Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 91
Found at i:5777294 original size:14 final size:14
Alignment explanation
Indices: 5777271--5777346 Score: 107
Period size: 14 Copynumber: 5.4 Consensus size: 14
5777261 CAACGGGTTA
5777271 ACTCAGATGAGCTG
1 ACTCAGATGAGCTG
*
5777285 ACTCAAATGAGCTG
1 ACTCAGATGAGCTG
* *
5777299 ACTCAGACGAGTTG
1 ACTCAGATGAGCTG
5777313 ACTCAGATGAGCTG
1 ACTCAGATGAGCTG
* *
5777327 ACTCAGACGAGTTG
1 ACTCAGATGAGCTG
5777341 ACTCAG
1 ACTCAG
5777347 TTTGGGTTGA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 54 1.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.21
Consensus pattern (14 bp):
ACTCAGATGAGCTG
Found at i:5777346 original size:28 final size:28
Alignment explanation
Indices: 5777271--5777346 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 28
5777261 CAACGGGTTA
* * *
5777271 ACTCAGATGAGCTGACTCAAATGAGCTG
1 ACTCAGACGAGTTGACTCAGATGAGCTG
5777299 ACTCAGACGAGTTGACTCAGATGAGCTG
1 ACTCAGACGAGTTGACTCAGATGAGCTG
5777327 ACTCAGACGAGTTGACTCAG
1 ACTCAGACGAGTTGACTCAG
5777347 TTTGGGTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.21
Consensus pattern (28 bp):
ACTCAGACGAGTTGACTCAGATGAGCTG
Found at i:5789285 original size:23 final size:22
Alignment explanation
Indices: 5789259--5789309 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
5789249 GACCTGACCG
*
5789259 TTGACTTTGACCAGAGTTTACT
1 TTGACTTTGACCAGAGTTGACT
* *
5789281 ATTGACTTTGATCAGTGTTGACT
1 -TTGACTTTGACCAGAGTTGACT
5789304 TTGACT
1 TTGACT
5789310 AAAAATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.43
Consensus pattern (22 bp):
TTGACTTTGACCAGAGTTGACT
Found at i:5795845 original size:20 final size:19
Alignment explanation
Indices: 5795822--5795877 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
5795812 AAAATACAAA
5795822 AAAAAAAGAAAAAAATAGCT
1 AAAAAAAGAAAAAAAT-GCT
* **
5795842 AAAAATAGAAAAGAAATTTT
1 AAAAAAAGAAAA-AAATGCT
*
5795862 AAAAAAAGGAAAAAAT
1 AAAAAAAGAAAAAAAT
5795878 TGATTGTTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.13
20 22 0.73
21 4 0.13
ACGTcount: A:0.73, C:0.02, G:0.11, T:0.14
Consensus pattern (19 bp):
AAAAAAAGAAAAAAATGCT
Found at i:5796587 original size:85 final size:85
Alignment explanation
Indices: 5796494--5796672 Score: 243
Period size: 85 Copynumber: 2.1 Consensus size: 85
5796484 TGACACGTAA
* * * *
5796494 TTGTGTGTCATAAATCTATGACGCGCATTTATGACGCT-CATTGAGCATCATTGAAGCCCCCGTC
1 TTGTGTGTCATAAATCTATGACACACATGTATGAC-CTACATTGAGCATCATTGAAGCCCCCATC
5796558 ATAAATAAAGATGACACACAT
65 ATAAATAAAGATGACACACAT
* * * **
5796579 TTGTGTGTCATAAATTTATGACACACATGTATGACTTACATTGCGTGTCATTGAAGCCCCCATCA
1 TTGTGTGTCATAAATCTATGACACACATGTATGACCTACATTGAGCATCATTGAAGCCCCCATCA
*
5796644 TAAATGAAGATGACACACAT
66 TAAATAAAGATGACACACAT
*
5796664 TCGTGTGTC
1 TTGTGTGTC
5796673 GTGATTGTAT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 1 0.01
85 81 0.99
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (85 bp):
TTGTGTGTCATAAATCTATGACACACATGTATGACCTACATTGAGCATCATTGAAGCCCCCATCA
TAAATAAAGATGACACACAT
Found at i:5805476 original size:15 final size:16
Alignment explanation
Indices: 5805456--5805490 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
5805446 CTAGAGTTTC
5805456 TTTTTGTTTT-ATTTA
1 TTTTTGTTTTGATTTA
*
5805471 TTTTTGTTTTGTTTTA
1 TTTTTGTTTTGATTTA
5805487 TTTT
1 TTTT
5805491 GGTTATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.83
Consensus pattern (16 bp):
TTTTTGTTTTGATTTA
Found at i:5805587 original size:55 final size:56
Alignment explanation
Indices: 5805495--5805602 Score: 168
Period size: 55 Copynumber: 1.9 Consensus size: 56
5805485 TATTTTGGTT
*
5805495 ATATATATATATAGGTTTATAAAATAAATATAGTTTTGGA-ATATATATATATAAAG
1 ATATATATATATAGATTTATAAAATAAATATAGTTTT-GATATATATATATATAAAG
5805551 ATATATATATATA-ATTT-TGAAAATAAATATAGTTTTGATATATATATATATA
1 ATATATATATATAGATTTAT-AAAATAAATATAGTTTTGATATATATATATATA
5805603 TATAATTTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
54 3 0.06
55 33 0.67
56 13 0.27
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (56 bp):
ATATATATATATAGATTTATAAAATAAATATAGTTTTGATATATATATATATAAAG
Found at i:5805606 original size:25 final size:23
Alignment explanation
Indices: 5805592--5805672 Score: 84
Period size: 25 Copynumber: 3.7 Consensus size: 23
5805582 GTTTTGATAT
*
5805592 ATATATATATATATAATTTTG--A
1 ATATATATA-ATATAGTTTTGAAA
5805614 A-A-ATA-AATATAGTTTT-AAA
1 ATATATATAATATAGTTTTGAAA
5805633 ATATATATATAGTATAGTTTTGAAA
1 ATATATATA-A-TATAGTTTTGAAA
5805658 ATATATATAATATAG
1 ATATATATAATATAG
5805673 CTTTATAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 15
0.76 0.02 0.23
Matches are distributed among these distances:
18 9 0.18
19 3 0.06
20 4 0.08
21 4 0.08
22 2 0.04
23 6 0.12
24 10 0.20
25 12 0.24
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.43
Consensus pattern (23 bp):
ATATATATAATATAGTTTTGAAA
Found at i:5805609 original size:43 final size:41
Alignment explanation
Indices: 5805551--5805666 Score: 178
Period size: 43 Copynumber: 2.8 Consensus size: 41
5805541 ATATATAAAG
*
5805551 ATATATATATATAATTTTGAAAATAAATATAGTTTTGATATAT
1 ATATATATATATAATTTTGAAAATAAATATAGTTTT-A-AAAT
5805594 ATATATATATATAATTTTGAAAATAAATATAGTTTTAAAAT
1 ATATATATATATAATTTTGAAAATAAATATAGTTTTAAAAT
* *
5805635 ATATATATAGTATAGTTTTGAAAATATATATA
1 ATATATATA-TATAATTTTGAAAATAAATATA
5805667 ATATAGCTTT
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
41 12 0.17
42 21 0.30
43 36 0.52
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (41 bp):
ATATATATATATAATTTTGAAAATAAATATAGTTTTAAAAT
Found at i:5805715 original size:65 final size:65
Alignment explanation
Indices: 5805576--5805734 Score: 175
Period size: 65 Copynumber: 2.4 Consensus size: 65
5805566 TTTGAAAATA
* *
5805576 AATATAGTTTTGATATATATATATATATATAATTTTGAAAATAAATATAGTTTTAAAATATATAT
1 AATATAGTTTTGA-AAATATATATATATATAATTTTGAAAAT-AATATAGTTTAAAAATATATAT
5805641 AT
64 AT
* *
5805643 AGTATAGTTTTGAAAATATATATA-ATATAGCTTTAT-AAAAT-A-ATAGTTTGAAAATATATAT
1 AATATAGTTTTGAAAATATATATATATATA-ATTT-TGAAAATAATATAGTTT-AAAA-ATATAT
5805704 ATAT
62 ATAT
*
5805708 AATATAGTTTTAGAAAACATA-ATATAT
1 AATATAGTTTT-GAAAATATATATATAT
5805735 GGTTTGAAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
63 7 0.09
64 4 0.05
65 28 0.35
66 28 0.35
67 13 0.16
ACGTcount: A:0.48, C:0.01, G:0.08, T:0.43
Consensus pattern (65 bp):
AATATAGTTTTGAAAATATATATATATATAATTTTGAAAATAATATAGTTTAAAAATATATATAT
Found at i:5805731 original size:20 final size:20
Alignment explanation
Indices: 5805706--5805752 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
5805696 ATATATATAT
*
5805706 ATAATATA-GTTTTAGAAAAC
1 ATAATATATGGTTT-GAAAAC
5805726 ATAATATATGGTTTGAAAAC
1 ATAATATATGGTTTGAAAAC
5805746 A-AATATA
1 ATAATATA
5805753 AATATAAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 6 0.24
20 15 0.60
21 4 0.16
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.34
Consensus pattern (20 bp):
ATAATATATGGTTTGAAAAC
Found at i:5805732 original size:27 final size:27
Alignment explanation
Indices: 5805676--5805734 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
5805666 AATATAGCTT
* *
5805676 TATAAAATAATAGTTTGAAAATATATA
