Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 175 of 362
Found at i:57824135 original size:10 final size:10
Alignment explanation
Indices: 57824120--57824152 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
57824110 TTGGCCAACC
57824120 GGGCTAGAAT
1 GGGCTAGAAT
57824130 GGGCTA-AAT
1 GGGCTAGAAT
57824139 GGGCT-GAAT
1 GGGCTAGAAT
57824148 GGGCT
1 GGGCT
57824153 GTACGGCCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.24, C:0.12, G:0.42, T:0.21
Consensus pattern (10 bp):
GGGCTAGAAT
Found at i:57824261 original size:28 final size:28
Alignment explanation
Indices: 57824228--57824293 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 28
57824218 AACTATGAGT
57824228 GTGATTGGGCCTGACGGGCCATATGAAA
1 GTGATTGGGCCTGACGGGCCATATGAAA
* * * *
57824256 GTGATT--ACTTGATGGGCCATATGAAT
1 GTGATTGGGCCTGACGGGCCATATGAAA
*
57824282 GAGATTGGGCCT
1 GTGATTGGGCCT
57824294 AAAGGGGCCA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
26 21 0.72
28 8 0.28
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.27
Consensus pattern (28 bp):
GTGATTGGGCCTGACGGGCCATATGAAA
Found at i:57837609 original size:20 final size:20
Alignment explanation
Indices: 57837545--57837600 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
57837535 GCTTTCAATT
*
57837545 AAAAGAAACAAAACAAAAGC
1 AAAAGCAACAAAACAAAAGC
*
57837565 AACAGCAACAAAACAAAAGC
1 AAAAGCAACAAAACAAAAGC
57837585 AAAAGCAACAAAACAA
1 AAAAGCAACAAAACAA
57837601 GTCCAAAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.71, C:0.20, G:0.09, T:0.00
Consensus pattern (20 bp):
AAAAGCAACAAAACAAAAGC
Found at i:57837609 original size:26 final size:26
Alignment explanation
Indices: 57837550--57837600 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
57837540 CAATTAAAAG
*
57837550 AAACAAAA-CAAAAGCAACAGCAACA
1 AAACAAAAGCAAAAGCAACAGAAACA
57837575 AAACAAAAGCAAAAGCAACA-AAACA
1 AAACAAAAGCAAAAGCAACAGAAACA
57837600 A
1 A
57837601 GTCCAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.71, C:0.22, G:0.08, T:0.00
Consensus pattern (26 bp):
AAACAAAAGCAAAAGCAACAGAAACA
Found at i:57847594 original size:10 final size:8
Alignment explanation
Indices: 57847530--57847590 Score: 61
Period size: 8 Copynumber: 7.5 Consensus size: 8
57847520 TCATAATATT
*
57847530 TTTTATAT
1 TTTTATAA
*
57847538 TTTTAAAA
1 TTTTATAA
57847546 GTATTTAT-A
1 -T-TTTATAA
* *
57847555 TTATATTA
1 TTTTATAA
57847563 TTTTATAA
1 TTTTATAA
57847571 TTTTATAA
1 TTTTATAA
57847579 TTTTATAA
1 TTTTATAA
57847587 TTTT
1 TTTT
57847591 TTATTGAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
7 4 0.09
8 34 0.77
9 2 0.05
10 4 0.09
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (8 bp):
TTTTATAA
Found at i:57850121 original size:20 final size:21
Alignment explanation
Indices: 57850096--57850135 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57850086 CTCTTAAAAC
*
57850096 AGGGC-ACATGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
57850116 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
57850136 TTATTACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:57851433 original size:49 final size:49
Alignment explanation
Indices: 57851326--57851685 Score: 155
Period size: 48 Copynumber: 7.6 Consensus size: 49
57851316 TTAAGATGCT
57851326 GATGCCATGTCCTAGACATGGTCTTACACTGGCTTTCATATAGTGAAGCC
1 GATGCCATGTCCTAGACA-GGTCTTACACTGGCTTTCATATAGTGAAGCC
* * ** *
57851376 GATACCATGTCCTAGACAGGTCTTACACTGG-TTCTCATCTA-TCGGTGTC
1 GATGCCATGTCCTAGACAGGTCTTACACTGGCTT-TCATATAGT-GAAGCC
* * * * ** * *
57851425 GATGCCATGTTCTAGACAAGTCTTACACTGAC--ACA-CCA--CAAGCT
1 GATGCCATGTCCTAGACAGGTCTTACACTGGCTTTCATATAGTGAAGCC
* * * * *
57851469 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGT-ATATCGCGAGGCC
1 GATGCCATGTCCTAGACAGGTCTTACACTGGCTT-TCATATAGTGAAGCC
* * * * * * * * *
57851518 GATG-CATGTCCCAAATATGTCTTACACTAGC--TCTTGT-CTCAACGCC
1 GATGCCATGTCCTAGACAGGTCTTACACTGGCTTTCATATAGTGAA-GCC
* * * ** * *
57851564 GATACC-TGTCCCAGACATGTCTTACACTGGCTTAAATAT-CTCGAGGCC
1 GATGCCATGTCCTAGACAGGTCTTACACTGGCTTTCATATAGT-GAAGCC
* * * * *
57851612 GATG-CATGTCCCAGACAGATCTTACACTGGCTCTCATGCT-GTG--GCT
1 GATGCCATGTCCTAGACAGGTCTTACACTGGCTTTCAT-ATAGTGAAGCC
* *
57851658 GATG-CATGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCTAGACAGGTCTTACACT
57851686 AGCACACATA
Statistics
Matches: 235, Mismatches: 58, Indels: 38
0.71 0.18 0.11
Matches are distributed among these distances:
44 28 0.12
45 2 0.01
46 61 0.26
47 4 0.02
48 64 0.27
49 59 0.25
50 17 0.07
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCTAGACAGGTCTTACACTGGCTTTCATATAGTGAAGCC
Found at i:57851540 original size:48 final size:46
Alignment explanation
Indices: 57851469--57851688 Score: 203
Period size: 46 Copynumber: 4.7 Consensus size: 46
57851459 ACCACAAGCT
* *
57851469 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGC-TCT-TATCGCGAGGCC
* * * * * *
57851518 GATGCATGTCCCAAATATGTCTTACACTAGCTCTTGTCTCAACGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTTATCGCGAGGCC
* * * *
57851564 GATACCTGTCCCAGACATGTCTTACACTGGCT-TAAATATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT---TATCGCGAGGCC
* * * *
57851612 GATGCATGTCCCAGACA-GATCTTACACTGGCTCTCAT-GCTGTGGCT
1 GATGCATGTCCCAGACATG-TCTTACACTAGCTCTTATCGC-GAGGCC
57851658 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
57851689 ACACATATCA
Statistics
Matches: 141, Mismatches: 23, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
45 2 0.01
46 69 0.49
47 4 0.03
48 61 0.43
49 5 0.04
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTTATCGCGAGGCC
Found at i:57851697 original size:94 final size:94
Alignment explanation
Indices: 57851466--57851688 Score: 263
Period size: 94 Copynumber: 2.4 Consensus size: 94
57851456 CACACCACAA
* **
57851466 GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATGCATGTCCCA
1 GCTGATG-CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCCA
*
57851531 AATATGTCTTACACTAGCTCTTGTCTCAAC
65 AACATGTCTTACACTAGCTCTTGTCTCAAC
* * * * * *
57851561 GCCGATACCTGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCGATGCATGTCCCAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCCAA
* ***
57851626 ACA-GATCTTACACTGGCTCTCATG-CT-GTG
66 ACATG-TCTTACACTAGCTCT--TGTCTCAAC
57851655 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
57851689 ACACATATCA
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
93 1 0.01
94 97 0.91
95 7 0.07
96 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (94 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCCAA
ACATGTCTTACACTAGCTCTTGTCTCAAC
Found at i:57867199 original size:50 final size:50
Alignment explanation
Indices: 57866986--57867217 Score: 213
Period size: 50 Copynumber: 4.6 Consensus size: 50
57866976 ATCTGATACG
* * * *
57866986 CATAGTAGCCTGCACTTAGTACTACACATGAGAC-CAATAAT-TCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGTAT-GGTACA
* * * * * **
57867035 CGTACTAGTCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CTCAACAGTATGGTACA
* * * *
57867085 CGTAGTAGCCTACACTTAGTACTACACACGTGA-TCGA-AGTCATTGAGTACC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGT-A-TG-GTACA
* * * *
57867136 CATAGTAGCCTGCACTTAGTACTACAGATGCGACTTAACAGTATGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGTATGGTACA
57867186 CATAGTAGCCTGCACTTAGTACTACACACGTG
1 CATAGTAGCCTGCACTTAGTACTACACACGTG
57867218 TATTCACAAT
Statistics
Matches: 145, Mismatches: 29, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
47 1 0.01
48 3 0.02
49 28 0.19
50 70 0.48
51 37 0.26
52 3 0.02
53 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGTATGGTACA
Found at i:57870062 original size:18 final size:18
Alignment explanation
Indices: 57870039--57870075 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
57870029 TCTCGGGATG
*
57870039 ATAATCATTTATTAATTC
1 ATAATCATTTAATAATTC
*
57870057 ATAATCCTTTAATAATTC
1 ATAATCATTTAATAATTC
57870075 A
1 A
57870076 AGCCATCTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAATCATTTAATAATTC
Found at i:57874328 original size:50 final size:50
Alignment explanation
Indices: 57874208--57874449 Score: 237
Period size: 50 Copynumber: 4.8 Consensus size: 50
57874198 AGCCGAAGCT
* * ** *
57874208 ATCTGATACACGTAGTAGCCTACACTTAGTACTACACATGCAACC-AAAA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAC
* * *
57874257 ATC-CAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAC
*
57874307 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-AAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAA--C
* * *
57874358 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACA--T-ACAACTTAAC
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC--CTAAAC
* * *
57874407 AGTATGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
57874450 TATTCACAAT
Statistics
Matches: 159, Mismatches: 20, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
48 2 0.01
49 42 0.26
50 76 0.48
51 38 0.24
52 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAC
Found at i:57874419 original size:101 final size:98
Alignment explanation
