Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 89 of 208
Found at i:26247429 original size:24 final size:24
Alignment explanation
Indices: 26247402--26247447 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
26247392 AATAGTCACA
*
26247402 CTTGTATAGTCTAA-TATCATATTT
1 CTTG-ATAGTCTAAGTATAATATTT
*
26247426 CTTGATATTCTAAGTATAATAT
1 CTTGATAGTCTAAGTATAATAT
26247448 AATAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.48
Consensus pattern (24 bp):
CTTGATAGTCTAAGTATAATATTT
Found at i:26249548 original size:15 final size:15
Alignment explanation
Indices: 26249513--26249550 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
26249503 TTATATGCCA
26249513 TAATTAAACTATTAAT
1 TAATTAAAC-ATTAAT
26249529 TAATTAAA-ATTAATT
1 TAATTAAACATTAA-T
26249544 TAATTAA
1 TAATTAA
26249551 TTACTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 8 0.38
16 8 0.38
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATTAAACATTAAT
Found at i:26250007 original size:23 final size:24
Alignment explanation
Indices: 26249949--26250015 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 24
26249939 TGCTACTTTT
26249949 AAGAGAATCTTCACTGTTCATCGTC
1 AAGAG-ATCTTCACTGTTCATCGTC
26249974 AAGA-ATCTTCACTGTTCAT-G-C
1 AAGAGATCTTCACTGTTCATCGTC
* *
26249995 AAGAGATTTTTCATTGTTCAT
1 AAGAGA-TCTTCACTGTTCAT
26250016 TTGTCTTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.13
22 2 0.05
23 27 0.71
25 4 0.11
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.37
Consensus pattern (24 bp):
AAGAGATCTTCACTGTTCATCGTC
Found at i:26254442 original size:9 final size:9
Alignment explanation
Indices: 26254438--26254466 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
26254428 TAGAGAAAGT
26254438 AGAGAGTAG
1 AGAGAGTAG
26254447 AGAGAGTAG
1 AGAGAGTAG
26254456 AGAGAGTAG
1 AGAGAGTAG
26254465 AG
1 AG
26254467 GGAATTCGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.10
Consensus pattern (9 bp):
AGAGAGTAG
Found at i:26254466 original size:16 final size:16
Alignment explanation
Indices: 26254428--26254459 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
26254418 GGAGGAATTT
26254428 TAGAGAAAGTAGAGAG
1 TAGAGAAAGTAGAGAG
*
26254444 TAGAGAGAGTAGAGAG
1 TAGAGAAAGTAGAGAG
26254460 AGTAGAGGGA
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:0.47, C:0.00, G:0.41, T:0.12
Consensus pattern (16 bp):
TAGAGAAAGTAGAGAG
Found at i:26254479 original size:15 final size:15
Alignment explanation
Indices: 26254459--26254487 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
26254449 AGAGTAGAGA
26254459 GAGTAGAGGGAATTC
1 GAGTAGAGGGAATTC
26254474 GAGTAGAGGGAATT
1 GAGTAGAGGGAATT
26254488 TTAGAGCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.41, T:0.21
Consensus pattern (15 bp):
GAGTAGAGGGAATTC
Found at i:26257910 original size:51 final size:51
Alignment explanation
Indices: 26257789--26257929 Score: 171
Period size: 51 Copynumber: 2.8 Consensus size: 51
26257779 TATTATCATT
* * * *
26257789 CGATACATGTAGTAGCCTTCACATAGTACTACACATGTG-ATTAAACTTTC
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGAATTAAACTATC
* *
26257839 CGGTTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATT-AA-TATC
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGA--ATTAAACTATC
* *
26257890 TGATACACGTAGTAGCCTGCAGATAGTACTACACACGTGA
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGA
26257930 TCGAAGCTAT
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
50 34 0.44
51 39 0.50
52 2 0.03
53 3 0.04
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (51 bp):
CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGAATTAAACTATC
Found at i:26259409 original size:50 final size:50
Alignment explanation
Indices: 26259254--26259445 Score: 296
Period size: 50 Copynumber: 3.8 Consensus size: 50
26259244 GATAATAACA
* ** *
26259254 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* *
26259305 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
26259354 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
26259404 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
26259446 TTACCCAAAT
Statistics
Matches: 128, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
49 38 0.30
50 61 0.48
51 29 0.23
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:26259561 original size:13 final size:13
Alignment explanation
Indices: 26259540--26259569 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
26259530 GCTTGGATCA
26259540 TCATCAAATAAAT
1 TCATCAAATAAAT
*
26259553 TCATGAAATAAAT
1 TCATCAAATAAAT
26259566 TCAT
1 TCAT
26259570 AGTTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:26262320 original size:67 final size:67
Alignment explanation
Indices: 26262193--26262508 Score: 364
Period size: 67 Copynumber: 4.7 Consensus size: 67
26262183 CCTAATTCAT
* * * * * * **
26262193 CATCCTAGCAGACTCCATATGCTGCCATAGTCGAGCTATGGTCTTACATAGCGTACCCCATGTTT
1 CATCCTGGTAGACTCCCTTTGCTTCCATAGCCGAGCTATGGTCTTACATAGTATACCCCATGTTT
26262258 AA
66 AA
* * ** * * *
26262260 CGTCCTGGCAGACTCCCTTTTTTTCCATAGCTGAGCTATGGTCTTACAGAGTATAGCCCATGTTT
1 CATCCTGGTAGACTCCCTTTGCTTCCATAGCCGAGCTATGGTCTTACATAGTATACCCCATGTTT
26262325 AA
66 AA
* * * * * * * *
26262327 CGTCCTGGTGGACTCCCTTTGCTGCCATAGCCGAGCCATAGTCTTACACAATATACCCCAAGTTT
1 CATCCTGGTAGACTCCCTTTGCTTCCATAGCCGAGCTATGGTCTTACATAGTATACCCCATGTTT
26262392 AA
66 AA
* *
26262394 CATCCTGGTGGACTCCCTTTGCTTCCATAGCCGAGCTATGGTCTTACATAGTATATCCCATGTTT
1 CATCCTGGTAGACTCCCTTTGCTTCCATAGCCGAGCTATGGTCTTACATAGTATACCCCATGTTT
26262459 AA
66 AA
* * *
26262461 CATCCTAGTAGACTCCCTTTGCAAT-CATAGCCTAGCTATGGTCTTACA
1 CATCCTGGTAGACTCCCTTTGC-TTCCATAGCCGAGCTATGGTCTTACA
26262509 CCGTAAACAT
Statistics
Matches: 211, Mismatches: 37, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
67 210 1.00
68 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (67 bp):
CATCCTGGTAGACTCCCTTTGCTTCCATAGCCGAGCTATGGTCTTACATAGTATACCCCATGTTT
AA
Found at i:26265026 original size:29 final size:29
Alignment explanation
Indices: 26264960--26265093 Score: 166
Period size: 29 Copynumber: 4.7 Consensus size: 29
26264950 TTTCAGAGTC
* *
26264960 TCACCACAAAGGCGTT-CTTTAAAAAAGAT-
1 TCACCACAAAGGC-TTCCTTT-TAACAGATA
*
26264989 T-ACCTCAAAGGCTTCCTTTTAACAGATA
1 TCACCACAAAGGCTTCCTTTTAACAGATA
* *
26265017 TCACCACAAAGGCTTTCTTTTAACAGAGA
1 TCACCACAAAGGCTTCCTTTTAACAGATA
* *
26265046 TCACCATAAAGGCTTCCTTTTAATAGATA
1 TCACCACAAAGGCTTCCTTTTAACAGATA
26265075 TCACCACAAAGGCTTCCTT
1 TCACCACAAAGGCTTCCTT
26265094 ACAGAAACTG
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
27 8 0.09
28 15 0.16
29 68 0.75
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (29 bp):
TCACCACAAAGGCTTCCTTTTAACAGATA
Found at i:26265035 original size:57 final size:58
Alignment explanation
Indices: 26264960--26265089 Score: 192
Period size: 58 Copynumber: 2.3 Consensus size: 58
26264950 TTTCAGAGTC
* *
26264960 TCACCACAAAGGCGTTC-TTTAAAAAAGATTACC-TCAAAGGCTTCCTTTTAACAGATA
1 TCACCACAAAGGCTTTCTTTTAAAAAAGATCACCAT-AAAGGCTTCCTTTTAACAGATA
* * *
26265017 TCACCACAAAGGCTTTCTTTTAACAGAGATCACCATAAAGGCTTCCTTTTAATAGATA
1 TCACCACAAAGGCTTTCTTTTAAAAAAGATCACCATAAAGGCTTCCTTTTAACAGATA
26265075 TCACCACAAAGGCTT
1 TCACCACAAAGGCTT
26265090 CCTTACAGAA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
57 16 0.24
58 49 0.74
59 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.28
Consensus pattern (58 bp):
TCACCACAAAGGCTTTCTTTTAAAAAAGATCACCATAAAGGCTTCCTTTTAACAGATA
Found at i:26268685 original size:56 final size:51
Alignment explanation
Indices: 26268617--26268858 Score: 203
Period size: 50 Copynumber: 4.7 Consensus size: 51
26268607 GGGAATGAAA
* **
26268617 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA--ACCGA-G--ATGAGAGG
26268673 TCCCACGTAAGACCATGTCTGGGACATGG-AGTTGGC-ACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCA-TTGGCAACCGAGATGAGAGG
* * * **
26268723 TCCTC-CGTAAGACCATGTCTGGGACATGGCATGGGC-ACCGATATGAAAAC
1 TCC-CACGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGG
* * * * **
26268773 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTA-C-AG--GAAACA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA--ACCGAGATGAGAGG
* *
26268822 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
26268859 TGTTATTATC
Statistics
Matches: 161, Mismatches: 18, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
49 39 0.24
50 79 0.49
51 3 0.02
52 2 0.01
53 4 0.02
55 1 0.01
56 33 0.20
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (51 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGG
Found at i:26284069 original size:41 final size:41
Alignment explanation
Indices: 26283995--26284290 Score: 333
Period size: 41 Copynumber: 7.2 Consensus size: 41
26283985 CATAGGTACT
* *
26283995 ATTCAGGGGTACCGAAGT-CAAATAGGGTGGCACGTATGTGCA
1 ATTCAGGGGTACCAAAGTACAAACA-GG-GGCACGTATGTGCA
* * * *
26284037 ATTCAGTGGTATCAAAGTACAGACAGGGGCACGTATGTGTA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
* * * *
26284078 ATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGTA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
* *
26284119 ATTCAGGGGTACCAAAGTACAAATAGGGGCACATATGTGCA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
* * * * *
26284160 ATTCAAGGGTATCGAAGTACAAAAAGGGGCACGTATATGCA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
* * * *
