Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 30 of 196
Found at i:8381998 original size:17 final size:16
Alignment explanation
Indices: 8381964--8382005 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
8381954 TATATAACTG
8381964 TAAT-ATTAA-TTAAA
1 TAATAATTAATTTAAA
8381978 TAATAATTAATTTAAA
1 TAATAATTAATTTAAA
*
8381994 TTAATATTTAAT
1 -TAATAATTAAT
8382006 AATTAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 5 0.21
16 5 0.21
17 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATAATTAATTTAAA
Found at i:8382010 original size:24 final size:22
Alignment explanation
Indices: 8381978--8382022 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 22
8381968 ATTAATTAAA
8381978 TAATAATTAATTTAAATTAATATT
1 TAATAATTAA-TT-AATTAATATT
8382002 TAATAATTAATTAATTAATAT
1 TAATAATTAATTAATTAATAT
8382023 ACTTTGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.43
23 2 0.10
24 10 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATAATTAATTAATTAATATT
Found at i:8382021 original size:15 final size:15
Alignment explanation
Indices: 8381968--8382021 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
8381958 TAACTGTAAT
8381968 ATTAATTAAATAA-TA
1 ATTAATT-AATAATTA
*
8381983 ATTAATTTA-AATTA
1 ATTAATTAATAATTA
*
8381997 A-TATTTAATAATTA
1 ATTAATTAATAATTA
8382011 ATTAATTAATA
1 ATTAATTAATA
8382022 TACTTTGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
13 7 0.22
14 10 0.31
15 15 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAATTAATAATTA
Found at i:8389445 original size:16 final size:17
Alignment explanation
Indices: 8389424--8389455 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
8389414 AAATATGCAA
8389424 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
8389440 TCACATAACTTCATAT
1 TCACATAACTTCATAT
8389456 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:8389682 original size:43 final size:41
Alignment explanation
Indices: 8389612--8389728 Score: 121
Period size: 41 Copynumber: 2.8 Consensus size: 41
8389602 AGAAGGCTCG
** *
8389612 TACAATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCACA
1 TACAATGCC-ACTGTCCCAGACAG-GGTCTTACA-CAAATCAAA
*
8389654 TATCAATGCCACTGTCCCAAACAGGGTCTTACACAAATCAAA
1 TA-CAATGCCACTGTCCCAGACAGGGTCTTACACAAATCAAA
* * *
8389696 TACGATGCCAATGTCCCAGACATGGTCTTACAC
1 TACAATGCCACTGTCCCAGACAGGGTCTTACAC
8389729 GTATACACAA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
41 27 0.42
42 12 0.19
43 24 0.38
44 1 0.02
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.23
Consensus pattern (41 bp):
TACAATGCCACTGTCCCAGACAGGGTCTTACACAAATCAAA
Found at i:8389765 original size:43 final size:42
Alignment explanation
Indices: 8389616--8389771 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
8389606 GGCTCGTACA
* *
8389616 ATGCCAACGTCCCAGACGTGGTCTTACATGTA-ATCACATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATA-CACA-ATCG
* **
8389659 ATGCC-ACTGTCCCAAACAG-GGTCTTACACAAAT-CA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTATACACAAT-CG
* *
8389700 ATGCCAATGTCCCAGACATGGTCTTACACGTATACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAA-TCG
*
8389743 ATGCCAACGTCCTAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
8389772 AAAAATACAT
Statistics
Matches: 91, Mismatches: 13, Indels: 18
0.75 0.11 0.15
Matches are distributed among these distances:
40 2 0.02
41 27 0.30
42 7 0.08
43 53 0.58
44 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAATCG
Found at i:8396167 original size:33 final size:33
Alignment explanation
Indices: 8396128--8396223 Score: 86
Period size: 37 Copynumber: 2.8 Consensus size: 33
8396118 TAATCAAATG
8396128 CCTTATTTATTTATTTTATTTACTTAATATTTC
1 CCTTATTTATTTATTTTATTTACTTAATATTTC
* * *
8396161 CCTTATTTCATTTTCACATTTATTTATTTATTATTTC
1 CCTTATTT-A-TTT-A-TTTTATTTACTTAATATTTC
* *
8396198 CTTTTATTGTATTTATTAT-TTTACTT
1 C-CTTATT-TATTTATTTTATTTACTT
8396224 TTACTACTCC
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
33 8 0.16
34 7 0.14
35 5 0.10
36 2 0.04
37 21 0.42
38 6 0.12
39 1 0.02
ACGTcount: A:0.22, C:0.12, G:0.01, T:0.65
Consensus pattern (33 bp):
CCTTATTTATTTATTTTATTTACTTAATATTTC
Found at i:8396197 original size:22 final size:22
Alignment explanation
Indices: 8396172--8396218 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
8396162 CTTATTTCAT
8396172 TTTCACATTTATT-TATTTATTA
1 TTTC-CATTTATTGTATTTATTA
*
8396194 TTTCCTTTTATTGTATTTATTA
1 TTTCCATTTATTGTATTTATTA
8396216 TTT
1 TTT
8396219 TACTTTTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTCCATTTATTGTATTTATTA
Found at i:8396899 original size:19 final size:18
Alignment explanation
Indices: 8396875--8396918 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
8396865 ACATGCCCCT
*
8396875 TTTTAAAAAAAAATTGATA
1 TTTTAAAAAAAAATCG-TA
* *
8396894 TTTTAACAAAGAATCGTA
1 TTTTAAAAAAAAATCGTA
8396912 TTTTAAA
1 TTTTAAA
8396919 TCTCTTCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.39
Consensus pattern (18 bp):
TTTTAAAAAAAAATCGTA
Found at i:8400257 original size:29 final size:29
Alignment explanation
Indices: 8400220--8400279 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
8400210 TAAAAATATT
*
8400220 ATATATATTT-AGTCACTTAATTTTTAAAA
1 ATATATATTTAAGTCACTTAA-TTCTAAAA
*
8400249 ATATTTATTTAAGTCACTTAATTCTAAAA
1 ATATATATTTAAGTCACTTAATTCTAAAA
8400278 AT
1 AT
8400280 TTCACAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (29 bp):
ATATATATTTAAGTCACTTAATTCTAAAA
Found at i:8400266 original size:30 final size:34
Alignment explanation
Indices: 8400205--8400279 Score: 97
Period size: 34 Copynumber: 2.4 Consensus size: 34
8400195 TTTTTAAATC
*
8400205 ATTTTTAAAAATATTATATATATTTAGTCACTTA
1 ATTTTTAAAAATATTATATATATTAAGTCACTTA
8400239 ATTTTTAAAAATA-T-T-TAT-TTAAGTCACTTA
1 ATTTTTAAAAATATTATATATATTAAGTCACTTA
*
8400269 A-TTCTAAAAAT
1 ATTTTTAAAAAT
8400280 TTCACAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
29 9 0.23
30 12 0.31
31 3 0.08
32 1 0.03
33 1 0.03
34 13 0.33
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.48
Consensus pattern (34 bp):
ATTTTTAAAAATATTATATATATTAAGTCACTTA
Found at i:8401307 original size:2 final size:2
Alignment explanation
Indices: 8401300--8401324 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8401290 TTCTATCTAT
8401300 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8401325 TTGATTATAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8405949 original size:90 final size:91
Alignment explanation
Indices: 8405775--8406004 Score: 277
Period size: 90 Copynumber: 2.5 Consensus size: 91
8405765 ATACATTTAT
* * * *
8405775 AAAATGTCCAA--TGATACTTGAACTATTAATTTATGTATTATTTGGTACTTGTACTTTCATAAA
1 AAAATGTCCAATGTGGTACATGAACTATCAATTTATGTATTATTTGGTACATGTACTTTCATAAA
* * ** *
8405838 ATGTCTAATATGGTGCCTATACTTTG
66 ATGTCCAATATAGTAACTATACATTG
* *
8405864 AAAATGTCCAATGTGGTACATGAACTATCAATTTGTGTATT-TTTGGTACATGTAGTTTCATAAA
1 AAAATGTCCAATGTGGTACATGAACTATCAATTTATGTATTATTTGGTACATGTACTTTCATAAA
* *
8405928 ATGTCCAATGTAGTAATTATACATTG
66 ATGTCCAATATAGTAACTATACATTG
* * **
8405954 AAAATGTTCAATGTGGTACATGAACTATTAACCTATGTATTATTATGGTAC
1 AAAATGTCCAATGTGGTACATGAACTATCAATTTATGTATTATT-TGGTAC
8406005 TTGGAGTTAA
Statistics
Matches: 119, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
89 11 0.09
90 76 0.64
91 26 0.22
92 6 0.05
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (91 bp):
AAAATGTCCAATGTGGTACATGAACTATCAATTTATGTATTATTTGGTACATGTACTTTCATAAA
ATGTCCAATATAGTAACTATACATTG
Found at i:8406584 original size:29 final size:29
Alignment explanation
Indices: 8406539--8406648 Score: 105
Period size: 29 Copynumber: 3.7 Consensus size: 29
8406529 TAGGTATCAT
* * *
8406539 ATTGAACATTTTCAAAGTATAAGTACCAC
1 ATTGGACATTTTTAAAGTACAAGTACCAC
8406568 ATTGGACATTTTTAAAGTACAAGTACCAC
1 ATTGGACATTTTTAAAGTACAAGTACCAC
* * * *
8406597 ATTAGACGTTTTATAAAAGTGCAAGGACCAC
1 ATTGGACATTTT-T-AAAGTACAAGTACCAC
8406628 ATTTGG-CATTTTATTAAAGTA
1 A-TTGGACA-TTT-TTAAAGTA
8406649 TAGGTACTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
29 36 0.55
30 1 0.02
31 21 0.32
32 7 0.11
33 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (29 bp):
ATTGGACATTTTTAAAGTACAAGTACCAC
Found at i:8411223 original size:22 final size:21
Alignment explanation
Indices: 8411192--8411233 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8411182 TTTTTGTTAT