Indices: 57874211--57874449 Score: 275
Period size: 101 Copynumber: 2.4 Consensus size: 98
57874201 CGAAGCTATC
* * ** *
57874211 TGATACACGTAGTAGCCTACACTTAGTACTACACATGCAACCAAAAATCCAGTACACGTAGTAGC
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAAAATCCAGTACACATAGTAGC
* *
57874276 CTGCACTTAGTACTACACACGTGACCTCACCATC
66 CTGCACTTAGTACTACACAC-TGACCTCAACATA
* * ** *
57874310 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTCATTGAGTACGCATAGTA
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAA--AATCCAGTACACATAGTA
*
57874375 GCCTGCACTTAGTACTACACA-T-ACAACTTAACAGTA
64 GCCTGCACTTAGTACTACACACTGAC--CTCAACA-TA
* *
57874411 TGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTG
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
57874450 TATTCACAAT
Statistics
Matches: 120, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
98 2 0.02
99 41 0.34
100 5 0.04
101 72 0.60
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (98 bp):
TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAAAATCCAGTACACATAGTAGC
CTGCACTTAGTACTACACACTGACCTCAACATA
Found at i:57877293 original size:18 final size:18
Alignment explanation
Indices: 57877270--57877306 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
57877260 TCCCGGGATG
*
57877270 ATAATCATTTATTAATTC
1 ATAATCATTTAATAATTC
*
57877288 ATAATCCTTTAATAATTC
1 ATAATCATTTAATAATTC
57877306 A
1 A
57877307 AGCCATCTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAATCATTTAATAATTC
Found at i:57881834 original size:50 final size:50
Alignment explanation
Indices: 57881710--57881951 Score: 256
Period size: 50 Copynumber: 4.8 Consensus size: 50
57881700 AGCCGAAGCT
* * * * *
57881710 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AATA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATC
* * *
57881759 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATC
* * *
57881809 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACAGACGTGATCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TC
* * * * *
57881860 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-C
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATC
* * * *
57881909 AGTATGGTAGACGTAGTAGCCTACACTTAGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
57881952 TATTCACAAT
Statistics
Matches: 159, Mismatches: 29, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
49 42 0.26
50 78 0.49
51 39 0.25
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATC
Found at i:57881923 original size:101 final size:99
Alignment explanation
Indices: 57881713--57881951 Score: 275
Period size: 101 Copynumber: 2.4 Consensus size: 99
57881703 CGAAGCTATC
* * * * *
57881713 TGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGC
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATAATCTGGTACACATAGTAGC
* * *
57881778 CTGCACTTAGTACTACACACGTGACCTCACCATC
66 CTGCACTTAGTACTACACACGCGACCTCAACATA
* * * *
57881812 TGATACACGTAGTAGCCTGCACTTAGTACTACAGACGTGATCGAAGTCAT-TGAGTACGCATAGT
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TAATCTG-GTACACATAGT
* *
57881876 AGCCTGCACTTAGTACTACACATGCGA-CTTAACAGTA
63 AGCCTGCACTTAGTACTACACACGCGACCTCAACA-TA
* * *
57881913 TGGTAGACGTAGTAGCCTACACTTAGTACTACACACGTG
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
57881952 TATTCACAAT
Statistics
Matches: 118, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
99 35 0.30
100 10 0.08
101 73 0.62
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (99 bp):
TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATAATCTGGTACACATAGTAGC
CTGCACTTAGTACTACACACGCGACCTCAACATA
Found at i:57890968 original size:18 final size:17
Alignment explanation
Indices: 57890947--57890985 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
57890937 AATTTGTATA
*
57890947 ATATATTATTATTAATT
1 ATATATTATTAATAATT
*
57890964 CATATTTTATTAATAATT
1 -ATATATTATTAATAATT
57890982 ATAT
1 ATAT
57890986 TAAAAATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATATTATTAATAATT
Found at i:57891311 original size:16 final size:16
Alignment explanation
Indices: 57891292--57891325 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57891282 GCTATATTTT
*
57891292 ATTACAACTCTATTCC
1 ATTACAACCCTATTCC
*
57891308 ATTACAGCCCTATTCC
1 ATTACAACCCTATTCC
57891324 AT
1 AT
57891326 CCACCCCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.32, G:0.03, T:0.35
Consensus pattern (16 bp):
ATTACAACCCTATTCC
Found at i:57904038 original size:17 final size:17
Alignment explanation
Indices: 57904016--57904065 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
57904006 ACTTGTTAAA
57904016 GCCCGATAAATGA-AAGT
1 GCCCGATAAATGATAA-T
* *
57904033 GCCCGATCAATTATAAT
1 GCCCGATAAATGATAAT
*
57904050 GCCCGACAAATGATAA
1 GCCCGATAAATGATAA
57904066 ATGATAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 25 0.93
18 2 0.07
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:57905834 original size:22 final size:22
Alignment explanation
Indices: 57905787--57905855 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
57905777 CGGCCTCCAG
* **
57905787 CACGGGCATGT-CCTAGGGTCA
1 CACGGGCATGTGCCTTGGACCA
*
57905808 CACGGGC-TCTTGCCTTGGACCA
1 CACGGGCAT-GTGCCTTGGACCA
57905830 CACGGGCATGTGCCTTGGACCA
1 CACGGGCATGTGCCTTGGACCA
57905852 CACG
1 CACG
57905856 AGCGTGTGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 8 0.20
22 30 0.75
23 1 0.03
ACGTcount: A:0.17, C:0.33, G:0.30, T:0.19
Consensus pattern (22 bp):
CACGGGCATGTGCCTTGGACCA
Found at i:57905863 original size:22 final size:22
Alignment explanation
Indices: 57905818--57905863 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
57905808 CACGGGCTCT
*
57905818 TGCCTTGGACCACACGGGCATG
1 TGCCTTGGACCACACGAGCATG
*
57905840 TGCCTTGGACCACACGAGCGTG
1 TGCCTTGGACCACACGAGCATG
57905862 TG
1 TG
57905864 AGCCCTGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.30, G:0.33, T:0.20
Consensus pattern (22 bp):
TGCCTTGGACCACACGAGCATG
Found at i:57908022 original size:20 final size:18
Alignment explanation
Indices: 57907975--57908023 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
57907965 GCAGATAAAC
57907975 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
57907992 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
57908012 ATTAAATTAATA
1 ATTAAATTAATA
57908024 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:57910731 original size:18 final size:18
Alignment explanation
Indices: 57910708--57910742 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
57910698 GATCAAGTAA
*
57910708 AATTAAATTAATCTAATT
1 AATTAAATTAATATAATT
57910726 AATTAAATTAATATAAT
1 AATTAAATTAATATAAT
57910743 ATTTTCAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTAAATTAATATAATT
Found at i:57911146 original size:17 final size:18
Alignment explanation
Indices: 57911126--57911233 Score: 54
Period size: 17 Copynumber: 6.3 Consensus size: 18
57911116 AAAATAATAT
*
57911126 TATTTTAATAT-ATTTAA
1 TATTTAAATATAATTTAA
*
57911143 TA-TTAAATTTAATTTAA
1 TATTTAAATATAATTTAA
** *
57911160 TATTTATCT-TAA--TAG
1 TATTTAAATATAATTTAA
*
57911175 TATTT-TAT-TAATTTAA
1 TATTTAAATATAATTTAA
*
57911191 TA-TTAAAGTGATTATCTTAA
1 TATTTAAA-T-ATAAT-TTAA
*
57911211 TA-TTAAATTTAATTTAA
1 TATTTAAATATAATTTAA
57911228 TATTTA
1 TATTTA
57911234 TCTTATAGAT
Statistics
Matches: 70, Mismatches: 11, Indels: 19
0.70 0.11 0.19
Matches are distributed among these distances:
14 5 0.07
15 9 0.13
16 11 0.16
17 20 0.29
18 10 0.14
19 4 0.06
20 11 0.16
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (18 bp):
TATTTAAATATAATTTAA
Found at i:57911154 original size:12 final size:12
Alignment explanation
Indices: 57911135--57911233 Score: 61
Period size: 12 Copynumber: 8.6 Consensus size: 12
57911125 TTATTTTAAT
57911135 ATATTTAATATTA
1 ATATTTAAT-TTA
57911148 A-ATTTAATTTA
1 ATATTTAATTTA
57911159 ATATTT-ATCTTA
1 ATATTTAAT-TTA
*
57911171 ATA-GT-ATTT-
1 ATATTTAATTTA
57911180 -TA-TTAATTTA
1 ATATTTAATTTA
* * *
57911190 ATATTAAAGTGA
1 ATATTTAATTTA
*
57911202 TTATCTTAATATTA
1 ATAT-TTAAT-TTA
57911216 A-ATTTAATTTA
1 ATATTTAATTTA
57911227 ATATTTA
1 ATATTTA
57911234 TCTTATAGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
8 3 0.04
9 4 0.06
10 2 0.03
11 15 0.22
12 35 0.52
13 6 0.09
14 2 0.03
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (12 bp):
ATATTTAATTTA
Found at i:57911215 original size:68 final size:72
Alignment explanation
Indices: 57911139--57911276 Score: 221
Period size: 68 Copynumber: 2.0 Consensus size: 72
57911129 TTTAATATAT
* **
57911139 TTAATATTAAATTTAATTTAATATTTATC-T-TA-AT-AGTATTTTATTAATTTAATATTAAAGT
1 TTAATATTAAATTTAATTTAATATTTATCTTATAGATAAGTATTCTATTAATTTAATAACAAAGT
57911200 GATTATC
66 GATTATC
57911207 TTAATATTAAATTTAATTTAATATTTATCTTATAGATAAGTATTCTATTAATTTAATAACAAAGT
1 TTAATATTAAATTTAATTTAATATTTATCTTATAGATAAGTATTCTATTAATTTAATAACAAAGT
57911272 GATTA
66 GATTA
57911277 AGTTTAATCA
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
68 29 0.46
69 1 0.02
70 2 0.03
71 2 0.03
72 29 0.46
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (72 bp):