1 TATATAATAATAGTTTGAAAACATATA
5805703 TATATAAT-ATAGTTTTAGAAAACATA-A
1 TATATAATAATAG-TTT-GAAAACATATA
5805730 TATAT
1 TATAT
5805735 GGTTTGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.14
27 16 0.57
28 8 0.29
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (27 bp):
TATATAATAATAGTTTGAAAACATATA
Found at i:5805752 original size:48 final size:42
Alignment explanation
Indices: 5805656--5805752 Score: 104
Period size: 42 Copynumber: 2.2 Consensus size: 42
5805646 ATAGTTTTGA
* *
5805656 AAATATATATAATATAGCTTTATAAAATAATAGTTTGAAAAT
1 AAATATATATAATATAGCTTTAAAAAATAATAGTTTGAAAAC
* *
5805698 ATATATATATAATATAGTTTTAGAAAACATAATATATGGTTTGAAAAC
1 AAATATATATAATATAGCTTTA-AAAA-AT-A-ATA--GTTTGAAAAC
5805746 AAATATA
1 AAATATA
5805753 AATATAAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
42 20 0.45
43 3 0.07
44 2 0.05
45 1 0.02
46 3 0.07
48 15 0.34
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.37
Consensus pattern (42 bp):
AAATATATATAATATAGCTTTAAAAAATAATAGTTTGAAAAC
Found at i:5805814 original size:35 final size:37
Alignment explanation
Indices: 5805746--5805814 Score: 90
Period size: 35 Copynumber: 1.9 Consensus size: 37
5805736 GTTTGAAAAC
*
5805746 AAATATAAATATAAGTATATAAATAATTTGGTTTTTG
1 AAATATAAATATAAGTATATAAATAATTGGGTTTTTG
*
5805783 AAATATAAATA-AA-TATAT-TATAATATGGGTTT
1 AAATATAAATATAAGTATATAAATAAT-TGGGTTT
5805815 ATATTATGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 5 0.17
35 11 0.38
36 2 0.07
37 11 0.38
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (37 bp):
AAATATAAATATAAGTATATAAATAATTGGGTTTTTG
Found at i:5811174 original size:19 final size:18
Alignment explanation
Indices: 5811142--5811181 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
5811132 TTGCATCTTG
*
5811142 CATATGCATCTTACTTTT
1 CATATGCATCTTACATTT
*
5811160 CATATTGCATTTTACATTT
1 CATA-TGCATCTTACATTT
5811179 CAT
1 CAT
5811182 TTTATCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (18 bp):
CATATGCATCTTACATTT
Found at i:5828380 original size:41 final size:40
Alignment explanation
Indices: 5828311--5828387 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 40
5828301 TCATTTTCCA
* *
5828311 GATTTGATCTTCCTGAATAGCAGTGAAGTAAATCAATCTT
1 GATTTAATCTTCCTGAAGAGCAGTGAAGTAAATCAATCTT
* *
5828351 GATTTAATCTTCTTTGAAGAGCAGTGAAGTGAATCAA
1 GATTTAATCTTC-CTGAAGAGCAGTGAAGTAAATCAA
5828388 AAAATTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 11 0.34
41 21 0.66
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (40 bp):
GATTTAATCTTCCTGAAGAGCAGTGAAGTAAATCAATCTT
Found at i:5828700 original size:2 final size:2
Alignment explanation
Indices: 5828622--5828681 Score: 90
Period size: 2 Copynumber: 31.5 Consensus size: 2
5828612 GGTTTATGGT
5828622 TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
5828662 TT TA TA -A TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
5828682 TTTGAATAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
1 3 0.06
2 51 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:5828720 original size:23 final size:23
Alignment explanation
Indices: 5828667--5828744 Score: 95
Period size: 24 Copynumber: 3.3 Consensus size: 23
5828657 TATATTTTAT
* *
5828667 AATATATATATATATTTTGAATAA
1 AATATATATAT-TTTTTTGAAAAA
5828691 AAT-TATATATTTTTTTGAAAAA
1 AATATATATATTTTTTTGAAAAA
*
5828713 AATATATATTTTTTTTTTGAAAAA
1 AATATATA-TATTTTTTTGAAAAA
*
5828737 AAAATATA
1 AATATATA
5828745 GTTTTAAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
22 13 0.27
23 11 0.23
24 24 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
AATATATATATTTTTTTGAAAAA
Found at i:5828727 original size:21 final size:22
Alignment explanation
Indices: 5828670--5828727 Score: 82
Period size: 21 Copynumber: 2.6 Consensus size: 22
5828660 ATTTTATAAT
*
5828670 ATATATATATATTTTGAATAAAA
1 ATATATAT-TTTTTTGAATAAAA
*
5828693 TTATATATTTTTTTGAA-AAAA
1 ATATATATTTTTTTGAATAAAA
5828714 ATATATATTTTTTT
1 ATATATATTTTTTT
5828728 TTTGAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 17 0.53
22 8 0.25
23 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (22 bp):
ATATATATTTTTTTGAATAAAA
Found at i:5828768 original size:24 final size:24
Alignment explanation
Indices: 5828739--5828798 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
5828729 TTGAAAAAAA
*
5828739 AATATAGTTTTAAAATATATATAT
1 AATATAGTTTTAAAAGATATATAT
* * *
5828763 AGTATAGTTTTGATAGATATATAT
1 AATATAGTTTTAAAAGATATATAT
5828787 AATATAGTTTTA
1 AATATAGTTTTA
5828799 TAAAATAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (24 bp):
AATATAGTTTTAAAAGATATATAT
Found at i:5828857 original size:20 final size:20
Alignment explanation
Indices: 5828832--5828872 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
5828822 ATATATATAT
*
5828832 ATAATATA-GTTTTAGAAAAC
1 ATAATATATGGTTT-GAAAAC
5828852 ATAATATATGGTTTGAAAAC
1 ATAATATATGGTTTGAAAAC
5828872 A
1 A
5828873 ATTATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (20 bp):
ATAATATATGGTTTGAAAAC
Found at i:5828859 original size:31 final size:32
Alignment explanation
Indices: 5828797--5828860 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
5828787 AATATAGTTT
* *
5828797 TATAAAATAATAGTTTGGAAAATATATATATA
1 TATAAAATAATAGTTTAGAAAACATATATATA
*
5828829 TATATAAT-ATAGTTTTAGAAAACATA-ATATA
1 TATAAAATAATAG-TTTAGAAAACATATATATA
5828860 T
1 T
5828861 GGTTTGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 10 0.36
32 18 0.64
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.39
Consensus pattern (32 bp):
TATAAAATAATAGTTTAGAAAACATATATATA
Found at i:5831211 original size:2 final size:2
Alignment explanation
Indices: 5831206--5831247 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
5831196 ATATTTTAGA
5831206 AT AT AT AT AT 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 AT AT
5831248 TTAAATCAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5831556 original size:30 final size:27
Alignment explanation
Indices: 5831502--5831556 Score: 65
Period size: 30 Copynumber: 1.9 Consensus size: 27
5831492 AAAATAATTT
**
5831502 TATTTTATATATTTAATATTAATATAA
1 TATTTTATATATTTAATAAAAATATAA
5831529 TATTTTACTATCAGTTTAATAAAAATAT
1 TATTTTA-TAT-A-TTTAATAAAAATAT
5831557 TAGTTATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.30
28 3 0.13
29 1 0.04
30 12 0.52
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (27 bp):
TATTTTATATATTTAATAAAAATATAA
Found at i:5832113 original size:2 final size:2
Alignment explanation
Indices: 5832108--5832161 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
5832098 TGTTTTTTCC
5832108 AT AT AT AT AT 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 AT AT
5832150 AT AT AT AT AT AT
1 AT AT AT AT AT AT
5832162 TAGGAAAGTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5838358 original size:15 final size:15
Alignment explanation
Indices: 5838335--5838412 Score: 84
Period size: 15 Copynumber: 4.9 Consensus size: 15
5838325 GAGACAAAAT
*
5838335 TTGTTTCAAGGGAAA
1 TTGTCTCAAGGGAAA
5838350 TTGTCTCAAGGGAGAAAAA
1 TTGTCTCAA-GG-G--AAA
*
5838369 TTTGTTTCAAGGGAAA
1 -TTGTCTCAAGGGAAA
*
5838385 TTGTCTCAAGGGAGA
1 TTGTCTCAAGGGAAA
5838400 TTGTCTCAAGGGA
1 TTGTCTCAAGGGA