26284201 ATTTAGGGGTACCAAAGTATAAACTGGGACACGTATGTGCA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
* * * *
26284242 ATTCAGGGGTATCGAAGTACAAACAGGAGCACATATGTGCA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
*
26284283 ATTTAGGG
1 ATTCAGGG
26284291 AATAATTAAG
Statistics
Matches: 213, Mismatches: 40, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
41 192 0.90
42 17 0.08
43 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (41 bp):
ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
Found at i:26284135 original size:82 final size:82
Alignment explanation
Indices: 26283995--26284290 Score: 369
Period size: 82 Copynumber: 3.6 Consensus size: 82
26283985 CATAGGTACT
* * * * * *
26283995 ATTCAGGGGTACCGAAGT-CAAATAGGGTGGCACGTATGTGCAATTCAGTGGTATCAAAGTACAG
1 ATTCAAGGGTACCGAAGTACAAACA-GG-GGCACATATGTGCAATTCAGGGGTACCAAAGTACAA
*
26284059 ACAGGGGCACGTATGTGTA
64 ACAGGGGCACGTATGTGCA
* *
26284078 ATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGTAATTCAGGGGTACCAAAGTACAAAT
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCAAAGTACAAAC
*
26284143 AGGGGCACATATGTGCA
66 AGGGGCACGTATGTGCA
* * * * * *
26284160 ATTCAAGGGTATCGAAGTACAAAAAGGGGCACGTATATGCAATTTAGGGGTACCAAAGTATAAAC
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCAAAGTACAAAC
* *
26284225 TGGGACACGTATGTGCA
66 AGGGGCACGTATGTGCA
* * * *
26284242 ATTCAGGGGTATCGAAGTACAAACAGGAGCACATATGTGCAATTTAGGG
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGG
26284291 AATAATTAAG
Statistics
Matches: 186, Mismatches: 26, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
82 162 0.87
83 19 0.10
84 5 0.03
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (82 bp):
ATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCAAAGTACAAAC
AGGGGCACGTATGTGCA
Found at i:26284211 original size:123 final size:123
Alignment explanation
Indices: 26283995--26284285 Score: 379
Period size: 123 Copynumber: 2.4 Consensus size: 123
26283985 CATAGGTACT
* *
26283995 ATTCAGGGGTACCGAAGT-CAAATAGGGTGGCACGTATGTGCAATTCAGTGGTATCAAAGTACAG
1 ATTCAGGGGTACCGAAGTACAAATA-GG-GGCACATATGTGCAATTCAGTGGTATCAAAGTACAA
* * * * * *
26284059 ACAGGGGCACGTATGTGTAATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGTA
64 AAAGGGGCACGTATATGCAATTCAAGGGTACCAAAGTACAAACAGGGACACATATGTGCA
* *
26284119 ATTCAGGGGTACCAAAGTACAAATAGGGGCACATATGTGCAATTCAAG-GGTATCGAAGTACAAA
1 ATTCAGGGGTACCGAAGTACAAATAGGGGCACATATGTGCAATTC-AGTGGTATCAAAGTACAAA
* * * * *
26284183 AAGGGGCACGTATATGCAATTTAGGGGTACCAAAGTATAAACTGGGACACGTATGTGCA
65 AAGGGGCACGTATATGCAATTCAAGGGTACCAAAGTACAAACAGGGACACATATGTGCA
* * *
26284242 ATTCAGGGGTATCGAAGTACAAACAGGAGCACATATGTGCAATT
1 ATTCAGGGGTACCGAAGTACAAATAGGGGCACATATGTGCAATT
26284286 TAGGGAATAA
Statistics
Matches: 146, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
123 119 0.82
124 21 0.14
125 6 0.04
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.22
Consensus pattern (123 bp):
ATTCAGGGGTACCGAAGTACAAATAGGGGCACATATGTGCAATTCAGTGGTATCAAAGTACAAAA
AGGGGCACGTATATGCAATTCAAGGGTACCAAAGTACAAACAGGGACACATATGTGCA
Found at i:26289938 original size:67 final size:67
Alignment explanation
Indices: 26289814--26289942 Score: 195
Period size: 67 Copynumber: 1.9 Consensus size: 67
26289804 TTTTCAATTC
* * * * * **
26289814 AGAGAGGACACTCTCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCTAGGCTAAATCCCTTA
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCAGGATTACCAATCCAAACTAAATCCCTTA
26289879 TA
66 TA
26289881 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCAGGATTACCAATCCAAACTAAATCCC
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCAGGATTACCAATCCAAACTAAATCCC
26289943 CTGTAATATA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.22
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCAGGATTACCAATCCAAACTAAATCCCTTA
TA
Found at i:26293974 original size:43 final size:43
Alignment explanation
Indices: 26293910--26294003 Score: 161
Period size: 43 Copynumber: 2.2 Consensus size: 43
26293900 ACCTATATGG
*
26293910 GACACACGACTATGTCGAATGGCAGTGTGTCACACACAGTTGA
1 GACACACGACTATGTCAAATGGCAGTGTGTCACACACAGTTGA
* *
26293953 GACACACGACTGTGTCAAATGGCCGTGTGTCACACACAGTTGA
1 GACACACGACTATGTCAAATGGCAGTGTGTCACACACAGTTGA
26293996 GACACACG
1 GACACACG
26294004 CCCGTATCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.19
Consensus pattern (43 bp):
GACACACGACTATGTCAAATGGCAGTGTGTCACACACAGTTGA
Found at i:26299957 original size:30 final size:29
Alignment explanation
Indices: 26299899--26299959 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
26299889 GCTTTTTGAA
* *
26299899 AATATTTACAAAAAAGGCATCTAATTTTT
1 AATATTTACAAAAAAGGCACCAAATTTTT
26299928 AATATTTAC-AAAAAGAGCAACCAAATTTTT
1 AATATTTACAAAAAAG-GC-ACCAAATTTTT
26299958 AA
1 AA
26299960 AAATAATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 6 0.21
29 11 0.39
30 11 0.39
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (29 bp):
AATATTTACAAAAAAGGCACCAAATTTTT
Found at i:26319795 original size:17 final size:18
Alignment explanation
Indices: 26319773--26319807 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
26319763 AATTTGATAA
*
26319773 AAAGGACTAAA-TTGCGT
1 AAAGGACAAAAGTTGCGT
26319790 AAAGGACAAAAGTTGCGT
1 AAAGGACAAAAGTTGCGT
26319808 TCTAATAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.43, C:0.11, G:0.26, T:0.20
Consensus pattern (18 bp):
AAAGGACAAAAGTTGCGT
Found at i:26320746 original size:12 final size:12
Alignment explanation
Indices: 26320731--26320760 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
26320721 TTAGGTTGTT
26320731 ACACGGCCTAGC
1 ACACGGCCTAGC
*
26320743 ACACGGCCTGGC
1 ACACGGCCTAGC
26320755 ACACGG
1 ACACGG
26320761 GCGTGTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:26321475 original size:26 final size:26
Alignment explanation
Indices: 26321437--26321504 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
26321427 CGTTTCGACC
* * *
26321437 CACAACTCATGTGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
* * *
26321463 CACAGCTCGTGTGAGCATACTCTTTT
1 CACAGCTCGTGTGAGCAGACCCATTT
*
26321489 CATAGCTCGTGTGAGC
1 CACAGCTCGTGTGAGC
26321505 TTATATGTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGACCCATTT
Found at i:26322894 original size:140 final size:140
Alignment explanation
Indices: 26322664--26322937 Score: 386
Period size: 140 Copynumber: 2.0 Consensus size: 140
26322654 GGCTCGGCCA
* * * **
26322664 TGTGACCCAAGTCAGAGAGTTACATGGGCGCAGACACGGGCTGGGACACGATTGTTTGTCCCTAC
1 TGTGACCCAAGTCAGAGAGTTACATGGGCACAGACACAGCCTGGGACACGATCATTTGTCCCTAC
* * * *
26322729 TTCGAATACCTACACGGCTTGAGACACGAGCATGTGTCTCAGCCGTGTGAGTCACACGGCCTGGC
66 TTCGAATACCCACACGGCCTGAGACACGAGCATGTGTCTCAGCCATGTAAGTCACACGGCCTGGC
26322794 CACACAGCTT
131 CACACAGCTT
* * *
26322804 TGTGACCCAAGTCAGAGAGTTACATGGGCATAGACACAGCCTGGGAGACGGTCATTTGTCCCTAC
1 TGTGACCCAAGTCAGAGAGTTACATGGGCACAGACACAGCCTGGGACACGATCATTTGTCCCTAC
* * * * * *
26322869 TTCGAATGCCCACACTGCCTGAGACATGGGCATGTGTTTCAGCCATGTAAGTCACACGGCTTGGC
66 TTCGAATACCCACACGGCCTGAGACACGAGCATGTGTCTCAGCCATGTAAGTCACACGGCCTGGC
26322934 CACA
131 CACA
26322938 TGGCCGTGTG
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
140 116 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (140 bp):
TGTGACCCAAGTCAGAGAGTTACATGGGCACAGACACAGCCTGGGACACGATCATTTGTCCCTAC
TTCGAATACCCACACGGCCTGAGACACGAGCATGTGTCTCAGCCATGTAAGTCACACGGCCTGGC
CACACAGCTT
Found at i:26329958 original size:12 final size:13
Alignment explanation
Indices: 26329932--26329964 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
26329922 TTCACTCAAG
26329932 AAATACCTAATCA
1 AAATACCTAATCA
26329945 AAATACCT-ATCA
1 AAATACCTAATCA
26329957 AAGATACC
1 AA-ATACC
26329965 ACAATCACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.52, C:0.24, G:0.03, T:0.21
Consensus pattern (13 bp):
AAATACCTAATCA
Found at i:26330546 original size:21 final size:21
Alignment explanation
Indices: 26330517--26330558 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
26330507 CGAACACGCC
26330517 AACAAAAGCTC-ATAAGAGCTG
1 AACAAAAGCTCGA-AAGAGCTG
*
26330538 AACAGAAGCTCGAAAGAGCTG
1 AACAAAAGCTCGAAAGAGCTG
26330559 GTCTATCCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (21 bp):
AACAAAAGCTCGAAAGAGCTG
Found at i:26332133 original size:13 final size:13
Alignment explanation
Indices: 26332115--26332140 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26332105 ACTTTAGTGC
26332115 ATCTGTACTTTTA
1 ATCTGTACTTTTA
26332128 ATCTGTACTTTTA
1 ATCTGTACTTTTA
26332141 GTTATGGGTA
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:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (13 bp):
ATCTGTACTTTTA
Found at i:26336121 original size:13 final size:13
Alignment explanation
Indices: 26336103--26336157 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
26336093 AGCACACATG
*
26336103 AAACATATCTTTA
1 AAACATATCTTGA
* *
26336116 AAACATAACTTAA
1 AAACATATCTTGA
*
26336129 AAAAATATCTTGA
1 AAACATATCTTGA
*
26336142 AAATATATCTTGA
1 AAACATATCTTGA
26336155 AAA
1 AAA
26336158 TAGACTATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.31
Consensus pattern (13 bp):
AAACATATCTTGA
Found at i:26337455 original size:20 final size:20
Alignment explanation
Indices: 26337430--26337475 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
26337420 ACGAAGAACG
26337430 GAGAAATCAGTCAAGCCACA
1 GAGAAATCAGTCAAGCCACA
*