TTAATATTAAATTTAATTTAATATTTATCTTATAGATAAGTATTCTATTAATTTAATAACAAAGT
GATTATC
Found at i:57919736 original size:12 final size:12
Alignment explanation
Indices: 57919719--57919751 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
57919709 CAGCCTGTCC
57919719 ATATTAATTTTT
1 ATATTAATTTTT
57919731 ATATT-ATTTTT
1 ATATTAATTTTT
57919742 ATA-TAATTTT
1 ATATTAATTTT
57919752 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:57920796 original size:61 final size:61
Alignment explanation
Indices: 57920707--57920841 Score: 202
Period size: 60 Copynumber: 2.2 Consensus size: 61
57920697 ATATAAAAAG
* *
57920707 AATTATATTAAAAATATTATTAAATTATTTATTTTTATTTTTATTAAATTATATTTAATAAT
1 AATTATATTAAAAATATGATTAAATTATTTATTATTA-TTTTATTAAATTATATTTAATAAT
* *
57920769 AATTATATT-AGAATATGATTAAATTATTTATTATTATTTTATTAAATTATTTTTAATAAT
1 AATTATATTAAAAATATGATTAAATTATTTATTATTATTTTATTAAATTATATTTAATAAT
57920829 AATCT-TATTAAAA
1 AAT-TATATTAAAA
57920842 TTTAATAATA
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
60 30 0.45
61 27 0.41
62 9 0.14
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (61 bp):
AATTATATTAAAAATATGATTAAATTATTTATTATTATTTTATTAAATTATATTTAATAAT
Found at i:57920824 original size:11 final size:12
Alignment explanation
Indices: 57920723--57920824 Score: 56
Period size: 11 Copynumber: 8.6 Consensus size: 12
57920713 ATTAAAAATA
57920723 TTATTAAATTAT
1 TTATTAAATTAT
**
57920735 TTATTTTTATT-T
1 TTA-TTAAATTAT
57920747 TTATTAAATTAT
1 TTATTAAATTAT
* *
57920759 ATT-TAATAATAAT
1 -TTATTA-AATTAT
57920772 TATATTAGAA-TA-
1 T-TATTA-AATTAT
*
57920784 TGATTAAATTAT
1 TTATTAAATTAT
57920796 TTATT--ATTATT
1 TTATTAAATTA-T
57920807 TTATTAAATTAT
1 TTATTAAATTAT
57920819 TT-TTAA
1 TTATTAA
57920825 TAATAATCTT
Statistics
Matches: 68, Mismatches: 11, Indels: 23
0.67 0.11 0.23
Matches are distributed among these distances:
10 6 0.09
11 21 0.31
12 19 0.28
13 18 0.26
14 4 0.06
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (12 bp):
TTATTAAATTAT
Found at i:57921019 original size:16 final size:16
Alignment explanation
Indices: 57920998--57921038 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
57920988 ACCAAACAGT
57920998 TCTATTTCATTACAAC
1 TCTATTTCATTACAAC
*
57921014 TCTA-TTCTATTACAGC
1 TCTATTTC-ATTACAAC
57921030 TCTATTTCA
1 TCTATTTCA
57921039 ATTAAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 16 0.73
17 3 0.14
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.46
Consensus pattern (16 bp):
TCTATTTCATTACAAC
Found at i:57921283 original size:24 final size:21
Alignment explanation
Indices: 57921255--57921313 Score: 57
Period size: 24 Copynumber: 2.6 Consensus size: 21
57921245 GTGTAAATAA
*
57921255 TTTTTTAATATAATTATTATTTT
1 TTTTTTAATATAA-TAATA-TTT
57921278 TATTTTTGAA-ATAATAATATTT
1 T-TTTTT-AATATAATAATATTT
57921300 TTTTTTACATATAA
1 TTTTTTA-ATATAA
57921314 ACAAATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 6 0.19
22 8 0.26
23 5 0.16
24 9 0.29
25 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTTTAATATAATAATATTT
Found at i:57922573 original size:45 final size:43
Alignment explanation
Indices: 57922443--57922611 Score: 153
Period size: 45 Copynumber: 3.8 Consensus size: 43
57922433 CTATACACCT
** *
57922443 AAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCAGGAC
1 AAAATGAGTAAGACCATAGCTGAAAGACACTATGA-ATCATGAC
*
57922487 AAAGATGAGTAAGACCATAGCTGAAAGACACTATCGCATCATGAC
1 AAA-ATGAGTAAGACCATAGCTGAAAGACACTAT-GAATCATGAC
* *
57922532 ATAAATGAGTAAGACAAT-GACTAAAAGACACTATGGAATCATGGTA-
1 A-AAATGAGTAAGACCATAG-CTGAAAGACACTAT-GAATCAT-G-AC
* * * * *
57922578 AAAAGGATTAATACCATAGCTGAGACACACTATG
1 AAAATGAGTAAGACCATAGCTGAAAGACACTATG
57922612 GCATCCTTTG
Statistics
Matches: 103, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
44 5 0.05
45 91 0.88
46 6 0.06
47 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (43 bp):
AAAATGAGTAAGACCATAGCTGAAAGACACTATGAATCATGAC
Found at i:57925676 original size:15 final size:15
Alignment explanation
Indices: 57925656--57925686 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
57925646 CAAGTTCCCA
57925656 CGTAGCTTCTTCGAC
1 CGTAGCTTCTTCGAC
57925671 CGTAGCTTCTTCGAC
1 CGTAGCTTCTTCGAC
57925686 C
1 C
57925687 CCTGACGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.35, G:0.19, T:0.32
Consensus pattern (15 bp):
CGTAGCTTCTTCGAC
Found at i:57932959 original size:86 final size:85
Alignment explanation
Indices: 57932842--57933003 Score: 222
Period size: 86 Copynumber: 1.9 Consensus size: 85
57932832 CGATATGTGT
* * *
57932842 TTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGACT-TATGATTTATGTGTAAGACCATGTCT
1 TTTCATGTAAGACCACGTCTGGGATGTTGGCATCGA-TATATGA-TTATATGTAAGACCACGTCT
57932906 AGGACGTTGGCATCGTACTTGA
64 AGGACGTTGGCATCGTACTTGA
*
57932928 TTTCATGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGATTATATGTAAGACCACGTCT
1 TTTCATGTAAGACCAC-GTCTGGGAT-GTTGGCATCGATATATGATTATATGTAAGACCACGTCT
*
57932991 GGGACGTTGGCAT
64 AGGACGTTGGCAT
57933004 TGTATGAGCT
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
85 32 0.47
86 35 0.51
87 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (85 bp):
TTTCATGTAAGACCACGTCTGGGATGTTGGCATCGATATATGATTATATGTAAGACCACGTCTAG
GACGTTGGCATCGTACTTGA
Found at i:57932971 original size:43 final size:42
Alignment explanation
Indices: 57932847--57933003 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 42
57932837 TGTGTTTTCG
*
57932847 TGTAAGACCACGTCTGGGATGTTGGCATCGACT-TATGATTTA
1 TGTAAGACCACGTCTGGGATGTTGGCATCGA-TATTTGATTTA
* * * *
57932889 TGTGTAAGACCATGTCTAGGACGTTGGCATCG-TACTTGATTTCA
1 --TGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTT-A
57932933 TGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGATTATA
1 TGTAAGACCAC-GTCTGGGAT-GTTGGCATCGATATTTGATT-TA
*
57932976 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGATGTTGGCAT
57933004 TGTATGAGCT
Statistics
Matches: 95, Mismatches: 10, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
42 26 0.27
43 39 0.41
44 30 0.32
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTTA
Found at i:57944230 original size:15 final size:15
Alignment explanation
Indices: 57944210--57944242 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
57944200 TTTTAAATTT
57944210 TATTATTATAACATA
1 TATTATTATAACATA
*
57944225 TATTATTATAACTTA
1 TATTATTATAACATA
57944240 TAT
1 TAT
57944243 ATATATGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTATTATAACATA
Found at i:57945924 original size:20 final size:20
Alignment explanation
Indices: 57945901--57945947 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
57945891 ACCACTCCAT
*
57945901 TTACTTTCTTACCATTTCAA
1 TTACTTACTTACCATTTCAA
** *
57945921 TTACTTACTTTTCATTTCAT
1 TTACTTACTTACCATTTCAA
57945941 TTACTTA
1 TTACTTA
57945948 GCATAAACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.00, T:0.55
Consensus pattern (20 bp):
TTACTTACTTACCATTTCAA
Found at i:57954967 original size:33 final size:33
Alignment explanation
Indices: 57954893--57954999 Score: 160
Period size: 33 Copynumber: 3.2 Consensus size: 33
57954883 TTTGCATTTA
* *
57954893 TGATACTTTTACTGTAATAGGCTAAGGCCCAGAC
1 TGATACTGTTACTGTAATAGGCTAAGG-CCACAC
*
57954927 TGATACTGTTACTGTAATGGGCTAAGGCCACAC
1 TGATACTGTTACTGTAATAGGCTAAGGCCACAC
*
57954960 TGATACTGTTACTGTAATCGGCTAAGGCCACAC
1 TGATACTGTTACTGTAATAGGCTAAGGCCACAC
*
57954993 TAATACT
1 TGATACT
57955000 AGACTATCAC
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
33 43 0.63
34 25 0.37
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (33 bp):
TGATACTGTTACTGTAATAGGCTAAGGCCACAC
Found at i:57969597 original size:19 final size:19
Alignment explanation
Indices: 57969573--57969609 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
57969563 CTCATTACAT
*
57969573 GCCATAATTAGTTCACAAG
1 GCCATAACTAGTTCACAAG
57969592 GCCATAACTAGTTCACAA
1 GCCATAACTAGTTCACAA
57969610 TACCATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (19 bp):
GCCATAACTAGTTCACAAG
Found at i:57969615 original size:19 final size:19
Alignment explanation
Indices: 57969574--57969618 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
57969564 TCATTACATG
* *
57969574 CCATAATTAGTTCACAAGG
1 CCATAACTAGTTCACAAGA
*
57969593 CCATAACTAGTTCACAATA
1 CCATAACTAGTTCACAAGA
57969612 CCATAAC
1 CCATAAC
57969619 ATGATAAGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.40, C:0.27, G:0.09, T:0.24
Consensus pattern (19 bp):
CCATAACTAGTTCACAAGA
Found at i:57975121 original size:13 final size:13
Alignment explanation
Indices: 57975103--57975130 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
57975093 AATTTAACTG
57975103 AAATGATTCTACC
1 AAATGATTCTACC
57975116 AAATGATTCTACC
1 AAATGATTCTACC
57975129 AA
1 AA
57975131 CTTCCAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (13 bp):
AAATGATTCTACC
Found at i:57977682 original size:44 final size:44
Alignment explanation
Indices: 57977596--57977682 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
57977586 TATTAGCTAA
* ** * *
57977596 AAAAGTTGTGATAATTGTTTATTTAAAAATAATTATATTTTAAT
