAAGCTTTGCCTCCAATAAAATTTAATTTTATCTACCTTACAA
1 ATTTTTAATCTTTTCATTCACACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
*
1084748 CCCTGTTCAAGCATTTTCGCATTGAAATGAA-GGTTAGTGG
66 -CCTGTTCAAGCATTTTTGCATTGAAAT-AACGGTTAGTGG
1084788 TCTAACGATA
Statistics
Matches: 183, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
105 58 0.32
111 1 0.01
112 120 0.66
113 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (111 bp):
ATTTTTAATCTTTTCATTCACACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
CCTGTTCAAGCATTTTTGCATTGAAATAACGGTTAGTGGACCAATG
Found at i:1085407 original size:97 final size:97
Alignment explanation
Indices: 1085215--1085441 Score: 253
Period size: 97 Copynumber: 2.3 Consensus size: 97
1085205 GGAAACATAG
*
1085215 AGATATGAAGGGAAAGGTTGAGACCGCAACTGCAAACCCGATACCTTAAAAGACATGATGAGAAA
1 AGATA-GAAGGGAAAGGTTGAGGCCGCAA-TGCAAACCCGATACCTTAAAAGACATGATGAGAAA
* * *
1085280 AATCGAGGCCGTAACGACGGATCTTGTACCATTTT
64 AATCGAGGCCGTAACGACGGATCCTATACCA-TTA
* * * * * **
1085315 A-ATA-AAGGGAAAGGTTGAGGCCGTAATGACGAACCCGATACTTTAAAAGATATGATGGGAAGG
1 AGATAGAAGGGAAAGGTTGAGGCCGCAATG-CAAACCCGATACCTTAAAAGACATGATGAGAAAA
* *
1085378 ATTGAGGCCGTAAC-AGGGAATCCTATACCATTA
65 ATCGAGGCCGTAACGACGG-ATCCTATACCATTA
*
1085411 AGATATGAAGGGAAAGGTTGAAGCCGCAATG
1 AGATA-GAAGGGAAAGGTTGAGGCCGCAATG
1085442 GTGAACCTTG
Statistics
Matches: 107, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
96 8 0.07
97 73 0.68
99 25 0.23
100 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (97 bp):
AGATAGAAGGGAAAGGTTGAGGCCGCAATGCAAACCCGATACCTTAAAAGACATGATGAGAAAAA
TCGAGGCCGTAACGACGGATCCTATACCATTA
Found at i:1085513 original size:98 final size:98
Alignment explanation
Indices: 1085214--1085970 Score: 713
Period size: 98 Copynumber: 7.7 Consensus size: 98
1085204 AGGAAACATA
* * * * *
1085214 GAGATATGAAGGGAAAGGTTG-AGACCGCAACT-GCAAACC-CGATACCTTAAAAGACATGATGA
1 GAGATATGAAGGGAAAGGTTGAAG-CCGCAA-TGGCGAACCTTG-TACCTT-AGAGACGTGATGG
* * * * * *
1085276 GAAAAATCGAGGCCGTAACGACGGATCTTGTACCATTT
62 GAAAGATTGAAGCCGCAACGACGAATCTTGTACCA-TG
* * * * * * * **
1085314 TA-ATA--AAGGGAAAGGTTGAGGCCGTAATGACGAACC-CGATACTTTAAAAGATATGATGGGA
1 GAGATATGAAGGGAAAGGTTGAAGCCGCAATGGCGAACCTTG-TACCTT-AGAGACGTGATGGGA
* * * * * * *
1085375 AGGATTGAGGCCGTAAC-AGGGAATCCTATACCATT
64 AAGATTGAAGCCGCAACGA-CGAATCTTGTACCATG
* * * * *
1085410 AAGATATGAAGGGAAAGGTTGAAGCCGCAATGGTGAACCTTGTACCTTAAAGACGTTATGAGAAA
1 GAGATATGAAGGGAAAGGTTGAAGCCGCAATGGCGAACCTTGTACCTTAGAGACGTGATGGGAAA
* * *
1085475 GATTGAAGTCGAAACGATGAATCTTGTACCATG
66 GATTGAAGCCGCAACGACGAATCTTGTACCATG
* * * **
1085508 GAGATATGGAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTGTACCTTAGAGATGTGATTAGAAA
1 GAGATATGAAGGGAAAGGTTGAAGCCGCAATGGCGAACCTTGTACCTTAGAGACGTGATGGGAAA
**
1085573 GATTGAAGCCGCAACGGTGAATCTTGTACCATG
66 GATTGAAGCCGCAACGACGAATCTTGTACCATG
* * * * *
1085606 AAGATATTAAGGGAAAGGTTAAAGCCGCAATGGCGAACCTTGTACCTTACAGACGTGATGGGAAG
1 GAGATATGAAGGGAAAGGTTGAAGCCGCAATGGCGAACCTTGTACCTTAGAGACGTGATGGGAAA
* * * **
1085671 GATTGAAGTCGTAATGACGAATCTTGTATTATG
66 GATTGAAGCCGCAACGACGAATCTTGTACCATG
* *
1085704 GAGATAT-AGAGGGAAAGGTTGAAGCCGCAATGGTGAACCTTGTACCTTAGAGACTTGATGGGAA
1 GAGATATGA-AGGGAAAGGTTGAAGCCGCAATGGCGAACCTTGTACCTTAGAGACGTGATGGGAA
* * * *
1085768 AGATTGAAGCCGCAATGGCGAATCTTATACCATA
65 AGATTGAAGCCGCAACGACGAATCTTGTACCATG
* * * * * *
1085802 GAGATATGGAGGGAAAAGTTGAAGCCGCAACGACAAACCTTGTACCTTAGAGATGTGATGGGAAA
1 GAGATATGAAGGGAAAGGTTGAAGCCGCAATGGCGAACCTTGTACCTTAGAGACGTGATGGGAAA
1085867 GATTGAAGCCGCAACGACGAATCTTGTACCATG
66 GATTGAAGCCGCAACGACGAATCTTGTACCATG
* ** * * * * * *
1085900 GAGATATGGAGGTTAAGGTTGAAGCCGTAACGGCGAACCCTATACCTTAGAGATGTGAAGGGAAA
1 GAGATATGAAGGGAAAGGTTGAAGCCGCAATGGCGAACCTTGTACCTTAGAGACGTGATGGGAAA
1085965 GATTGA
66 GATTGA
1085971 GATCGCAACG
Statistics
Matches: 551, Mismatches: 96, Indels: 22
0.82 0.14 0.03
Matches are distributed among these distances:
96 5 0.01
97 73 0.13
98 435 0.79
99 36 0.07
100 2 0.00
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (98 bp):
GAGATATGAAGGGAAAGGTTGAAGCCGCAATGGCGAACCTTGTACCTTAGAGACGTGATGGGAAA
GATTGAAGCCGCAACGACGAATCTTGTACCATG
Found at i:1085612 original size:196 final size:196
Alignment explanation
Indices: 1085215--1086003 Score: 819
Period size: 196 Copynumber: 4.0 Consensus size: 196
1085205 GGAAACATAG
* * * *
1085215 AGATATGAAGGGAAAGGTTG-AGACCGCAACT-GCAAACC-CGATACCTTAAAAGACATGATGAG
1 AGATATGAAGGGAAAGGTTGAAG-CCGCAA-TGGCGAACCTTG-TACCTT-AAAGACGTGATGGG
* * * * * * ** * * *
1085277 AAAAATCGAGGCCGTAACGACGGATCTTGTACCATTTTA-ATA--AAGGGAAAGGTTGAGGCCGT
62 AAAGATTGAAGTCGAAACGACGAATCTTGTACCA-TGGAGATATGGAGGGAAAGGTTGAAGCCGC
* * * * * * * * * *
1085339 AATGACGAACC-CGATACTTTAAAAGATATGATGGGAAGGATTGAGGCCGTAACAGG-GAATCCT
126 AACGGCGAACCTTG-TACCTT-AGAGATGTGATGGGAAAGATTGAAGCCGCAAC-GGTGAATCTT
*