8411192 TAAATTTAATTATAAA-ATATG
1 TAAATTTAA-TATAAATATATG
8411213 TAAATATTAATATAAATATAT
1 TAAAT-TTAATATAAATATAT
8411234 AATTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAATTTAATATAAATATATG
Found at i:8411242 original size:20 final size:21
Alignment explanation
Indices: 8411192--8411243 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
8411182 TTTTTGTTAT
*
8411192 TAAA-TTTAATTATAAAATATG
1 TAAATTTTAA-TATAAAATATA
*
8411213 TAAATATTAATAT-AAATATA
1 TAAATTTTAATATAAAATATA
*
8411233 TAATTTTTAAT
1 TAAATTTTAAT
8411244 CTTTTATTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 15 0.58
21 7 0.27
22 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TAAATTTTAATATAAAATATA
Found at i:8421464 original size:20 final size:21
Alignment explanation
Indices: 8421425--8421464 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8421415 CATTGATATA
*
8421425 TTTTAGTAGTGTTTGGGGATG
1 TTTTAGTAGTGTTTGCGGATG
*
8421446 TTTTAG-AGTGTTTTCGGAT
1 TTTTAGTAGTGTTTGCGGAT
8421465 TAATTTTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.15, C:0.03, G:0.33, T:0.50
Consensus pattern (21 bp):
TTTTAGTAGTGTTTGCGGATG
Found at i:8423902 original size:22 final size:22
Alignment explanation
Indices: 8423875--8423916 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
8423865 GAGAAGAACA
8423875 AGAAAAATTAGAGAAAAAGAGG
1 AGAAAAATTAGAGAAAAAGAGG
*
8423897 AGAAAAATTAGGGAAAAAGA
1 AGAAAAATTAGAGAAAAAGA
8423917 ATGGCAGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.26, T:0.10
Consensus pattern (22 bp):
AGAAAAATTAGAGAAAAAGAGG
Found at i:8424019 original size:13 final size:13
Alignment explanation
Indices: 8424001--8424025 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8423991 TGTTAGATAC
8424001 TTAGACTTTAGTT
1 TTAGACTTTAGTT
8424014 TTAGACTTTAGT
1 TTAGACTTTAGT
8424026 AAATTAGGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (13 bp):
TTAGACTTTAGTT
Found at i:8424126 original size:44 final size:39
Alignment explanation
Indices: 8424032--8424126 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 39
8424022 TAGTAAATTA
8424032 GGTTGGTAATTGGGTAGTTTTTTAGTTTTAGTTTTATTG
1 GGTTGGTAATTGGGTAGTTTTTTAGTTTTAGTTTTATTG
* *
8424071 GATTGCGTAATTGGGTAGGCTTTAGTTTTGTTTTAGTTTTATTG
1 GGTTG-GTAATTGGGTA-G-TTT--TTTAGTTTTAGTTTTATTG
8424115 GGTTGGATAATT
1 GGTTGG-TAATT
8424127 AGGTTGGGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
39 4 0.09
40 11 0.23
41 1 0.02
42 3 0.06
43 1 0.02
44 27 0.57
ACGTcount: A:0.17, C:0.02, G:0.28, T:0.53
Consensus pattern (39 bp):
GGTTGGTAATTGGGTAGTTTTTTAGTTTTAGTTTTATTG
Found at i:8426344 original size:31 final size:32
Alignment explanation
Indices: 8426309--8426383 Score: 89
Period size: 35 Copynumber: 2.3 Consensus size: 32
8426299 CATGCCTAAC
8426309 TTCCCATT-TAAGTACAAAACATGAGTATGCT
1 TTCCCATTCTAAGTACAAAACATGAGTATGCT
* *
8426340 TTCCCATTCATCTTAGTACAAAACATGTGTATGCT
1 TTCCCA-T--TCTAAGTACAAAACATGAGTATGCT
*
8426375 TTGCCATTC
1 TTCCCATTC
8426384 ATCTTATCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
31 6 0.16
32 3 0.08
34 2 0.05
35 26 0.70
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (32 bp):
TTCCCATTCTAAGTACAAAACATGAGTATGCT
Found at i:8426361 original size:35 final size:35
Alignment explanation
Indices: 8426319--8426389 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
8426309 TTCCCATTTA
8426319 AGTACAAAACATGAGTATGCTTTCCCATTCATCTT
1 AGTACAAAACATGAGTATGCTTTCCCATTCATCTT
* *
8426354 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
1 AGTACAAAACATGAGTATGCTTTCCCATTCATCTT
8426389 A
1 A
8426390 TCTTCTATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (35 bp):
AGTACAAAACATGAGTATGCTTTCCCATTCATCTT
Found at i:8430799 original size:14 final size:14
Alignment explanation
Indices: 8430780--8430810 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
8430770 ATACTTTCAG
8430780 AATATGGAATCAAT
1 AATATGGAATCAAT
8430794 AATATGGAATCAAT
1 AATATGGAATCAAT
8430808 AAT
1 AAT
8430811 CCAACTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (14 bp):
AATATGGAATCAAT
Found at i:8443518 original size:17 final size:18
Alignment explanation
Indices: 8443498--8443531 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8443488 TTGTTTAGAT
8443498 TAATT-AGAGTTTTATTA
1 TAATTGAGAGTTTTATTA
8443515 TAATTGAGAGTTTTATT
1 TAATTGAGAGTTTTATT
8443532 TGGATGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (18 bp):
TAATTGAGAGTTTTATTA
Found at i:8450730 original size:16 final size:17
Alignment explanation
Indices: 8450711--8450756 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
8450701 GGACAATGAT
*
8450711 GGAAAAGGACAA-AAAA
1 GGAAAAGGAAAAGAAAA
8450727 GGAAAAGGAAAAGAAAA
1 GGAAAAGGAAAAGAAAA
* *
8450744 AGAAAAAGAAAAG
1 GGAAAAGGAAAAG
8450757 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (17 bp):
GGAAAAGGAAAAGAAAA
Found at i:8450744 original size:12 final size:12
Alignment explanation
Indices: 8450722--8450755 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
8450712 GAAAAGGACA
*
8450722 AAAAAGGAAAAG
1 AAAAAGAAAAAG
*
8450734 GAAAAGAAAAAG
1 AAAAAGAAAAAG
8450746 AAAAAGAAAA
1 AAAAAGAAAA
8450756 GTTAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:8454817 original size:30 final size:30
Alignment explanation
Indices: 8454783--8454842 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
8454773 TATTTTACTA
*
8454783 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
*
8454813 TTAATTTTGTTATTATTTTAGAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
8454843 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTG
Found at i:8455736 original size:17 final size:17
Alignment explanation
Indices: 8455711--8455744 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8455701 CAGAACTTTC
8455711 TTTTCTTTTTCTTTTTT
1 TTTTCTTTTTCTTTTTT
* *
8455728 TTTTGTTTTTGTTTTTT
1 TTTTCTTTTTCTTTTTT
8455745 ACAAAGCATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (17 bp):
TTTTCTTTTTCTTTTTT
Found at i:8463586 original size:46 final size:46
Alignment explanation
Indices: 8463503--8463671 Score: 133
Period size: 46 Copynumber: 3.5 Consensus size: 46
8463493 TTGCACATAG
* * *
8463503 TCACATATCACATACCGAGGCCATAACCCAGCCATGGTCTTATACGGA
1 TCACATATCAC--ACTGATGCCATAACCCAGCTATGGTCTTATACGGA
* * *
8463551 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTA
1 TCACATATCACACTGATGCCATAACCCAGCTATGGTCTTATAC-GGA
* * * *
8463598 GCACATATCACATTTTTTCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAA
1 TCACATATCACA----CT-GATGCCATAACCCAGCTATGGTCTTATACGG--A
* *
8463651 TCACATTTCACA-TGCTGCCAT
1 TCACATATCACACTGATGCCAT
8463672 GGTCCAACCA
Statistics
Matches: 97, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
46 27 0.28
47 19 0.20
48 12 0.12
51 2 0.02
52 26 0.27
53 11 0.11
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (46 bp):
TCACATATCACACTGATGCCATAACCCAGCTATGGTCTTATACGGA
Found at i:8477157 original size:18 final size:18
Alignment explanation
Indices: 8477115--8477159 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 18
8477105 TTCACTAATT
*
8477115 AATTTAAAT-ATATTTTA
1 AATTTAAATAATATTGTA
*
8477132 AA-AT-AATAATATTGTA
1 AATTTAAATAATATTGTA
8477148 AATTTAAATAAT
1 AATTTAAATAAT
8477160 TTGATTAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 5
0.73 0.10 0.17
Matches are distributed among these distances:
15 3 0.14
16 10 0.45
17 3 0.14
18 6 0.27
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
AATTTAAATAATATTGTA
Found at i:8483260 original size:13 final size:13
Alignment explanation
Indices: 8483242--8483266 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8483232 TTACACTTTT
8483242 TCCCGTGACACTG
1 TCCCGTGACACTG
8483255 TCCCGTGACACT
1 TCCCGTGACACT
8483267 AGGATGTACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.20, T:0.24
Consensus pattern (13 bp):
TCCCGTGACACTG
Found at i:8484743 original size:26 final size:24
Alignment explanation
Indices: 8484696--8484744 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
8484686 ATTTACTTTT
*
8484696 ATTTTTAAAAATCTATTAATAAAA
1 ATTTTTAAAAATCAATTAATAAAA
*
8484720 ATTTATTAAAAATACAATTCATAAA
1 ATTT-TTAAAAAT-CAATTAATAAA
8484745 TTAAAAGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 8 0.38
26 9 0.43