1 AAAAGTTGTGATAATTATACATTTAAAAATAATTAGAATTTAAT
*
57977640 AAAAGTTGTGATAATTATACATTTAAAAATATTTAGAATTTAA
1 AAAAGTTGTGATAATTATACATTTAAAAATAATTAGAATTTAA
57977683 ATTACAATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.44
Consensus pattern (44 bp):
AAAAGTTGTGATAATTATACATTTAAAAATAATTAGAATTTAAT
Found at i:57979789 original size:13 final size:13
Alignment explanation
Indices: 57979773--57979805 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
57979763 TAAGGGAATA
*
57979773 AAAAGAAATAATG
1 AAAAGAAATAAAG
57979786 AAAAGAAATAAAG
1 AAAAGAAATAAAG
57979799 -AAAGAAA
1 AAAAGAAA
57979806 AATAGACAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (13 bp):
AAAAGAAATAAAG
Found at i:57989662 original size:27 final size:27
Alignment explanation
Indices: 57989632--57989686 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
57989622 ATCTAATTCT
57989632 ATCTCTACTATTTTTAATGATTTTTCA
1 ATCTCTACTATTTTTAATGATTTTTCA
57989659 ATCTCTACTATTTTTAATGATTTTTCA
1 ATCTCTACTATTTTTAATGATTTTTCA
57989686 A
1 A
57989687 ACTCATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.15, G:0.04, T:0.55
Consensus pattern (27 bp):
ATCTCTACTATTTTTAATGATTTTTCA
Found at i:57990080 original size:18 final size:17
Alignment explanation
Indices: 57990057--57990106 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
57990047 AATAGCAAGT
*
57990057 AACATAATCATGCAATCC
1 AACATAAACAT-CAATCC
*
57990075 AACATAAAACATCATTCC
1 AACAT-AAACATCAATCC
57990093 AACATAAAACATCA
1 AACAT-AAACATCA
57990107 TTTGTATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.52, C:0.26, G:0.02, T:0.20
Consensus pattern (17 bp):
AACATAAACATCAATCC
Found at i:57990107 original size:18 final size:18
Alignment explanation
Indices: 57990072--57990108 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
57990062 AATCATGCAA
57990072 TCCAACATAAAACATCAT
1 TCCAACATAAAACATCAT
57990090 TCCAACATAAAACATCAT
1 TCCAACATAAAACATCAT
57990108 T
1 T
57990109 TGTATAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (18 bp):
TCCAACATAAAACATCAT
Found at i:57991207 original size:39 final size:39
Alignment explanation
Indices: 57991151--57991249 Score: 128
Period size: 39 Copynumber: 2.5 Consensus size: 39
57991141 TACCGATTAT
* *
57991151 GTTGTTTTACTCGTTTTCACA-TAAAATCACTTAGCAAAA
1 GTTGTTTTACTCATTTTCA-AGTAAAATCACTTAGAAAAA
*
57991190 GTTGTTTTACTCATTTTCAAGTAAAATCGCTTAGAAAAA
1 GTTGTTTTACTCATTTTCAAGTAAAATCACTTAGAAAAA
* * *
57991229 GTTGTTTAACACAATTTCAAG
1 GTTGTTTTACTCATTTTCAAG
57991250 CTTCGTATTC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 1 0.02
39 52 0.98
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (39 bp):
GTTGTTTTACTCATTTTCAAGTAAAATCACTTAGAAAAA
Found at i:57995845 original size:25 final size:25
Alignment explanation
Indices: 57995812--57995860 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
57995802 AATGTGAAAG
*
57995812 GGGTTGCTATGTGCTGATTCCCCGA
1 GGGTTGCTAAGTGCTGATTCCCCGA
57995837 GGGTTGCTAAGTGCTGATTCCCCG
1 GGGTTGCTAAGTGCTGATTCCCCG
57995861 GTTCATTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.31
Consensus pattern (25 bp):
GGGTTGCTAAGTGCTGATTCCCCGA
Found at i:57995948 original size:26 final size:26
Alignment explanation
Indices: 57995913--57995964 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
57995903 AATGTGAAAG
* *
57995913 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
57995939 GGGGTTGCTAAGTGATGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
57995965 TTCAGTGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGATGATTCCCCGA
Found at i:57995975 original size:103 final size:100
Alignment explanation
Indices: 57995738--57995996 Score: 398
Period size: 103 Copynumber: 2.6 Consensus size: 100
57995728 TTGTATATAA
** * *
57995738 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGTGGTGCTATGTGCG-ATCCA-CATATCTTTG
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGAATCCACCATATCTTTG
57995801 AAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCG
66 AAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCG
*
57995836 A-GGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCGA-ATCCACCATATCTT
57995900 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
64 TGAAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCG
*
57995938 AGGGGTTGCTAAGTGATGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCGA-ATCCACCA
57995997 ATAACGGTTA
Statistics
Matches: 146, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
97 25 0.17
98 17 0.12
100 5 0.03
101 20 0.14
102 26 0.18
103 53 0.36
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (100 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGAATCCACCATATCTTTG
AAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCG
Found at i:58003308 original size:26 final size:26
Alignment explanation
Indices: 58003273--58003324 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
58003263 AATGTGAAAG
*
58003273 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
58003299 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
58003325 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:58003335 original size:103 final size:102
Alignment explanation
Indices: 58003195--58003457 Score: 415
Period size: 103 Copynumber: 2.6 Consensus size: 102
58003185 TGTATATAAA
** * * *
58003195 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
*
58003260 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
66 TGAAA--TAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
58003298 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
58003362 TTGAAATAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
58003400 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCG-GATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
58003458 ATAACGGTTA
Statistics
Matches: 150, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
101 33 0.22
102 53 0.35
103 63 0.42
104 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (102 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:58005852 original size:20 final size:19
Alignment explanation
Indices: 58005804--58005855 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
58005794 CAAGTGTATG
*
58005804 GTAAAAATAAT-TACATGT
1 GTAAAAATAATATACATAT
58005822 GTAAAAATAATATACATAT
1 GTAAAAATAATATACATAT
*
58005841 GTAGATAATAATATA
1 GTA-AAAATAATATA
58005856 TGTAATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 9 0.30
20 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.33
Consensus pattern (19 bp):
GTAAAAATAATATACATAT
Found at i:58005886 original size:5 final size:5
Alignment explanation
Indices: 58005876--58005930 Score: 101
Period size: 5 Copynumber: 10.8 Consensus size: 5
58005866 AATATTTAAG
58005876 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT-AT
58005927 TATA
1 TATA
58005931 AAAGAACAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 44 0.90
6 5 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:58005988 original size:17 final size:17
Alignment explanation
Indices: 58005950--58005987 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
58005940 ACAAATAAAT
58005950 AAAAGAAATGAAATAGA
1 AAAAGAAATGAAATAGA
*
58005967 AAAAGGAATAGAAATAGA
1 AAAAGAAAT-GAAATAGA
58005985 AAA
1 AAA
58005988 GTAAAACGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.11
Consensus pattern (17 bp):
AAAAGAAATGAAATAGA
Found at i:58006921 original size:41 final size:41
Alignment explanation
Indices: 58006865--58006999 Score: 138
Period size: 40 Copynumber: 3.4 Consensus size: 41
58006855 CACTTTGAGT
* *
58006865 CGATGAGACACTGGGTGTCAATTTACTACTTCGTATTAATT
1 CGATGAGACACTGGGTGTCAATTTATTACTTCGTATTAATC
* * *
58006906 CGATGGGGCACTGGGTGCCAA---ATTACTTCAGT-TTAA-C
1 CGATGAGACACTGGGTGTCAATTTATTACTTC-GTATTAATC
* *
58006943 CGATGAGACACTGAGTGTCAATTTATTACTTCGAATT-ATC
1 CGATGAGACACTGGGTGTCAATTTATTACTTCGTATTAATC
* *
58006983 CGATGAGGCACTAGGTG
1 CGATGAGACACTGGGTG
58007000 CCAAATTGGT
Statistics
Matches: 75, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
37 17 0.23
38 11 0.15
39 4 0.05
40 25 0.33
41 18 0.24
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (41 bp):
CGATGAGACACTGGGTGTCAATTTATTACTTCGTATTAATC
Found at i:58008651 original size:10 final size:10
Alignment explanation
Indices: 58008636--58008662 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
58008626 CAATATTGTA
58008636 TTTATTAGGT
1 TTTATTAGGT
58008646 TTTATTAGGT
1 TTTATTAGGT
58008656 TTTATTA
1 TTTATTA
58008663 TTTATTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (10 bp):
TTTATTAGGT
Found at i:58013111 original size:43 final size:42
Alignment explanation
Indices: 58012970--58013139 Score: 177
Period size: 43 Copynumber: 4.0 Consensus size: 42
58012960 ATATTGTACA
* * * *
58012970 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCATAT-TCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AATCACATATCG
* * *
58013012 ATGCC-ACTGTCCTAGACAGGGTCTTACACGAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAATCACATATCG
* * *