5838413 GACAAAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
15 34 0.63
16 5 0.09
17 1 0.02
18 1 0.02
19 5 0.09
20 8 0.15
ACGTcount: A:0.32, C:0.10, G:0.28, T:0.29
Consensus pattern (15 bp):
TTGTCTCAAGGGAAA
Found at i:5838376 original size:35 final size:36
Alignment explanation
Indices: 5838299--5838399 Score: 168
Period size: 35 Copynumber: 2.8 Consensus size: 36
5838289 CGAGCTAAGG
* * *
5838299 TTGTTTCAAGGGAAACTGTATCAAGAGAGACAAAAT
1 TTGTTTCAAGGGAAATTGTCTCAAGGGAGACAAAAT
5838335 TTGTTTCAAGGGAAATTGTCTCAAGGGAGA-AAAAT
1 TTGTTTCAAGGGAAATTGTCTCAAGGGAGACAAAAT
5838370 TTGTTTCAAGGGAAATTGTCTCAAGGGAGA
1 TTGTTTCAAGGGAAATTGTCTCAAGGGAGA
5838400 TTGTCTCAAG
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
35 35 0.56
36 27 0.44
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.28
Consensus pattern (36 bp):
TTGTTTCAAGGGAAATTGTCTCAAGGGAGACAAAAT
Found at i:5838441 original size:36 final size:36
Alignment explanation
Indices: 5838385--5838668 Score: 426
Period size: 36 Copynumber: 7.9 Consensus size: 36
5838375 TCAAGGGAAA
* * *
5838385 TTGTCTCAAGGGAGATTGTCTCAAGGGAGACAAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
* *
5838421 TTGTTTTAAGGGAAACTGTCTCAAGGAAGACAAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
* *
5838457 TTGTGTCAAGGGAAACTGTCTCAAGAGAGACAAAACT
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA-T
* *
5838494 TTGTTTCAAGGGAAATTTTCTCAAGGGAGACAAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
5838530 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
5838566 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
* *
5838602 TTGTTTCAAGAGAAACTGTCTCAAAGGCA-ACAAAAT
1 TTGTTTCAAGGGAAACTGTCTC-AAGGGAGACAAAAT
* *
5838638 TTGTTTCAAGGGAAACTTTCTCAAAGGAGAC
1 TTGTTTCAAGGGAAACTGTCTCAAGGGAGAC
5838669 TGTCTCAAGG
Statistics
Matches: 224, Mismatches: 21, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
35 4 0.02
36 183 0.82
37 37 0.17
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (36 bp):
TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
Found at i:5838581 original size:109 final size:108
Alignment explanation
Indices: 5838385--5838668 Score: 435
Period size: 109 Copynumber: 2.6 Consensus size: 108
5838375 TCAAGGGAAA
* * * *
5838385 TTGTCTCAAGGGAGATTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAACTGTCTCAAGGAAG
1 TTGTTTCAAGGGAAATTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAG
5838450 ACAAAATTTGTGTCAAGGGAAACTGTCTCAAGAGAGACAAAACT
66 ACAAAATTTGTGTCAAGGGAAACTGTCTCAAGAGAGACAAAA-T
*
5838494 TTGTTTCAAGGGAAATTTTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAG
1 TTGTTTCAAGGGAAATTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAG
* *
5838559 ACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAAT
66 ACAAAATTTGTGTCAAGGGAAACTGTCTCAAGAGAGACAAAAT
* * * * *
5838602 TTGTTTCAAGAGAAACTGTCTCAAAGGCA-ACAAAATTTGTTTCAAGGGAAACTTTCTCAAAGGA
1 TTGTTTCAAGGGAAATTGTCTC-AAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGA
5838666 GAC
65 GAC
5838669 TGTCTCAAGG
Statistics
Matches: 161, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
108 56 0.35
109 105 0.65
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (108 bp):
TTGTTTCAAGGGAAATTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAG
ACAAAATTTGTGTCAAGGGAAACTGTCTCAAGAGAGACAAAAT
Found at i:5838680 original size:123 final size:124
Alignment explanation
Indices: 5838530--5838792 Score: 383
Period size: 123 Copynumber: 2.1 Consensus size: 124
5838520 GAGACAAAAT
* * * *
5838530 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGGGA
1 TTGTCTCAAGGGAGACTGTCTCAAGGGAGA-AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
*
5838594 GACAAAA-TTTGTTTCAAGAGAAACTGTCTCAA-AG-GCAACAAAATTTGTTTCAAGGGAAA
65 GACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGAGAG--ACAAAATTTGTTTCAAGAGAAA
* *
5838653 CTT-TCTCAAAGGAGACTGTCTCAAGGGAGAAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGT
1 -TTGTCTCAAGGGAGACTGTCTCAAGGGAGAAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
*
5838717 GACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAA
65 GACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAA
5838777 TTGTCTCAAGGGAGAC
1 TTGTCTCAAGGGAGAC
5838793 AAAATTTGTT
Statistics
Matches: 125, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
122 4 0.03
123 59 0.47
124 59 0.47
125 2 0.02
126 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (124 bp):
TTGTCTCAAGGGAGACTGTCTCAAGGGAGAAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
ACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAA
Found at i:5838704 original size:51 final size:51
Alignment explanation
Indices: 5838616--5838712 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
5838606 TTCAAGAGAA
*
5838616 ACTGTCTCAAAGGCAACAAAATTTGTTTCAAGGGAAACTTTCTCAAAGGAG
1 ACTGTCTCAAAGGCAACAAAATTTGTTTCAAGGGAAACTATCTCAAAGGAG
*
5838667 ACTGTCTC-AAGGGAGA-AAAATTTTGTTTCAAGGGAAACTATCTCAA
1 ACTGTCTCAAAGGCA-ACAAAA-TTTGTTTCAAGGGAAACTATCTCAA
5838713 GAGTGACAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 9 0.21
51 33 0.79
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (51 bp):
ACTGTCTCAAAGGCAACAAAATTTGTTTCAAGGGAAACTATCTCAAAGGAG
Found at i:5838725 original size:232 final size:231
Alignment explanation
Indices: 5838299--5839128 Score: 793
Period size: 232 Copynumber: 3.6 Consensus size: 231
5838289 CGAGCTAAGG
* * * *
5838299 TTGTTTCAAGGGAAACTGTATCAAGAGAGACAAAATTTGTTTCAAGGGAAATTGTCTCAAGGGAG
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAG
* * * * *
5838364 AAAAATTTGTTTCAAGGGAAATTGTCTC-AAGG-G---AGA-TTGTCTCAAGGGAGACAAAATTT
66 AAAAATTTGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTGTTTCAA-GG-G---AAACTT
* * * * *
5838423 GTTTTAAGGGAAACTGTCTCAAGGAAGACAAAATTTGTGTCAAGGGAAACTGTCTCAAGAGAGAC
126 GTCTCAAAGGAAACTGTCTCAAGGAAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAG-GAC
*
5838488 AAAACTTTGTTTCAAGGGAAATTTTCTCAAGGGAGACAAAAT
190 AAAACTTTGTTTCAAGGGAAATTGTCTCAAGGGAGACAAAAT
*
5838530 TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAG
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAG
5838595 ACAAAATTTGTTTCAAGAGAAACTGTCTCAAAGGCA-ACAAAATTTGTTTCAAGGGAAACTT-TC
66 A-AAAATTTGTTTCAAGAGAAACTGTCTCAAAGG-AGACAAAATTTGTTTCAAGGGAAACTTGTC
* *
5838658 TCAAAGGAGACTGTCTCAAGGGAGA-AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGTGACAA
129 TCAAAGGAAACTGTCTCAAGGAAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAG-GACAA
* *
5838722 AACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT
192 AACTTTGTTTCAAGGGAAATTGTCTCAAGGGAGACAAAAT
*
5838762 TTGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAA-TAGAT-TCAA---
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACT-G-TCTCAAGGG
* * * *
5838822 TG----ATGTTGTTTCAAGAGAAAAATGTCT-TAAGAGAGAC--AATTTGTTTTAAGGGAAACAT
64 AGAAAAAT-TTGTTTCAAGAG-AAACTGTCTCAAAG-GAGACAAAATTTGTTTCAAGGGAAAC--
* * *
5838880 ATTGAAAGATTTTGTGCTTAAAGGGAAATTGTCTCAA-GAAGACAAAATTTGTTTTAAGGGAAAC
124 -----------TTGT-CTCAAA-GGAAACTGTCTCAAGGAAGACAAAATTTGTTTCAAGGGAAAC
* ** * *
5838944 ATAT-T---GA--A-AGATTTTGTGTTTAAAGGGAAATTGTCTCAAGGGAGACAAACT
176 -TATCTCAAGAGGACAAAACTT-TGTTTCAAGGGAAATTGTCTCAAGGGAGACAAAAT