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (24 bp):
ATTTTTAAAAATCAATTAATAAAA
Found at i:8494834 original size:53 final size:53
Alignment explanation
Indices: 8494747--8494849 Score: 170
Period size: 53 Copynumber: 1.9 Consensus size: 53
8494737 TCAACATAGT
* * * *
8494747 ATTGTGAAAGTAGTGAATGAGAATACCTGGAAGCCTATTAAATTTTCCAAGTA
1 ATTGTGAAAGTAGTAAATGAGAATACATGAAAGCCTATTAAATTTGCCAAGTA
8494800 ATTGTGAAAGTAGTAAATGAGAATACATGAAAGCCTATTAAATTTGCCAA
1 ATTGTGAAAGTAGTAAATGAGAATACATGAAAGCCTATTAAATTTGCCAA
8494850 TGACGGTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (53 bp):
ATTGTGAAAGTAGTAAATGAGAATACATGAAAGCCTATTAAATTTGCCAAGTA
Found at i:8496902 original size:16 final size:15
Alignment explanation
Indices: 8496872--8496912 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
8496862 TTATTTATTA
8496872 AATTAA-TTTAAATT
1 AATTAATTTTAAATT
8496886 AATTAATTTTCAAATT
1 AATTAATTTT-AAATT
*
8496902 AAATAATTTTA
1 AATTAATTTTA
8496913 TAAACCCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 4 0.17
16 14 0.58
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTAATTTTAAATT
Found at i:8505174 original size:36 final size:36
Alignment explanation
Indices: 8505134--8505215 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
8505124 TTGTGAACCA
* *
8505134 TGTTAATTTGGCGAAT-TATATTATTATGGCAAACTG
1 TGTTAATTTGGCG-ATCTATATTAATATGGCAAACGG
* * *
8505170 TGTTAATTTGGTGATCTGTATTAATATGGCGAACGG
1 TGTTAATTTGGCGATCTATATTAATATGGCAAACGG
*
8505206 TATTAATTTG
1 TGTTAATTTG
8505216 TCAAATTGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 2 0.05
36 37 0.95
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (36 bp):
TGTTAATTTGGCGATCTATATTAATATGGCAAACGG
Found at i:8505193 original size:18 final size:18
Alignment explanation
Indices: 8505136--8505215 Score: 72
Period size: 18 Copynumber: 4.4 Consensus size: 18
8505126 GTGAACCATG
* *
8505136 TTAATTTGGCGAATTATA
1 TTAATTTGGCGAACTGTA
* *
8505154 TT-ATTATGGCAAACTGTG
1 TTAATT-TGGCGAACTGTA
* *
8505172 TTAATTTGGTGATCTGTA
1 TTAATTTGGCGAACTGTA
* *
8505190 TTAATATGGCGAACGGTA
1 TTAATTTGGCGAACTGTA
8505208 TTAATTTG
1 TTAATTTG
8505216 TCAAATTGTG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
17 3 0.06
18 41 0.87
19 3 0.06
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.42
Consensus pattern (18 bp):
TTAATTTGGCGAACTGTA
Found at i:8505983 original size:17 final size:17
Alignment explanation
Indices: 8505963--8506004 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
8505953 ATTATTATGC
*
8505963 ATGAATTGTTACTTTAT
1 ATGAACTGTTACTTTAT
*
8505980 ATGAACTGTTATTTTAT
1 ATGAACTGTTACTTTAT
*
8505997 ACGAACTG
1 ATGAACTG
8506005 CCTATTCTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (17 bp):
ATGAACTGTTACTTTAT
Found at i:8509200 original size:19 final size:20
Alignment explanation
Indices: 8509176--8509215 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8509166 ATTGTTGAAA
*
8509176 TTATGAGATTTTTG-AAGTT
1 TTATGAGAGTTTTGTAAGTT
*
8509195 TTATGATAGTTTTGTAAGTT
1 TTATGAGAGTTTTGTAAGTT
8509215 T
1 T
8509216 GATAGCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (20 bp):
TTATGAGAGTTTTGTAAGTT
Found at i:8522912 original size:37 final size:37
Alignment explanation
Indices: 8522868--8522967 Score: 155
Period size: 37 Copynumber: 2.7 Consensus size: 37
8522858 ATCCAATCAA
** *
8522868 AACACGCCAAACACTCATAAGAGCTAATCCAACCGAT
1 AACACGCCAAATGCTCATAAGAGCTAATCCAAACGAT
8522905 AACACGCCAAATGCTCATAAGAGCTAATCCAAACGAT
1 AACACGCCAAATGCTCATAAGAGCTAATCCAAACGAT
* *
8522942 AACAAGTCAAATGCTCATAAGAGCTA
1 AACACGCCAAATGCTCATAAGAGCTA
8522968 TACATCCACC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.44, C:0.27, G:0.13, T:0.16
Consensus pattern (37 bp):
AACACGCCAAATGCTCATAAGAGCTAATCCAAACGAT
Found at i:8525169 original size:98 final size:96
Alignment explanation
Indices: 8524978--8525305 Score: 485
Period size: 98 Copynumber: 3.4 Consensus size: 96
8524968 AACAACTAGT
* * * *
8524978 TTTATTTGATTTTTTTCTTAAAACCCTAAATACTAAACCCCAATCTAATTTTTTTAAAATTTATA
1 TTTATTTAATTTTTTCCTTAAAACCCTAAAAACTAAACCCTAATCTAATTTTTTTAAAATTTATA
*
8525043 ATTAATTTACTCAAGTAACCCTAGACCCTAA
66 ATTAATTTACTCAAGTAACCCTAAACCCTAA
* * * *
8525074 TTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACTCTAATCTATTTTTTTTAAAAATTTA
1 TTTATTTAATTTTTTCCTT-AAAACCCTAAAAACTAAACCCTAATCTAATTTTTTT-AAAATTTA
8525139 TAATTAATTTACTCAAGTAACCCTAAACCCTAA
64 TAATTAATTTACTCAAGTAACCCTAAACCCTAA
* *
8525172 TTTATTTAATTTTTTCCTTAAAAACCATAAAAACTAAACCCTAATCTAAGTTTTTTAAAATTTAT
1 TTTATTTAATTTTTTCCTT-AAAACCCTAAAAACTAAACCCTAATCTAATTTTTTTAAAATTTAT
* * * *
8525237 AATTAATTTAATTAAGAAACCCTAAACCCTTA
65 AATTAATTTACTCAAGTAACCCTAAACCCTAA
*
8525269 TTTATTTAATTTTTTCCTTAAAACCCTAAAATCTAAA
1 TTTATTTAATTTTTTCCTTAAAACCCTAAAAACTAAA
8525306 AACTCAAAAA
Statistics
Matches: 212, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
96 34 0.16
97 88 0.42
98 90 0.42
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.42
Consensus pattern (96 bp):
TTTATTTAATTTTTTCCTTAAAACCCTAAAAACTAAACCCTAATCTAATTTTTTTAAAATTTATA
ATTAATTTACTCAAGTAACCCTAAACCCTAA
Found at i:8525450 original size:40 final size:40
Alignment explanation
Indices: 8525368--8525514 Score: 136
Period size: 40 Copynumber: 3.7 Consensus size: 40
8525358 AAAAACAGGA
* * * *
8525368 AAAGTGATTCCTCAAGGAAGCA-CTT-TGTCCACGTGGACAC
1 AAAGTGCTTCCTTAAGGAAGCATTTTCTGTCCACATGG--AC
* * * *
8525408 AAAATGCTCCCTCAAGGAAGCGTTTTCTGTCCACATGGAC
1 AAAGTGCTTCCTTAAGGAAGCATTTTCTGTCCACATGGAC
* * * * * *
8525448 AAAGCGCTTCCTTGAGGAATCATTTTTTGTCCTCGTGGAC
1 AAAGTGCTTCCTTAAGGAAGCATTTTCTGTCCACATGGAC
8525488 AAAGTGCTTCCTTAAGGAAGCATTTTC
1 AAAGTGCTTCCTTAAGGAAGCATTTTC
8525515 CTGCTTTATC
Statistics
Matches: 85, Mismatches: 20, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
40 73 0.86
41 2 0.02
42 10 0.12
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (40 bp):
AAAGTGCTTCCTTAAGGAAGCATTTTCTGTCCACATGGAC
Found at i:8533784 original size:22 final size:23
Alignment explanation
Indices: 8533757--8533801 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
8533747 AGGTACCTAC
8533757 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
8533779 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
8533802 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:8533806 original size:22 final size:22
Alignment explanation
Indices: 8533754--8533811 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
8533744 AAAAGGTACC
*
8533754 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
8533775 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
8533798 TACATATCATATCT
1 TACAAATCATATCT
8533812 ACGGTTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:8534818 original size:17 final size:17
Alignment explanation
Indices: 8534804--8534847 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
8534794 ATAATCTTCA
8534804 AGGATATGCAATCTTAG
1 AGGATATGCAATCTTAG
*
8534821 ATATGATATGCAATCTTAG
1 --AGGATATGCAATCTTAG
8534840 AGGATATG
1 AGGATATG
8534848 ATTTTGTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 7 0.30
19 16 0.70
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (17 bp):
AGGATATGCAATCTTAG
Found at i:8534876 original size:21 final size:23
Alignment explanation
Indices: 8534832--8534876 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
8534822 TATGATATGC
*
8534832 AATCTTAGAGGATATGATTTTGT
1 AATCTTAGAGGATATGAATTTGT
*
8534855 AATCTTAGA-GAT-TTAATTTGT
1 AATCTTAGAGGATATGAATTTGT
8534876 A
1 A
8534877 GATACCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.44
Consensus pattern (23 bp):
AATCTTAGAGGATATGAATTTGT
Found at i:8538057 original size:23 final size:24
Alignment explanation
Indices: 8538006--8538051 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
8537996 CAATCATAGT
8538006 ATTGCACCGAAGTGCCACATTTCG
1 ATTGCACCGAAGTGCCACATTTCG
*
8538030 ATTGCACCGAAGTGGCAC-TTTC
1 ATTGCACCGAAGTGCCACATTTC
8538052 ATTTGCGCGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (24 bp):
ATTGCACCGAAGTGCCACATTTCG
Found at i:8539653 original size:7 final size:7
Alignment explanation
Indices: 8539641--8539666 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8539631 ATATTGTGTT
8539641 TTTTTTA
1 TTTTTTA
8539648 TTTTTTA
1 TTTTTTA
8539655 TTTTTTA
1 TTTTTTA
8539662 TTTTT
1 TTTTT