1085402 ATACCATTA
188 ATACCATGA
* * *
1085411 AGATATGAAGGGAAAGGTTGAAGCCGCAATGGTGAACCTTGTACCTTAAAGACGTTATGAGAAAG
1 AGATATGAAGGGAAAGGTTGAAGCCGCAATGGCGAACCTTGTACCTTAAAGACGTGATGGGAAAG
*
1085476 ATTGAAGTCGAAACGATGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGAAGCCGCAACGG
66 ATTGAAGTCGAAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGAAGCCGCAACGG
** *
1085541 CGAACCTTGTACCTTAGAGATGTGATTAGAAAGATTGAAGCCGCAACGGTGAATCTTGTACCATG
131 CGAACCTTGTACCTTAGAGATGTGATGGGAAAGATTGAAGCCGCAACGGTGAATCTTATACCATG
1085606 A
196 A
* * * *
1085607 AGATATTAAGGGAAAGGTTAAAGCCGCAATGGCGAACCTTGTACCTTACAGACGTGATGGGAAGG
1 AGATATGAAGGGAAAGGTTGAAGCCGCAATGGCGAACCTTGTACCTTAAAGACGTGATGGGAAAG
* * ** * *
1085672 ATTGAAGTCGTAATGACGAATCTTGTATTATGGAGATATAGAGGGAAAGGTTGAAGCCGCAATGG
66 ATTGAAGTCGAAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGAAGCCGCAACGG
* * *
1085737 TGAACCTTGTACCTTAGAGACT-TGATGGGAAAGATTGAAGCCGCAATGGCGAATCTTATACCAT
131 CGAACCTTGTACCTTAGAGA-TGTGATGGGAAAGATTGAAGCCGCAACGGTGAATCTTATACCAT
1085801 -A
195 GA
* * * * * * *
1085802 GAGATATGGAGGGAAAAGTTGAAGCCGCAACGACAAACCTTGTACCTTAGAGATGTGATGGGAAA
1 -AGATATGAAGGGAAAGGTTGAAGCCGCAATGGCGAACCTTGTACCTTAAAGACGTGATGGGAAA
* * ** *
1085867 GATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGTTAAGGTTGAAGCCGTAACG
65 GATTGAAGTCGAAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGAAGCCGCAACG
* * * *
1085932 GCGAACCCTATACCTTAGAGATGTGAAGGGAAAGATTG-AGATCGCAACGGTGAAT-TTCATACC
130 GCGAACCTTGTACCTTAGAGATGTGATGGGAAAGATTGAAG-CCGCAACGGTGAATCTT-ATACC
*
1085995 CTGA
193 ATGA
1085999 AGATA
1 AGATA
1086004 AGGAAAAGCA
Statistics
Matches: 500, Mismatches: 79, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
194 2 0.00
195 51 0.10
196 410 0.82
197 36 0.07
198 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.22
Consensus pattern (196 bp):
AGATATGAAGGGAAAGGTTGAAGCCGCAATGGCGAACCTTGTACCTTAAAGACGTGATGGGAAAG
ATTGAAGTCGAAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGAAGCCGCAACGG
CGAACCTTGTACCTTAGAGATGTGATGGGAAAGATTGAAGCCGCAACGGTGAATCTTATACCATG
A
Found at i:1085904 original size:49 final size:49
Alignment explanation
Indices: 1085362--1085970 Score: 446
Period size: 49 Copynumber: 12.4 Consensus size: 49
1085352 ATACTTTAAA
* * * *
1085362 AGATATGATGGGAAGGATTGAGGCCGTAACAGG-GAATCC-TATACCATTA-
1 AGATATGATGGGAAAGATTGAAGCCGCAAC-GGCGAA-CCTTGTACCA-TAG
* * * * * *
1085411 AGATATGAAGGGAAAGGTTGAAGCCGCAATGGTGAACCTTGTACCTTAA
1 AGATATGATGGGAAAGATTGAAGCCGCAACGGCGAACCTTGTACCATAG
** * * * * ** * *
1085460 AGACGTTATGAGAAAGATTGAAGTCGAAACGATGAATCTTGTACCATGG
1 AGATATGATGGGAAAGATTGAAGCCGCAACGGCGAACCTTGTACCATAG
* *
1085509 AGATATGGA-GGGAAAGGTTGAAGCCGCAACGGCGAACCTTGTACCTTAG
1 AGATAT-GATGGGAAAGATTGAAGCCGCAACGGCGAACCTTGTACCATAG
* ** * *
1085558 AGATGTGATTAGAAAGATTGAAGCCGCAACGGTGAATCTTGTACCAT-G
1 AGATATGATGGGAAAGATTGAAGCCGCAACGGCGAACCTTGTACCATAG
* * * * * * *
1085606 AAGATATTAAGGGAAAGGTTAAAGCCGCAATGGCGAACCTTGTACCTTAC
1 -AGATATGATGGGAAAGATTGAAGCCGCAACGGCGAACCTTGTACCATAG
** * * * * * * ** *
1085656 AGACGTGATGGGAAGGATTGAAGTCGTAATGACGAATCTTGTATTATGG
1 AGATATGATGGGAAAGATTGAAGCCGCAACGGCGAACCTTGTACCATAG
* * * *
1085705 AGATATAGA-GGGAAAGGTTGAAGCCGCAATGGTGAACCTTGTACCTTAG
1 AGATAT-GATGGGAAAGATTGAAGCCGCAACGGCGAACCTTGTACCATAG
* * *
1085754 AGACT-TGATGGGAAAGATTGAAGCCGCAATGGCGAATCTTATACCATAG
1 AGA-TATGATGGGAAAGATTGAAGCCGCAACGGCGAACCTTGTACCATAG
* * *
1085803 AGATATGGA-GGGAAA-AGTTGAAGCCGCAACGACAAACCTTGTACCTTAG
1 AGATAT-GATGGGAAAGA-TTGAAGCCGCAACGGCGAACCTTGTACCATAG
* * * *
1085852 AGATGTGATGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGG
1 AGATATGATGGGAAAGATTGAAGCCGCAACGGCGAACCTTGTACCATAG
** * * * * *
1085901 AGATATGGA-GGTTAAGGTTGAAGCCGTAACGGCGAACCCTATACCTTAG
1 AGATAT-GATGGGAAAGATTGAAGCCGCAACGGCGAACCTTGTACCATAG
* *
1085950 AGATGTGAAGGGAAAGATTGA
1 AGATATGATGGGAAAGATTGA
1085971 GATCGCAACG
Statistics
Matches: 430, Mismatches: 113, Indels: 34
0.75 0.20 0.06
Matches are distributed among these distances:
48 17 0.04
49 404 0.94
50 9 0.02
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (49 bp):
AGATATGATGGGAAAGATTGAAGCCGCAACGGCGAACCTTGTACCATAG
Found at i:1085980 original size:98 final size:98
Alignment explanation
Indices: 1085362--1085970 Score: 718
Period size: 98 Copynumber: 6.2 Consensus size: 98
1085352 ATACTTTAAA
* * * * * * * ** *
1085362 AGATATGATGGGAAGGATTGAGGCCGTAAC-AGGGAATCCTATACCATTAAGATATGAAGGGAAA
1 AGATGTGATGGGAAAGATTGAAGCCGCAACGA-CGAATCTTGTACCATGGAGATATGGAGGGAAA
* * *
1085426 GGTTGAAGCCGCAATGGTGAACCTTGTACCTTAA
65 GGTTGAAGCCGCAACGGCGAACCTTGTACCTTAG
* * * * * *
1085460 AGACGTTATGAGAAAGATTGAAGTCGAAACGATGAATCTTGTACCATGGAGATATGGAGGGAAAG
1 AGATGTGATGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAG
1085525 GTTGAAGCCGCAACGGCGAACCTTGTACCTTAG
66 GTTGAAGCCGCAACGGCGAACCTTGTACCTTAG