* *
5838995 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAAGGA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGGGA
* * *
5839060 GACAAAACTTTGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAATTTGTTTCAAGAGAAAC-TGT
65 GA-AAAA-TTTGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTGTTTCAAGGGAAACTTGT
5839124 CTCAA
128 CTCAA
5839129 GGGAGACAAA
Statistics
Matches: 503, Mismatches: 47, Indels: 101
0.77 0.07 0.16
Matches are distributed among these distances:
224 20 0.04
225 16 0.03
226 11 0.02
228 4 0.01
229 4 0.01
231 68 0.14
232 173 0.34
233 77 0.15
234 20 0.04
235 1 0.00
236 3 0.01
237 7 0.01
238 9 0.02
239 26 0.05
240 19 0.04
241 13 0.03
242 14 0.03
243 18 0.04
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (231 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAG
AAAAATTTGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTGTTTCAAGGGAAACTTGTCTC
AAAGGAAACTGTCTCAAGGAAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGGACAAAACT
TTGTTTCAAGGGAAATTGTCTCAAGGGAGACAAAAT
Found at i:5838767 original size:73 final size:72
Alignment explanation
Indices: 5838658--5839256 Score: 358
Period size: 73 Copynumber: 8.5 Consensus size: 72
5838648 GGAAACTTTC
* * * * *
5838658 TCAAAGGAGACTGTCTCAAGGGAGA-AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGTGACAA
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
5838722 AACTTTGTT
65 AA-TTTGTT
* * *
5838731 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATTGTCTCAAGGGAGACAAA
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
5838796 ATTTGTT
66 ATTTGTT
* * * *
5838803 TCAAGGGAAA-TAGAT-TC-A-A-TG-----ATGTTGTTTCAAGAGAAAAATGTCTTAAGAGAGA
1 TCAAGGGAAACT-G-TCTCAAGAGAGACAAAAT-TTGTTTCAAG-GGAAACTGTCTCAAGAGAGA
5838858 C--AATTTGTT
62 CAAAATTTGTT
* * * * * *
5838867 TTAAGGGAAACATAT-T-----GA-A-AGATTTTGTGCTTAAAGGGAAATTGTCTCAAGA-AGAC
1 TCAAGGGAAAC-TGTCTCAAGAGAGACAAAATTTGT--TTCAAGGGAAACTGTCTCAAGAGAGAC
5838923 AAAATTTGTT
63 AAAATTTGTT
* * * ** * * *
5838933 TTAAGGGAAACATAT-T---GA-A-A-GATTTTGTGTTTAAAGGGAAATTGTCTCAAGGGAGACA
1 TCAAGGGAAAC-TGTCTCAAGAGAGACAAAATT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACA
*
5838991 AACTTTGTT
64 AAATTTGTT
* * *
5839000 TCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAA-AGGAGACA
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGA-GAGACA
5839064 AAACTTTGTT
64 AAA-TTTGTT
* * *
5839074 TCAAGGGAAACTGTCTCAAAAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AA
5839139 AATTTGTT
65 AATTTGTT
** * * * * ** * ** * **
5839147 TTGAGAGGAAAATGTATCAAGTGAGACAAAATTCGTTTTTAGAGAAAACAATCTCAAGTGAGATT
1 TCAAG-GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAG-GGAAACTGTCTCAAGAGAGACA
*
5839212 AATTTTGTT
64 AAATTTGTT
* * * * *
5839221 TTAAGGAAAATTGTCTCCAGTGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
5839257 CTTAGGAAAA
Statistics
Matches: 426, Mismatches: 66, Indels: 68
0.76 0.12 0.12
Matches are distributed among these distances:
64 29 0.07
65 24 0.06
66 69 0.16
67 28 0.07
68 3 0.01
69 1 0.00
70 2 0.00
71 3 0.01
72 20 0.05
73 148 0.35
74 84 0.20
75 15 0.04
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (72 bp):
TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
ATTTGTT
Found at i:5838775 original size:160 final size:159
Alignment explanation
Indices: 5838512--5838812 Score: 507
Period size: 160 Copynumber: 1.9 Consensus size: 159
5838502 AGGGAAATTT
* *
5838512 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGG
1 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGG
*
5838577 GAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAAGGCA-ACAAAATTTG
66 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTC-AAGGCAGACAAAATTTG
5838641 TTTCAAGGGAAACTTTCTCAAAGGAGACTG
130 TTTCAAGGGAAACTTTCTCAAAGGAGACTG
*
5838671 TCTCAAGGGAGA-AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGTGACAAAACTTTGTTTCAA
1 TCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTTGTTTCAA
* *
5838735 GGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTT
64 GGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGGCAGACAAAATTT
5838800 GTTTCAAGGGAAA
129 GTTTCAAGGGAAA
5838813 TAGATTCAAT
Statistics
Matches: 133, Mismatches: 6, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
158 4 0.03
159 50 0.38
160 79 0.59
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (159 bp):
TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGG
GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGGCAGACAAAATTTGT
TTCAAGGGAAACTTTCTCAAAGGAGACTG
Found at i:5838782 original size:36 final size:36
Alignment explanation
Indices: 5838658--5839256 Score: 358
Period size: 37 Copynumber: 17.0 Consensus size: 36
5838648 GGAAACTTTC
* * *
5838658 TCAAAGGAGACTGTCTCAAGGGAGA-AAAATTTTGTT
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTT
* *
5838694 TCAAGGGAAACTATCTCAAGAGTGACAAAACTTTGTT
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTT
5838731 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
* * *
5838767 TCAAGAGAAATTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
*
5838803 TCAAGGGAAA-TAGAT-TC-A-A-TG-----ATGTTGTT
1 TCAAGGGAAACT-G-TCTCAAGAGAGACAAAAT-TTGTT
* * *
5838832 TCAAGAGAAAAATGTCTTAAGAGAGAC--AATTTGTT
1 TCAAG-GGAAACTGTCTCAAGAGAGACAAAATTTGTT
* * * *
5838867 TTAAGGGAAACATAT-T-----GA-A-AGATTTTGTGCT
1 TCAAGGGAAAC-TGTCTCAAGAGAGACAAAATTTGT--T
* *
5838898 TAAAGGGAAATTGTCTCAAGA-AGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
* * * **
5838933 TTAAGGGAAACATAT-T---GA-A-A-GATTTTGTGTT
1 TCAAGGGAAAC-TGTCTCAAGAGAGACAAAATT-TGTT
* * * *
5838964 TAAAGGGAAATTGTCTCAAGGGAGACAAACTTTGTT
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
* *
5839000 TCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTT
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTT
*
5839037 TCAAGAGAAACTGTCTCAA-AGGAGACAAAACTTTGTT
1 TCAAGGGAAACTGTCTCAAGA-GAGACAAAA-TTTGTT
*
5839074 TCAAGGGAAACTGTCTCAAAAGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
* *
5839110 TCAAGAGAAACTGTCTCAAGGGAGACAAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGAGAGAC-AAAATTTGTT
** * * * *
5839147 TTGAGAGGAAAATGTATCAAGTGAGACAAAATTCGTT
1 TCAAG-GGAAACTGTCTCAAGAGAGACAAAATTTGTT
** * ** * ** *
5839184 TTTAGAGAAAACAATCTCAAGTGAGATTAATTTTGTT
1 TCAAG-GGAAACTGTCTCAAGAGAGACAAAATTTGTT
* * * * *
5839221 TTAAGGAAAATTGTCTCCAGTGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
5839257 CTTAGGAAAA
Statistics
Matches: 449, Mismatches: 74, Indels: 80
0.74 0.12 0.13
Matches are distributed among these distances:
28 3 0.01
29 19 0.04
30 13 0.03
31 28 0.06
32 4 0.01
33 2 0.00
34 6 0.01
35 26 0.06
36 160 0.36
37 170 0.38
38 18 0.04
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (36 bp):
TCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTT
Found at i:5838808 original size:21 final size:21
Alignment explanation
Indices: 5838746--5838810 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
5838736 GGAAACTGTC
*
5838746 TCAAGAGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
*
5838767 TCAA--GAG---AAA-TTGTC
1 TCAAGGGAGACAAAATTTGTT
5838782 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