8539667 GTACTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:8541803 original size:12 final size:12
Alignment explanation
Indices: 8541776--8541817 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
8541766 ATTTATTTAG
8541776 AAAATTAATAATA
1 AAAATTAA-AATA
*
8541789 AAAATTAAAA-G
1 AAAATTAAAATA
*
8541800 AAAATGAAAATA
1 AAAATTAAAATA
8541812 AAAATT
1 AAAATT
8541818 TAATGGTGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
11 9 0.38
12 7 0.29
13 8 0.33
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (12 bp):
AAAATTAAAATA
Found at i:8542712 original size:24 final size:24
Alignment explanation
Indices: 8542685--8542738 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 24
8542675 TTTGGATATA
8542685 AAAATAATAATCAAAATTTT-G-TTT
1 AAAATAA-AAT-AAAATTTTGGTTTT
8542709 AAAATAAAATAAAATTTTGGTTTT
1 AAAATAAAATAAAATTTTGGTTTT
8542733 AAAATA
1 AAAATA
8542739 TAAAAAGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.29
23 4 0.14
24 16 0.57
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.39
Consensus pattern (24 bp):
AAAATAAAATAAAATTTTGGTTTT
Found at i:8543511 original size:19 final size:19
Alignment explanation
Indices: 8543487--8543560 Score: 112
Period size: 19 Copynumber: 3.8 Consensus size: 19
8543477 ATCTTCAAGA
8543487 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
8543506 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
8543525 ATATATGCAATCTTGGATATG
1 --ATATGCAATCTTAGATATG
*
8543546 ATATGCAATATTAGA
1 ATATGCAATCTTAGA
8543561 AGATATGATT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:8543532 original size:21 final size:21
Alignment explanation
Indices: 8543487--8543549 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
8543477 ATCTTCAAGA
8543487 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
8543506 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
8543527 ATATGCAATCTTGGATATGAT
1 ATATGCAATCTTAGATATGAT
8543548 AT
1 AT
8543550 GCAATATTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 19 0.46
21 22 0.54
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:8545496 original size:19 final size:19
Alignment explanation
Indices: 8545468--8545519 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
8545458 ATATCTTCCG
8545468 AGATTGCATATCATATCCA
1 AGATTGCATATCATATCCA
* *
8545487 AGATTACATATATCATATCTA
1 AGATTGC--ATATCATATCCA
8545508 AGATTGCATATC
1 AGATTGCATATC
8545520 CTTGAAGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 11 0.39
21 17 0.61
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (19 bp):
AGATTGCATATCATATCCA
Found at i:8545501 original size:21 final size:21
Alignment explanation
Indices: 8545475--8545518 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
8545465 CCGAGATTGC
8545475 ATATCATATCCAAGATTACAT
1 ATATCATATCCAAGATTACAT
* *
8545496 ATATCATATCTAAGATTGCAT
1 ATATCATATCCAAGATTACAT
8545517 AT
1 AT
8545519 CCTTGAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (21 bp):
ATATCATATCCAAGATTACAT
Found at i:8545988 original size:42 final size:42
Alignment explanation
Indices: 8545929--8546008 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
8545919 TTTCATGTCG
*
8545929 ATACATAAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTA
1 ATACATAAAGACAAGATCTACTTTCTTCGATCTACTTCGCTA
* *
8545971 ATACATGAAGACAAGATCTACTTTCTTCGATCTGCTTC
1 ATACATAAAGACAAGATCTACTTTCTTCGATCTACTTC
8546009 ACTGTCGGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (42 bp):
ATACATAAAGACAAGATCTACTTTCTTCGATCTACTTCGCTA
Found at i:8546102 original size:88 final size:88
Alignment explanation
Indices: 8545994--8546429 Score: 622
Period size: 88 Copynumber: 5.0 Consensus size: 88
8545984 AGATCTACTT
* * *
8545994 TCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
*
8546059 GACCCAGGGAGGCAAGGCTGGTA
66 AACCCAGGGAGGCAAGGCTGGTA
* * *
8546082 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGACAATATCTGTTATCTTCAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
*
8546147 AACCCAGGGAGGCAAGGCTAGTA
66 AACCCAGGGAGGCAAGGCTGGTA
* *
8546170 TCTTCGATCTGCTTCGTTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACTTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
*
8546235 AACCCATGGAGGCAAGGCTGGTA
66 AACCCAGGGAGGCAAGGCTGGTA
*
8546258 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATTTGCTATCTTCAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
*
8546323 AACCCAGGGAGGTAAGGCTGGTA
66 AACCCAGGGAGGCAAGGCTGGTA
* * * ** * * * * *
8546346 TCTTCGATCTGCTTCACCGTC-AGTACAGGAAGATAAGATCTGTTATTTTCAGCCTGCTCCGCTG
1 TCTTCGATCTGCTTCGCTGTCGA-TGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTA
* * *
8546410 CAAACCAGGAAGGTAAGGCT
65 CAACCCAGGGAGGCAAGGCT
8546430 TTGTGATTTT
Statistics
Matches: 314, Mismatches: 33, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
87 1 0.00
88 313 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (88 bp):
TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
AACCCAGGGAGGCAAGGCTGGTA
Found at i:8546248 original size:44 final size:43
Alignment explanation
Indices: 8546019--8546330 Score: 143
Period size: 44 Copynumber: 7.1 Consensus size: 43
8546009 ACTGTCGGTA
*
8546019 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
1 CAGG-AGGCAAGATCTGCTATCTTCAACTTGCTCCACTACGACC
* * * * * * **
8546063 CAGGGAGGCAAG-GCTGGTATCTTCGA-TCTGCTTCGCTGTCGATG
1 CA-GGAGGCAAGATCTGCTATCTTCAACT-TGCTCCACT-ACGACC
* * * * *
8546107 CAGGAAGACAATATCTGTTATCTTCAACCTGCTCCACTACAACC
1 CAGG-AGGCAAGATCTGCTATCTTCAACTTGCTCCACTACGACC
* * * ** * **
8546151 CAGGGAGGCAAG-GCTAG-TATCTTCGA-TCTGCTTCGTTGTCGATG
1 CA-GGAGGCAAGATCT-GCTATCTTCAACT-TGCTCCACT-ACGACC
*
8546195 CAGGAAGGCAAGATCTGCTATCTTCAACTTGCTCCACTACAACC
1 CAGG-AGGCAAGATCTGCTATCTTCAACTTGCTCCACTACGACC
* * * * * * **
8546239 CATGGAGGCAAG-GCTGGTATCTTCGA-TCTGCTTCGCTGTCGATG
1 CA-GGAGGCAAGATCTGCTATCTTCAACT-TGCTCCACT-ACGACC
* * *
8546283 CAGGAAGGCAAGATTTGCTATCTTCAACCTGCTCCACTACAACC
1 CAGG-AGGCAAGATCTGCTATCTTCAACTTGCTCCACTACGACC
8546327 CAGG
1 CAGG
8546331 GAGGTAAGGC
Statistics
Matches: 186, Mismatches: 62, Indels: 40
0.65 0.22 0.14
Matches are distributed among these distances:
42 1 0.01
43 58 0.31
44 69 0.37
45 57 0.31
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (43 bp):
CAGGAGGCAAGATCTGCTATCTTCAACTTGCTCCACTACGACC
Found at i:8551597 original size:11 final size:10
Alignment explanation
Indices: 8551568--8551601 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
8551558 TTAAAATCTT
8551568 AAATTAAAAC
1 AAATTAAAAC
*
8551578 ATATTAAAAC
1 AAATTAAAAC
8551588 AAATTTAAAAC
1 AAA-TTAAAAC
8551599 AAA
1 AAA
8551602 AACGTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.24
Consensus pattern (10 bp):
AAATTAAAAC
Found at i:8552899 original size:32 final size:34
Alignment explanation
Indices: 8552857--8552920 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
8552847 TGAAAATAAA
* *
8552857 ATAAAGAT-AAAAAATGTATATGTGTATATATTT
1 ATAAAGATAAAAAAATGTATAAGTATATATATTT
8552890 ATAAA-ATAAAAAAAATGTATAAGTATATATA
1 ATAAAGAT-AAAAAAATGTATAAGTATATATA
8552921 AAATATAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 2 0.07
33 5 0.19
34 20 0.74
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.34
Consensus pattern (34 bp):
ATAAAGATAAAAAAATGTATAAGTATATATATTT
Found at i:8553030 original size:16 final size:17
Alignment explanation
Indices: 8553011--8553044 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8553001 ATAAAAGCTT
8553011 AAAAAT-ATATATATTA
1 AAAAATCATATATATTA
8553027 AAAAATGCATATATATTA
1 AAAAAT-CATATATATTA
8553045 TATATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (17 bp):
AAAAATCATATATATTA
Found at i:8553046 original size:23 final size:23
Alignment explanation
Indices: 8553015--8553097 Score: 80
Period size: 25 Copynumber: 3.5 Consensus size: 23
8553005 AAGCTTAAAA
8553015 ATATATATAT-TAAAAAATGCAT
1 ATATATATATATAAAAAATGCAT
*
8553037 ATATATTATATATAAAAATATGCGT
1 ATATA-TATATATAAAAA-ATGCAT
*
8553062 ATGTACTATATGA-AAAAAATGCAT
1 ATATA-TATAT-ATAAAAAATGCAT
* *
8553086 ATCTGTATATAT
1 ATATATATATAT
8553098 TATGTAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
22 6 0.12
23 10 0.20
24 14 0.28
25 19 0.38
26 1 0.02
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.37
Consensus pattern (23 bp):
ATATATATATATAAAAAATGCAT