** ** * **
1085558 AGATGTGATTAGAAAGATTGAAGCCGCAACGGTGAATCTTGTACCATGAAGATATTAAGGGAAAG
1 AGATGTGATGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAG
* * *
1085623 GTTAAAGCCGCAATGGCGAACCTTGTACCTTAC
66 GTTGAAGCCGCAACGGCGAACCTTGTACCTTAG
* * * * * ** *
1085656 AGACGTGATGGGAAGGATTGAAGTCGTAATGACGAATCTTGTATTATGGAGATATAGAGGGAAAG
1 AGATGTGATGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAG
* *
1085721 GTTGAAGCCGCAATGGTGAACCTTGTACCTTAG
66 GTTGAAGCCGCAACGGCGAACCTTGTACCTTAG
* * * *
1085754 AGACT-TGATGGGAAAGATTGAAGCCGCAATGGCGAATCTTATACCATAGAGATATGGAGGGAAA
1 AGA-TGTGATGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAA
* * *
1085818 AGTTGAAGCCGCAACGACAAACCTTGTACCTTAG
65 GGTTGAAGCCGCAACGGCGAACCTTGTACCTTAG
**
1085852 AGATGTGATGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGTTAAG
1 AGATGTGATGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAG
* * *
1085917 GTTGAAGCCGTAACGGCGAACCCTATACCTTAG
66 GTTGAAGCCGCAACGGCGAACCTTGTACCTTAG
*
1085950 AGATGTGAAGGGAAAGATTGA
1 AGATGTGATGGGAAAGATTGA
1085971 GATCGCAACG
Statistics
Matches: 434, Mismatches: 74, Indels: 6
0.84 0.14 0.01
Matches are distributed among these distances:
97 1 0.00
98 432 1.00
99 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (98 bp):
AGATGTGATGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAG
GTTGAAGCCGCAACGGCGAACCTTGTACCTTAG
Found at i:1086897 original size:19 final size:19
Alignment explanation
Indices: 1086873--1086925 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 19
1086863 CTGACACGCC
1086873 CTGCCATCGTCGAAAGCCT
1 CTGCCATCGTCGAAAGCCT
* *
1086892 CTGCCATCATCG-CA-CCT
1 CTGCCATCGTCGAAAGCCT
* *
1086909 CTGTCACCGTCGAAAGC
1 CTGCCATCGTCGAAAGC
1086926 ACCTGTAAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
17 12 0.46
18 2 0.08
19 12 0.46
ACGTcount: A:0.21, C:0.40, G:0.19, T:0.21
Consensus pattern (19 bp):
CTGCCATCGTCGAAAGCCT
Found at i:1089071 original size:24 final size:23
Alignment explanation
Indices: 1089029--1089140 Score: 115
Period size: 24 Copynumber: 4.9 Consensus size: 23
1089019 AAACAATAGT
*
1089029 AAAAACAC-ATAAAAATAACAAC
1 AAAAACACAACAAAAATAACAAC
* * *
1089051 CAAAACAGCAGCAAAAATAACAGC
1 AAAAACA-CAACAAAAATAACAAC
*
1089075 --AAA-ACAACAAAAATAGCAAC
1 AAAAACACAACAAAAATAACAAC
*
1089095 AAAAACACCAACAAAAATAGCAAC
1 AAAAACA-CAACAAAAATAACAAC
1089119 AAAAACAACAACAAAAATAACA
1 AAAAAC-ACAACAAAAATAACA
1089141 GCATCAAAAC
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
20 13 0.17
21 1 0.01
22 12 0.16
23 2 0.03
24 46 0.61
25 1 0.01
ACGTcount: A:0.69, C:0.21, G:0.04, T:0.05
Consensus pattern (23 bp):
AAAAACACAACAAAAATAACAAC
Found at i:1089074 original size:12 final size:12
Alignment explanation
Indices: 1089039--1089140 Score: 86
Period size: 12 Copynumber: 8.8 Consensus size: 12
1089029 AAAAACACAT
1089039 AAAAATAACAAC
1 AAAAATAACAAC
* * * *
1089051 CAAAACAGCAGC
1 AAAAATAACAAC
*
1089063 AAAAATAACAGC
1 AAAAATAACAAC
1089075 ---AA-AACAAC
1 AAAAATAACAAC
*
1089083 AAAAATAGCAAC
1 AAAAATAACAAC
* *
1089095 AAAAACACCAAC
1 AAAAATAACAAC
*
1089107 AAAAATAGCAAC
1 AAAAATAACAAC
*
1089119 AAAAACAACAAC
1 AAAAATAACAAC
1089131 AAAAATAACA
1 AAAAATAACA
1089141 GCATCAAAAC
Statistics
Matches: 70, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
8 5 0.07
9 2 0.03
11 2 0.03
12 61 0.87
ACGTcount: A:0.69, C:0.22, G:0.05, T:0.05
Consensus pattern (12 bp):
AAAAATAACAAC
Found at i:1089100 original size:44 final size:45
Alignment explanation
Indices: 1089029--1089129 Score: 123
Period size: 44 Copynumber: 2.2 Consensus size: 45
1089019 AAACAATAGT
* * * * *
1089029 AAAAACACATAAAAATAACAACCAAAACAGCAGCAAAAATAACAGC
1 AAAAACA-ACAAAAATAACAACAAAAACACCAACAAAAATAACAAC
* *
1089075 -AAAACAACAAAAATAGCAACAAAAACACCAACAAAAATAGCAAC
1 AAAAACAACAAAAATAACAACAAAAACACCAACAAAAATAACAAC
1089119 AAAAACAACAA
1 AAAAACAACAA
1089130 CAAAAATAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
44 31 0.66
45 16 0.34
ACGTcount: A:0.68, C:0.22, G:0.05, T:0.05
Consensus pattern (45 bp):
AAAAACAACAAAAATAACAACAAAAACACCAACAAAAATAACAAC
Found at i:1089110 original size:32 final size:32
Alignment explanation
Indices: 1089045--1089140 Score: 84
Period size: 32 Copynumber: 2.9 Consensus size: 32
1089035 ACATAAAAAT
* * * *
1089045 AACAACCAAAACAGCAGCAAAAATAACAGCAA
1 AACAACAAAAACAGCAACAAAAACAACAACAA
* *
1089077 AACAACAAAAATAGCAACAAAAACACCAACAAAA
1 AACAACAAAAACAGCAACAAAAACAACAAC--AA
* *
1089111 ATAGCAACAAAAACAACAACAAAAATAACA
1 A-A-CAACAAAAACAGCAACAAAAACAACA
1089141 GCATCAAAAC
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
32 24 0.48
34 3 0.06
35 1 0.02
36 22 0.44
ACGTcount: A:0.68, C:0.23, G:0.05, T:0.04
Consensus pattern (32 bp):
AACAACAAAAACAGCAACAAAAACAACAACAA
Found at i:1089181 original size:71 final size:69
Alignment explanation
Indices: 1089039--1089244 Score: 179