26337450 GAGAAATCAGTCAAGCCACG
1 GAGAAATCAGTCAAGCCACA
26337470 GAGAAA
1 GAGAAA
26337476 CACCGGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.24, T:0.09
Consensus pattern (20 bp):
GAGAAATCAGTCAAGCCACA
Found at i:26357799 original size:15 final size:16
Alignment explanation
Indices: 26357779--26357810 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
26357769 TATATGTAAA
26357779 AAAAATTTAA-AATAT
1 AAAAATTTAATAATAT
26357794 AAAAATTTAATAATAT
1 AAAAATTTAATAATAT
26357810 A
1 A
26357811 TATTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATTTAATAATAT
Found at i:26357964 original size:34 final size:35
Alignment explanation
Indices: 26357906--26357972 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
26357896 CAAACACCAG
26357906 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
26357941 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
26357973 CATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:26359046 original size:20 final size:20
Alignment explanation
Indices: 26359021--26359078 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
26359011 TTTATATATT
*
26359021 TAAAATTATTATTTTTAATC
1 TAAAATTATTATTTTTAAAC
*
26359041 TAAAATT-TTAGTTTTCAAAC
1 TAAAATTATTA-TTTTTAAAC
26359061 -AAAATTATAATATTTTTA
1 TAAAATTAT--TATTTTTA
26359079 GGAATTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 9 0.29
20 15 0.48
21 5 0.16
22 2 0.06
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (20 bp):
TAAAATTATTATTTTTAAAC
Found at i:26359190 original size:2 final size:2
Alignment explanation
Indices: 26359177--26359214 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
26359167 TAGATTGTAA
*
26359177 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26359215 TTGACAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:26360919 original size:22 final size:22
Alignment explanation
Indices: 26360891--26360940 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
26360881 TCAATTATTT
26360891 TCTCAATTTCCTCTCAAACTGC
1 TCTCAATTTCCTCTCAAACTGC
* * *
26360913 TCTCAATTTCCTTTCAAATTTC
1 TCTCAATTTCCTCTCAAACTGC
26360935 TCTCAA
1 TCTCAA
26360941 ATCCATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.32, G:0.02, T:0.42
Consensus pattern (22 bp):
TCTCAATTTCCTCTCAAACTGC
Found at i:26363418 original size:13 final size:13
Alignment explanation
Indices: 26363400--26363426 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26363390 CTATTCCAAC
26363400 ATTAAACATAAGG
1 ATTAAACATAAGG
26363413 ATTAAACATAAGG
1 ATTAAACATAAGG
26363426 A
1 A
26363427 CTGCAGGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (13 bp):
ATTAAACATAAGG
Found at i:26366598 original size:21 final size:21
Alignment explanation
Indices: 26366573--26366616 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
26366563 AATAGCAGTG
*
26366573 GCGGTAAAATTAGTTACTGTA
1 GCGGTAAAATTAGATACTGTA
* * *
26366594 GCGGTGAGATTGGATACTGTA
1 GCGGTAAAATTAGATACTGTA
26366615 GC
1 GC
26366617 AGTGAGATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.30
Consensus pattern (21 bp):
GCGGTAAAATTAGATACTGTA
Found at i:26368000 original size:7 final size:7
Alignment explanation
Indices: 26367988--26368014 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
26367978 CCTACATAAC
26367988 ATGTTAA
1 ATGTTAA
26367995 ATGTTAA
1 ATGTTAA
26368002 ATGTTAA
1 ATGTTAA
26368009 ATGTTA
1 ATGTTA
26368015 TACTAAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (7 bp):
ATGTTAA
Found at i:26368872 original size:39 final size:39
Alignment explanation
Indices: 26368818--26368898 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
26368808 ATGCAATCGA
26368818 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
26368857 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
26368896 TTT
1 TTT
26368899 TCACTTTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (39 bp):
TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
Found at i:26369262 original size:31 final size:31
Alignment explanation
Indices: 26369209--26369427 Score: 351
Period size: 31 Copynumber: 7.2 Consensus size: 31
26369199 GAATAAATCG
*
26369209 AATACACTATATATA-TTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTTATTTTTAA
26369239 AATACACTACATATATTTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTTATTTTTAA
26369270 AATACACTACATATA--TTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTTATTTTTAA
26369299 AATACACTACATATA--TTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTTATTTTTAA
* *
26369328 ACTACACTACATATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTTATTTTTAA
26369359 AATACACTTA-ATATATTTTTTTTATTTTTAA
1 AATACAC-TACATATATTTTTTTTATTTTTAA
*
26369390 AATACACTACATATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTTATTTTTAA
26369421 AATACAC
1 AATACAC
26369428 AAATACAATG
Statistics
Matches: 179, Mismatches: 5, Indels: 9
0.93 0.03 0.05
Matches are distributed among these distances:
29 57 0.32
30 16 0.09
31 104 0.58
32 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (31 bp):
AATACACTACATATATTTTTTTTATTTTTAA
Found at i:26369304 original size:60 final size:61
Alignment explanation
Indices: 26369209--26369427 Score: 349
Period size: 60 Copynumber: 3.6 Consensus size: 61
26369199 GAATAAATCG
*
26369209 AATACACTA-TATATATTTTTTTATTTTTAAAATACACTACATATATTTTTTTTATTTTTAA
1 AATACACTACAATATA-TTTTTTATTTTTAAAATACACTACATATATTTTTTTTATTTTTAA
26369270 AATACACTAC-ATATATTTTTTATTTTTAAAATACACTACATATA--TTTTTTATTTTTAA
1 AATACACTACAATATATTTTTTATTTTTAAAATACACTACATATATTTTTTTTATTTTTAA
*
26369328 ACTACACTACATATATATTTTTTATTTTTAAAATACACTTA-ATATATTTTTTTTATTTTTAA
1 AATACACTACA-ATATATTTTTTATTTTTAAAATACAC-TACATATATTTTTTTTATTTTTAA
26369390 AATACACTACATATATATTTTTTATTTTTAAAATACAC
1 AATACACTACA-ATATATTTTTTATTTTTAAAATACAC
26369428 AAATACAATG
Statistics
Matches: 150, Mismatches: 2, Indels: 11
0.92 0.01 0.07
Matches are distributed among these distances:
58 23 0.15
60 60 0.40
61 16 0.11
62 51 0.34
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (61 bp):
AATACACTACAATATATTTTTTATTTTTAAAATACACTACATATATTTTTTTTATTTTTAA
Found at i:26369540 original size:17 final size:17
Alignment explanation
Indices: 26369518--26369552 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
26369508 CCATTCCCAT
26369518 TTCCCCTCTTCCACCGA
1 TTCCCCTCTTCCACCGA
26369535 TTCCCCTCTTCCACCGA
1 TTCCCCTCTTCCACCGA
26369552 T
1 T
26369553 CAAAGTCCCA
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:0.11, C:0.51, G:0.06, T:0.31
Consensus pattern (17 bp):
TTCCCCTCTTCCACCGA
Found at i:26371673 original size:16 final size:17
Alignment explanation
Indices: 26371652--26371684 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
26371642 TCCCAGATTT
26371652 TGATACCCA-ATCTTTC
1 TGATACCCATATCTTTC
26371668 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
26371685 CATATCTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.24, C:0.30, G:0.06, T:0.39
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:26375228 original size:17 final size:17
Alignment explanation
Indices: 26375206--26375238 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
26375196 TCCCAGATTT
26375206 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
26375223 TGATACCCATATCTTT
1 TGATACCCATATCTTT
26375239 GACTTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:26376738 original size:22 final size:22
Alignment explanation
Indices: 26376715--26376804 Score: 67
Period size: 21 Copynumber: 4.1 Consensus size: 22
26376705 CACAACCAAG
*
26376715 AACAAAGCAAAAAGGAGGGGAGA
1 AACAAA-CAAAAACGAGGGGAGA
* *
26376738 AACCAACAAAAACGA-GGGACA
1 AACAAACAAAAACGAGGGGAGA
* * * *
26376759 AACCAATAAGAAC-AAGGGAGA
1 AACAAACAAAAACGAGGGGAGA
* * *
26376780 AACCAACAAGAACAAGGGGAGA
1 AACAAACAAAAACGAGGGGAGA
26376802 AAC
1 AAC
26376805 TGTTGTTTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
20 1 0.02
21 33 0.58
22 18 0.32
23 5 0.09
ACGTcount: A:0.57, C:0.17, G:0.26, T:0.01
Consensus pattern (22 bp):
AACAAACAAAAACGAGGGGAGA
Found at i:26376756 original size:21 final size:22
Alignment explanation
Indices: 26376730--26376804 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
26376720 AGCAAAAAGG
*
26376730 AGGGGAGAAACCAACAAAAACG
1 AGGGGAGAAACCAACAAAAACA
* * *
26376752 A-GGGACAAACCAATAAGAACA
1 AGGGGAGAAACCAACAAAAACA
*
26376773 A-GGGAGAAACCAACAAGAACA
1 AGGGGAGAAACCAACAAAAACA
26376794 AGGGGAGAAAC
1 AGGGGAGAAAC
26376805 TGTTGTTTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 36 0.78
22 10 0.22
ACGTcount: A:0.55, C:0.17, G:0.27, T:0.01
Consensus pattern (22 bp):
AGGGGAGAAACCAACAAAAACA
Found at i:26380275 original size:51 final size:49
Alignment explanation
Indices: 26380210--26380378 Score: 162
Period size: 51 Copynumber: 3.3 Consensus size: 49
26380200 GCACGCATTG
* * * * *
26380210 TGTGTAGGCCACTATGTAAAAGTGAAAGTGATGGTCACGTGTGTAGTATTA
1 TGTGCAGGCTACTATGT-AACG-GAAAGTGATGGTCACATGTGTAGTACTA
* *
26380261 TGTGCAGGCTACTATGTGTACCGG-AA-TGATAGGTCGCATGTGTAGTACTA
1 TGTGCAGGCTACTA--TGTAACGGAAAGTGAT-GGTCACATGTGTAGTACTA
* ** *
26380311 TGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTACTA
1 TGTGCAGGCTACTA--TGTAACGGAAAGTGATGGTCACATGTGTAGTACTA
26380362 TGTGCAGGCTACTATGT
1 TGTGCAGGCTACTATGT
26380379 GAACCGAACA
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
49 7 0.07
50 40 0.40
51 45 0.45
52 5 0.05