Found at i:8553153 original size:18 final size:15
Alignment explanation
Indices: 8553139--8553174 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
8553129 AAATAATGAT
8553139 AATAACCATAATAATA
1 AATAA-CATAATAATA
*
8553155 AATAATATAATAATA
1 AATAACATAATAATA
8553170 AATAA
1 AATAA
8553175 TGATATAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAACATAATAATA
Found at i:8553180 original size:18 final size:16
Alignment explanation
Indices: 8553146--8553191 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
8553136 GATAATAACC
8553146 ATAATAATAAAT-AAT
1 ATAATAATAAATAAAT
8553161 ATAATAATAAATAATGAT
1 ATAATAATAAATAA--AT
*
8553179 ATAATGATAAATA
1 ATAATAATAAATA
8553192 TTAAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 12 0.44
16 1 0.04
18 14 0.52
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
ATAATAATAAATAAAT
Found at i:8553183 original size:15 final size:15
Alignment explanation
Indices: 8553146--8553175 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8553136 GATAATAACC
8553146 ATAATAATAAATAAT
1 ATAATAATAAATAAT
8553161 ATAATAATAAATAAT
1 ATAATAATAAATAAT
8553176 GATATAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:8554148 original size:16 final size:17
Alignment explanation
Indices: 8554127--8554162 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8554117 TTTTTAGTTT
*
8554127 TTTGGGC-TAGGTTTGG
1 TTTGGGCTTAGGTTTAG
8554143 TTTGGGCTTAGGTTTAG
1 TTTGGGCTTAGGTTTAG
8554160 TTT
1 TTT
8554163 ATTGGGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.08, C:0.06, G:0.36, T:0.50
Consensus pattern (17 bp):
TTTGGGCTTAGGTTTAG
Found at i:8554685 original size:44 final size:44
Alignment explanation
Indices: 8554626--8554854 Score: 169
Period size: 44 Copynumber: 5.2 Consensus size: 44
8554616 CTGTAACATC
* * * * * *
8554626 AGGGAGGTAAAATCTGTCATCTTCGATTTACTCCACTACTGCCT
1 AGGGAGATAAGATCTGTAATCTTCAATATACTCCACTGCTGCCT
* * *
8554670 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAGATCTGTAATCTTCAATATACTCCACTGCTGCCT
* * * **
8554714 AGGGAGAT-AGA-AT-TACTGGCTTCAATATACTCCGCTGCAACCT
1 AGGGAGATAAGATCTGTAAT--CTTCAATATACTCCACTGCTGCCT
* * * * * * * *
8554757 CAGGGAGGTAAAATCTATCATCTTCGATCTGA-TCCACTACTGCTT
1 -AGGGAGATAAGATCTGTAATCTTCAATAT-ACTCCACTGCTGCCT
* * *
8554802 AGGGAGATAAGATCTGAAATCTTCAATATATTCCACTGCTGCCC
1 AGGGAGATAAGATCTGTAATCTTCAATATACTCCACTGCTGCCT
8554846 AGGGAGATA
1 AGGGAGATA
8554855 GAATTACTGG
Statistics
Matches: 139, Mismatches: 38, Indels: 16
0.72 0.20 0.08
Matches are distributed among these distances:
41 3 0.02
42 1 0.01
43 22 0.16
44 92 0.66
45 17 0.12
46 2 0.01
47 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (44 bp):
AGGGAGATAAGATCTGTAATCTTCAATATACTCCACTGCTGCCT
Found at i:8554835 original size:132 final size:132
Alignment explanation
Indices: 8554598--8556242 Score: 2257
Period size: 132 Copynumber: 12.5 Consensus size: 132
8554588 GATATAGGAT
* * * *
8554598 TGGCTTCAATGTACTCCACTGTAACATCAGGGAGGTAAAATCTGTCATCTTCGATTTACTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* * *
8554663 ACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGG-AGATAGAAT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAAT
8554727 TAC
130 TAC
* * * ** *
8554730 TGGCTTCAATATACTCCGCTGCAACCTCAGGGAGGTAAAATCTATCATCTTCGATCTGATCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* *
8554795 ACTGCTTAGGGAGATAAGATCTGAAATCTTCAATATATTCCACTGCTGCCCAGGG-AGATAGAAT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAAT
8554859 TAC
130 TAC
* * * * * *
8554862 TGGCCTCAATGTACTCCATTGTAACCACATGGAGGTAAAATCTGTCATCTTCGACCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* **
8554927 ACTGCTTAGGGAGACAACATCCAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
*
8554992 AT
131 AC
* * * * *
8554994 TGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTTCGATCTGTTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
*
8555059 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
*
8555124 TC
131 AC
* * * * * * * * * *
8555126 TAGTTTCAATGTACTCCACTGCAACCACGGGGAGGTAAAATCTGTCGTCTTCGACCTGCTTCGCT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* * * * * *
8555191 ATCT-ATGTAGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGG-AGATGGA
66 A-CTGCT-TAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGA
*
8555254 ATTAT
128 ATTAC
* * *
8555259 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCCAC
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCT-GCCATCTTCGATCTGCTCCAC
* * * *
8555323 TATTGCTTGGGGAGACAAGATCTGAAATCTTTAATCTATTCCACCGCTGCCCAGGGAAGTAGAAT
65 TACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT
8555388 TAC
130 TAC
* * * *
8555391 TAGCTTCAATGTACTCCACTGTAACCTCTGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCCAC
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCT-GCCATCTTCGATCTGCTCCAC
* * * *
8555455 TACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCTAGGG-AGATAGAA
65 TACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAA
8555519 TTAC
129 TTAC
*
8555523 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* *
8555588 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGTCCAGGGAAGTAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
*
8555653 GC
131 AC
* *
8555655 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* * * *
8555720 ACTGTTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGTCTAGGGAAGTAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
8555785 AC
131 AC
* * *
8555787 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGTTTCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* * * *
8555852 ACTGCTTAGGGAGATAAGATTTGTAATCTTCAATCTATTCCACTGCTGCCCAGGG-AGATAGAGT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAAT
8555916 TAC
130 TAC
* *
8555919 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
* ** *
8555984 ACTGTTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCTGCTGCTGTCCAGGGAAGTAGAATT
66 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
8556049 AC
131 AC
* * *
8556051 TGGCTTCAATGTACTCCACTGTAACCTTAGGGAAGTAAAAT-TCGTCATCTTCGATCTGCTCCAC
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCT-GCCATCTTCGATCTGCTCCAC
* *
8556115 TACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGG-AGATAGAA
65 TACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAA
8556179 TTAC
129 TTAC
* * * *
8556183 TGGCTTCAATGTACTCCACTATAACCTCAGGAAGGTAAAATCCGCCATCTTTGATCTGCT
1 TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
8556243 TCGCTGTCTA
Statistics
Matches: 1337, Mismatches: 161, Indels: 30
0.88 0.11 0.02
Matches are distributed among these distances:
131 7 0.01
132 1216 0.91
133 114 0.09
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (132 bp):
TGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
AC
Found at i:8555599 original size:44 final size:44
Alignment explanation
Indices: 8555420--8555601 Score: 109
Period size: 44 Copynumber: 4.1 Consensus size: 44
8555410 TGTAACCTCT
* * ** *
8555420 GGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTA
1 GGGAGATAAAATCCACCATCTTCAATCTACTCCACTACTGCTTA
* **** * *
8555464 GGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCTA
1 GGGAGATAAAATCCACCATCTTCAATCTACTCCACTACTGCTTA
* * *** * *
8555508 GGGAGATAGAAT-TACTGGCTTCAATGTACTCCACTGTAAC--CTCA
1 GGGAGATAAAATCCACCATCTTCAATCTACTCCAC--T-ACTGCTTA
* * * *
8555552 GGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTA
1 GGGAGATAAAATCCACCATCTTCAATCTACTCCACTACTGCTTA
8555596 GGGAGA
1 GGGAGA
8555602 CAAGATCTGA
Statistics
Matches: 97, Mismatches: 35, Indels: 12
0.67 0.24 0.08
Matches are distributed among these distances:
42 2 0.02
43 16 0.16
44 62 0.64
45 15 0.15
46 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
GGGAGATAAAATCCACCATCTTCAATCTACTCCACTACTGCTTA
Found at i:8557521 original size:14 final size:15
Alignment explanation
Indices: 8557504--8557536 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
8557494 CCATTCTTAC
8557504 TTTTTCAT-TTTTCA
1 TTTTTCATCTTTTCA
8557518 -TTTTCATCTTTTCA
1 TTTTTCATCTTTTCA
8557532 TTTTT
1 TTTTT
8557537 TCACATCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTCATCTTTTCA
Found at i:8557539 original size:8 final size:7
Alignment explanation
Indices: 8557504--8557536 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