Period size: 68 Copynumber: 2.9 Consensus size: 69
1089029 AAAAACACAT
* * * * ** * *
1089039 AAAAATAACAACCAAAACAGCAGCAAAAATAACAG--CAAAACAACAAAAATAGCAACAAAAACA
1 AAAAATAGCAACAAAAACAACAACAAAAATAACAGCACAAAACAGTAAAAAAAGC-ACCAAAACA
1089102 CCAAC
65 CCAAC
1089107 AAAAATAGCAACAAAAACAACAACAAAAATAACAGCATCAAAACAGTAAAAAAAGCACCAAAACA
1 AAAAATAGCAACAAAAACAACAACAAAAATAACAGCA-CAAAACAGTAAAAAAAGCACCAAAACA
*
1089172 GCAATC
65 CCAA-C
* * * *
1089178 -AAAACAGTAAAAAAAATCAA-AACAGCAAAA-AATAGCAACCAAAACAGTAAAAAATAGCACCA
1 AAAAATAGCAACAAAAA-CAACAACA--AAAATAACAGC-A-CAAAACAGTAAAAAA-AGCACCA
1089240 AAACA
60 AAACA
1089245 ATAATATAAA
Statistics
Matches: 115, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
68 31 0.27
70 28 0.24
71 24 0.21
72 20 0.17
73 12 0.10
ACGTcount: A:0.66, C:0.21, G:0.07, T:0.06
Consensus pattern (69 bp):
AAAAATAGCAACAAAAACAACAACAAAAATAACAGCACAAAACAGTAAAAAAAGCACCAAAACAC
CAAC
Found at i:1089191 original size:22 final size:22
Alignment explanation
Indices: 1089166--1089244 Score: 87
Period size: 22 Copynumber: 3.8 Consensus size: 22
1089156 AAAAAGCACC
* *
1089166 AAAACAGCAATCAAAACAGT-A
1 AAAATAGCAACCAAAACAGTAA
* *
1089187 AAAA-A--AATCAAAACAGCAA
1 AAAATAGCAACCAAAACAGTAA
1089206 AAAATAGCAACCAAAACAGTAA
1 AAAATAGCAACCAAAACAGTAA
1089228 AAAATAGC-ACCAAAACA
1 AAAATAGCAACCAAAACA
1089245 ATAATATAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
18 11 0.22
19 5 0.10
20 2 0.04
21 13 0.25
22 20 0.39
ACGTcount: A:0.66, C:0.19, G:0.08, T:0.08
Consensus pattern (22 bp):
AAAATAGCAACCAAAACAGTAA
Found at i:1089199 original size:30 final size:31
Alignment explanation
Indices: 1089137--1089205 Score: 106
Period size: 32 Copynumber: 2.3 Consensus size: 31
1089127 CAACAAAAAT
1089137 AACAGC-ATCAAAACAGTAAAAAAAGCACCAA
1 AACAGCAATCAAAACAGTAAAAAAA-CACCAA
*
1089168 AACAGCAATCAAAACAGTAAAAAAA-ATCAA
1 AACAGCAATCAAAACAGTAAAAAAACACCAA
1089198 AACAGCAA
1 AACAGCAA
1089206 AAAATAGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
30 12 0.33
31 6 0.17
32 18 0.50
ACGTcount: A:0.64, C:0.20, G:0.09, T:0.07
Consensus pattern (31 bp):
AACAGCAATCAAAACAGTAAAAAAACACCAA
Found at i:1089209 original size:17 final size:18
Alignment explanation
Indices: 1089174--1089209 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1089164 CCAAAACAGC
1089174 AATCAAAACAGTAAAAAA
1 AATCAAAACAGTAAAAAA
*
1089192 AATCAAAACAGCAAAAAA
1 AATCAAAACAGTAAAAAA
1089210 TAGCAACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.72, C:0.14, G:0.06, T:0.08
Consensus pattern (18 bp):
AATCAAAACAGTAAAAAA
Found at i:1090670 original size:21 final size:21
Alignment explanation
Indices: 1090640--1090679 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1090630 TAATGCTAAA
*
1090640 TTAATTTATTAATTAATTTGT
1 TTAATATATTAATTAATTTGT
*
1090661 TTAATATATTATTTAATTT
1 TTAATATATTAATTAATTT
1090680 ATTAGTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTAATATATTAATTAATTTGT
Found at i:1098468 original size:24 final size:24
Alignment explanation
Indices: 1098454--1098766 Score: 383
Period size: 24 Copynumber: 13.0 Consensus size: 24
1098444 CCCCAGCTAA
1098454 TGTACGTTTATGCTCGTCAGCCAC
1 TGTACGTTTATGCTCGTCAGCCAC
* *
1098478 TATAAGTTTATGCTCGTCAGCCAC
1 TGTACGTTTATGCTCGTCAGCCAC
* *
1098502 TATACGTTTATGCTCGTTAGCCAC
1 TGTACGTTTATGCTCGTCAGCCAC
*
1098526 TGTACGTTTATACTCGTCAGCCAC
1 TGTACGTTTATGCTCGTCAGCCAC
**
1098550 TGTACGTTTATGCTATTCAGCCAC
1 TGTACGTTTATGCTCGTCAGCCAC
* *
1098574 TATACGTTTATGCTCGTCAACCAC
1 TGTACGTTTATGCTCGTCAGCCAC
* *
1098598 TATATGTTTATGCTCGTCAGCCAC
1 TGTACGTTTATGCTCGTCAGCCAC
* * * *
1098622 TGTATGCTTATGCTTGTTAGCCAC
1 TGTACGTTTATGCTCGTCAGCCAC
* * * *
1098646 TATACATTTATTCTCGTCAGTCAC
1 TGTACGTTTATGCTCGTCAGCCAC
1098670 TGTACGTTTATGCTCGTCAGCCAC
1 TGTACGTTTATGCTCGTCAGCCAC
*
1098694 TGTACGTTTATGCTCGTTAGCCAC
1 TGTACGTTTATGCTCGTCAGCCAC
* * * *
1098718 TATACATTCATTCTCGTCAGCCAC
1 TGTACGTTTATGCTCGTCAGCCAC
* * *
1098742 TATATGTTTTTGCTCGTCAGCCAC
1 TGTACGTTTATGCTCGTCAGCCAC
1098766 T
1 T
1098767 CAGATCAAAA
Statistics
Matches: 246, Mismatches: 43, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 246 1.00
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (24 bp):
TGTACGTTTATGCTCGTCAGCCAC
Found at i:1116069 original size:16 final size:17
Alignment explanation
Indices: 1116048--1116080 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1116038 GAAAATTATT
1116048 AAATAC-TAAATTAAAA
1 AAATACATAAATTAAAA
*
1116064 AAATACATATATTAAAA
1 AAATACATAAATTAAAA
1116081 TTTTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATACATAAATTAAAA
Found at i:1117299 original size:23 final size:23
Alignment explanation
Indices: 1117258--1117322 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
1117248 AAATAAAATA
**
1117258 TTTTAAATTTGTTAGTATTGGATT
1 TTTTAAATTTAATA-TATTGGATT