53 3 0.03
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (49 bp):
TGTGCAGGCTACTATGTAACGGAAAGTGATGGTCACATGTGTAGTACTA
Found at i:26380305 original size:50 final size:51
Alignment explanation
Indices: 26380240--26380384 Score: 204
Period size: 50 Copynumber: 2.9 Consensus size: 51
26380230 AGTGAAAGTG
* *
26380240 ATGGTCACGTGTGTAGTATTATGTGCAGGCTACTATGTGTACCGGAATGAT-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGG-ATGATA
* * * *
26380291 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATGATA
*
26380341 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCG
26380385 AACATCATTG
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
49 4 0.05
50 39 0.48
51 39 0.48
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATGATA
Found at i:26380379 original size:26 final size:26
Alignment explanation
Indices: 26380298--26380379 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
26380288 GATAGGTCGC
26380298 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* * *
26380324 ACGTGTA-T-CGGATG-GTAATGG-TCAC-
1 ATGTGTAGTAC-TATGTG-CA-GGCT-ACT
26380349 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
26380375 ATGTG
1 ATGTG
26380380 AACCGAACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.39
26 21 0.51
27 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:26387135 original size:16 final size:16
Alignment explanation
Indices: 26387116--26387165 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
26387106 CATACTTAGC
26387116 TTGCAATTTACTAACA
1 TTGCAATTTACTAACA
*
26387132 TTGC-ATATT-C-AGC-
1 TTGCAAT-TTACTAACA
26387145 TTGCAATTTACTAACA
1 TTGCAATTTACTAACA
26387161 TTGCA
1 TTGCA
26387166 TATTCAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
13 6 0.22
14 5 0.19
15 5 0.19
16 11 0.41
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (16 bp):
TTGCAATTTACTAACA
Found at i:26387148 original size:29 final size:29
Alignment explanation
Indices: 26387113--26387171 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
26387103 ATACATACTT
26387113 AGCTTGCAATTTACTAACATTGCATATTC
1 AGCTTGCAATTTACTAACATTGCATATTC
26387142 AGCTTGCAATTTACTAACATTGCATATTC
1 AGCTTGCAATTTACTAACATTGCATATTC
26387171 A
1 A
26387172 AGTAATCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.37
Consensus pattern (29 bp):
AGCTTGCAATTTACTAACATTGCATATTC
Found at i:26390917 original size:173 final size:174
Alignment explanation
Indices: 26390612--26390926 Score: 413
Period size: 173 Copynumber: 1.8 Consensus size: 174
26390602 AGTTAATTAA
* *
26390612 CCACATTAGCTAATTTATTGGCCACGTCACCTGTCTCATTAGGCCTGTAACGAAAAATGTTAATG
1 CCACATTAGCTAATTAATTGGCCACGTCACCTGTCTCATTAGGCCCGTAACGAAAAATGTTAATG
* * * * * *
26390677 GATGATTGATTTGTCTCTTTTAGGTAAAGTTAGTGATTGATTAGCTATTTTTTAAAGTTAAAGTG
66 GATGACTGATTTATCACTTTTAGATAAAGTTAGTGACTGATTAGCTATTTTTAAAAGTTAAAGTG
26390742 ACTGAATTGAAACTTTGCCTCAACCAACGTGACAAGTTAACTGG
131 ACTGAATTGAAACTTTGCCTCAACCAACGTGACAAGTTAACTGG
* * *
26390786 CCACGTTAGCTAGTTAATTGGCCACGTCACCT-TC-CTGTTAGGCCCGTAAC-AGAAAATGTTAA
1 CCACATTAGCTAATTAATTGGCCACGTCACCTGTCTC-ATTAGGCCCGTAACGA-AAAATGTTAA
* * * * * * *
26390848 TGGGTGACTGATTTATCACTTTTTGATAATGTTAGTGACTGTTTTGTTATTTTTCAAAAGTT-GA
64 TGGATGACTGATTTATCACTTTTAGATAAAGTTAGTGACTGATTAGCTATTTTT-AAAAGTTAAA
26390912 GTGACTGAATTGAAA
128 GTGACTGAATTGAAA
26390927 ATAGAGTGAC
Statistics
Matches: 120, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
172 2 0.02
173 83 0.69
174 35 0.29
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (174 bp):
CCACATTAGCTAATTAATTGGCCACGTCACCTGTCTCATTAGGCCCGTAACGAAAAATGTTAATG
GATGACTGATTTATCACTTTTAGATAAAGTTAGTGACTGATTAGCTATTTTTAAAAGTTAAAGTG
ACTGAATTGAAACTTTGCCTCAACCAACGTGACAAGTTAACTGG
Found at i:26394292 original size:23 final size:23
Alignment explanation
Indices: 26394266--26394338 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
26394256 ATAAGTGCCA
26394266 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
26394289 CACTGATATGTAGCC-ATAGATAC
1 CACTGATATGTAGCCGA-AGCTAC
* *
26394312 CAATGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
26394335 CACT
1 CACT
26394339 AATTAATAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
22 1 0.02
23 41 0.95
24 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:26394579 original size:17 final size:18
Alignment explanation
Indices: 26394557--26394597 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
26394547 AAATTTTCCT
26394557 TTCACAT-TCAAA-ATTAA
1 TTCACATATCAAATA-TAA
26394574 TTCACATATCAAATATAA
1 TTCACATATCAAATATAA
26394592 TTCACA
1 TTCACA
26394598 ATTTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 14 0.64
19 1 0.05
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (18 bp):
TTCACATATCAAATATAA
Found at i:26394592 original size:18 final size:17
Alignment explanation
Indices: 26394557--26394597 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
26394547 AAATTTTCCT
26394557 TTCACATTCAAAATTAA
1 TTCACATTCAAAATTAA
26394574 TTCACATATC-AAATATAA
1 TTCACAT-TCAAAAT-TAA
26394592 TTCACA
1 TTCACA
26394598 ATTTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (17 bp):
TTCACATTCAAAATTAA
Found at i:26403653 original size:13 final size:13
Alignment explanation
Indices: 26403635--26403659 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26403625 GCCCAAACTC
26403635 AATTACCCAACCT
1 AATTACCCAACCT
26403648 AATTACCCAACC
1 AATTACCCAACC
26403660 CAATAAAACT
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:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (13 bp):
AATTACCCAACCT
Found at i:26403813 original size:9 final size:9
Alignment explanation
Indices: 26403801--26403868 Score: 82
Period size: 9 Copynumber: 7.4 Consensus size: 9
26403791 AAAATAAAAA
26403801 AATTCGGGT
1 AATTCGGGT
26403810 AATTCGGGT
1 AATTCGGGT
* *
26403819 ATTTTCCGGT
1 A-ATTCGGGT
*
26403829 AATTCGGTT
1 AATTCGGGT
*
26403838 AATTCGGTT
1 AATTCGGGT
26403847 AATTCGGGT
1 AATTCGGGT
*
26403856 AATTCGAGT
1 AATTCGGGT
26403865 AATT
1 AATT
26403869 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
9 44 0.86
10 7 0.14
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.40
Consensus pattern (9 bp):
AATTCGGGT
Found at i:26411140 original size:49 final size:49
Alignment explanation
Indices: 26411043--26411142 Score: 112
Period size: 49 Copynumber: 2.0 Consensus size: 49
26411033 TACGGAGGAA
* ** * * * *
26411043 GTATCTGACAGTAAATCTGCGTTATCTGGTGGTTTGTCCATAATATTCT
1 GTATCTAACAGTAAATCTGCAATATCTAGTGGTTCGACCACAATATTCT
*
26411092 GTATCTAACAGTAAATCTTCAATATCTAGTGGTTCGACCAC-ATAATTCT
1 GTATCTAACAGTAAATCTGCAATATCTAGTGGTTCGACCACAAT-ATTCT
26411141 GT
1 GT
26411143 TTCTGCCAGC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
48 2 0.05
49 40 0.95
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (49 bp):
GTATCTAACAGTAAATCTGCAATATCTAGTGGTTCGACCACAATATTCT
Found at i:26414614 original size:50 final size:50
Alignment explanation
Indices: 26414533--26414668 Score: 173
Period size: 50 Copynumber: 2.7 Consensus size: 50
26414523 TATTGAGGTT
* * *
26414533 ATGAAAGGTCCCACGTAAGACCATGTCTGGGATATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGGCATGGGCACCGAG
* * * *
26414583 ATGAGAGGTCCCCCGTAAGACCATGTGTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGGCATGGGCACCGAG
** * *
26414633 ATGAGAACTCCCATGTAAGACCATATCTGGGATATG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATG
26414669 ACATTGGAAG
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGATATGGCATGGGCACCGAG
Found at i:26414954 original size:20 final size:20
Alignment explanation
Indices: 26414929--26414977 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
26414919 TGAGTTATTT
26414929 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
26414949 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
26414969 AAG-AAGCAA
1 AAGTAAGCAA
26414978 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:26426082 original size:68 final size:67
Alignment explanation
Indices: 26426003--26426194 Score: 228
Period size: 68 Copynumber: 2.8 Consensus size: 67
26425993 AAATTAATAG
* *
26426003 AATATTTATTT-ACAAAATAAATATTAA-ATTAAATATT-CTGTTAGATTTAATATTAAGATAAT
1 AATATTAATTTAACAAAAT-AATATTAAGA-TAAATATTAAT-TTA-ATTTAATATTAAGATAAT
26426065 CACTTT
62 CACTTT
* * * *
26426071 AATATTAATTTAATAAAATACTATTAAGATAAGTATTAAATTTAATTTCATATTAAGATAATCAC
1 AATATTAATTTAACAAAATAATATTAAGATAAATATT-AATTTAATTTAATATTAAGATAATCAC
26426136 TTT
65 TTT
* * *
26426139 AATATTAAATTAATAAAATACTATTAAGATAAATATTAAATTTAATTTAATATTAA
1 AATATTAATTTAACAAAATAATATTAAGATAAATATT-AATTTAATTTAATATTAA
26426195 ATCTATTAAA
Statistics
Matches: 111, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
68 100 0.90
69 10 0.09
70 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.43
Consensus pattern (67 bp):
AATATTAATTTAACAAAATAATATTAAGATAAATATTAATTTAATTTAATATTAAGATAATCACT
TT
Found at i:26426210 original size:68 final size:68
Alignment explanation
Indices: 26426047--26426213 Score: 219
Period size: 68 Copynumber: 2.5 Consensus size: 68
26426037 ATTCTGTTAG
*** * *
26426047 ATTTAATATTAAGATAATCACTTTAATATTAATTTAATAAAATACTATTAAGATAAGTATTAAAT
1 ATTTAATATTAAGATAATCAAAATAATATTAAATTAATAAAATACTATTAAGATAAATATTAAAT
26426112 TTA
66 TTA
* ***
26426115 ATTTCATATTAAGATAATCACTTTAATATTAAATTAATAAAATACTATTAAGATAAATATTAAAT
1 ATTTAATATTAAGATAATCAAAATAATATTAAATTAATAAAATACTATTAAGATAAATATTAAAT