5838803 TCAAGGGA
1 TCAAGGGA
5838811 AATAGATTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
15 8 0.22
16 3 0.08
17 3 0.08
19 3 0.08
20 3 0.08
21 16 0.44
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:5838938 original size:66 final size:66
Alignment explanation
Indices: 5838773--5839010 Score: 270
Period size: 66 Copynumber: 3.6 Consensus size: 66
5838763 TGTTTCAAGA
* * * * * * *
5838773 GAAATTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATAGATTCAATGATGTTGT-TTCAAG
1 GAAATTGTCTCAAGGAAGACAAAATTTGTTTCAAGGGAAACATATTGAAAGATTTTGTGTTAAAG
5838837 AG
66 -G
* * * *
5838839 AAAAATGTCTTAA-GAGAGAC--AATTTGTTTTAAGGGAAACATATTGAAAGATTTTGTGCTTAA
1 GAAATTGTCTCAAGGA-AGACAAAATTTGTTTCAAGGGAAACATATTGAAAGATTTTGTG-TTAA
5838901 AGG
64 AGG
*
5838904 GAAATTGTCTCAA-GAAGACAAAATTTGTTTTAAGGGAAACATATTGAAAGATTTTGTGTTTAAA
1 GAAATTGTCTCAAGGAAGACAAAATTTGTTTCAAGGGAAACATATTGAAAGATTTTGTG-TTAAA
5838968 GG
65 GG
* * *
5838970 GAAATTGTCTCAAGGGAGACAAACTTTGTTTCAAGAGAAAC
1 GAAATTGTCTCAAGGAAGACAAAATTTGTTTCAAGGGAAAC
5839011 TGTCTCAAGG
Statistics
Matches: 147, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
64 34 0.23
65 14 0.10
66 76 0.52
67 23 0.16
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (66 bp):
GAAATTGTCTCAAGGAAGACAAAATTTGTTTCAAGGGAAACATATTGAAAGATTTTGTGTTAAAG
G
Found at i:5838970 original size:31 final size:31
Alignment explanation
Indices: 5838863--5838973 Score: 84
Period size: 31 Copynumber: 3.5 Consensus size: 31
5838853 AGAGACAATT
*
5838863 TGTTTTAAGGGAAACATATTGAAAGATTTTG
1 TGTTTAAAGGGAAACATATTGAAAGATTTTG
* * * * *
5838894 TGCTTAAAGGGAAA-TTGTCTCAAGAAGACAAAATTTG
1 TGTTTAAAGGGAAACATAT-T---G-A-A-AGATTTTG
5838931 T-TTT-AAGGGAAACATATTGAAAGATTTTG
1 TGTTTAAAGGGAAACATATTGAAAGATTTTG
5838960 TGTTTAAAGGGAAA
1 TGTTTAAAGGGAAA
5838974 TTGTCTCAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 20
0.66 0.12 0.22
Matches are distributed among these distances:
29 7 0.12
30 6 0.10
31 22 0.37
32 1 0.02
34 1 0.02
35 10 0.17
36 5 0.08
37 7 0.12
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (31 bp):
TGTTTAAAGGGAAACATATTGAAAGATTTTG
Found at i:5838989 original size:131 final size:133
Alignment explanation
Indices: 5838773--5839010 Score: 304
Period size: 130 Copynumber: 1.8 Consensus size: 133
5838763 TGTTTCAAGA
* * * *
5838773 GAAATTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATAGATTCAATGATGTTGTTTCAAGA
1 GAAATTGTCTCAAGGAAGACAAAATTTGTTTCAAGGGAAACAGATTCAAAGATGTTGTTTAAAGA
* * *
5838838 GAAAAATGTCTTAAGAGAGAC-AA-TTTGTTTTAAGGGAAACATATTGAAAGATTTTGTGCTTAA
66 GAAAAATGTCTCAAGAGAGACAAACTTTGTTTCAAGAGAAACATATTGAAAGATTTTGTGCTTAA
5838901 AGG
131 AGG
* * * *
5838904 GAAATTGTCTCAA-GAAGACAAAATTTGTTTTAAGGGAAACATATTGAAAGATTTTGTGTTTAAA
1 GAAATTGTCTCAAGGAAGACAAAATTTGTTTCAAGGGAAACAGATTCAAAGA-TGT-TGTTTAAA
* * *
5838968 G-GGAAATTGTCTCAAGGGAGACAAACTTTGTTTCAAGAGAAAC
64 GAGAAAAATGTCTCAAGAGAGACAAACTTTGTTTCAAGAGAAAC
5839011 TGTCTCAAGG
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
130 32 0.36
131 32 0.36
132 10 0.11
133 15 0.17
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (133 bp):
GAAATTGTCTCAAGGAAGACAAAATTTGTTTCAAGGGAAACAGATTCAAAGATGTTGTTTAAAGA
GAAAAATGTCTCAAGAGAGACAAACTTTGTTTCAAGAGAAACATATTGAAAGATTTTGTGCTTAA
AGG
Found at i:5839041 original size:22 final size:22
Alignment explanation
Indices: 5839015--5839081 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
5839005 AGAAACTGTC
5839015 TCAAGGGAGACAAAACTTTGTT
1 TCAAGGGAGACAAAACTTTGTT
*
5839037 TCAA--GAG---AAAC--TGTC
1 TCAAGGGAGACAAAACTTTGTT
*
5839052 TCAAAGGAGACAAAACTTTGTT
1 TCAAGGGAGACAAAACTTTGTT
5839074 TCAAGGGA
1 TCAAGGGA
5839082 AACTGTCTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
15 7 0.20
17 7 0.20
20 7 0.20
22 14 0.40
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (22 bp):
TCAAGGGAGACAAAACTTTGTT
Found at i:5839267 original size:72 final size:74
Alignment explanation
Indices: 5839141--5839290 Score: 198
Period size: 72 Copynumber: 2.1 Consensus size: 74
5839131 GAGACAAAAA
*
5839141 TTTGTTTTGAGAGGAAAATGTATCAAGTGAGACAAAATTCGTTTTTAGAGAAAACAATCTCAAGT
1 TTTGTTTTGAGAGGAAAATGTATCAAGTGAGACAAAATTCGTTCTTAGAGAAAACAATCTCAAGT
* *
5839206 GAGATTAAT
66 GAAATCAAT
* * * * *
5839215 TTTGTTTT-A-AGGAAAATTGTCTCCAGTGAGACAAAATTTGTTCTTAG-GAAAACTATCTCATG
1 TTTGTTTTGAGAGGAAAA-TGTATCAAGTGAGACAAAATTCGTTCTTAGAGAAAACAATCTCAAG
5839277 TGAAATCAAT
65 TGAAATCAAT
5839287 TTTG
1 TTTG
5839291 ATCTAAATAT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
72 32 0.48
73 27 0.40
74 8 0.12
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (74 bp):
TTTGTTTTGAGAGGAAAATGTATCAAGTGAGACAAAATTCGTTCTTAGAGAAAACAATCTCAAGT
GAAATCAAT
Found at i:5839357 original size:37 final size:36
Alignment explanation
Indices: 5839312--5839382 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
5839302 TCAAAATTTT
* *
5839312 GGGAAAATGTCTCAAGCAAGACGAAGTTTGTTTTGA
1 GGGAAAATGTCTCAAGCAAGACAAAATTTGTTTTGA
**
5839348 GGGAGAAATGTCTCAAGTGAGACAAAATTTGTTTT
1 GGGA-AAATGTCTCAAGCAAGACAAAATTTGTTTT
5839383 TAAGAAAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 4 0.13
37 26 0.87
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.30
Consensus pattern (36 bp):
GGGAAAATGTCTCAAGCAAGACAAAATTTGTTTTGA
Found at i:5839440 original size:19 final size:19
Alignment explanation
Indices: 5839418--5839478 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
5839408 GTTCCGAAGG
*
5839418 AAAATGTCTCAAGTGAGAC
1 AAAATGTTTCAAGTGAGAC
*
5839437 AAAATTTGTTTTAA--GAGA-
1 AAAA--TGTTTCAAGTGAGAC
5839455 AAAATGTTTCAAGTGAGAC
1 AAAATGTTTCAAGTGAGAC
5839474 AAAAT
1 AAAAT
5839479 TTGTTTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
16 7 0.21
18 8 0.24
19 13 0.38
21 6 0.18
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (19 bp):
AAAATGTTTCAAGTGAGAC
Found at i:5839467 original size:37 final size:37
Alignment explanation
Indices: 5839418--5839717 Score: 206
Period size: 37 Copynumber: 8.5 Consensus size: 37
5839408 GTTCCGAAGG
5839418 AAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAGA
1 AAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAGA
* *
5839455 AAAATGTTTCAAGTGAGACAAAATTTGTTTTTA-AGA
1 AAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAGA
* ** * ** *
5839491 AAAA-----CAACTTTG---AAATTTGTGTTCCGAAGG
1 AAAATGTCTCAAGTGAGACAAAATTTGTTTTAAG-AGA
* * * *
5839521 AAAGTGTCTCAAATGAGACGAAATTTATTTTAAGAGA
1 AAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAGA
* *
5839558 AAAATGTCTCAATTGAGACAAAATTTGTTTTTA-AGA
1 AAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAGA
* ** * ** *
5839594 AAAA-----CAACTTTG---AAATTTGTGTTCCGAAGG
1 AAAATGTCTCAAGTGAGACAAAATTTGTTTTAAG-AGA
*
5839624 AAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGA
1 AAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAGA
5839661 AAAATGTCTCAAGTGAGACAAAATTTGTTTTTAAGA-A
1 AAAATGTCTCAAGTGAGACAAAATTTG-TTTTAAGAGA
* *
5839698 AACAATGTCTCTAGCGAGAC
1 AA-AATGTCTCAAGTGAGAC
5839718 GATATTTTGT
Statistics
Matches: 201, Mismatches: 40, Indels: 43
0.71 0.14 0.15
Matches are distributed among these distances:
28 20 0.10
30 11 0.05
31 10 0.05
35 10 0.05
36 14 0.07