**
1117282 TTTTAAATTTAATATATTTTATT
1 TTTTAAATTTAATATATTGGATT
*
1117305 TTTTAAAATTTTATATAT
1 TTTT-AAATTTAATATAT
1117323 AAGTATCTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 11 0.31
24 24 0.69
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (23 bp):
TTTTAAATTTAATATATTGGATT
Found at i:1117927 original size:25 final size:25
Alignment explanation
Indices: 1117866--1117927 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
1117856 CATGTTCACG
* * *
1117866 AATATTAAACGAACATGTTCATAAAC
1 AATATT-AATGAACATATTCACAAAC
* *
1117892 -ATATGATTGAACATATTCACAAAC
1 AATATTAATGAACATATTCACAAAC
1117916 AATATTAATGAA
1 AATATTAATGAA
1117928 TAATAACAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (25 bp):
AATATTAATGAACATATTCACAAAC
Found at i:1118675 original size:29 final size:29
Alignment explanation
Indices: 1118637--1118857 Score: 191
Period size: 30 Copynumber: 7.4 Consensus size: 29
1118627 TTTTCTTTCA
* *
1118637 AAAATCACATTTTGACCCCAAA-TTCATTC
1 AAAATTACATTTTGACCCCAAACTTC-TCC
1118666 AAAATTACATTTTGA-CCCAAACTTCTCC
1 AAAATTACATTTTGACCCCAAACTTCTCC
*
1118694 AAAATTACATTTTGACTCCTAAACTTCTCC
1 AAAATTACATTTTGAC-CCCAAACTTCTCC
* * * *
1118724 AAAATTACATTTTGACCACGAACTTTTCT
1 AAAATTACATTTTGACCCCAAACTTCTCC
*
1118753 AGAATTACATTTTTGACCCTCAAACTT-TCCC
1 AAAATTACA-TTTTGACCC-CAAACTTCT-CC
* *
1118784 AAAACTACATTTTAACCCCCAAAC-TCATCC
1 AAAATTACATTTTGA-CCCCAAACTTC-TCC
** *
1118814 AAAAATTACCATTTT-ACCTTTAAAATTCTCC
1 -AAAATTA-CATTTTGACC-CCAAACTTCTCC
*
1118845 AAAATCACATTTT
1 AAAATTACATTTT
1118858 CAACCTTAGA
Statistics
Matches: 159, Mismatches: 20, Indels: 26
0.78 0.10 0.13
Matches are distributed among these distances:
28 23 0.14
29 40 0.25
30 57 0.36
31 31 0.19
32 8 0.05
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCAAACTTCTCC
Found at i:1131042 original size:39 final size:39
Alignment explanation
Indices: 1130986--1131466 Score: 373
Period size: 39 Copynumber: 12.3 Consensus size: 39
1130976 TAGTCATCCG
* * * *
1130986 ATCTTTTACCCCGAGCCTAGGGTAGATCACCATCACCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* *
1131025 ATCTCTTACTCCAAGCCTGGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * ** * * * *
1131064 ATCTCTTACCCTGAGCTTGGGGCAGATTGCAACCATCCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
*
1131103 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * *
1131142 ATCTCTTACCCCGAGCCTAGAGCAAATTGCAACCATCAG---
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-C-ACCATCAGCCA
* * * *
1131181 ATCTCTTACCTCAAGCTTGAGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * * * *
1131220 ATATCTTACCTCGAACCTGGGGCAAATTGCAGGCATCTG---
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCATCAGCCA
* *
1131259 ATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * ** * * ** *
1131298 ATCTCTTACCTCGAGCTTGGGGCAGATTGCAACCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * *
1131337 ATCTTTTACCCCGAGCTTGGGGTAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * ** *
1131376 ATCTCTTACCCCGAGCCTGAGGCAGATTA-CAGCTATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATC-AGCCA
* * ** *
1131415 ATCTCTTACCCCGAGTCTAGGGCATTTCACTATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
1131454 ATCTCTTACCCCG
1 ATCTCTTACCCCG
1131467 CGATATGGGC
Statistics
Matches: 339, Mismatches: 89, Indels: 28
0.74 0.20 0.06
Matches are distributed among these distances:
36 13 0.04
37 3 0.01
38 5 0.01
39 298 0.88
40 4 0.01
41 3 0.01
42 13 0.04
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
Found at i:1131073 original size:78 final size:78
Alignment explanation
Indices: 1130943--1131466 Score: 480
Period size: 78 Copynumber: 6.7 Consensus size: 78
1130933 GATTGAAGAT
* * ** * * * * *
1130943 TCCGATCTCTTACCCCGATCATGGGATAGATCA-TAGTCATCCGATCTTTTACCCCGAGCCTAGG
1 TCCGATCTCTTACCCCGAGCTTGGGGCAGATCACCA-TCAGCCAATCTCTTACCCCGAGCCTGGG
* *
1131007 GTAGATCACCATCA
65 GCAGATCACCACCA
* * * * * * *
1131021 CCCAATCTCTTACTCCAAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCTGAGCTTGGGG
1 TCCGATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGG
** *
1131086 CAGATTGCAACCA
66 CAGATCACCACCA
* *
1131099 TCCGATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGAG
1 TCCGATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGG
* ** *
1131164 CAAATTGCAACCA
66 CAGATCACCACCA
* * * * * * *
1131177 TCAGATCTCTTACCTCAAGCTTGAGGCAGATCACCATCAGCCAATATCTTACCTCGAACCTGGGG
1 TCCGATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGG
* ** *
1131242 CAAAT-TGCAGGCA
66 CAGATCACCA-CCA
* * * *
1131255 TCTGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCTCGAGCTTGGGG
1 TCCGATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGG
** *
1131320 CAGATTGCAACCA
66 CAGATCACCACCA
* * * *
1131333 TTCGATCTTTTACCCCGAGCTTGGGGTAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGAGG
1 TCCGATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGG
* *
1131398 CAGATTA-CAGCTA
66 CAGATCACCA-CCA
* * ** *
1131411 TTCGATCTCTTACCCCGAG-TCTAGGGCATTTCACTATCAGCCAATCTCTTACCCCG
1 TCCGATCTCTTACCCCGAGCT-TGGGGCAGATCACCATCAGCCAATCTCTTACCCCG
1131467 CGATATGGGC
Statistics
Matches: 370, Mismatches: 71, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
77 3 0.01
78 365 0.99
79 2 0.01
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (78 bp):
TCCGATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGG
CAGATCACCACCA
Found at i:1131500 original size:78 final size:78
Alignment explanation
Indices: 1131025--1131500 Score: 569
Period size: 78 Copynumber: 6.1 Consensus size: 78
1131015 CCATCACCCA
* * * *
1131025 ATCTCTTACTCCAAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCTGAGCTTGGGGCAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGA
1131090 TTGCAACCATCCG
66 TTGCAACCATCCG
* * * *
1131103 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGAGCAAA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGA
*
1131168 TTGCAACCATCAG
66 TTGCAACCATCCG
* * * * * * * *
1131181 ATCTCTTACCTCAAGCTTGAGGCAGATCACCATCAGCCAATATCTTACCTCGAACCTGGGGCAAA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGA
** *
1131246 TTGCAGGCATCTG
66 TTGCAACCATCCG
* *
1131259 ATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCTCGAGCTTGGGGCAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGA
*
1131324 TTGCAACCATTCG
66 TTGCAACCATCCG
* * * *
1131337 ATCTTTTACCCCGAGCTTGGGGTAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGAGGCAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGA
* * * *
1131402 TTACAGCTATTCG
66 TTGCAACCATCCG
* ** * * *
1131415 ATCTCTTACCCCGAG-TCTAGGGCATTTCACTATCAGCCAATCTCTTACCCCGCGATAT-GGGCA
1 ATCTCTTACCCCGAGCT-TGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCT-TGGGGCA
*
1131478 GATTGCAACCATCCA
64 GATTGCAACCATCCG
*
1131493 ATATCTTA
1 ATCTCTTA
1131501 AAAAAAACTA
Statistics
Matches: 341, Mismatches: 55, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
77 1 0.00
78 339 0.99
79 1 0.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGA
TTGCAACCATCCG
Found at i:1132047 original size:20 final size:20
Alignment explanation
Indices: 1132022--1132063 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1132012 ACCTAAATAC
*
1132022 ATTTTAAATTT-AGATTTAAA
1 ATTTT-AATTTCAAATTTAAA
1132042 ATTTTAATTTCAAATTTAAA
1 ATTTTAATTTCAAATTTAAA
1132062 AT
1 AT
1132064 GTCCAAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTTTAATTTCAAATTTAAA
Found at i:1133261 original size:14 final size:14
Alignment explanation
Indices: 1133244--1133295 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
1133234 GGACAGCGAC
1133244 CGACGGACGGTGAT
1 CGACGGACGGTGAT
* * *
1133258 CGACCGACGGCGAC
1 CGACGGACGGTGAT
1133272 CGACGGACGGTGAT
1 CGACGGACGGTGAT
*
1133286 TGACGGACGG
1 CGACGGACGG
1133296 CGGGCCAGAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.21, C:0.27, G:0.42, T:0.10
Consensus pattern (14 bp):
CGACGGACGGTGAT
Found at i:1133279 original size:28 final size:28
Alignment explanation
Indices: 1133239--1133297 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
1133229 GTGGTGGACA
1133239 GCGACCGACGGACGGTGATCGACCGACG
1 GCGACCGACGGACGGTGATCGACCGACG
* *
1133267 GCGACCGACGGACGGTGATTGACGGACG
1 GCGACCGACGGACGGTGATCGACCGACG
1133295 GCG
1 GCG
1133298 GGCCAGAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.20, C:0.29, G:0.42, T:0.08
Consensus pattern (28 bp):
GCGACCGACGGACGGTGATCGACCGACG
Found at i:1133966 original size:30 final size:29
Alignment explanation
Indices: 1133930--1134240 Score: 231
Period size: 30 Copynumber: 10.4 Consensus size: 29
1133920 TTTTGACATC
* *
1133930 AAACTTTCCTAAAATTATATTTTGACCCCT
1 AAACTTTCC-AAAATTACATTTTAACCCCT
* **
1133960 AAACTTTTTCAAAATCCCATTTTAA-CCCT
1 AAAC-TTTCCAAAATTACATTTTAACCCCT
*
1133989 AAACTTCTCTAAAATTACATTTTAACCCCT
1 AAACTT-TCCAAAATTACATTTTAACCCCT
** *
1134019 AAACTTTTCCAAAATCCCATTTTAACCTC-
1 AAAC-TTTCCAAAATTACATTTTAACCCCT
* * * *
1134048 GAACTACTCCAAAATTACATTTTATCCCTT
1 AAACT-TTCCAAAATTACATTTTAACCCCT
* * *
1134078 AAACTTCTCCAAAATTACATTTTGATCTC-
1 AAACTT-TCCAAAATTACATTTTAACCCCT
1134107 AAACTTTTCCAAAATTACATTTTTAACCCCT
1 AAAC-TTTCCAAAATTACA-TTTTAACCCCT
* * *
1134138 AAACTTTCCTAAAATTATATTTTAATCTC-
1 AAACTTTCC-AAAATTACATTTTAACCCCT
*
1134167 AAACTCATCCAAAAATTACTATTTT-ACCCCT
1 AAACT-TTCC-AAAATTAC-ATTTTAACCCCT
* * *
1134198 AATA-TTCTTCAAAATCACATTTTTAACCTC-
1 AA-ACTT-TCCAAAATTACA-TTTTAACCCCT
1134228 AAACTTTCCAAAA
1 AAACTTTCCAAAA
1134241 GTTTGATTTT
Statistics
Matches: 219, Mismatches: 43, Indels: 39
0.73 0.14 0.13
Matches are distributed among these distances:
28 3 0.01
29 71 0.32
30 112 0.51
31 32 0.15
32 1 0.00
ACGTcount: A:0.36, C:0.25, G:0.01, T:0.37