26426180 TTA
66 TTA
* *
26426183 ATTTAATATTAA-ATCTATTAAAATAATATTA
1 ATTTAATATTAAGAT-AATCAAAATAATATTA
26426214 TTTTTAGAAT
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
67 2 0.02
68 87 0.98
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (68 bp):
ATTTAATATTAAGATAATCAAAATAATATTAAATTAATAAAATACTATTAAGATAAATATTAAAT
TTA
Found at i:26440120 original size:15 final size:15
Alignment explanation
Indices: 26440100--26440129 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26440090 GAATCAAAAG
26440100 AGAAAAATCCTAATT
1 AGAAAAATCCTAATT
*
26440115 AGAAAAATCTTAATT
1 AGAAAAATCCTAATT
26440130 TTCATGTCGA
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:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (15 bp):
AGAAAAATCCTAATT
Found at i:26457326 original size:50 final size:50
Alignment explanation
Indices: 26457217--26457464 Score: 302
Period size: 50 Copynumber: 4.8 Consensus size: 50
26457207 ATTTGGGTAA
* *
26457217 AGAGATCCCATGTAAGACCATGTCTGGGACATGTCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
26457273 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * *
26457323 AGAGGTCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * *
26457373 AGAGGTTCCC-CGTAAGACCATGTCTGGGACATGGCA-TGGCCACCGATAGG
1 AGAGG-TCCCATGTAAGACCATGTCTGGGACATGGCATTGG-CACCGAGACG
** * *
26457423 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
26457465 GTACATGAAA
Statistics
Matches: 173, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
49 7 0.04
50 112 0.65
51 7 0.04
52 1 0.01
53 4 0.02
55 2 0.01
56 40 0.23
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:26466422 original size:43 final size:43
Alignment explanation
Indices: 26466361--26466486 Score: 191
Period size: 43 Copynumber: 2.9 Consensus size: 43
26466351 TGGAGCTTGT
*
26466361 TTAATCCTTAAGCATGCATGGATGAATTTATGAAGCTAATTGC
1 TTAATCTTTAAGCATGCATGGATGAATTTATGAAGCTAATTGC
* *
26466404 TTAATCTTTAAGCATGCATAGATGAATTTATGAAGCCT-TTTGC
1 TTAATCTTTAAGCATGCATGGATGAATTTATGAAG-CTAATTGC
* *
26466447 TTAATCTTTAAGCATGCATGGACGGATTTATGAAGCTAAT
1 TTAATCTTTAAGCATGCATGGATGAATTTATGAAGCTAAT
26466487 ATTGGTTTTC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
42 2 0.03
43 70 0.95
44 2 0.03
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (43 bp):
TTAATCTTTAAGCATGCATGGATGAATTTATGAAGCTAATTGC
Found at i:26477223 original size:34 final size:34
Alignment explanation
Indices: 26477184--26477251 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
26477174 TTTCAATAAA
26477184 GAGGCAAGCAATTATTCTATCAAAAAGAAACATT
1 GAGGCAAGCAATTATTCTATCAAAAAGAAACATT
26477218 GAGGCAAGCAATTATTCTATCAAAAAGAAACATT
1 GAGGCAAGCAATTATTCTATCAAAAAGAAACATT
26477252 ATTTTGAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.24
Consensus pattern (34 bp):
GAGGCAAGCAATTATTCTATCAAAAAGAAACATT
Found at i:26480587 original size:8 final size:9
Alignment explanation
Indices: 26480567--26480627 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
26480557 AAAAAAAGTT
26480567 TTTTTAAAAA
1 TTTTT-AAAA
*
26480577 TTTTTAAAT
1 TTTTTAAAA
26480586 TTTTTAAAA
1 TTTTTAAAA
*
26480595 TTTTTGTAAA
1 TTTTT-AAAA
*
26480605 TTTGTAAAAAA
1 TTT-T-TAAAA
*
26480616 TTATTAAAA
1 TTTTTAAAA
26480625 TTT
1 TTT
26480628 ACAAAAAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
9 22 0.55
10 12 0.30
11 6 0.15
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:26480590 original size:19 final size:19
Alignment explanation
Indices: 26480566--26480623 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
26480556 TAAAAAAAGT
26480566 TTTTTTAAAAATTTTTAAA
1 TTTTTTAAAAATTTTTAAA
*
26480585 TTTTTTAAAATTTTTGTAAA
1 TTTTTTAAAAATTTT-TAAA
* * *
26480605 TTTGTAAAAAATTATTAAA
1 TTTTTTAAAAATTTTTAAA
26480624 ATTTACAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTTTAAAAATTTTTAAA
Found at i:26480724 original size:36 final size:36
Alignment explanation
Indices: 26480677--26480750 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
26480667 CATTTAAAAG
26480677 TTAATTCCAGAATGAATCTAGACAAACTTGTCCAAA
1 TTAATTCCAGAATGAATCTAGACAAACTTGTCCAAA
26480713 TTAATTCCAGAATGAATCTAGACAAACTTGTCCAAA
1 TTAATTCCAGAATGAATCTAGACAAACTTGTCCAAA
26480749 TT
1 TT
26480751 TAAAGCGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (36 bp):
TTAATTCCAGAATGAATCTAGACAAACTTGTCCAAA
Found at i:26481490 original size:30 final size:30
Alignment explanation
Indices: 26481454--26481514 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
26481444 GAAAATAAAG
26481454 AAAGAACAAATTGAAAAACAACCTAACGCT
1 AAAGAACAAATTGAAAAACAACCTAACGCT
26481484 AAAGAACAAATTGAAAAACAACCTAACGCT
1 AAAGAACAAATTGAAAAACAACCTAACGCT
26481514 A
1 A
26481515 CTCCCTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.20, G:0.10, T:0.13
Consensus pattern (30 bp):
AAAGAACAAATTGAAAAACAACCTAACGCT
Found at i:26481946 original size:22 final size:22
Alignment explanation
Indices: 26481921--26481963 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
26481911 CTCATGGCTA
26481921 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
26481943 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
26481964 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:26491056 original size:13 final size:13
Alignment explanation
Indices: 26491038--26491089 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
26491028 ATGCAAATTA
26491038 AAAGAAAAAGAAG
1 AAAGAAAAAGAAG
*
26491051 AAAGAAAAA-AAA
1 AAAGAAAAAGAAG
*
26491063 ACAAGAAAAACAAAG
1 A-AAGAAAAA-GAAG
26491078 AAAG-AAAAGAAG
1 AAAGAAAAAGAAG
26491090 GGAGAATGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 6 0.18
13 21 0.64
14 3 0.09
15 3 0.09
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAG
Found at i:26491068 original size:17 final size:18
Alignment explanation
Indices: 26491037--26491080 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
26491027 CATGCAAATT
*
26491037 AAAAGAAAAAGAAGAAAG
1 AAAAGAAAAACAAGAAAG
*
26491055 AAAA-AAAAACAAGAAAA
1 AAAAGAAAAACAAGAAAG
26491072 ACAAAGAAA
1 A-AAAGAAA
26491081 GAAAAGAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 12 0.55
18 7 0.32
19 3 0.14
ACGTcount: A:0.82, C:0.05, G:0.14, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAACAAGAAAG
Found at i:26498828 original size:11 final size:11
Alignment explanation
Indices: 26498814--26498840 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
26498804 TGTATTATAT
26498814 AATAATAATAA
1 AATAATAATAA
26498825 AATAATAATAA
1 AATAATAATAA
26498836 AATAA
1 AATAA
26498841 AGTGGTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAATAATAA
Found at i:26500731 original size:4 final size:4
Alignment explanation
Indices: 26500717--26500750 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
26500707 CTGTCACATG
26500717 AATT AAATT AATT AATT AATT AATT AATTT AATT
1 AATT -AATT AATT AATT AATT AATT AA-TT AATT
26500751 TGATATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:26505195 original size:23 final size:24
Alignment explanation
Indices: 26505169--26505213 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
26505159 ATGATTGCCG
*
26505169 AAATA-AATTTTTGGAACTGGAAA
1 AAATATAACTTTTGGAACTGGAAA
*
26505192 AAATATACCTTTTGGAACTGGA
1 AAATATAACTTTTGGAACTGGA
26505214 TTCTGTTCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (24 bp):
AAATATAACTTTTGGAACTGGAAA
Found at i:26509050 original size:50 final size:50
Alignment explanation
Indices: 26508991--26509222 Score: 266
Period size: 50 Copynumber: 4.5 Consensus size: 50
26508981 TGCCTTATCT
* ** ** * *
26508991 CAGATATGGTCTTACATAAGAGTTCTCATATAGGTGCCCATGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCC
** * *
26509041 CAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCC
* *
26509091 CAGACATGGTCTTACATGGGACCTCTCATTTCGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCC
* *
26509141 CAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GGTGCCAACGCCATGTCC
*
26509197 CAGACATGGTCTTACATGGGATCTCT
1 CAGACATGGTCTTACATGGGACCTCT
26509223 TTACCCAAAT
Statistics
Matches: 156, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
50 114 0.73
53 1 0.01
56 41 0.26
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
CAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCC
Found at i:26513477 original size:28 final size:28
Alignment explanation
Indices: 26513437--26513493 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
26513427 ATAAAAGAAA
*
26513437 ATATTTCAAAATCGTCAGGAGTCATCAC
1 ATATTTCAAAATCGTCAAGAGTCATCAC
*
26513465 ATATTTCAAAATCGTCAAGAGTCGTCAC
1 ATATTTCAAAATCGTCAAGAGTCATCAC
26513493 A
1 A
26513494 CTATCAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (28 bp):
ATATTTCAAAATCGTCAAGAGTCATCAC
Found at i:26515016 original size:50 final size:50
Alignment explanation
Indices: 26514898--26515138 Score: 232
Period size: 50 Copynumber: 4.8 Consensus size: 50
26514888 GAATATAACA
* * * ** * * * *
26514898 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTA-C
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * * * **
26514947 TGCCAATGCCATATTCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * ** * * *
26514997 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCCTCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* *
26515047 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATTTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* *