58013053 ATGTCGATGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AATCACATATCG
58013096 ATGCCAACGTCCCAGA-AGTGGTCTTACACGAATACACATATCG
1 ATGCCAACGTCCCAGACA-TGGTCTTACACGAAT-CACATATCG
58013139 A
1 A
58013140 AAGTCCAATG
Statistics
Matches: 107, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
41 35 0.33
42 35 0.33
43 37 0.35
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAATCACATATCG
Found at i:58014903 original size:31 final size:26
Alignment explanation
Indices: 58014836--58014945 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
58014826 TGATACAAAT
58014836 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
58014862 TGATAATAGGTTAGGTAAATGTTCCG
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
58014888 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
58014914 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
58014940 TGATAA
1 TGATAA
58014946 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:58016459 original size:26 final size:26
Alignment explanation
Indices: 58016430--58016482 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
58016420 TTTACAGTTT
58016430 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
58016456 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
58016482 T
1 T
58016483 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:58020077 original size:28 final size:28
Alignment explanation
Indices: 58020058--58020113 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
58020048 TTATAATATT
58020058 ATATTTAACTCGTAAATATTAAATAGTA
1 ATATTTAACTCGTAAATATTAAATAGTA
58020086 ATATTTAACTCGTAAATATTAAATAGTA
1 ATATTTAACTCGTAAATATTAAATAGTA
58020114 TGAACTCACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (28 bp):
ATATTTAACTCGTAAATATTAAATAGTA
Found at i:58020086 original size:14 final size:14
Alignment explanation
Indices: 58020069--58020113 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
58020059 TATTTAACTC
58020069 GTAAATATTAAATA
1 GTAAATATTAAATA
* *
58020083 GT-AATATTTAACTC
1 GTAAATA-TTAAATA
58020097 GTAAATATTAAATA
1 GTAAATATTAAATA
58020111 GTA
1 GTA
58020114 TGAACTCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 4 0.16
14 17 0.68
15 4 0.16
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (14 bp):
GTAAATATTAAATA
Found at i:58023590 original size:19 final size:19
Alignment explanation
Indices: 58023568--58023622 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
58023558 CATATGAGTT
58023568 CACTAATCACACACAATTC
1 CACTAATCACACACAATTC
*
58023587 CACTAATCACACAAAATTC
1 CACTAATCACACACAATTC
*
58023606 CACTAATCAGACACAAT
1 CACTAATCACACACAAT
58023623 CATCGAGGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (19 bp):
CACTAATCACACACAATTC
Found at i:58024236 original size:320 final size:320
Alignment explanation
Indices: 58023650--58024287 Score: 1114
Period size: 320 Copynumber: 2.0 Consensus size: 320
58023640 TATCATGCAA
58023650 AATGACATGCTTCTTGTACGTACTCCACCTATTGTGGATTTTAAAATGAATGAACATGTTCACAA
1 AATGACATGCTTCTTGTACGTACTCCACCTATTGTGGATTTTAAAATGAATGAACATGTTCACAA
*
58023715 TAATTGAACTCACCACTGGCAGGTTCGCAATGGAAGAACTCACCAAATGTGAAATAGGAATCCGC
66 CAATTGAACTCACCACTGGCAGGTTCGCAATGGAAGAACTCACCAAATGTGAAATAGGAATCCGC
58023780 AAGATGGCGGAACTTGGCGGAACAATCTACAAGGAAAATACAATAAAATGGAACAAGTCAATTCT
131 AAGATGGCGGAACTTGGCGGAACAATCTACAAGGAAAATACAATAAAATGGAACAAGTCAATTCT
* * *
58023845 CGTGAATTTGACTTGCTCACACGCGAGTCATCACCAATCTCACTTGGTAAATCATCCAAAACATT
196 CGTGAATTTGACTAGCTCACACGCAAGTCATCACCAATCTCACTTGGTAAATCATCCAAAACATG
* *
58023910 GATTAGAAAATTTTAGGGTGTGACATTTTTCCCTACTTAATTTAGGAAGGTAAAATTTCT
261 GATTAGAAAATTTTAGGGTATGACATTTTTCCCTACTTAATGTAGGAAGGTAAAATTTCT
* *
58023970 AATGACATGCTTCTTGTACGTGCTCCGCCTATTGTGGATTTTAAAATGAATGAACATGTTCACAA
1 AATGACATGCTTCTTGTACGTACTCCACCTATTGTGGATTTTAAAATGAATGAACATGTTCACAA
* *
58024035 CAGTTGAACTCACCACTGGTAGGTTCGCAATGGAAGAACTCACCAAATGTGAAATAGGAATCCGC
66 CAATTGAACTCACCACTGGCAGGTTCGCAATGGAAGAACTCACCAAATGTGAAATAGGAATCCGC
**
58024100 AAGATGGCGGAACTTGGCGGAATGATCTACAAGGAAAATACAATAAAATGGAACAAGTCAATTCT
131 AAGATGGCGGAACTTGGCGGAACAATCTACAAGGAAAATACAATAAAATGGAACAAGTCAATTCT
* * *
58024165 CGTGAATTTGACTAGCTCACACGCAAGTCATCACTAATCTTACTTGGTAAATCATCGAAAACATG
196 CGTGAATTTGACTAGCTCACACGCAAGTCATCACCAATCTCACTTGGTAAATCATCCAAAACATG
* * *
58024230 GATTAGAAAATTTTGGGGTATGCCATTTTTCCTTACTTAATGTAGGAAGGTAAAATTT
261 GATTAGAAAATTTTAGGGTATGACATTTTTCCCTACTTAATGTAGGAAGGTAAAATTT
58024288 TTAACCTTTC
Statistics
Matches: 300, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
320 300 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (320 bp):
AATGACATGCTTCTTGTACGTACTCCACCTATTGTGGATTTTAAAATGAATGAACATGTTCACAA
CAATTGAACTCACCACTGGCAGGTTCGCAATGGAAGAACTCACCAAATGTGAAATAGGAATCCGC
AAGATGGCGGAACTTGGCGGAACAATCTACAAGGAAAATACAATAAAATGGAACAAGTCAATTCT
CGTGAATTTGACTAGCTCACACGCAAGTCATCACCAATCTCACTTGGTAAATCATCCAAAACATG
GATTAGAAAATTTTAGGGTATGACATTTTTCCCTACTTAATGTAGGAAGGTAAAATTTCT
Found at i:58025509 original size:5 final size:5
Alignment explanation
Indices: 58025497--58025531 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
58025487 CCTCCCCTCT
*
58025497 CATCC CATAC CATCC CATCC CATCC CATCC CATCC
1 CATCC CATCC CATCC CATCC CATCC CATCC CATCC
58025532 TACCCCCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.23, C:0.57, G:0.00, T:0.20
Consensus pattern (5 bp):
CATCC
Found at i:58026294 original size:31 final size:31
Alignment explanation
Indices: 58026258--58026340 Score: 139
Period size: 31 Copynumber: 2.7 Consensus size: 31
58026248 TCAAAATTTT
* *
58026258 TTCATTCGATTCAATTTAATTCGATCAAAAA
1 TTCATTCGATTTAATTCAATTCGATCAAAAA
*
58026289 TTCATTCGATTTAATTCAATTCGATCGAAAA
1 TTCATTCGATTTAATTCAATTCGATCAAAAA
58026320 TTCATTCGATTTAATTCAATT
1 TTCATTCGATTTAATTCAATT
58026341 AACAATGTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (31 bp):
TTCATTCGATTTAATTCAATTCGATCAAAAA
Found at i:58026297 original size:16 final size:15
Alignment explanation
Indices: 58026258--58026329 Score: 58
Period size: 16 Copynumber: 4.7 Consensus size: 15
58026248 TCAAAATTTT
*
58026258 TTCATTCGATTC-AAT
1 TTCATTCGA-TCAAAA
*
58026273 TTAATTCGATCAAAAA
1 TTCATTCGATC-AAAA
**
58026289 TTCATTCGAT-TTAA
1 TTCATTCGATCAAAA
58026303 TTCAATTCGATCGAAAA
1 TTC-ATTCGATC-AAAA
58026320 TTCATTCGAT
1 TTCATTCGAT
58026330 TTAATTCAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
14 7 0.16
15 15 0.33
16 18 0.40
17 5 0.11
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (15 bp):
TTCATTCGATCAAAA
Found at i:58028865 original size:6 final size:6
Alignment explanation
Indices: 58028856--58028882 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
58028846 ATAGTGATAT
58028856 TGAAGA TGAAGA TGAAGA TGAAGA TGA
1 TGAAGA TGAAGA TGAAGA TGAAGA TGA
58028883 GAATGCTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.19
Consensus pattern (6 bp):
TGAAGA
Found at i:58036991 original size:19 final size:19
Alignment explanation
Indices: 58036967--58037007 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
58036957 CTAAAATAAA
58036967 ATAAAAGAAGTGTAATTCT
1 ATAAAAGAAGTGTAATTCT
58036986 ATAAAAGAAGTGTAATTCT
1 ATAAAAGAAGTGTAATTCT
58037005 ATA
1 ATA
58037008 TGGATTCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.32
Consensus pattern (19 bp):
ATAAAAGAAGTGTAATTCT
Found at i:58039367 original size:29 final size:30
Alignment explanation
Indices: 58039323--58039395 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 30
58039313 TAAGCGTAAC
* *
58039323 ATGGCCATTTTGCCAAAGTCTA-GGGCAAA
1 ATGGTCATTTTACCAAAGTCTAGGGGCAAA
58039352 ATGGTCATTTTACCAAAGTCTAGGGGCAAA
1 ATGGTCATTTTACCAAAGTCTAGGGGCAAA
58039382 ATGGTCATTTTACC
1 ATGGTCATTTTACC
58039396 TGTAACACCC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 20 0.49
30 21 0.51
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (30 bp):
ATGGTCATTTTACCAAAGTCTAGGGGCAAA
Found at i:58040383 original size:24 final size:24
Alignment explanation
Indices: 58040347--58040427 Score: 128
Period size: 24 Copynumber: 3.4 Consensus size: 24
58040337 TTGGAGGCCT
*
58040347 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
58040372 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
58040396 ATCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
58040419 AGCCCTTTT
1 AGCCCTTTT
58040428 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
23 22 0.42
24 26 0.50
25 4 0.08
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:58040408 original size:23 final size:23
Alignment explanation
Indices: 58040354--58040426 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
58040344 CCTAGCCTCT
*
58040354 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
58040377 TTTTAATAACTGGGGCATAATCCC
1 -TTTAATAACTGGGGCATAAGCCC
58040401 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
58040424 TTT
1 TTT
58040427 TGCACTTCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
23 25 0.54
24 21 0.46
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:58040502 original size:20 final size:20
Alignment explanation