Consensus pattern (29 bp):
AAACTTTCCAAAATTACATTTTAACCCCT
Found at i:1133993 original size:59 final size:57
Alignment explanation
Indices: 1133918--1134240 Score: 303
Period size: 59 Copynumber: 5.4 Consensus size: 57
1133908 TCTAAAATTG
* * * * *
1133918 CATTTTGACATCAAACTTTCCTAAAATTATATTTTGACCCCTAAACTTTTTCAAAATCC
1 CATTTTAACCTCAAACTTTCC-AAAATTACATTTT-ACCCCTAAACTTTTCCAAAATCA
* *
1133977 CATTTTAACC-CTAAACTTCTCTAAAATTACATTTTAACCCCTAAACTTTTCCAAAATCC
1 CATTTTAACCTC-AAACTT-TCCAAAATTACATTTT-ACCCCTAAACTTTTCCAAAATCA
* * * * *
1134036 CATTTTAACCTCGAACTACTCCAAAATTACATTTTATCCCTTAAACTTCTCCAAAATTA
1 CATTTTAACCTCAAACT-TTCCAAAATTACATTTTA-CCCCTAAACTTTTCCAAAATCA
* * *
1134095 CATTTTGATCTCAAACTTTTCCAAAATTACATTTTTAACCCCTAAAC-TTTCCTAAAATTA
1 CATTTTAACCTCAAAC-TTTCCAAAATTACA-TTTT-ACCCCTAAACTTTTCC-AAAATCA
* * *
1134155 TATTTTAATCTCAAACTCATCCAAAAATTACTATTTTACCCCTAATA-TTCTT-CAAAATCA
1 CATTTTAACCTCAAACT-TTCC-AAAATTAC-ATTTTACCCCTAA-ACTT-TTCCAAAATCA
1134215 CATTTTTAACCTCAAACTTTCCAAAA
1 CA-TTTTAACCTCAAACTTTCCAAAA
1134241 GTTTGATTTT
Statistics
Matches: 222, Mismatches: 26, Indels: 32
0.79 0.09 0.11
Matches are distributed among these distances:
58 2 0.01
59 129 0.58
60 58 0.26
61 30 0.14
62 3 0.01
ACGTcount: A:0.36, C:0.25, G:0.01, T:0.37
Consensus pattern (57 bp):
CATTTTAACCTCAAACTTTCCAAAATTACATTTTACCCCTAAACTTTTCCAAAATCA
Found at i:1134370 original size:10 final size:10
Alignment explanation
Indices: 1134357--1134385 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
1134347 GTTTGTTTTG
1134357 TTTTTTCTTT
1 TTTTTTCTTT
1134367 TTTTTTCTTT
1 TTTTTTCTTT
1134377 TTTTTTCTT
1 TTTTTTCTT
1134386 CGATGTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:1136450 original size:38 final size:38
Alignment explanation
Indices: 1136407--1136482 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
1136397 GTATAATGCT
1136407 TATTAAATA-TAAAATGTTTAAAAAATATT-TTAAAATAA
1 TATTAAA-ACTAAAATGTTT-AAAAATATTATTAAAATAA
* * *
1136445 TATTAAAACTAAATTGTTTTAAAATTTTATTAAAATAA
1 TATTAAAACTAAAATGTTTAAAAATATTATTAAAATAA
1136483 AATCTTTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 8 0.24
38 25 0.76
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (38 bp):
TATTAAAACTAAAATGTTTAAAAATATTATTAAAATAA
Found at i:1136494 original size:27 final size:27
Alignment explanation
Indices: 1136428--1136494 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
1136418 AAATGTTTAA
1136428 AAAATATTTTAAAATAATATTAAAACT
1 AAAATATTTTAAAATAATATTAAAACT
* * **
1136455 AAATTGTTTTAAAATTTTATTAAAA-T
1 AAAATATTTTAAAATAATATTAAAACT
*
1136481 AAAATCTTTGTAAA
1 AAAATATTT-TAAA
1136495 TGTTTATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 8 0.24
27 25 0.76
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (27 bp):
AAAATATTTTAAAATAATATTAAAACT
Found at i:1136731 original size:16 final size:15
Alignment explanation
Indices: 1136683--1136733 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
1136673 TTATTTATAT
*
1136683 TTTTTAAT-AAAATG
1 TTTTTAATAAAAAAG
* *
1136697 TTTTAAACTAAATAAG
1 TTTTTAA-TAAAAAAG
1136713 TTTTTAATAAAAAACG
1 TTTTTAATAAAAAA-G
1136729 TTTTT
1 TTTTT
1136734 TATTTAAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 6 0.21
15 7 0.24
16 16 0.55
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTTAATAAAAAAG
Found at i:1139511 original size:29 final size:29
Alignment explanation
Indices: 1139466--1139523 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
1139456 ATCAACATGT
*
1139466 GATAACACAACACAAAATAAAATCACACA
1 GATAACACAAAACAAAATAAAATCACACA
* *
1139495 GATAACACAAAATAAAATAATATCACACA
1 GATAACACAAAACAAAATAAAATCACACA
1139524 AGGTGTGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.62, C:0.21, G:0.03, T:0.14
Consensus pattern (29 bp):
GATAACACAAAACAAAATAAAATCACACA
Found at i:1140115 original size:12 final size:12
Alignment explanation
Indices: 1140107--1140148 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
1140097 AGGTTCAAGC
1140107 TCGGGTTCAGGT
1 TCGGGTTCAGGT
*
1140119 TCAGGTTCAGGT
1 TCGGGTTCAGGT
* *
1140131 TCGGGTTCGGGA
1 TCGGGTTCAGGT
1140143 TCGGGT
1 TCGGGT
1140149 ATTGGGTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.10, C:0.17, G:0.43, T:0.31
Consensus pattern (12 bp):
TCGGGTTCAGGT
Found at i:1160699 original size:24 final size:24
Alignment explanation
Indices: 1160653--1160699 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
1160643 GCTTTGTTCC
* **
1160653 AATTTAAATTATTATTTTTTAATT
1 AATTCAAATTATTATTTACTAATT
*
1160677 AATTCAAATTATTGTTTACTAAT
1 AATTCAAATTATTATTTACTAAT
1160700 GAACGAGTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (24 bp):
AATTCAAATTATTATTTACTAATT
Found at i:1165081 original size:30 final size:30
Alignment explanation
Indices: 1165045--1165104 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