8557494 CCATTCTTAC
8557504 TTTTTCA
1 TTTTTCA
8557511 TTTTTCA
1 TTTTTCA
8557518 -TTTTCA
1 TTTTTCA
8557524 TCTTTTCA
1 T-TTTTCA
8557532 TTTTT
1 TTTTT
8557537 TCACATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:8562462 original size:17 final size:18
Alignment explanation
Indices: 8562440--8562474 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
8562430 ATAAAAGCTT
8562440 AAAAAT-ATATATATTAG
1 AAAAATCATATATATTAG
8562457 AAAAATGCATATATATTA
1 AAAAAT-CATATATATTA
8562475 TATATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (18 bp):
AAAAATCATATATATTAG
Found at i:8562472 original size:25 final size:24
Alignment explanation
Indices: 8562444--8562529 Score: 79
Period size: 25 Copynumber: 3.5 Consensus size: 24
8562434 AAGCTTAAAA
8562444 ATATATATATTAGAAAAATGCATAT
1 ATATATATATTA-AAAAATGCATAT
*
8562469 ATAT-TATATATAAAAATATGCGTAT
1 ATATATATAT-TAAAAA-ATGCATAT
*
8562494 GTACTATATGA--AAAAAATGCATAT
1 ATA-TATAT-ATTAAAAAATGCATAT
*
8562518 ATGTATATATTA
1 ATATATATATTA
8562530 TGTAAAAAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
22 1 0.02
23 5 0.10
24 18 0.37
25 20 0.41
26 1 0.02
27 3 0.06
28 1 0.02
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (24 bp):
ATATATATATTAAAAAATGCATAT
Found at i:8562583 original size:18 final size:15
Alignment explanation
Indices: 8562569--8562604 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
8562559 AAATAATGAT
8562569 AATAACCATAATAATA
1 AATAA-CATAATAATA
*
8562585 AATAATATAATAATA
1 AATAACATAATAATA
8562600 AATAA
1 AATAA
8562605 TGATATAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAACATAATAATA
Found at i:8562610 original size:18 final size:16
Alignment explanation
Indices: 8562576--8562621 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
8562566 GATAATAACC
8562576 ATAATAATAAAT-AAT
1 ATAATAATAAATAAAT
8562591 ATAATAATAAATAATGAT
1 ATAATAATAAATAA--AT
*
8562609 ATAATGATAAATA
1 ATAATAATAAATA
8562622 TTAAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 12 0.44
16 1 0.04
18 14 0.52
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
ATAATAATAAATAAAT
Found at i:8562613 original size:15 final size:15
Alignment explanation
Indices: 8562576--8562605 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8562566 GATAATAACC
8562576 ATAATAATAAATAAT
1 ATAATAATAAATAAT
8562591 ATAATAATAAATAAT
1 ATAATAATAAATAAT
8562606 GATATAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:8563392 original size:10 final size:10
Alignment explanation
Indices: 8563369--8563406 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
8563359 TGGAAAAGAA
8563369 AAAT-AAAT-
1 AAATAAAATC
8563377 AAATAAAATC
1 AAATAAAATC
8563387 AAATAAAATC
1 AAATAAAATC
*
8563397 AAACAAAATC
1 AAATAAAATC
8563407 TATACTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 4 0.15
9 4 0.15
10 19 0.70
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (10 bp):
AAATAAAATC
Found at i:8563597 original size:16 final size:17
Alignment explanation
Indices: 8563576--8563611 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8563566 TTTTTAGTTT
*
8563576 TTTGGGC-TAGGTTTGG
1 TTTGGGCTTAGGTTTAG
8563592 TTTGGGCTTAGGTTTAG
1 TTTGGGCTTAGGTTTAG
8563609 TTT
1 TTT
8563612 ATAGGGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.08, C:0.06, G:0.36, T:0.50
Consensus pattern (17 bp):
TTTGGGCTTAGGTTTAG
Found at i:8563842 original size:31 final size:31
Alignment explanation
Indices: 8563807--8563980 Score: 99
Period size: 31 Copynumber: 5.5 Consensus size: 31
8563797 TGATTCTTAA
* *
8563807 ATTAATTTAAATTAAATTATTATATTATGTG
1 ATTAAATTAAATTAAAATATTATATTATGTG
* ** * *
8563838 ATT-AA-TACA--AAGGTA-TATAATATGATA
1 ATTAAATTAAATTAAAATATTATATTATG-TG
*
8563865 ATTAAATTAAATTAAATTAATTAGTATATAATGTG
1 ATTAAATTAAATTAAAAT-ATTA-TAT-T-ATGTG
* *
8563900 ATAAAATTAAATTAAATTAAAATATTATATAATGTT
1 ----A-TTAAATTAAATTAAAATATTATATTATGTG
*
8563936 ATTAAATTAAATTAAAATATTATATAATGT-
1 ATTAAATTAAATTAAAATATTATATTATGTG
* *
8563966 TTTAAATTAAGTTAA
1 ATTAAATTAAATTAA
8563981 TAATGGGTCA
Statistics
Matches: 112, Mismatches: 16, Indels: 31
0.70 0.10 0.19
Matches are distributed among these distances:
26 8 0.07
27 8 0.07
28 2 0.02
29 6 0.05
30 14 0.12
31 35 0.31
32 2 0.02
33 2 0.02
34 2 0.02
35 2 0.02
36 7 0.06
38 3 0.03
39 5 0.04
40 16 0.14
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (31 bp):
ATTAAATTAAATTAAAATATTATATTATGTG
Found at i:8568732 original size:30 final size:30
Alignment explanation
Indices: 8568671--8568733 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
8568661 TCCTCACCTA
*** *
8568671 TGTAACTCTCTGAGTAGGGTCACACGGCCG
1 TGTAACTCTCTGAGTAGCCCCACACGCCCG
* *
8568701 TGTAACTCTCTGAGTTGCCCCACATGCCCG
1 TGTAACTCTCTGAGTAGCCCCACACGCCCG
8568731 TGT
1 TGT
8568734 GCCAGACCGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.17, C:0.30, G:0.25, T:0.27
Consensus pattern (30 bp):
TGTAACTCTCTGAGTAGCCCCACACGCCCG
Found at i:8577645 original size:24 final size:24
Alignment explanation
Indices: 8577594--8577645 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
8577584 TTCGTAGGTC
*
8577594 AAATAAATTACACTAATAAATGCA
1 AAATAAATTACACTAATAAATACA
* * * *
8577618 AAATATATTATACTACTAAATACT
1 AAATAAATTACACTAATAAATACA
8577642 AAAT
1 AAAT
8577646 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATAAATTACACTAATAAATACA
Found at i:8581550 original size:9 final size:9
Alignment explanation
Indices: 8581536--8581574 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
8581526 TATGAGTTTA
8581536 AAAAAAATT
1 AAAAAAATT
8581545 -AAAAAATT
1 AAAAAAATT
*
8581553 AAAAAAATC
1 AAAAAAATT
*
8581562 AAAAAAATG
1 AAAAAAATT
8581571 AAAA
1 AAAA
8581575 TGAAAATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (9 bp):
AAAAAAATT
Found at i:8581574 original size:17 final size:17
Alignment explanation
Indices: 8581536--8581574 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
8581526 TATGAGTTTA
* *
8581536 AAAAAAATTAAAAAATT
1 AAAAAAATCAAAAAAAT
8581553 AAAAAAATCAAAAAAAT
1 AAAAAAATCAAAAAAAT
8581570 GAAAA
1 -AAAA
8581575 TGAAAATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAAAAATCAAAAAAAT
Found at i:8581614 original size:18 final size:18
Alignment explanation
Indices: 8581585--8581631 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
8581575 TGAAAATGTT
8581585 GGAAAAAG-AAAAGAAAA
1 GGAAAAAGAAAAAGAAAA
*
8581602 TGAAAAAGAAAAAGAAAA
1 GGAAAAAGAAAAAGAAAA
*
8581620 GGAAAAGGAAAA
1 GGAAAAAGAAAA
8581632 GGAGAGGCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (18 bp):
GGAAAAAGAAAAAGAAAA
Found at i:8581632 original size:6 final size:6
Alignment explanation
Indices: 8581585--8581634 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
8581575 TGAAAATGTT
* * * *
8581585 GGAAAA AGAAAA -GAAAA TGAAAA AGAAAA AGAAAA GGAAAA GGAAAA
1 GGAAAA GGAAAA GGAAAA GGAAAA GGAAAA GGAAAA GGAAAA GGAAAA
8581632 GGA
1 GGA
8581635 GAGGCCAAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
5 5 0.12
6 35 0.88
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (6 bp):
GGAAAA
Found at i:8581632 original size:12 final size:12
Alignment explanation
Indices: 8581585--8581634 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
8581575 TGAAAATGTT
8581585 GGAAAAAGAAAA
1 GGAAAAAGAAAA
*
8581597 -GAAAATGAAAA
1 GGAAAAAGAAAA
*
8581608 AGAAAAAGAAAA
1 GGAAAAAGAAAA
*
8581620 GGAAAAGGAAAA
1 GGAAAAAGAAAA
8581632 GGA
1 GGA
8581635 GAGGCCAAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
11 10 0.30
12 23 0.70
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (12 bp):
GGAAAAAGAAAA
Found at i:8585954 original size:32 final size:31
Alignment explanation
Indices: 8585917--8585978 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
8585907 TCTGTAATTC
*
8585917 TATAAC-TTTTAATATATTTTGTATATTTTATT
1 TATAACATTTTAAT-TATTTTATAT-TTTTATT
8585949 TATAACATTTTAATTATTTTATATTTTTAT
1 TATAACATTTTAATTATTTTATATTTTTAT
8585979 GCCTACAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 6 0.21
32 15 0.54
33 7 0.25
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (31 bp):
TATAACATTTTAATTATTTTATATTTTTATT
Found at i:8586229 original size:39 final size:39
Alignment explanation
Indices: 8586154--8586229 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