Indices: 58040477--58040543 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
58040467 TTATGAATAC
58040477 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
58040497 ATCATGTGCATAGCATATAT
1 ATCATGTGCATATCATACAT
*
58040517 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
58040537 ACCATGT
1 ATCATGT
58040544 TTACTAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:58047358 original size:67 final size:67
Alignment explanation
Indices: 58047245--58047373 Score: 213
Period size: 67 Copynumber: 1.9 Consensus size: 67
58047235 TGCATGTTGA
* * * *
58047245 CAACTTGTGTCCTTCGTGTAAGGAAGCTGAAGAAACGGTGGATTATTTGTTCAGATTTTATTCTT
1 CAACCTGTGTCCTTCGTGCAAGGAAGCTGAAGAAACGATGGATTATTTGTTAAGATTTTATTCTT
58047310 GG
66 GG
*
58047312 CAACCTGTGTTCTTCGTGCAAGGAAGCTGAAGAAACGATGGATTATTTGTTAAGATTTTATT
1 CAACCTGTGTCCTTCGTGCAAGGAAGCTGAAGAAACGATGGATTATTTGTTAAGATTTTATT
58047374 TTATCTTTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (67 bp):
CAACCTGTGTCCTTCGTGCAAGGAAGCTGAAGAAACGATGGATTATTTGTTAAGATTTTATTCTT
GG
Found at i:58049376 original size:21 final size:22
Alignment explanation
Indices: 58049344--58049403 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 22
58049334 AAATGATTTT
* *
58049344 TATTTTT-GAAATTTAT-TTAA
1 TATTTTTAAAAATTTATAATAA
*
58049364 TATTTTTATAAATTT-TAATAA
1 TATTTTTAAAAATTTATAATAA
*
58049385 TGTTTTTAAAAATTTATAA
1 TATTTTTAAAAATTTATAA
58049404 AATTTAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 8 0.24
21 22 0.67
22 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (22 bp):
TATTTTTAAAAATTTATAATAA
Found at i:58049401 original size:29 final size:29
Alignment explanation
Indices: 58049368--58049425 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
58049358 ATTTAATATT
* * *
58049368 TTTATAAATTTTAATAATGTTTTTAAAAA
1 TTTATAAAATTTAAAAATATTTTTAAAAA
58049397 TTTATAAAATTTAAAAATATTTTTAAAAA
1 TTTATAAAATTTAAAAATATTTTTAAAAA
58049426 AATTAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
TTTATAAAATTTAAAAATATTTTTAAAAA
Found at i:58049750 original size:11 final size:11
Alignment explanation
Indices: 58049734--58049758 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
58049724 CCCCTAGCTC
58049734 TTTCTTTTTTT
1 TTTCTTTTTTT
58049745 TTTCTTTTTTT
1 TTTCTTTTTTT
58049756 TTT
1 TTT
58049759 TTTAATCTTC
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:58049756 original size:15 final size:15
Alignment explanation
Indices: 58049732--58049761 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
58049722 TACCCCTAGC
58049732 TCTTTCTTTTTTTTT
1 TCTTTCTTTTTTTTT
58049747 TCTTT-TTTTTTTTT
1 TCTTTCTTTTTTTTT
58049761 T
1 T
58049762 AATCTTCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TCTTTCTTTTTTTTT
Found at i:58053030 original size:29 final size:30
Alignment explanation
Indices: 58052997--58053063 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
58052987 TCTATGACTT
58052997 GATCAAATTAATATTTCTACTATTAAAT-G
1 GATCAAATTAATATTTCTACTATTAAATAG
* * * *
58053026 GATCAATTTAATCTTTGTACTGTTAAATAG
1 GATCAAATTAATATTTCTACTATTAAATAG
*
58053056 AATCAAAT
1 GATCAAAT
58053064 AAGGTCAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (30 bp):
GATCAAATTAATATTTCTACTATTAAATAG
Found at i:58061053 original size:79 final size:81
Alignment explanation
Indices: 58060944--58061126 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
58060934 TACTCGTTCA
* *
58060944 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
58061007 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
58061024 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
58061087 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
58061103 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
58061127 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:58061126 original size:40 final size:40
Alignment explanation
Indices: 58060923--58061126 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
58060913 CGGAATTTAA
** *
58060923 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58060963 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58061003 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
58061042 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
58061082 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
58061122 CCGGA
1 CCGGA
58061127 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:58062826 original size:4 final size:4
Alignment explanation
Indices: 58062817--58062850 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
58062807 AAGTTTTATT
58062817 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
58062851 AATTTTTATA
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:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:58062858 original size:22 final size:22
Alignment explanation
Indices: 58062800--58062859 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
58062790 AAGTGGCCCA
*
58062800 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
58062824 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
58062845 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
58062860 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:58070312 original size:27 final size:27
Alignment explanation
Indices: 58070282--58070458 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
58070272 ATATTGAGTC
* *
58070282 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
58070309 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
*
58070335 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
58070363 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
58070390 CGTACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
58070417 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
58070444 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58070459 GTACAATTTA
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 22 0.17
27 83 0.65
28 22 0.17
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:58078841 original size:48 final size:48
Alignment explanation
Indices: 58078770--58078998 Score: 368
Period size: 48 Copynumber: 4.8 Consensus size: 48
58078760 CAAGATAAAT
* * *
58078770 ATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
58078818 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
58078866 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* * *
58078914 ATATGTATTTGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
58078962 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
58078999 TGTTGTAACA
Statistics
Matches: 169, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 169 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
Found at i:58079092 original size:37 final size:37
Alignment explanation
Indices: 58079042--58079144 Score: 197
Period size: 37 Copynumber: 2.8 Consensus size: 37
58079032 GGAAATGTAT
58079042 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
58079079 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
58079116 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
58079145 GGACTATTCG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:58082465 original size:22 final size:22
Alignment explanation
Indices: 58082439--58082483 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
58082429 TTTCGTTATA
58082439 GATTAAAGTGAATAGAAGCTGT
1 GATTAAAGTGAATAGAAGCTGT
58082461 GATTAAAGTGAATAGAAGCTGT
1 GATTAAAGTGAATAGAAGCTGT
58082483 G
1 G
58082484 CACAAGGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.29, T:0.27
Consensus pattern (22 bp):
GATTAAAGTGAATAGAAGCTGT
Found at i:58083077 original size:28 final size:27
Alignment explanation
Indices: 58083027--58083079 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
58083017 CAATTCAGAA
* *
58083027 ATCAGTGTTAACTGGGCCTTAGCCCAT
1 ATCAATGTTAACTGGGCCATAGCCCAT
58083054 ATCAATGTTAATCTGGGCCATAGCCC
1 ATCAATGTTAA-CTGGGCCATAGCCC
58083080 CTTACATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (27 bp):
ATCAATGTTAACTGGGCCATAGCCCAT
Found at i:58083159 original size:60 final size:59
Alignment explanation
Indices: 58083041--58083175 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 59
58083031 GTGTTAACTG
* * *
58083041 GGCCTTAGCCCATATCAATGTTAATCTGGGCCATAGCCCCTTACATTATCAGAGTATATTA
1 GGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACA-TATCAGAGTATATTA
* * *
58083102 GGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATATATTG
1 GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACATA-TCAGAG-TATATTA
*
58083162 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
58083176 TAACACAGTT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 4 0.06
60 51 0.80
61 9 0.14
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (59 bp):
GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACATATCAGAGTATATTA
Found at i:58089281 original size:26 final size:26
Alignment explanation
Indices: 58089252--58089304 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
58089242 TTTACAGTTT
58089252 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