37 92 0.46
38 44 0.22
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (37 bp):
AAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAGA
Found at i:5839484 original size:21 final size:21
Alignment explanation
Indices: 5839426--5839484 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 21
5839416 GGAAAATGTC
5839426 TCAAGTGAGACAAAATTTGTT
1 TCAAGTGAGACAAAATTTGTT
*
5839447 TTAA--GAGA-AAAA--TGTT
1 TCAAGTGAGACAAAATTTGTT
5839463 TCAAGTGAGACAAAATTTGTT
1 TCAAGTGAGACAAAATTTGTT
5839484 T
1 T
5839485 TTAAGAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 7 0.23
18 8 0.26
19 8 0.26
21 8 0.26
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.34
Consensus pattern (21 bp):
TCAAGTGAGACAAAATTTGTT
Found at i:5839492 original size:103 final size:103
Alignment explanation
Indices: 5839313--5839699 Score: 666
Period size: 103 Copynumber: 3.8 Consensus size: 103
5839303 CAAAATTTTG
** * * * *
5839313 GGAAAATGTCTCAAGCAAGACGAAGTTTGTTTTGAGGGAGAAATGTCTCAAGTGAGACAAAATTT
1 GGAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTT
5839378 GTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGAA
66 GTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGAA
* *
5839416 GGAAAATGTCTCAAGTGAGACAAAATTTGTTTTAAGAGAAAAATGTTTCAAGTGAGACAAAATTT
1 GGAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTT
5839481 GTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGAA
66 GTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGAA
* * * *
5839519 GGAAAGTGTCTCAAATGAGACGAAATTTATTTTAAGAGAAAAATGTCTCAATTGAGACAAAATTT
1 GGAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTT
5839584 GTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGAA
66 GTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGAA
5839622 GGAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTT
1 GGAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTT
5839687 GTTTTTAAGAAAA
66 GTTTTTAAGAAAA
5839700 CAATGTCTCT
Statistics
Matches: 266, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 266 1.00
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (103 bp):
GGAAAATGTCTCAAGTGAGACGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATTT
GTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGAA
Found at i:5840894 original size:10 final size:10
Alignment explanation
Indices: 5840864--5840914 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
5840854 TTCCTTCTGT
*
5840864 CTTTCTTTTC
1 CTTTTTTTTC
5840874 CTTTTCCTTTTC
1 CTTTT--TTTTC
5840886 CTTTTTTTT-
1 CTTTTTTTTC
*
5840895 CTTTTTTTTT
1 CTTTTTTTTC
5840905 CTTTTTTTTC
1 CTTTTTTTTC
5840915 TTCCTCTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
9 9 0.25
10 17 0.47
12 10 0.28
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (10 bp):
CTTTTTTTTC
Found at i:5840898 original size:15 final size:15
Alignment explanation
Indices: 5840875--5840957 Score: 53
Period size: 15 Copynumber: 5.3 Consensus size: 15
5840865 TTTCTTTTCC
*
5840875 TTTTCCTTTTCCTTT
1 TTTTTCTTTTCCTTT
**
5840890 TTTTTCTTTTTTTTT
1 TTTTTCTTTTCCTTT
* *
5840905 CTTTTTTTTCTTCC-TC
1 -TTTTTCTT-TTCCTTT
*
5840921 TTTTTCTTTTCTATCTT
1 TTTTTCTTTTC-CT-TT
5840938 TTTTTC-TTTCTCTTT
1 TTTTTCTTTTC-CTTT
5840953 TTTTT
1 TTTTT
5840958 TTCTATATAT
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
14 3 0.06
15 26 0.50
16 14 0.27
17 9 0.17
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTCTTTTCCTTT
Found at i:5840899 original size:6 final size:6
Alignment explanation
Indices: 5840865--5840961 Score: 56
Period size: 6 Copynumber: 15.8 Consensus size: 6
5840855 TCCTTCTGTC
* * * * * *
5840865 TTTCTT TTCCTT TTCCTT TTCCTT TTTTTT CTTTTTT TTTCTT TTTTTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT -TTTCTT TTTCTT TTTCTT
* *
5840914 CTTCCTCTT TTTC-T TTTCTAT CTT-TT TTTCTT TCTCTT TTT-TT TTTCT
1 -TT--TCTT TTTCTT TTTCT-T TTTCTT TTTCTT TTTCTT TTTCTT TTTCT
5840962 ATATATTTTC
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
5 13 0.18
6 44 0.60
7 11 0.15
8 2 0.03
9 3 0.04
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTCTT
Found at i:5840902 original size:12 final size:12
Alignment explanation
Indices: 5840887--5840961 Score: 64
Period size: 15 Copynumber: 5.8 Consensus size: 12
5840877 TTCCTTTTCC
5840887 TTTTTTTTC--T
1 TTTTTTTTCTTT
5840897 TTTTTTTTCTTT
1 TTTTTTTTCTTT
5840909 TTTTTCTTCCTCTTT
1 TTTTT-TT--TCTTT
5840924 TTCTTTTCTATCTTT
1 TT-TTTT-T-TCTTT
*
5840939 TTTTCTTTCTCTT
1 TTTTTTTTCT-TT
5840952 TTTTTTTTCT
1 TTTTTTTTCT
5840962 ATATATTTTC
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
10 9 0.17
12 9 0.17
13 14 0.26
14 3 0.06
15 15 0.28
16 4 0.07
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:5840959 original size:29 final size:28
Alignment explanation
Indices: 5840896--5840979 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 28
5840886 CTTTTTTTTC
*
5840896 TTTTTTTTTC--TTTTTTTTCTTCCTCT
1 TTTTTTTTTCTATTTTTTTTCTTTCTCT
*
5840922 TTTTCTTTTCTATCTTTTTTTCTTTCTCT
1 TTTTTTTTTCTAT-TTTTTTTCTTTCTCT
5840951 TTTTTTTTTCTATATATTTTCTTCTTTCT
1 TTTTTTTTTCTAT-T-TTTT-TTCTTTCT
5840980 ATCTGTGTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 9 0.18
28 1 0.02
29 27 0.55
30 4 0.08
31 8 0.16
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTTTTTTTCTATTTTTTTTCTTTCTCT
Found at i:5840976 original size:31 final size:29
Alignment explanation
Indices: 5840907--5840979 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 29
5840897 TTTTTTTTCT
* *
5840907 TTTTTTTCTTCCTCTTTTTCTTTTCTATC
1 TTTTTTTCTTTCTCTTTTTCTTTTCTATA
*
5840936 TTTTTTTCTTTCTCTTTTTTTTTTCTATA
1 TTTTTTTCTTTCTCTTTTTCTTTTCTATA
5840965 TATTTTCTTCTTTCT
1 T-TTTT-TTCTTTCT
5840980 ATCTGTGTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
29 27 0.69
30 4 0.10
31 8 0.21
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.75
Consensus pattern (29 bp):
TTTTTTTCTTTCTCTTTTTCTTTTCTATA
Found at i:5842317 original size:28 final size:28
Alignment explanation
Indices: 5842276--5842329 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
5842266 CGATGTATAG
* *
5842276 ATGCTAATACAAAGATGCAAATATGCTC
1 ATGCAAATACAAAGATGCAAAAATGCTC
*
5842304 ATGCAAATGCAAAGATGCAAAAATGC
1 ATGCAAATACAAAGATGCAAAAATGC
5842330 AAAATGCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (28 bp):
ATGCAAATACAAAGATGCAAAAATGCTC
Found at i:5842329 original size:16 final size:15
Alignment explanation
Indices: 5842308--5842340 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
5842298 ATGCTCATGC
5842308 AAATGCAAAGATGCAA
1 AAATGCAAA-ATGCAA
5842324 AAATGCAAAATGCAA
1 AAATGCAAAATGCAA
5842339 AA
1 AA
5842341 TGTAAATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.12
Consensus pattern (15 bp):
AAATGCAAAATGCAA
Found at i:5842335 original size:7 final size:7
Alignment explanation
Indices: 5842304--5842351 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
5842294 AAATATGCTC
5842304 ATGC-AA
1 ATGCAAA
5842310 ATGCAAA
1 ATGCAAA
5842317 GATGCAAAA
1 -ATGC-AAA
5842326 ATGCAAA
1 ATGCAAA
5842333 ATGCAAA
1 ATGCAAA
*
5842340 ATG-TAA
1 ATGCAAA
5842346 ATGCAA
1 ATGCAA
5842352 CAAAGGAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
6 9 0.25
7 16 0.44
8 8 0.22