26515097 TGCCAACGCCATGTCCCAGATATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
26515139 TTACCCAAAT
Statistics
Matches: 157, Mismatches: 34, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
49 36 0.23
50 121 0.77
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:26515947 original size:35 final size:35
Alignment explanation
Indices: 26515908--26516020 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 35
26515898 GAGTCAGAAA
*
26515908 ACCATTTTCATGGTGCCACTCTATAGAGCCAGTAG
1 ACCATTTTCATGGTGCCACTCCATAGAGCCAGTAG
* *** *
26515943 ACCATTTCCATGGTGTTGCTCCATAGAGCTAGTAG
1 ACCATTTTCATGGTGCCACTCCATAGAGCCAGTAG
* ** * * * *
26515978 ACCATTTTCGTAATGCCGCTTCGTAGAGTCAGTAG
1 ACCATTTTCATGGTGCCACTCCATAGAGCCAGTAG
26516013 ACCATTTT
1 ACCATTTT
26516021 TGTGATGTCG
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 62 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (35 bp):
ACCATTTTCATGGTGCCACTCCATAGAGCCAGTAG
Found at i:26518348 original size:26 final size:26
Alignment explanation
Indices: 26518318--26518375 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
26518308 GTTAAAACTC
*
26518318 TTTTAAAAG-AAAACTCAAGAGAAATT
1 TTTTAAAAGAAAAACGCAAGA-AAATT
26518344 TTTTAAAAGAAAAACGCAAGAAAATT
1 TTTTAAAAGAAAAACGCAAGAAAATT
*
26518370 TATTAA
1 TTTTAA
26518376 TTCAAAGCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (26 bp):
TTTTAAAAGAAAAACGCAAGAAAATT
Found at i:26532327 original size:16 final size:16
Alignment explanation
Indices: 26532306--26532337 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
26532296 GTTTTGTTGC
*
26532306 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
26532322 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
26532338 CTTTCAATCA
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:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:26532633 original size:51 final size:50
Alignment explanation
Indices: 26532523--26532662 Score: 174
Period size: 51 Copynumber: 2.8 Consensus size: 50
26532513 GATACCGGTT
* * *
26532523 CACATAGTAGCCTGCACATAGTACTGCACATGTGACCATCACTATTCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA-CACTATCCGATA
* * *
26532574 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCACA-CTATCCGATA
* *
26532625 CGCATAGTAGCCTGCACATAGTACCACACACGTGACCA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA
26532663 TCACACAGTC
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
50 3 0.04
51 72 0.94
52 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCACACTATCCGATA
Found at i:26536440 original size:62 final size:59
Alignment explanation
Indices: 26536325--26536441 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
26536315 ATCACTTTAA
* * * *
26536325 TATTAAATTAATATAATATTTATTAAGATAAATCTTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAAAATATTTATTAAGATAAATATTAAATTAAATTTAATATTAAATCT
*
26536384 TATTAAAATAATAAAATATTTATCTATAAGGTAAATATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAAAATATTTA--T-TAAGATAAATATTAAATTAAATTTAATATTAA
26536442 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
61 1 0.02
62 29 0.58
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (59 bp):
TATTAAAATAATAAAATATTTATTAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:26536467 original size:20 final size:21
Alignment explanation
Indices: 26536424--26536482 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
26536414 GTAAATATTA
*
26536424 AATTAAATTTAATATTAAGAT
1 AATTCAATTTAATATTAAGAT
* **
26536445 AA-TCACTTTAATATTAATTT
1 AATTCAATTTAATATTAAGAT
*
26536465 AATTTAATTTAATATTAA
1 AATTCAATTTAATATTAA
26536483 ACTAATAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (21 bp):
AATTCAATTTAATATTAAGAT
Found at i:26536473 original size:10 final size:11
Alignment explanation
Indices: 26536451--26536482 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
26536441 AGATAATCAC
26536451 TTTAATATTAA
1 TTTAATATTAA
26536462 TTTAAT-TTAA
1 TTTAATATTAA
26536472 TTTAATATTAA
1 TTTAATATTAA
26536483 ACTAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTAATATTAA
Found at i:26536488 original size:21 final size:20
Alignment explanation
Indices: 26536424--26536493 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
26536414 GTAAATATTA
26536424 AATTAAATTTAATATTAAGAT
1 AATTAAATTTAATATTAA-AT
* * *
26536445 AA-TCACTTTAATATTAATTT
1 AATTAAATTTAATATTAA-AT
*
26536465 AATTTAATTTAATATTAAACT
1 AATTAAATTTAATATTAAA-T
*
26536486 AATAAAAT
1 AATTAAAT
26536494 ATTATTATTT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
20 16 0.42
21 22 0.58
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (20 bp):
AATTAAATTTAATATTAAAT
Found at i:26536929 original size:11 final size:11
Alignment explanation
Indices: 26536913--26536937 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
26536903 AAATATCATA
26536913 TTAATTTTAAT
1 TTAATTTTAAT
26536924 TTAATTTTAAT
1 TTAATTTTAAT
26536935 TTA
1 TTA
26536938 TCAAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTAATTTTAAT
Found at i:26539061 original size:23 final size:24
Alignment explanation
Indices: 26539012--26539074 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
26539002 TACCATATCC
* *
26539012 AAATAATATTAAAAA-CACCAGGT
1 AAATAATATTAAAAATAACAAGGT
*
26539035 AAATAATATTAAAAATAACAATG-
1 AAATAATATTAAAAATAACAAGGT
26539058 AAATAATA-TAATAAATA
1 AAATAATATTAA-AAATA
26539075 GCTGCGAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 3 0.09
23 28 0.80
24 4 0.11
ACGTcount: A:0.63, C:0.06, G:0.05, T:0.25
Consensus pattern (24 bp):
AAATAATATTAAAAATAACAAGGT
Found at i:26539704 original size:22 final size:21
Alignment explanation
Indices: 26539674--26539731 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
26539664 ATGCAATCGT
*
26539674 AGATTTGATATGTAATCTTAG
1 AGATTTGATTTGTAATCTTAG
*
26539695 AAGATATGATTTTGTAATCTTAG
1 -AGATTTGA-TTTGTAATCTTAG
26539718 AGATTTGATTTGTA
1 AGATTTGATTTGTA
26539732 GATACCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.19
22 14 0.44
23 12 0.38
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:26539714 original size:23 final size:22
Alignment explanation
Indices: 26539684--26539728 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
26539674 AGATTTGATA
26539684 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAG-AGATATGATTT
*
26539707 TGTAATCTTAGAGATTTGATTT
1 TGTAATCTTAGAGATATGATTT
26539729 GTAGATACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (22 bp):
TGTAATCTTAGAGATATGATTT
Found at i:26544819 original size:22 final size:21
Alignment explanation
Indices: 26544789--26544846 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
26544779 ATGCAATCGT
*
26544789 AGATTTGATATGTAATCTTAG
1 AGATTTGATTTGTAATCTTAG
*
26544810 AAGATATGATTTTGTAATCTTAG
1 -AGATTTGA-TTTGTAATCTTAG
26544833 AGATTTGATTTGTA
1 AGATTTGATTTGTA
26544847 GATACCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.19
22 14 0.44
23 12 0.38
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:26544829 original size:23 final size:22
Alignment explanation
Indices: 26544799--26544843 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
26544789 AGATTTGATA
26544799 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAG-AGATATGATTT
*
26544822 TGTAATCTTAGAGATTTGATTT
1 TGTAATCTTAGAGATATGATTT
26544844 GTAGATACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (22 bp):
TGTAATCTTAGAGATATGATTT
Found at i:26545838 original size:31 final size:31
Alignment explanation
Indices: 26545800--26545862 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
26545790 TCTTACCCGA
26545800 GTAATAGTCACCGGCGATAGAGGAAGTAGGT
1 GTAATAGTCACCGGCGATAGAGGAAGTAGGT
* *
26545831 GTAATAGTCGCTGGCGATAGAGGAAGTAGGT
1 GTAATAGTCACCGGCGATAGAGGAAGTAGGT
26545862 G
1 G
26545863 GGAGGTGGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.30, C:0.11, G:0.38, T:0.21
Consensus pattern (31 bp):
GTAATAGTCACCGGCGATAGAGGAAGTAGGT
Found at i:26546858 original size:57 final size:57
Alignment explanation
Indices: 26546777--26546910 Score: 153
Period size: 57 Copynumber: 2.4 Consensus size: 57
26546767 TAAGTACTCA
* * * * *
26546777 CCACAAAGG-CATCCTTTAATAGGTTCACCATAAAAACTTACCTTTCTAGAGTTTTG
1 CCACAAAGGATATCCTTTTACAGGTTCACCACAAAAACTTACCTTTCCAGAGTTTTG
* * * *** *
26546833 CCACAAAGGTTGTCCTTTTACAGGTTCGCCACAAAGTTTTACCTTTCCAGAGTTTTT
1 CCACAAAGGATATCCTTTTACAGGTTCACCACAAAAACTTACCTTTCCAGAGTTTTG
26546890 CCACAAAGGATATCCTTTTAC
1 CCACAAAGGATATCCTTTTAC
26546911 TGACGTTTTA
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
56 9 0.14
57 55 0.86
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (57 bp):
CCACAAAGGATATCCTTTTACAGGTTCACCACAAAAACTTACCTTTCCAGAGTTTTG
Found at i:26546896 original size:29 final size:29
Alignment explanation
Indices: 26546814--26546897 Score: 84
Period size: 28 Copynumber: 2.9 Consensus size: 29
26546804 CCATAAAAAC
*
26546814 TTACCTTTCTAGAGTTTTGCCACAAAGGTT
1 TTACCTTTCCAGAGTTTTGCCACAAA-GTT
* * *
26546844 GT-CCTTTTACAG-G-TTCGCCACAAAGTT
1 TTACC-TTTCCAGAGTTTTGCCACAAAGTT
*
26546871 TTACCTTTCCAGAGTTTTTCCACAAAG
1 TTACCTTTCCAGAGTTTTGCCACAAAG
26546898 GATATCCTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
27 10 0.24
28 13 0.31
29 13 0.31
30 6 0.14
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
TTACCTTTCCAGAGTTTTGCCACAAAGTT