8586144 ATGAAAAATG
* * * * *
8586154 TTAGATATTTTGGTATTTGGTGACAAATTTGGGTATCCT
1 TTAGAAATTTTAGTATTTGATGAAAAATTTGAGTATCCT
* *
8586193 TTAGAAATTTTAGTATTTGATTAAAAATTTTAGTATC
1 TTAGAAATTTTAGTATTTGATGAAAAATTTGAGTATC
8586230 ATCTATTGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.47
Consensus pattern (39 bp):
TTAGAAATTTTAGTATTTGATGAAAAATTTGAGTATCCT
Found at i:8586411 original size:19 final size:19
Alignment explanation
Indices: 8586349--8586414 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
8586339 TACGCGTATT
* *
8586349 AAATTTTGGTATCCGTTAA
1 AAATTTTTGTATCTGTTAA
* * *
8586368 AAACTTTTGATATTTGGTTAC
1 AAATTTTTG-TATCT-GTTAA
*
8586389 AAATTTTTGTATCTGTTAG
1 AAATTTTTGTATCTGTTAA
8586408 AAATTTT
1 AAATTTT
8586415 AGTACAATCC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 18 0.49
20 7 0.19
21 12 0.32
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (19 bp):
AAATTTTTGTATCTGTTAA
Found at i:8592075 original size:31 final size:31
Alignment explanation
Indices: 8592040--8592103 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
8592030 CTCATTTCAT
8592040 AAATTTAACATTG-AATTTTACTAATTTTATA
1 AAATTTAACA-TGCAATTTTACTAATTTTATA
*
8592071 AAATTTAACATGCAATTTTACTACTTTTATA
1 AAATTTAACATGCAATTTTACTAATTTTATA
8592102 AA
1 AA
8592104 TAAGTCTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.45
Consensus pattern (31 bp):
AAATTTAACATGCAATTTTACTAATTTTATA
Found at i:8599537 original size:23 final size:23
Alignment explanation
Indices: 8599511--8599568 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
8599501 TTGGTGGGAG
*
8599511 CATTTTGACACTTTGATGCATAT
1 CATTTTGGCACTTTGATGCATAT
*
8599534 CATTTTGGCACTTTGGTGCATAT
1 CATTTTGGCACTTTGATGCATAT
8599557 CATTTTGGCACT
1 CATTTTGGCACT
8599569 ACGGTGCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (23 bp):
CATTTTGGCACTTTGATGCATAT
Found at i:8599574 original size:23 final size:23
Alignment explanation
Indices: 8599527--8599579 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
8599517 GACACTTTGA
**
8599527 TGCATATCATTTTGGCACTTTGG
1 TGCATATCATTTTGGCACTACGG
8599550 TGCATATCATTTTGGCACTACGG
1 TGCATATCATTTTGGCACTACGG
8599573 TGCATAT
1 TGCATAT
8599580 TATACTATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (23 bp):
TGCATATCATTTTGGCACTACGG
Found at i:8619830 original size:28 final size:28
Alignment explanation
Indices: 8619787--8619842 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
8619777 ACCAAAAACA
8619787 GATCTAAGGTCATGACGTGACAGATTGT
1 GATCTAAGGTCATGACGTGACAGATTGT
* *
8619815 GATCTGAGGTCTTGACGTGACAGATTGT
1 GATCTAAGGTCATGACGTGACAGATTGT
8619843 TTAGTAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.30
Consensus pattern (28 bp):
GATCTAAGGTCATGACGTGACAGATTGT
Found at i:8623014 original size:53 final size:53
Alignment explanation
Indices: 8622951--8623058 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
8622941 TTAACTTGTC
8622951 AAGGCTAAGCCATAAAGCACCTAACCATCAACGATAAGAGCAGTTCAATAAAT
1 AAGGCTAAGCCATAAAGCACCTAACCATCAACGATAAGAGCAGTTCAATAAAT
8623004 AAGGCTAAGCCATAAAGCACCTAACCATCAACGATAAGAGCAGTTCAATAAAT
1 AAGGCTAAGCCATAAAGCACCTAACCATCAACGATAAGAGCAGTTCAATAAAT
8623057 AA
1 AA
8623059 TATATTGAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.17
Consensus pattern (53 bp):
AAGGCTAAGCCATAAAGCACCTAACCATCAACGATAAGAGCAGTTCAATAAAT
Found at i:8623263 original size:21 final size:21
Alignment explanation
Indices: 8623237--8623289 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
8623227 TTATTTTTTT
8623237 AAAATT-TTAAAAATAATTAAA
1 AAAATTATTAAAAA-AATTAAA
**
8623258 AAAATTATTTTAAAAATT--A
1 AAAATTATTAAAAAAATTAAA
8623277 AAAATTATTAAAA
1 AAAATTATTAAAA
8623290 TTATTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 12 0.44
21 10 0.37
22 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATTATTAAAAAAATTAAA
Found at i:8623317 original size:28 final size:28
Alignment explanation
Indices: 8623258--8623317 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
8623248 AATAATTAAA
* *
8623258 AAAATTATTTTAAAAATTAAAAATTATT
1 AAAATTATTTTAAAAATTAAAAAGTATC
*
8623286 AAAATTATTTTAAAAGTATAAAAAGTA-C
1 AAAATTATTTTAAAAAT-TAAAAAGTATC
8623314 AAAA
1 AAAA
8623318 AATATTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 20 0.71
29 8 0.29
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (28 bp):
AAAATTATTTTAAAAATTAAAAAGTATC
Found at i:8623318 original size:29 final size:28
Alignment explanation
Indices: 8623257--8623325 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
8623247 AAATAATTAA
* *
8623257 AAAAATTATTTTAAAAATTAAAAATTAT
1 AAAAATTATTTTAAAAATTAAAAAGTAC
* *
8623285 TAAAATTATTTTAAAAGTATAAAAAGTAC
1 AAAAATTATTTTAAAAAT-TAAAAAGTAC
*
8623314 AAAAAATATTTT
1 AAAAATTATTTT
8623326 TATTTTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 16 0.47
29 18 0.53
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (28 bp):
AAAAATTATTTTAAAAATTAAAAAGTAC
Found at i:8624673 original size:11 final size:11
Alignment explanation
Indices: 8624657--8624682 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8624647 AGTTTATGTA
8624657 TTTTCTTATTG
1 TTTTCTTATTG
8624668 TTTTCTTATTG
1 TTTTCTTATTG
8624679 TTTT
1 TTTT
8624683 GGTTGAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTCTTATTG
Found at i:8625714 original size:37 final size:35
Alignment explanation
Indices: 8625656--8625732 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 35
8625646 TATTGTTACT
*
8625656 ATTGAATGCATGAAAATCATGCCACCAATACTGATAA
1 ATTGAATGCATGAAAAGCATGCCACCAATACT-A-AA
** * *
8625693 ATTGAATGCATGTTAAGCATGCCATCATTACTAAA
1 ATTGAATGCATGAAAAGCATGCCACCAATACTAAA
8625728 ATTGA
1 ATTGA
8625733 TATTGATAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 7 0.20
36 1 0.03
37 27 0.77
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (35 bp):
ATTGAATGCATGAAAAGCATGCCACCAATACTAAA
Found at i:8627356 original size:20 final size:20
Alignment explanation
Indices: 8627331--8627376 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
8627321 TTAAGTTTTC
*
8627331 TTAAAAGAAATCAATACTTG
1 TTAAAAGAAATCAATACTTA
**
8627351 TTAAAAAGGTATCAATACTTA
1 TT-AAAAGAAATCAATACTTA
8627372 TTAAA
1 TTAAA
8627377 GTATCGATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.33
Consensus pattern (20 bp):
TTAAAAGAAATCAATACTTA
Found at i:8630349 original size:46 final size:47
Alignment explanation
Indices: 8630266--8630397 Score: 153
Period size: 46 Copynumber: 2.9 Consensus size: 47
8630256 ATTTTTACCT
**
8630266 AGGTTCCTAGCTCCTGCATATGTTGTGGACT-AGAGAATACAG-ATTC
1 AGGTTCCTAGCTCCTGCATATGTTGCAGACTGA-AGAATACAGAATTC
* * *
8630312 AGGTTCCTAGCTCCTACATATGTTGCAGACTGAAGAATA-GGAATTT
1 AGGTTCCTAGCTCCTGCATATGTTGCAGACTGAAGAATACAGAATTC
* * * *
8630358 AGGTTCCCAGCTCATGCATATGTTGCAAACTGCAGAATAC
1 AGGTTCCTAGCTCCTGCATATGTTGCAGACTGAAGAATAC
8630398 GAAATATTAA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
45 1 0.01
46 71 0.97
47 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (47 bp):
AGGTTCCTAGCTCCTGCATATGTTGCAGACTGAAGAATACAGAATTC
Found at i:8638848 original size:13 final size:13
Alignment explanation
Indices: 8638830--8638880 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
8638820 GTCCACATAT
8638830 AATTCATAAAAAA
1 AATTCATAAAAAA
*
8638843 AATTCAAAATAAAA
1 AATTCATAA-AAAA
*
8638857 AATT-TTAAAAAA
1 AATTCATAAAAAA
* *
8638869 TATACATAAAAA
1 AATTCATAAAAA
8638881 CTTTTAGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
12 6 0.20
13 16 0.53
14 8 0.27
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (13 bp):
AATTCATAAAAAA
Found at i:8638866 original size:23 final size:23
Alignment explanation
Indices: 8638840--8638893 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
8638830 AATTCATAAA
8638840 AAAAATTCA-AAATAAAAAATTTT
1 AAAAATT-ATAAATAAAAAATTTT
* * *
8638863 AAAAAATATACATAAAAACTTTT
1 AAAAATTATAAATAAAAAATTTT
8638886 AGAAAATT
1 A-AAAATT
8638894 TATCCATGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 1 0.04
23 19 0.76
24 5 0.20
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAAATTATAAATAAAAAATTTT
Found at i:8639280 original size:20 final size:21
Alignment explanation
Indices: 8639243--8639282 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8639233 TCTCCCTTGC
8639243 ATTTACACTAAAAGAAAATAA
1 ATTTACACTAAAAGAAAATAA
* *