1165035 AAACTATTAA
1165045 AGTTTTAAGAAGTTACCTTTGATGATTCCT
1 AGTTTTAAGAAGTTACCTTTGATGATTCCT
1165075 AGTTTTAAGAAGTTACCTTTGATGATTCCT
1 AGTTTTAAGAAGTTACCTTTGATGATTCCT
1165105 TGAAGTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (30 bp):
AGTTTTAAGAAGTTACCTTTGATGATTCCT
Found at i:1166806 original size:21 final size:21
Alignment explanation
Indices: 1166774--1166829 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 21
1166764 ATAAACGGAA
1166774 TTAACAGAAAGTACCAAAGTAC
1 TTAACAG-AAGTACCAAAGTAC
1166796 TT-ACTAGAAGTACCAAAGTAC
1 TTAAC-AGAAGTACCAAAGTAC
1166817 TTAACAGAAGTAC
1 TTAACAGAAGTAC
1166830 ATAACTGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 26 0.81
22 6 0.19
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.21
Consensus pattern (21 bp):
TTAACAGAAGTACCAAAGTAC
Found at i:1166905 original size:23 final size:23
Alignment explanation
Indices: 1166879--1166944 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
1166869 AGAAAGCGCG
* *
1166879 CACAGTGTTGACCAGAGGGCACA
1 CACAGTGCTGAACAGAGGGCACA
1166902 CACAGTGCTGAACAGAGGGCACGA
1 CACAGTGCTGAACAGAGGGCAC-A
* *
1166926 AAC-GTGCTAAACAGAGGGC
1 CACAGTGCTGAACAGAGGGC
1166945 GCGCTAGTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 35 0.92
24 3 0.08
ACGTcount: A:0.33, C:0.24, G:0.32, T:0.11
Consensus pattern (23 bp):
CACAGTGCTGAACAGAGGGCACA
Found at i:1180097 original size:54 final size:54
Alignment explanation
Indices: 1180015--1180122 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
1180005 ACCTTTATTT
1180015 ATAGTCGAACTCTTCCAAATTCAACGGTACAATTTAAATTACATCGACAGCTAA
1 ATAGTCGAACTCTTCCAAATTCAACGGTACAATTTAAATTACATCGACAGCTAA
1180069 ATAGTCGAACTCTTCCAAATTCAACGGTACAATTTAAATTACATCGACAGCTAA
1 ATAGTCGAACTCTTCCAAATTCAACGGTACAATTTAAATTACATCGACAGCTAA
1180123 TATGAAAATC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (54 bp):
ATAGTCGAACTCTTCCAAATTCAACGGTACAATTTAAATTACATCGACAGCTAA
Found at i:1186519 original size:38 final size:37
Alignment explanation
Indices: 1186466--1186550 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 37
1186456 AACTTGAATG
* *
1186466 TCCTCTCCCCATTAGCTCGATC-GAGGGGAATTTTGGAAC
1 TCCTCT-CCCATTAGCTCGA-CAGAGGAGAA-TTTAGAAC
*
1186505 TCCTCTCCCATTAGCTTGACAGAGGAGAATTTAGAAC
1 TCCTCTCCCATTAGCTCGACAGAGGAGAATTTAGAAC
*
1186542 TCCCCTCCC
1 TCCTCTCCC
1186551 TAAAAGCTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
37 16 0.39
38 19 0.46
39 6 0.15
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (37 bp):
TCCTCTCCCATTAGCTCGACAGAGGAGAATTTAGAAC
Found at i:1190652 original size:3 final size:3
Alignment explanation
Indices: 1190644--1190683 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
1190634 AAAAGGTCTG
1190644 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1190684 AATTACTACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:1193306 original size:128 final size:130
Alignment explanation
Indices: 1192977--1193310 Score: 329
Period size: 128 Copynumber: 2.6 Consensus size: 130
1192967 TTGATGGTTG
* *
1192977 TCACTAACAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTTGTATTATCAGAAAA
1 TCACTAACAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTG-ATTTGTA-T-TCACAAAA
* * * ** *
1193042 AGAAAGAAAAAAAAAATAAGGCCTGCTTGGTGCCTGTCTAAGAAATTGCTCTTGCTGATTGATAT
63 AG-AAGAAAAAAAAAATAAGGCATGCTTGGTCCCTGCCTAAGAAATTGCTCCAGCTGATTGATAG
*
1193107 TCGA
127 TCAA
* * * * * * **
1193111 TCACCAGCAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTCGAATTCTCAGGAA-A
1 TCACTAACAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGATTTGTATTCACAAAAAGA
* * *
1193175 AGAAAAGAAAAA-AAGGTCAT-CTTGTTGTCCCTGCCT-AGAAA-TGCTCCAGCTGATTGGTGGT
66 AGAAAAAAAAAATAAGG-CATGCTTG--GTCCCTGCCTAAGAAATTGCTCCAGCTGATTGATAGT
1193236 CAA
128 CAA
* * ** * *
1193239 TCACTAACAAGAGCAAACATTGAATCTTCGAGCCATTTAACCTTTGATTTGTGTTC-CATAAAGA
1 TCACTAACAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGATTTGTATTCACAAAAAGA
1193303 AGAAAAAA
66 AGAAAAAA
1193311 CCCAATGAGT
Statistics
Matches: 164, Mismatches: 32, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
127 4 0.02
128 79 0.48
129 19 0.12
130 8 0.05
131 5 0.03
132 1 0.01
133 4 0.02
134 44 0.27
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (130 bp):
TCACTAACAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGATTTGTATTCACAAAAAGA
AGAAAAAAAAAATAAGGCATGCTTGGTCCCTGCCTAAGAAATTGCTCCAGCTGATTGATAGTCAA
Found at i:1196127 original size:18 final size:17
Alignment explanation
Indices: 1196106--1196139 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
1196096 TTTAAAAAAT
1196106 AATTTTTATACTTTTTTG
1 AATTTTTA-ACTTTTTTG
1196124 AATTTTTAACTTTTTT
1 AATTTTTAACTTTTTT
1196140 AAAAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.68
Consensus pattern (17 bp):
AATTTTTAACTTTTTTG
Done.