58089278 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
58089304 T
1 T
58089305 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:58093468 original size:27 final size:28
Alignment explanation
Indices: 58093438--58093490 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
58093428 CTATTCAGAA
* *
58093438 ATCAGTGTTAA-CTAGGCCTTAGCCCAT
1 ATCAATGTTAATCTAGGCCATAGCCCAT
*
58093465 ATCAATGTTAATCTGGGCCATAGCCC
1 ATCAATGTTAATCTAGGCCATAGCCC
58093491 CTTACAGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (28 bp):
ATCAATGTTAATCTAGGCCATAGCCCAT
Found at i:58093526 original size:60 final size:60
Alignment explanation
Indices: 58093452--58093586 Score: 159
Period size: 60 Copynumber: 2.2 Consensus size: 60
58093442 GTGTTAACTA
* * *
58093452 GGCCTTAGCCCATATCAATGTTAATCTGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATATTG
1 GGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATATTG
* *
58093513 GGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATATTG
1 GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATATTG
*
58093573 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
58093587 TAACACAGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
60 52 0.80
61 11 0.17
62 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (60 bp):
GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATATTG
Found at i:58096228 original size:15 final size:15
Alignment explanation
Indices: 58096208--58096236 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
58096198 TTTTCCTATC
58096208 TAATAATAATAATTA
1 TAATAATAATAATTA
58096223 TAATAATAATAATT
1 TAATAATAATAATT
58096237 TTAAAAATAT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:58096245 original size:15 final size:15
Alignment explanation
Indices: 58096212--58096245 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
58096202 CCTATCTAAT
*
58096212 AATAATAATTATAAT
1 AATAATAATTATAAA
*
58096227 AATAATAATTTTAAA
1 AATAATAATTATAAA
58096242 AATA
1 AATA
58096246 TATCTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAATAATTATAAA
Found at i:58096368 original size:19 final size:18
Alignment explanation
Indices: 58096331--58096374 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
58096321 ATACATGCAG
58096331 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
58096348 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
58096367 TACTAATT
1 TAATAATT
58096375 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:58109414 original size:13 final size:13
Alignment explanation
Indices: 58109396--58109451 Score: 82
Period size: 13 Copynumber: 4.5 Consensus size: 13
58109386 CATTTTGAAT
58109396 TATTTAGTGATAA
1 TATTTAGTGATAA
58109409 TATTTAGTGATAA
1 TATTTAGTGATAA
*
58109422 TATTTA-AGAT--
1 TATTTAGTGATAA
58109432 TATTTAGTGATAA
1 TATTTAGTGATAA
58109445 TATTTAG
1 TATTTAG
58109452 GAAAAATCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
10 6 0.16
11 3 0.08
12 3 0.08
13 26 0.68
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:58111209 original size:46 final size:46
Alignment explanation
Indices: 58111159--58111331 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
58111149 TGGTTGAGCA
*
58111159 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
58111205 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
58111252 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
58111298 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58111332 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:58111315 original size:93 final size:93
Alignment explanation
Indices: 58111156--58111326 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
58111146 GGATGGTTGA
* *
58111156 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
58111221 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
58111249 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
58111314 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
58111327 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58111593 original size:19 final size:20
Alignment explanation
Indices: 58111556--58111593 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58111546 ATAAGGTGGT
58111556 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
58111576 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
58111594 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:58113006 original size:21 final size:21
Alignment explanation
Indices: 58112982--58113035 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
58112972 CCCACCTCCC
* *
58112982 CCAATTCCTCATCCTATGCCT
1 CCAATGCCTCAACCTATGCCT
58113003 CCAATGCCTCAACCTATGCCT
1 CCAATGCCTCAACCTATGCCT
58113024 CCAATGCCTCAA
1 CCAATGCCTCAA
58113036 GGAGTGGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.24, C:0.43, G:0.07, T:0.26
Consensus pattern (21 bp):
CCAATGCCTCAACCTATGCCT
Found at i:58117766 original size:139 final size:139
Alignment explanation
Indices: 58117586--58117871 Score: 499
Period size: 139 Copynumber: 2.1 Consensus size: 139
58117576 ATTTTTGGAA
58117586 ATTAGTAGTAAGGGTATTTGGTCTTTAGTATTAAAATGAATTAAAAACAAAATTAAAAGCCAA-T
1 ATTAGTAGTAAGGGTATTTGGTCTTTAGTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATT
58117650 TTGTCCATCTTCTTCATTAGGCCGAAATTTCAA-GTTCTCCATAGCTAGGGTTT-TTTCAAGCTT
66 TTGTCCATCTTCTTCATTAGGCCGAAATTTCAAGGTTCTCCATAGCTAGGGTTTGTTTCAAGCTT
58117713 CCAAGCTCC
131 CCAAGCTCC
58117722 ATTAGTAGTAAGGGTATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCA
1 ATTAGTAGTAAGGGTA-TTTGGTC-TTTAG-TATTAAAATGAATTAAAAACAAAATTAAAAGCCA
58117787 ATTTTTGTCCATCTTCTTCATTAGGCCGAAATTTCAAGGGTTCTCCATAGCTAGGGTTTGTTTCA
63 A-TTTTGTCCATCTTCTTCATTAGGCCGAAATTTCAA-GGTTCTCCATAGCTAGGGTTTGTTTCA
58117852 AGCTTCCAAGCTCC
126 AGCTTCCAAGCTCC
58117866 A-TAGTA
1 ATTAGTA
58117872 AGTGATTCCA
Statistics
Matches: 142, Mismatches: 0, Indels: 9
0.94 0.00 0.06
Matches are distributed among these distances:
136 16 0.11
137 7 0.05
138 5 0.04
139 35 0.25
141 34 0.24
143 25 0.18
144 20 0.14
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (139 bp):
ATTAGTAGTAAGGGTATTTGGTCTTTAGTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATT
TTGTCCATCTTCTTCATTAGGCCGAAATTTCAAGGTTCTCCATAGCTAGGGTTTGTTTCAAGCTT
CCAAGCTCC
Found at i:58119067 original size:20 final size:21
Alignment explanation
Indices: 58119016--58119067 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
58119006 CCCCACCTCC
*
58119016 CCAATTCCTC-ACCTATGCCT
1 CCAATGCCTCAACCTATGCCT
58119036 CCAATGCCTCAACCTATGCCT
1 CCAATGCCTCAACCTATGCCT
58119057 -CAATGCCTCAA
1 CCAATGCCTCAA
58119068 GATAGGAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 20 0.67
21 10 0.33
ACGTcount: A:0.25, C:0.42, G:0.08, T:0.25
Consensus pattern (21 bp):
CCAATGCCTCAACCTATGCCT
Found at i:58123326 original size:47 final size:46
Alignment explanation
Indices: 58123209--58123381 Score: 187
Period size: 45 Copynumber: 3.8 Consensus size: 46
58123199 GGATGGTTGA
*
58123209 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAT
* *
58123256 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA-T
* * *
58123299 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC-AAT
*
58123349 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
58123382 TAGGGGCGGG
Statistics
Matches: 108, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
44 2 0.02
45 30 0.28
46 29 0.27
47 30 0.28
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAT
Found at i:58123377 original size:46 final size:45
Alignment explanation
Indices: 58123213--58123383 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 45
58123203 GGTTGAGCAT
* *
58123213 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
* * *
58123258 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC---GC
*
58123303 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*
58123351 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58123384 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
42 6 0.06
44 2 0.02
45 29 0.27
46 31 0.29
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:58123644 original size:19 final size:20
Alignment explanation
Indices: 58123607--58123644 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58123597 ATAAGGTGGT
58123607 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
58123627 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
58123645 TGGTGTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:58130719 original size:46 final size:46
Alignment explanation
Indices: 58130669--58130841 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
58130659 TGGTTGAGCA
*
58130669 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
58130715 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
58130762 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
58130808 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58130842 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:58130825 original size:93 final size:93
Alignment explanation
Indices: 58130666--58130836 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