8639264 ATTTAC-CTAATATAAAATA
1 ATTTACACTAAAAGAAAATA
8639283 GTTGAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (21 bp):
ATTTACACTAAAAGAAAATAA
Found at i:8656609 original size:22 final size:22
Alignment explanation
Indices: 8656584--8656626 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
8656574 TTATTTGGCG
*
8656584 TTTGAGATAGACGTTGTTATAA
1 TTTGAGATAGACATTGTTATAA
8656606 TTTGAGATAGACATTGTTATA
1 TTTGAGATAGACATTGTTATA
8656627 GTTTTAAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (22 bp):
TTTGAGATAGACATTGTTATAA
Found at i:8659278 original size:28 final size:28
Alignment explanation
Indices: 8659226--8659284 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
8659216 AAAAACTTTG
* * * *
8659226 GAATTGGGAATTTAGATTAAAAAATTGA
1 GAATTGAGAATTGAGAATAAAAAATCGA
*
8659254 GAATTGAGAATTGAGAATAACAAATCGA
1 GAATTGAGAATTGAGAATAAAAAATCGA
8659282 GAA
1 GAA
8659285 CAATAAATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.49, C:0.03, G:0.22, T:0.25
Consensus pattern (28 bp):
GAATTGAGAATTGAGAATAAAAAATCGA
Found at i:8659932 original size:18 final size:17
Alignment explanation
Indices: 8659890--8659932 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
8659880 TTTTTAAGTT
*
8659890 TGTAATATTTTATATTA
1 TGTAATTTTTTATATTA
* *
8659907 TGTTATTTTTATATATTG
1 TGTAATTTTT-TATATTA
8659925 TGTAATTT
1 TGTAATTT
8659933 ATAGCACATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (17 bp):
TGTAATTTTTTATATTA
Found at i:8661036 original size:15 final size:15
Alignment explanation
Indices: 8661015--8661048 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
8661005 TACTCATTTT
8661015 ATTTTTTTA-AATTA
1 ATTTTTTTAGAATTA
8661029 ATTTTTTTAGAATTA
1 ATTTTTTTAGAATTA
8661044 ATTTT
1 ATTTT
8661049 AGTTTTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
ATTTTTTTAGAATTA
Found at i:8661373 original size:20 final size:20
Alignment explanation
Indices: 8661350--8661399 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
8661340 TTTGGGGCTC
*
8661350 AAGGTTTAGG-TTCGAGGTTG
1 AAGGTTTAGGCTTAGA-GTTG
* *
8661370 AAGGTTTGGGCTTAGAGTTT
1 AAGGTTTAGGCTTAGAGTTG
8661390 AAGGTTTAGG
1 AAGGTTTAGG
8661400 GTTTTGGGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.22, C:0.04, G:0.38, T:0.36
Consensus pattern (20 bp):
AAGGTTTAGGCTTAGAGTTG
Found at i:8662087 original size:22 final size:21
Alignment explanation
Indices: 8662048--8662089 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8662038 GATTATACAT
*
8662048 TAAAAATCCATAAAAATAATG
1 TAAAAATCAATAAAAATAATG
*
8662069 TAAAAATCAAGTAAGAATAAT
1 TAAAAATCAA-TAAAAATAAT
8662090 CCAAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (21 bp):
TAAAAATCAATAAAAATAATG
Found at i:8665367 original size:20 final size:20
Alignment explanation
Indices: 8665338--8665380 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8665328 TTCCCCCCTG
*
8665338 AAAAACTTTTAAAAAAATCA
1 AAAAAATTTTAAAAAAATCA
* *
8665358 AAAAAATTTTCAAAAATTCA
1 AAAAAATTTTAAAAAAATCA
8665378 AAA
1 AAA
8665381 TTATCATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAAATTTTAAAAAAATCA
Found at i:8668299 original size:33 final size:33
Alignment explanation
Indices: 8668257--8668334 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
8668247 AGTTCGCCAA
* * *
8668257 GACAGTAAACACAAAATAAAGATAGTCTGTTGG
1 GACAGTAAACACAAAACAAAGATAATCTGTCGG
* *
8668290 GACATTAAACACAAAACAGAGATAATCTGTCGG
1 GACAGTAAACACAAAACAAAGATAATCTGTCGG
8668323 GACAGTAAACAC
1 GACAGTAAACAC
8668335 GAGGTAAGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.18
Consensus pattern (33 bp):
GACAGTAAACACAAAACAAAGATAATCTGTCGG
Found at i:8681051 original size:26 final size:26
Alignment explanation
Indices: 8681015--8681069 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
8681005 TGTGTTCAAT
8681015 CTAGATACCATGGGAAAATGTATGAA
1 CTAGATACCATGGGAAAATGTATGAA
8681041 CTAGATACCATGGGAAAATGTATGAA
1 CTAGATACCATGGGAAAATGTATGAA
8681067 CTA
1 CTA
8681070 TACGATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.24
Consensus pattern (26 bp):
CTAGATACCATGGGAAAATGTATGAA
Found at i:8684500 original size:17 final size:17
Alignment explanation
Indices: 8684480--8684542 Score: 74
Period size: 18 Copynumber: 3.7 Consensus size: 17
8684470 TTTTTTTAAA
*
8684480 AATTTATGAATTTTTTT
1 AATTTTTGAATTTTTTT
*
8684497 AATTTTTTAA-TTTTTT
1 AATTTTTGAATTTTTTT
*
8684513 AATTTTTGAGTATTTTTT
1 AATTTTTGAAT-TTTTTT
*
8684531 AATTTTTTAATT
1 AATTTTTGAATT
8684543 ATTTATTGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
16 14 0.37
17 9 0.24
18 15 0.39
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
AATTTTTGAATTTTTTT
Found at i:8684502 original size:8 final size:8
Alignment explanation
Indices: 8684491--8684547 Score: 78
Period size: 8 Copynumber: 6.9 Consensus size: 8
8684481 ATTTATGAAT
8684491 TTTTTTAA
1 TTTTTTAA
8684499 TTTTTTAA
1 TTTTTTAA
8684507 TTTTTTAA
1 TTTTTTAA
*
8684515 TTTTTGAGTA
1 TTTTTTA--A
8684525 TTTTTTAA
1 TTTTTTAA
8684533 TTTTTTAA
1 TTTTTTAA
*
8684541 TTATTTA
1 TTTTTTA
8684548 TTGATGTAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
8 37 0.84
10 7 0.16
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (8 bp):
TTTTTTAA
Found at i:8696154 original size:12 final size:12
Alignment explanation
Indices: 8696133--8696185 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
8696123 GTTGGGCAGT
8696133 AGAAGAAAGAAG
1 AGAAGAAAGAAG
*
8696145 AGAAGGAAGAAG
1 AGAAGAAAGAAG
*
8696157 AGAAGAAGGAA-
1 AGAAGAAAGAAG
* *
8696168 A-AAAAAAGAGG
1 AGAAGAAAGAAG
8696179 AGAAGAA
1 AGAAGAA
8696186 GAAACCCTCG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
10 6 0.19
11 2 0.06
12 24 0.75
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (12 bp):
AGAAGAAAGAAG
Found at i:8699890 original size:20 final size:20
Alignment explanation
Indices: 8699867--8699919 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
8699857 TTTGGTATTT
8699867 AATTAAAAATTGAAATA-GAA
1 AATTAAAAATTGAAA-AGGAA
8699887 AATTAAAAA-TGAAAAGGGAA
1 AATTAAAAATTGAAAA-GGAA
8699907 AATGTAAAAATTG
1 AAT-TAAAAATTG
8699920 GCTGCCTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.03
19 5 0.17
20 15 0.52
21 6 0.21
22 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (20 bp):
AATTAAAAATTGAAAAGGAA
Found at i:8705746 original size:29 final size:29
Alignment explanation
Indices: 8705704--8705764 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
8705694 ATTTTTTTTA
*
8705704 AAAGTTTAATTTTCGATAAAAATACATAC
1 AAAGTTCAATTTTCGATAAAAATACATAC
8705733 AAAGTTCAATTTTCGATAAAAATACATAC
1 AAAGTTCAATTTTCGATAAAAATACATAC
8705762 AAA
1 AAA
8705765 ATTATAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (29 bp):
AAAGTTCAATTTTCGATAAAAATACATAC
Found at i:8708082 original size:17 final size:16
Alignment explanation
Indices: 8708047--8708078 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8708037 AATTGGGTTG
*
8708047 AAAAAATTATTTAATT
1 AAAAAATTAATTAATT
8708063 AAAAAATTAATTAATT
1 AAAAAATTAATTAATT
8708079 TAAATTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAAAATTAATTAATT
Found at i:8710647 original size:15 final size:14
Alignment explanation
Indices: 8710627--8710668 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
8710617 CCCAATAATT
8710627 TAATATCTCCAAATA
1 TAATAT-TCCAAATA
* *
8710642 TAATATTTCATATA
1 TAATATTCCAAATA
8710656 T-ATATTCCAAATA
1 TAATATTCCAAATA
8710669 AAATGACCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 10 0.43
14 7 0.30
15 6 0.26
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATATTCCAAATA
Found at i:8720157 original size:22 final size:23
Alignment explanation
Indices: 8720123--8720165 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
8720113 AATTTATCAC
8720123 AATTTATATTAAA-ATAATAATAA
1 AATTTATATTAAATAT-ATAATAA
8720146 AATTTATA-TAAATATATAAT
1 AATTTATATTAAATATATAAT
8720166 GTCTCAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AATTTATATTAAATATATAATAA
Found at i:8720610 original size:14 final size:14
Alignment explanation
Indices: 8720591--8720621 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8720581 ATTATTGTTT
*
8720591 TAATCTAAATTTAC
1 TAATCTAAATTAAC
8720605 TAATCTAAATTAAC
1 TAATCTAAATTAAC
8720619 TAA
1 TAA
8720622 GAACACGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Done.