Found at i:26550731 original size:21 final size:20
Alignment explanation
Indices: 26550707--26550761 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 20
26550697 TGTCTCTCCC
26550707 ACACGCCAGTGTAGCCATTCT
1 ACACGCCA-TGTAGCCATTCT
26550728 ACACGCCCATGTAGCCATTCT
1 ACACG-CCATGTAGCCATTCT
26550749 ACACGCCCATGTA
1 ACACG-CCATGTA
26550762 CCCAACCGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 30 0.91
22 3 0.09
ACGTcount: A:0.25, C:0.36, G:0.16, T:0.22
Consensus pattern (20 bp):
ACACGCCATGTAGCCATTCT
Found at i:26566833 original size:37 final size:37
Alignment explanation
Indices: 26566787--26566857 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
26566777 AAAAATAATA
*
26566787 TTATTTTAATAGT-TTAATATTAAGTTTAAT-TTAACAC
1 TTATCTTAATAGTATT-ATATTAA-TTTAATATTAACAC
*
26566824 TTATCTTAATAGTATTTTATTAATTTAATATTAA
1 TTATCTTAATAGTATTATATTAATTTAATATTAA
26566858 AGTGATTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 6 0.20
37 22 0.73
38 2 0.07
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (37 bp):
TTATCTTAATAGTATTATATTAATTTAATATTAACAC
Found at i:26566967 original size:24 final size:23
Alignment explanation
Indices: 26566928--26566977 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
26566918 TTTTAATAAG
26566928 ATTTAATATTAAATT-AATCTAAT
1 ATTTAATATTAAATTAAAT-TAAT
*
26566951 ATTTAAATATTATATTAAATTAAT
1 ATTT-AATATTAAATTAAATTAAT
26566975 ATT
1 ATT
26566978 AAAGTGATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 17 0.71
25 3 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTAATATTAAATTAAATTAAT
Found at i:26567352 original size:16 final size:16
Alignment explanation
Indices: 26567301--26567353 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
26567291 TTGGTTCGCT
*
26567301 GTAATGAAATAGAGGTC
1 GTAATGGAATAGAGG-C
26567318 -TAATGGAATAGA-GC
1 GTAATGGAATAGAGGC
26567332 TGTAATGGAATAGAGGC
1 -GTAATGGAATAGAGGC
26567349 GTAAT
1 GTAAT
26567354 AGTAATTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
14 1 0.03
15 1 0.03
16 28 0.88
17 2 0.06
ACGTcount: A:0.40, C:0.06, G:0.30, T:0.25
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:26567386 original size:45 final size:44
Alignment explanation
Indices: 26567335--26567427 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
26567325 ATAGAGCTGT
*
26567335 AATGGAATAGAGGC-GTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGA-ACTGTAATAGT-ATTC-ATGTGTTTGGTTGAATGG
*
26567380 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
26567424 AATG
1 AATG
26567428 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
43 1 0.02
44 24 0.55
45 19 0.43
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:26567698 original size:13 final size:12
Alignment explanation
Indices: 26567675--26567715 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
26567665 TATAATACTA
26567675 TAAAATATAATT
1 TAAAATATAATT
26567687 TAAAATTATAATT
1 TAAAA-TATAATT
*
26567700 ATTAAATATAATT
1 -TAAAATATAATT
26567713 TAA
1 TAA
26567716 TAAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 7 0.28
13 14 0.56
14 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:26567742 original size:119 final size:119
Alignment explanation
Indices: 26567566--26568464 Score: 1144
Period size: 119 Copynumber: 7.8 Consensus size: 119
26567556 TTAATCATAT
* *
26567566 TTTAACATAATTATTATTAAATATAATTTAATAAAATTATATAATTTA-ATAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTATA-AAATTCTTAATATT
*
26567630 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAA
* * *
26567685 TTTAAAATTATAATTATTAAATATAATTTAATAAAAATATATAATTTATAAATTTCTTAATATTA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTATAAAATTCTTAATATTA
26567750 AATATTCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAA
66 AATATTCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAA
* * * *
26567804 TTTAAAATAATTATTATTAAATATAATTTTATAAAATTCT-TAATATTA-AATATTCTT-ATA-T
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAAT-TTATAAAATTCTTAATATT
* * * *
26567865 GAAT-TTAC-TA-A--AA--T-C-ATAAT-AT-ATA-ATACT-ATAA--AATATAA
65 AAATATT-CTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAA
* * * * *
26567906 TTTAAAATAATAATTATTAAATATAATTTAATAATATTCT-TAATATTA-AATATTCTT-ATA-T
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAAT-TTATAAAATTCTTAATATT
* * * *
26567967 GAAT-TTAC-TA-A--AA--T-C-ATAAT-AT-ATA-ATACT-ATAA--AATATAA
65 AAATATT-CTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAA
* *
26568008 TCTAAAATAATTATTCTTAAATATAATTTAATAAAAATATATAATTTATAAAATTCTTAATATTA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTATAAAATTCTTAATATTA
*
26568073 AATATTCTTATATGAATTTACTAAAATCATAATATATAATAATCTAAAATATAA
66 AATATTCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAA
* *
26568127 TCTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTAATAAAATTCTTAATATTA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTATAAAATTCTTAATATTA
*
26568192 AATATTCTTATATGAATTTACTAAAGTCATAATATATAATAATATAAAATATAA
66 AATATTCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAA
26568246 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTT-ATAAAATTCTTAATATT
* *
26568311 AAATATTCTTATATGAATTTACTAAAATTATAATATATAATAATTTAAAATATAA
65 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAA
26568366 TTTAAAAT-A--ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTT-ATAAAATTCTTAATATT
* *
26568428 AAATATTCTTAAATGAATTTACTAAAATCATGATATA
65 AAATATTCTTATATGAATTTACTAAAATCATAATATA
26568465 AAAGCACTTT
Statistics
Matches: 713, Mismatches: 44, Indels: 48
0.89 0.05 0.06
Matches are distributed among these distances:
102 143 0.20
103 12 0.02
104 6 0.01
105 9 0.01
106 7 0.01
107 3 0.00
108 4 0.01
109 3 0.00
110 1 0.00
111 1 0.00
112 3 0.00
113 4 0.01
114 3 0.00
115 7 0.01
116 9 0.01
117 92 0.13
118 11 0.02
119 317 0.44
120 78 0.11
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (119 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTATAAAATTCTTAATATTA
AATATTCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAA
Found at i:26567803 original size:22 final size:23
Alignment explanation
Indices: 26567771--26567814 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
26567761 ATGAATTTAC
*
26567771 TAAAATCATAATATATAATAATA
1 TAAAATCATAATATAAAATAATA
*
26567794 TAAAAT-ATAATTTAAAATAAT
1 TAAAATCATAATATAAAATAAT
26567815 TATTATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAAATCATAATATAAAATAATA
Found at i:26567826 original size:26 final size:26
Alignment explanation
Indices: 26567796--26567941 Score: 76
Period size: 26 Copynumber: 5.7 Consensus size: 26
26567786 TAATAATATA
26567796 AAATATAATTTAAAATAATTATTATT
1 AAATATAATTTAAAATAATTATTATT
** *
26567822 AAATATAATTTTATAAAATTCTTAATATT
1 AAATATAA--TT-TAAAATAATTATTATT
* *
26567851 AAATAT--TCTT-ATATGAA-T-TTACTA
1 AAATATAAT-TTAAAAT-AATTATTA-TT
* * *
26567875 AAATCATAA--T-ATATAA-TACTATA
1 AAAT-ATAATTTAAAATAATTATTATT
*
26567898 AAATATAATTTAAAATAATAATTATT
1 AAATATAATTTAAAATAATTATTATT
26567924 AAATATAATTTAATAATA
1 AAATATAATTTAA-AATA
26567942 TTCTTAATAT
Statistics
Matches: 92, Mismatches: 13, Indels: 29
0.69 0.10 0.22
Matches are distributed among these distances:
22 4 0.04
23 11 0.12
24 17 0.18
25 9 0.10
26 26 0.28
27 4 0.04
28 2 0.02
29 19 0.21
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (26 bp):
AAATATAATTTAAAATAATTATTATT
Found at i:26567846 original size:102 final size:102
Alignment explanation
Indices: 26567723--26568043 Score: 572
Period size: 102 Copynumber: 3.2 Consensus size: 102
26567713 TAATAAAAAT
*
26567723 ATATAATTT-ATAAATTTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
26567787 AATAATATAAAATATAATTTAAAATAATTATTATTAA
66 AATACTATAAAATATAATTTAAAATAATTATTATTAA
*
26567824 ATATAATTTTATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
26567889 AATACTATAAAATATAATTTAAAATAATAATTATTAA
66 AATACTATAAAATATAATTTAAAATAATTATTATTAA
*
26567926 ATATAATTTAATAATATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* *
26567991 AATACTATAAAATATAATCTAAAATAATTATTCTTAA
66 AATACTATAAAATATAATTTAAAATAATTATTATTAA
26568028 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
26568044 ATATATAATT
Statistics
Matches: 210, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
101 9 0.04
102 201 0.96
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (102 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTATAAAATATAATTTAAAATAATTATTATTAA
Found at i:26567920 original size:13 final size:12
Alignment explanation
Indices: 26567896--26567942 Score: 58
Period size: 13 Copynumber: 3.7 Consensus size: 12
26567886 TATAATACTA
26567896 TAAAATATAATT
1 TAAAATATAATT
26567908 TAAAATAATAATT
1 TAAAAT-ATAATT
*
26567921 ATTAAATATAATT
1 -TAAAATATAATT
26567934 TAATAATAT
1 TAA-AATAT
26567943 TCTTAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 8 0.27
13 17 0.57
14 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:26568126 original size:22 final size:23
Alignment explanation
Indices: 26568093--26568137 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
26568083 TATGAATTTA
*
26568093 CTAAAATCATAATATATAATAAT
1 CTAAAATCATAATATAAAATAAT
*
26568116 CTAAAAT-ATAATCTAAAATAAT
1 CTAAAATCATAATATAAAATAAT
26568138 TATTATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (23 bp):
CTAAAATCATAATATAAAATAAT
Found at i:26568128 original size:12 final size:12