9 3 0.08
ACGTcount: A:0.54, C:0.12, G:0.17, T:0.17
Consensus pattern (7 bp):
ATGCAAA
Found at i:5844891 original size:29 final size:30
Alignment explanation
Indices: 5844859--5844915 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
5844849 CTTAGTGACC
*
5844859 AAAA-TAAAAGAAACAAAA-AGTAAAATACG
1 AAAATTAAAACAAACAAAACAG-AAAATACG
*
5844888 AAAATTAAAACAAATAAAACAGAAAATA
1 AAAATTAAAACAAACAAAACAGAAAATA
5844916 TAACATGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 4 0.17
30 18 0.75
31 2 0.08
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.12
Consensus pattern (30 bp):
AAAATTAAAACAAACAAAACAGAAAATACG
Found at i:5847228 original size:27 final size:27
Alignment explanation
Indices: 5847206--5847272 Score: 134
Period size: 27 Copynumber: 2.5 Consensus size: 27
5847196 TATAAAAACC
5847206 CTAAATCTCTTCACTTTCCTAAAAAAT
1 CTAAATCTCTTCACTTTCCTAAAAAAT
5847233 CTAAATCTCTTCACTTTCCTAAAAAAT
1 CTAAATCTCTTCACTTTCCTAAAAAAT
5847260 CTAAATCTCTTCA
1 CTAAATCTCTTCA
5847273 ACGATTTTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.37
Consensus pattern (27 bp):
CTAAATCTCTTCACTTTCCTAAAAAAT
Found at i:5848748 original size:28 final size:28
Alignment explanation
Indices: 5848708--5848764 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
5848698 ATATATAAGT
*
5848708 ATCATTTTGATAAGTCGTGACGATGTCA
1 ATCATTTTGATAAGTCATGACGATGTCA
5848736 ATCATTTTGATAAGTCATGACGATGTCA
1 ATCATTTTGATAAGTCATGACGATGTCA
5848764 A
1 A
5848765 ATCAACTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (28 bp):
ATCATTTTGATAAGTCATGACGATGTCA
Found at i:5849107 original size:2 final size:2
Alignment explanation
Indices: 5849100--5849163 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
5849090 CAAATACACC
5849100 AT AT AT AT AT 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 AT AT
5849142 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
5849164 TAGGCAATTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5849827 original size:60 final size:59
Alignment explanation
Indices: 5849776--5849889 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 59
5849766 TATGATTAGG
*
5849776 ATTCTAAATTAGT-TCTCAAAC-TTTTGAACATTTAAATATCATCCTCAAACTATAACCTTC
1 ATTCTAAATTAGTCCCT-AAACTTTTTGAACATTTAAATATCATCC-CAAACTATAA-CTTC
* *
5849836 ATTCTAAATTAGTCCCTAAACTTTTTGAACATTTTAATGTCATCCCAAACTATA
1 ATTCTAAATTAGTCCCTAAACTTTTTGAACATTTAAATATCATCCCAAACTATA
5849890 CGCATGTACT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
60 26 0.53
61 23 0.47
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.39
Consensus pattern (59 bp):
ATTCTAAATTAGTCCCTAAACTTTTTGAACATTTAAATATCATCCCAAACTATAACTTC
Found at i:5850693 original size:18 final size:18
Alignment explanation
Indices: 5850670--5850704 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5850660 ACTGAATATT
*
5850670 TGTCCCGAAGGACCACTA
1 TGTCCCGAACGACCACTA
5850688 TGTCCCGAACGACCACT
1 TGTCCCGAACGACCACT
5850705 GATAATCCCT
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:0.26, C:0.37, G:0.20, T:0.17
Consensus pattern (18 bp):
TGTCCCGAACGACCACTA
Found at i:5858091 original size:20 final size:20
Alignment explanation
Indices: 5858050--5858092 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
5858040 AATGAATATA
* *
5858050 TGTATCGATGCACTCTATAG
1 TGTATCGATGCACCCTACAG
5858070 TGTATCGATGCATCCCT-CAG
1 TGTATCGATGCA-CCCTACAG
5858090 TGT
1 TGT
5858093 GTGCATCGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (20 bp):
TGTATCGATGCACCCTACAG
Found at i:5881039 original size:45 final size:45
Alignment explanation
Indices: 5880960--5881150 Score: 249
Period size: 45 Copynumber: 4.2 Consensus size: 45
5880950 AATTTCCTTT
* * *
5880960 AACAGAAAATGTATACTAAAGTTTAAATGCATATGGGTGCATTATC
1 AACAGAAAA-GTATACTAGAGTTGAAATGCATATGGGTACATTATC
* * * *
5881006 AATAGAAAAGTATGCTAGAGTTGAAATGTATATGGGTACACTATC
1 AACAGAAAAGTATACTAGAGTTGAAATGCATATGGGTACATTATC
*
5881051 AACAGAAAAGTATACTATG-GTTGAAATGTATATGGGTACATTATC
1 AACAGAAAAGTATACTA-GAGTTGAAATGCATATGGGTACATTATC
* * * *
5881096 AACATAAAAGTATACAATAGTTGAAATGCATATGGGTGCATTATC
1 AACAGAAAAGTATACTAGAGTTGAAATGCATATGGGTACATTATC
5881141 AACAGAAAAG
1 AACAGAAAAG
5881151 ATGTTAGAAT
Statistics
Matches: 127, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
45 118 0.93
46 9 0.07
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.28
Consensus pattern (45 bp):
AACAGAAAAGTATACTAGAGTTGAAATGCATATGGGTACATTATC
Found at i:5881168 original size:45 final size:45
Alignment explanation
Indices: 5880960--5881172 Score: 207
Period size: 45 Copynumber: 4.7 Consensus size: 45
5880950 AATTTCCTTT
* * *
5880960 AACAGAAAATGTATACTA-AAGTTTAAATGCATATGGGTGCATTATC
1 AACAGAAAA-GTATGCTAGAA-TTGAAATGCATATGGGTACATTATC
* * * *
5881006 AATAGAAAAGTATGCTAGAGTTGAAATGTATATGGGTACACTATC
1 AACAGAAAAGTATGCTAGAATTGAAATGCATATGGGTACATTATC
* * *
5881051 AACAGAAAAGTATACTATG-GTTGAAATGTATATGGGTACATTATC
1 AACAGAAAAGTATGCTA-GAATTGAAATGCATATGGGTACATTATC
* * * * * *
5881096 AACATAAAAGTATACAATAGTTGAAATGCATATGGGTGCATTATC
1 AACAGAAAAGTATGCTAGAATTGAAATGCATATGGGTACATTATC
* *
5881141 AACAGAAAAG-ATGTTAGAATCTAAAATGCATA
1 AACAGAAAAGTATGCTAGAAT-TGAAATGCATA
5881173 ATGATGTATT
Statistics
Matches: 141, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
44 5 0.04
45 126 0.89
46 10 0.07
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (45 bp):
AACAGAAAAGTATGCTAGAATTGAAATGCATATGGGTACATTATC
Found at i:5882566 original size:45 final size:45
Alignment explanation
Indices: 5882512--5882766 Score: 296
Period size: 45 Copynumber: 5.6 Consensus size: 45
5882502 TTCTAACATA
* * *
5882512 TTTTCTGTTGATAATGCACTCATATGCATTTCAACTATCGTATAC
1 TTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
* * *
5882557 TTTTATGTTGATAATGTACCCATATACATTTCAACCATAGTATAC
1 TTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
* * * * * *
5882602 CTTTCTGTTGATAATGTACCCATATACATTTCAACTCTAGCATAC
1 TTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
*
5882647 TTTTATGTTGATAATGCACCCATATGCATTTCAACTTTAGTATAC
1 TTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
* * *
5882692 ATTTTATGTTGATAATGCA-CCATTATGCATTTCAACTATGGCATCC
1 -TTTTATGTTGATAATGCACCCA-TATGCATTTCAACTATAGTATAC
* *** *
5882738 TTTCATGCCAATAATACACCCATATGCAT
1 TTTTATGTTGATAATGCACCCATATGCAT
5882767 CATATTTTTA
Statistics
Matches: 181, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
45 141 0.78
46 40 0.22
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (45 bp):
TTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGTATAC
Found at i:5882855 original size:79 final size:79
Alignment explanation
Indices: 5882693--5882845 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 79
5882683 TTAGTATACA
* * *
5882693 TTTTATGTTGATAATGCACCATTATGCATTTCAACTATGGCATCCTTTCATGCCAATAATACACC
1 TTTTATGCTGACAATGCACCATTATACATTTCAACTATGGCATCCTTTCATGCCAATAATACACC
5882758 CATATGCATCATAT
66 CATATGCATCATAT
* * * * *
5882772 TTTTATGCTGACAATGTACCCA-TATACATTTCAGCTTTGGCATCCTTTCAAT-CCAATAATGCC
1 TTTTATGCTGACAATGCA-CCATTATACATTTCAACTATGGCATCCTTTC-ATGCCAATAATACA
5882835 CCCATATGCAT
64 CCCATATGCAT
5882846 TATTCTTTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 59 0.92
80 5 0.08