58130656 GGATGGTTGA
* *
58130666 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
58130731 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
58130759 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
58130824 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
58130837 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58131103 original size:19 final size:20
Alignment explanation
Indices: 58131066--58131103 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58131056 ATAAGGTGGT
58131066 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
58131086 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
58131104 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:58132232 original size:27 final size:28
Alignment explanation
Indices: 58132161--58132221 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
58132151 GGGCGTTACA
*
58132161 TGATTCGTACAAATTTATCCTTCAAAGT
1 TGATTCGTACAAATTCATCCTTCAAAGT
58132189 TGATTCGTACAAATTCATCCTTCAAAG-
1 TGATTCGTACAAATTCATCCTTCAAAGT
58132216 TGATTC
1 TGATTC
58132222 ATTTCAATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 6 0.19
28 26 0.81
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (28 bp):
TGATTCGTACAAATTCATCCTTCAAAGT
Found at i:58134660 original size:27 final size:26
Alignment explanation
Indices: 58134612--58134671 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
58134602 GCGAGGCTGC
*
58134612 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
58134639 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
58134665 CAGATAT
1 CAGATAT
58134672 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:58135447 original size:27 final size:27
Alignment explanation
Indices: 58135417--58135562 Score: 166
Period size: 27 Copynumber: 5.4 Consensus size: 27
58135407 GAGGCAAAAT
* * *
58135417 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
58135444 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
58135471 GATATTTTTACCCTACAACGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
58135498 GGTAATTCTACCTTACACGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
58135525 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
58135552 AGTAATTCTAC
1 GGTAATTCTAC
58135563 AACTTATCCA
Statistics
Matches: 100, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:58138718 original size:37 final size:37
Alignment explanation
Indices: 58138668--58138741 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
58138658 TTCGATACTT
58138668 AACTAGCTTCTAACCTAGCATTTTGATGTTATTCCAA
1 AACTAGCTTCTAACCTAGCATTTTGATGTTATTCCAA
58138705 AACTAGCTTCTAACCTAGCATTTTGATGTTATTCCAA
1 AACTAGCTTCTAACCTAGCATTTTGATGTTATTCCAA
58138742 TGATTTTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.38
Consensus pattern (37 bp):
AACTAGCTTCTAACCTAGCATTTTGATGTTATTCCAA
Found at i:58140486 original size:23 final size:23
Alignment explanation
Indices: 58140444--58140490 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
58140434 TTTGGTGTGA
**
58140444 TAGTTGTGGATATTTAGGATTGT
1 TAGTTGTGGATACCTAGGATTGT
*
58140467 TAGTTGTGGATACCTGGGATTGT
1 TAGTTGTGGATACCTAGGATTGT
58140490 T
1 T
58140491 TGTATGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.04, G:0.32, T:0.45
Consensus pattern (23 bp):
TAGTTGTGGATACCTAGGATTGT
Found at i:58142686 original size:28 final size:28
Alignment explanation
Indices: 58142629--58142690 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
58142619 TGGGAAGTAG
* * *
58142629 TTGGGCCTGATGGGCCATATGAATATGA
1 TTGGGCCTAATGGGCAATATGAAGATGA
*
58142657 TTGGGCCTAATGGGCAATGTGAACGA-GA
1 TTGGGCCTAATGGGCAATATGAA-GATGA
58142685 TTGGGC
1 TTGGGC
58142691 TTAAAGGGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATGGGCAATATGAAGATGA
Found at i:58143039 original size:27 final size:28
Alignment explanation
Indices: 58143009--58143294 Score: 204
Period size: 27 Copynumber: 10.6 Consensus size: 28
58142999 TAATAAAGAG
58143009 AAATTATCGAAATACCCTCGAA-TTGTA
1 AAATTATCGAAATACCCTCGAATTTGTA
*
58143036 AAATTATCGAAGTACCC-C-AAGTTTGTA
1 AAATTATCGAAATACCCTCGAA-TTTGTA
* * *
58143063 AAATTATCGAAGTACCC-CCAGTTTGTA
1 AAATTATCGAAATACCCTCGAATTTGTA
* * * *
58143090 AAATTATTG-AATACCTTC-AGTTCGTA
1 AAATTATCGAAATACCCTCGAATTTGTA
* *
58143116 AAATTACCGAAATACCC-CAAATTTGTA
1 AAATTATCGAAATACCCTCGAATTTGTA
* **
58143143 AAATTA-CCAAA-ACACCTTAAATTTGTA
1 AAATTATCGAAATAC-CCTCGAATTTGTA
* * * *
58143170 AAATTACCAAAACACCCT-TAATTTGTA
1 AAATTATCGAAATACCCTCGAATTTGTA
* * *
58143197 AAATTACCGAAACACCCT-TAATTTGTA
1 AAATTATCGAAATACCCTCGAATTTGTA
* * *
58143224 AAATTA-CTAAAATACCCTAG-ATATGTA
1 AAATTATC-GAAATACCCTCGAATTTGTA
* * *
58143251 AAATTATCAAAACACCCCCG-ATTTGATA
1 AAATTATCGAAATACCCTCGAATTTG-TA
58143279 AAATTATCGAAATACC
1 AAATTATCGAAATACC
58143295 TTTACAGTGT
Statistics
Matches: 219, Mismatches: 26, Indels: 27
0.81 0.10 0.10
Matches are distributed among these distances:
25 4 0.02
26 28 0.13
27 160 0.73
28 25 0.11
29 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (28 bp):
AAATTATCGAAATACCCTCGAATTTGTA
Found at i:58143133 original size:53 final size:54
Alignment explanation
Indices: 58143009--58143148 Score: 160
Period size: 53 Copynumber: 2.6 Consensus size: 54
58142999 TAATAAAGAG
* * *
58143009 AAATTATCGAAATACCCTC-GAATTGTAAAATTATCGAAGTACCCCAAGTTTGTA
1 AAATTATCGAAATACCCCCAG-TTTGTAAAATTATCGAAGTACCCCAAGTTCGTA
* * *
58143063 AAATTATCGAAGTACCCCCAGTTTGTAAAATTATTGAA-TACCTTC-AGTTCGTA
1 AAATTATCGAAATACCCCCAGTTTGTAAAATTATCGAAGTACC-CCAAGTTCGTA
* * *
58143116 AAATTACCGAAATACCCCAAATTTGTAAAATTA
1 AAATTATCGAAATACCCCCAGTTTGTAAAATTA
58143149 CCAAAACACC
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
53 40 0.54
54 33 0.45
55 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (54 bp):
AAATTATCGAAATACCCCCAGTTTGTAAAATTATCGAAGTACCCCAAGTTCGTA
Found at i:58143224 original size:81 final size:81
Alignment explanation
Indices: 58143113--58143290 Score: 230
Period size: 81 Copynumber: 2.2 Consensus size: 81
58143103 CCTTCAGTTC
* * *
58143113 GTAAAATTACCGAAATACCCCAAATTTGTAAAATTACCAAAACACCTTAAATTTGTAAAATTACC
1 GTAAAATTACCGAAACACCCCAAATTTGTAAAATTACCAAAACACCCTAAATATGTAAAATTACC
**
58143178 AAAACACCCTTAATTT
66 AAAACACCCCCAATTT
** * * * *
58143194 GTAAAATTACCGAAACACCCTTAATTTGTAAAATTACTAAAATACCCTAGATATGTAAAATTATC
1 GTAAAATTACCGAAACACCCCAAATTTGTAAAATTACCAAAACACCCTAAATATGTAAAATTACC
*
58143259 AAAACACCCCCGATTT
66 AAAACACCCCCAATTT
*
58143275 GATAAAATTATCGAAA
1 G-TAAAATTACCGAAA
58143291 TACCTTTACA
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
81 70 0.84
82 13 0.16
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.28
Consensus pattern (81 bp):
GTAAAATTACCGAAACACCCCAAATTTGTAAAATTACCAAAACACCCTAAATATGTAAAATTACC
AAAACACCCCCAATTT
Found at i:58143321 original size:82 final size:81
Alignment explanation
Indices: 58143113--58143323 Score: 208
Period size: 81 Copynumber: 2.6 Consensus size: 81
58143103 CCTTCAGTTC
* ** * * * * * *
58143113 GTAAAATTACCGAAATACCCCAAATTTGTAAAATTACCAAAACACCTTAAATTTGTAAAATTACC
1 GTAAAATTACCGAAACACCCTTAATGTGTAAAATGACCAAAATACCCTAGATATGTAAAATTACC
**
58143178 AAAACACCCTTAATTT
66 AAAACACCCCCAATTT
* * * *
58143194 GTAAAATTACCGAAACACCCTTAATTTGTAAAATTACTAAAATACCCTAGATATGTAAAATTATC
1 GTAAAATTACCGAAACACCCTTAATGTGTAAAATGACCAAAATACCCTAGATATGTAAAATTACC
*
58143259 AAAACACCCCCGATTT
66 AAAACACCCCCAATTT
* * * * *
58143275 GATAAAATTATCGAAATACCTTTACA-GTGTAAAATGACCGACATACCCT
1 G-TAAAATTACCGAAACACCCTTA-ATGTGTAAAATGACCAAAATACCCT
58143324 TGTAGGGTAA
Statistics
Matches: 108, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
81 70 0.65
82 37 0.34
83 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.28
Consensus pattern (81 bp):
GTAAAATTACCGAAACACCCTTAATGTGTAAAATGACCAAAATACCCTAGATATGTAAAATTACC
AAAACACCCCCAATTT
Found at i:58149301 original size:44 final size:44
Alignment explanation
Indices: 58149238--58149321 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
58149228 ATAGGATTTC
**
58149238 GATATATGTGAGTGAGTAAGACCAAGGCATCGATATGTGACTCT
1 GATATATGTGAGCAAGTAAGACCAAGGCATCGATATGTGACTCT
* *
58149282 GATATATGTGTGCAAGTAAGACCATGGCATCGATATGTGA
1 GATATATGTGAGCAAGTAAGACCAAGGCATCGATATGTGA
58149322 TTACATGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.27
Consensus pattern (44 bp):
GATATATGTGAGCAAGTAAGACCAAGGCATCGATATGTGACTCT
Found at i:58154604 original size:64 final size:64
Alignment explanation
Indices: 58154532--58154672 Score: 192
Period size: 64 Copynumber: 2.2 Consensus size: 64
58154522 TTGGTATCGA
* ** * *
58154532 GGTAAGTTCGTATGCGAGTAATGCAATATGTAATATATTTTAAATGCTTAAATATTGCACGTAT
1 GGTAAGTTCATATGAAAATAATGCAATATGTAACATATTTTAAATGCTTAAATATTGCACGTAT
* * * *
58154596 GGTAAGTTCATATGAAAATTATGCAATATGTACCATATTTTAAATGCTTTAATATTGCATGTAT
1 GGTAAGTTCATATGAAAATAATGCAATATGTAACATATTTTAAATGCTTAAATATTGCACGTAT
*
58154660 GGTAAGTACATAT
1 GGTAAGTTCATAT
58154673 ATAATTAATG
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.38
Consensus pattern (64 bp):
GGTAAGTTCATATGAAAATAATGCAATATGTAACATATTTTAAATGCTTAAATATTGCACGTAT
Done.