Alignment explanation
Indices: 26568111--26568135 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26568101 ATAATATATA
26568111 ATAATCTAAAAT
1 ATAATCTAAAAT
26568123 ATAATCTAAAAT
1 ATAATCTAAAAT
26568135 A
1 A
26568136 ATTATTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATCTAAAAT
Found at i:26568367 original size:12 final size:12
Alignment explanation
Indices: 26568350--26568393 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
26568340 ATAATATATA
26568350 ATAATTTAAAAT
1 ATAATTTAAAAT
26568362 ATAATTT-AAA-
1 ATAATTTAAAAT
*
26568372 ATAATTATTAAAT
1 ATAATT-TAAAAT
26568385 ATAATTTAA
1 ATAATTTAA
26568394 TAAAAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 6 0.21
11 4 0.14
12 12 0.43
13 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATAATTTAAAAT
Found at i:26568429 original size:18 final size:18
Alignment explanation
Indices: 26568266--26568416 Score: 78
Period size: 18 Copynumber: 7.9 Consensus size: 18
26568256 TTATTATTAA
26568266 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
26568284 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
26568302 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
*
26568321 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
26568339 -TATAATATATAATAATTTAAA-
1 ATATAAT-T-TAATAA---AAAT
26568360 ATATAATTTAA-AATAATTATT
1 ATATAATTTAATAA-AA--A-T
26568381 AAATATAATTTAATAAAAAT
1 --ATATAATTTAATAAAAAT
26568401 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
26568417 TTCTTAATAT
Statistics
Matches: 103, Mismatches: 12, Indels: 36
0.68 0.08 0.24
Matches are distributed among these distances:
16 3 0.03
17 11 0.11
18 40 0.39
19 13 0.13
20 7 0.07
21 5 0.05
22 9 0.09
23 13 0.13
24 2 0.02
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:26568447 original size:38 final size:39
Alignment explanation
Indices: 26567924--26568455 Score: 163
Period size: 38 Copynumber: 13.5 Consensus size: 39
26567914 AATAATTATT
* * *
26567924 AAATATAATTTAATAATATTCTTAATATTAAATATTCTT
1 AAATAGAATTTAATAAAATTCTTAATATTAAATATTCTA
* * * * *
26567963 ATAT-GAATTTACTAAAA-TCATAATA-TATAATACTATA
1 AAATAGAATTTAATAAAATTCTTAATATTA-AATATTCTA
* * * * * **
26568000 AAATATAATCTAAAATAATTATTCTTAA-ATATAATTTAATAAA
1 AAATAGAAT-T-TAATAA-AATTCTTAATAT-TAA-ATATTCTA
* *
26568043 AATATATAATTT-ATAAAATTCTTAATATTAAATATTCTT
1 AA-ATAGAATTTAATAAAATTCTTAATATTAAATATTCTA
* * * *
26568082 ATAT-GAATTTACTAAAA-TCATAATA-TATAATAATCTA
1 AAATAGAATTTAATAAAATTCTTAATATTA-AATATTCTA
* * * * * *
26568119 AAATATAATCTAA-AATAATTATTATTAAATATAAT-TTAATAA
1 AAATAGAATTTAATAA-AATTCTTAAT-ATTA-AATATT-CT-A
* * *
26568161 AAATATATAATTAATAAAATTCTTAATATTAAATATTCTT
1 AAATAGA-ATTTAATAAAATTCTTAATATTAAATATTCTA
* * * * * *
26568201 ATAT-GAATTTACT-AAAGTCATAATA-TATAATAATATA
1 AAATAGAATTTAATAAAATTCTTAATATTA-AATATTCTA
* * * * *
26568238 AAATATAATTTAA-AATAATTATTATTAAATATAAT-TTAATAAA
1 AAATAGAATTTAATAA-AATTCTTAAT-ATTA-AATATT-CT--A
* *
26568281 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
1 AA-ATAGAATTTAATAAAATTCTTAATATTAAATATTCTA
* * *
26568321 ATAT-GAATTTACTAAAATT-ATAATA-TATAATAATT-TA
1 AAATAGAATTTAATAAAATTCTTAATATTA-AAT-ATTCTA
* * * * **
26568358 AAATATAATTTAA-AATAATTATTAA-ATATAATTTAATAAA
1 AAATAGAATTTAATAA-AATTCTTAATAT-TAA-ATATTCTA
* *
26568398 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
1 AA-ATAGAATTTAATAAAATTCTTAATATTAAATATTCTA
*
26568438 AAAT-GAATTTACTAAAAT
1 AAATAGAATTTAATAAAAT
26568456 CATGATATAA
Statistics
Matches: 358, Mismatches: 88, Indels: 95
0.66 0.16 0.18
Matches are distributed among these distances:
36 8 0.02
37 73 0.20
38 78 0.22
39 29 0.08
40 34 0.09
41 49 0.14
42 27 0.08
43 30 0.08
44 28 0.08
45 2 0.01
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (39 bp):
AAATAGAATTTAATAAAATTCTTAATATTAAATATTCTA
Found at i:26576965 original size:21 final size:19
Alignment explanation
Indices: 26576923--26576976 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
26576913 TAGAAAAAAA
26576923 ATATAAAAATTGTAAATAT
1 ATATAAAAATTGTAAATAT
*
26576942 ATATATAAATTGTAAACT-T
1 ATATAAAAATTGTAAA-TAT
* *
26576961 TTATAAAAATCGTAAA
1 ATATAAAAATTGTAAA
26576977 AAATTATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 29 0.97
20 1 0.03
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.37
Consensus pattern (19 bp):
ATATAAAAATTGTAAATAT
Found at i:26577020 original size:55 final size:56
Alignment explanation
Indices: 26576954--26577060 Score: 137
Period size: 55 Copynumber: 1.9 Consensus size: 56
26576944 ATATAAATTG
* *
26576954 TAAACTTTTATAAAAATCGTAA-AAAATTAT-AAAATATATAGAAATATAAAAAATA
1 TAAACTTTTAT-AAAATCATAAGAAAATTATAAAAATATAAAGAAATATAAAAAATA
* * *
26577009 TAAATTTTTATAAAGTCATAAGAAAATTATACAAAATGTAAAGAAATATAAA
1 TAAACTTTTATAAAATCATAAGAAAATTATA-AAAATATAAAGAAATATAAA
26577061 TTTTTAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
54 8 0.18
55 18 0.41
57 18 0.41
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (56 bp):
TAAACTTTTATAAAATCATAAGAAAATTATAAAAATATAAAGAAATATAAAAAATA
Found at i:26578645 original size:12 final size:12
Alignment explanation
Indices: 26578628--26578657 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
26578618 AAATAAAAGC
26578628 AATAATGATAAT
1 AATAATGATAAT
26578640 AATAATGATAAT
1 AATAATGATAAT
*
26578652 GATAAT
1 AATAAT
26578658 AAAACTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (12 bp):
AATAATGATAAT
Found at i:26578709 original size:15 final size:16
Alignment explanation
Indices: 26578674--26578728 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 16
26578664 AATTAATTTT
*
26578674 TAAAAACAATAAATAAA
1 TAAAAA-AACAAATAAA
*
26578691 TAAAAAGACAAAT-AA
1 TAAAAAAACAAATAAA
26578706 TAAAAAAACAAAATAAAA
1 TAAAAAAAC-AAAT-AAA
26578724 TAAAA
1 TAAAA
26578729 CGGGACTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 10 0.31
16 9 0.28
17 6 0.19
18 7 0.22
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.15
Consensus pattern (16 bp):
TAAAAAAACAAATAAA
Found at i:26579943 original size:17 final size:16
Alignment explanation
Indices: 26579914--26579993 Score: 51
Period size: 17 Copynumber: 5.0 Consensus size: 16
26579904 TTTTTATAAA
26579914 AAAATTTATAATTTTT
1 AAAATTTATAATTTTT
*
26579930 AAAATTTTTGAATTTTT
1 AAAATTTAT-AATTTTT
* * *
26579947 TATA-TT-T--TTATT
1 AAAATTTATAATTTTT
26579959 AAAATTTAATAATTTTTCT
1 AAAATTT-ATAA-TTTT-T
*
26579978 AAAATTTATTATTTTT
1 AAAATTTATAATTTTT
26579994 TATAATTTTC
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
12 6 0.12
13 2 0.04
15 2 0.04
16 11 0.23
17 13 0.27
18 6 0.12
19 8 0.17
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (16 bp):
AAAATTTATAATTTTT
Found at i:26579944 original size:48 final size:47
Alignment explanation
Indices: 26579885--26580002 Score: 136
Period size: 47 Copynumber: 2.5 Consensus size: 47
26579875 AAAATTTTAC
26579885 ATTTTTCAATTTTTTATGATTTTTATAAAAAAATTT-ATAA-TTTT-TAAA
1 ATTTTT-AATTTTTTAT-ATTTTTAT--AAAAATTTAATAATTTTTCTAAA
*
26579933 ATTTTTGAATTTTTTATATTTTTATTAAAATTTAATAATTTTTCTAAA
1 ATTTTT-AATTTTTTATATTTTTATAAAAATTTAATAATTTTTCTAAA
*
26579981 ATTTATT-ATTTTTTATAATTTT
1 ATTT-TTAATTTTTTATATTTTT
26580003 CTTTCTAATT
Statistics
Matches: 63, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
45 7 0.11
46 4 0.06
47 26 0.41
48 24 0.38
49 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (47 bp):
ATTTTTAATTTTTTATATTTTTATAAAAATTTAATAATTTTTCTAAA
Found at i:26579993 original size:19 final size:17
Alignment explanation
Indices: 26579945--26579994 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 17
26579935 TTTTGAATTT
26579945 TTTATATTTTTATTAAAA
1 TTTATATTTTT-TTAAAA
*
26579963 TTTAATAATTTTTCTAAAA
1 TTT-AT-ATTTTTTTAAAA
26579982 TTTATTATTTTTT
1 TTTA-TATTTTTT
26579995 ATAATTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 10 0.37
19 11 0.41
20 6 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTATATTTTTTTAAAA
Found at i:26581091 original size:19 final size:19
Alignment explanation
Indices: 26581067--26581138 Score: 72
Period size: 19 Copynumber: 3.5 Consensus size: 19
26581057 TCTCTCTCCA
26581067 TTTACTTTCCCCCTAAAAT
1 TTTACTTTCCCCCTAAAAT
26581086 TTTACTTTCTCAACCCTCAAAATTT
1 TTTACTTTC-C--CCCT-AAAA--T
* *
26581111 TTTATTTTCCCCCTAAACT
1 TTTACTTTCCCCCTAAAAT
26581130 TTTACTTTC
1 TTTACTTTC
26581139 ACCTTTTACC
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
19 18 0.41
20 1 0.02
21 3 0.07
22 8 0.18
23 4 0.09
24 1 0.02
25 9 0.20
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTACTTTCCCCCTAAAAT
Found at i:26587390 original size:10 final size:11
Alignment explanation
Indices: 26587362--26587390 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
26587352 AATATTTCTT
26587362 AAAAAAATGAA
1 AAAAAAATGAA
26587373 AAAAAAAT-AA
1 AAAAAAATGAA
26587383 AAAAAAAT
1 AAAAAAAT
26587391 CAAGAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.10
Consensus pattern (11 bp):
AAAAAAATGAA
Found at i:26593235 original size:13 final size:13
Alignment explanation
Indices: 26593205--26593247 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
26593195 TTTTGTACTC
*
26593205 TTTTAAAATTTAA
1 TTTTAAATTTTAA
* *
26593218 ATTTAAATTTTAG
1 TTTTAAATTTTAA
*
26593231 TTTTATATTTTAA
1 TTTTAAATTTTAA
26593244 TTTT
1 TTTT
26593248 TGAGACATTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
TTTTAAATTTTAA
Done.