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (79 bp):
TTTTATGCTGACAATGCACCATTATACATTTCAACTATGGCATCCTTTCATGCCAATAATACACC
CATATGCATCATAT
Found at i:5883468 original size:19 final size:18
Alignment explanation
Indices: 5883440--5883475 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
5883430 GATTCGAAGT
5883440 TTACTGGTATCGATACCC
1 TTACTGGTATCGATACCC
5883458 TTACATGGTATCGATACC
1 TTAC-TGGTATCGATACC
5883476 ACCTTGCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (18 bp):
TTACTGGTATCGATACCC
Found at i:5889601 original size:45 final size:45
Alignment explanation
Indices: 5889552--5889753 Score: 262
Period size: 45 Copynumber: 4.5 Consensus size: 45
5889542 ATTCTAACAT
* * * * * *
5889552 CTTTTCTATTGATAATACACCCATGTGCATTTCAACTATCGTATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACCATAGTATA
* *
5889597 CTTTTATGTTGATAATGTACCCATATACATTTCAACCATAGTATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACCATAGTATA
* * *
5889642 CTTTTCTGCTGATAATGTACCCATATACATTTCAACCGTAGTATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACCATAGTATA
* *
5889687 TTTTTCTGTTGATAATGCACCCATATGCATTTCAACTC-TAGTATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAAC-CATAGTATA
5889732 CATTTTCTGTTGATAATGCACC
1 C-TTTTCTGTTGATAATGCACC
5889754 ATTTTGTTTT
Statistics
Matches: 139, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
45 118 0.85
46 21 0.15
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGCACCCATATACATTTCAACCATAGTATA
Found at i:5890325 original size:21 final size:19
Alignment explanation
Indices: 5890297--5890361 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 19
5890287 ATTTCTAGCC
5890297 CTTAGGTATCGATACCCCT
1 CTTAGGTATCGATACCCCT
5890316 GCTTATGGTATCGATACTACCCT
1 -CTTA-GGTATCGATAC--CCCT
*
5890339 ATTAGGGTATCGATACCCC-
1 CTTA-GGTATCGATACCCCT
5890358 CTTA
1 CTTA
5890362 ATATATCAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 3 0.08
20 7 0.18
21 11 0.28
22 14 0.36
23 4 0.10
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (19 bp):
CTTAGGTATCGATACCCCT
Found at i:5890350 original size:22 final size:21
Alignment explanation
Indices: 5890301--5890357 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
5890291 CTAGCCCTTA
* *
5890301 GGTATCGATACCCCTGCTTAT
1 GGTATCGATACCCCTGATTAG
5890322 GGTATCGATACTACCCT-ATTAG
1 GGTATCGATAC--CCCTGATTAG
5890344 GGTATCGATACCCC
1 GGTATCGATACCCC
5890358 CTTAATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 3 0.09
21 11 0.34
22 14 0.44
23 4 0.12
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (21 bp):
GGTATCGATACCCCTGATTAG
Found at i:5891172 original size:2 final size:2
Alignment explanation
Indices: 5891165--5891193 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5891155 TATTTCTCTA
5891165 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5891194 ATAAATGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5893584 original size:17 final size:17
Alignment explanation
Indices: 5893564--5893602 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
5893554 GAAAGTCAAC
*
5893564 GGTCAACGGTCCGGTCG
1 GGTCAACGGTACGGTCG
5893581 GGTCAACGGTACGGTCG
1 GGTCAACGGTACGGTCG
5893598 GGTCA
1 GGTCA
5893603 GACCGGTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.15, C:0.26, G:0.41, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTACGGTCG
Found at i:5895404 original size:39 final size:39
Alignment explanation
Indices: 5895335--5895531 Score: 288
Period size: 39 Copynumber: 5.1 Consensus size: 39
5895325 GTTGTTTTTA
* *
5895335 AAGCGAGATAAAAATCTGCTATTTCGAGTGAAACTATCTC
1 AAGCGAGAT-AAAATCTTCTGTTTCGAGTGAAACTATCTC
* *
5895375 AAGCAAGATAAAATCTTCTGTTTCAAGTGAAACTATCTC
1 AAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATCTC
* *
5895414 AAGCGAGATAAAGTCTTTTGTTTCGAGTGAAACTATCTC
1 AAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATCTC
*
5895453 AAGCGAGATAAAATCTTTTGTTTCGAGTGAAACTATCTC
1 AAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATCTC
* * *
5895492 AAGCGAAAT-AAATCCTCTGTTTCGAGTGAAAATATCTC
1 AAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATCTC
5895530 AA
1 AA
5895532 CTGAGATGTT
Statistics
Matches: 144, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
38 28 0.19
39 108 0.75
40 8 0.06
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (39 bp):
AAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATCTC
Found at i:5895681 original size:41 final size:42
Alignment explanation
Indices: 5895621--5895729 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 42
5895611 GCCCGAAGGT
* * * *
5895621 CTTATGGATGACCCAAAGGACTT-ATCATCTTGTTCGAAAGA
1 CTTATAGATGACCCAAAGGACTTAAGCATCATGCTCGAAAGA
** *
5895662 CTTATAGATGACCTGAAGGATTTAAGCATCATGCTCGAAAGA
1 CTTATAGATGACCCAAAGGACTTAAGCATCATGCTCGAAAGA
* * *
5895704 CTTACT-GATGGCTCGAAGGACTTAAG
1 CTTA-TAGATGACCCAAAGGACTTAAG
5895730 TTGATTCGAA
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 19 0.35
42 35 0.64
43 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (42 bp):
CTTATAGATGACCCAAAGGACTTAAGCATCATGCTCGAAAGA
Found at i:5895821 original size:59 final size:59
Alignment explanation
Indices: 5895729--5895849 Score: 174
Period size: 59 Copynumber: 2.1 Consensus size: 59
5895719 AAGGACTTAA
* * *
5895729 GTTGATTCGAAGTGTTGTGAATAGAGAAAAGGAAATGTTGACCCCTCTGGTGGGGCATT
1 GTTGATTCGAAGTGTTGAGAATAGAGAAAAGGAAATGTTAACCCCTCTGGAGGGGCATT
*
5895788 GTTGATTCGAAGTGTTGAGAATCA-A-ACAAAGGAAATGTTAACTCCTCTGGAGGGGCATT
1 GTTGATTCGAAGTGTTGAGAAT-AGAGA-AAAGGAAATGTTAACCCCTCTGGAGGGGCATT
5895847 GTT
1 GTT
5895850 TGTTTTAAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
58 1 0.02
59 54 0.96
60 1 0.02
ACGTcount: A:0.29, C:0.12, G:0.30, T:0.29
Consensus pattern (59 bp):
GTTGATTCGAAGTGTTGAGAATAGAGAAAAGGAAATGTTAACCCCTCTGGAGGGGCATT
Found at i:5898153 original size:21 final size:20
Alignment explanation
Indices: 5898108--5898157 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
5898098 GGGATCCGTG
5898108 ATTAATGCAATGTATACTAT
1 ATTAATGCAATGTATACTAT
*
5898128 -GTAATGTACAATGTATA-TAT
1 ATTAATG--CAATGTATACTAT
5898148 ATTAATGCAA
1 ATTAATGCAA
5898158 AAATGCAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
19 8 0.32
20 3 0.12
21 14 0.56
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (20 bp):
ATTAATGCAATGTATACTAT
Found at i:5900659 original size:8 final size:7
Alignment explanation
Indices: 5900636--5900699 Score: 56
Period size: 8 Copynumber: 8.1 Consensus size: 7
5900626 AAAACAATTA
5900636 AAAAAAT
1 AAAAAAT
5900643 AATTAAAAT
1 AA--AAAAT
5900652 AATAAAAT
1 AA-AAAAT
5900660 AACAATAAT
1 AA-AA-AAT
*
5900669 AAAAATT
1 AAAAAAT
5900676 AAAAAATT
1 AAAAAA-T
5900684 AAAAAATT
1 AAAAAA-T
5900692 AAAAAAT
1 AAAAAAT
5900699 A
1 A
5900700 GTAAAAACAA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
7 11 0.22
8 27 0.54
9 12 0.24
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAAAT
Found at i:5900667 original size:23 final size:23
Alignment explanation
Indices: 5900638--5900699 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
5900628 AACAATTAAA
5900638 AAAATAATTAAAATAATAAAA-T
1 AAAATAATTAAAATAATAAAATT
*
5900660 AACAATAATAAAAATTAA-AAAATT
1 AA-AATAATTAAAA-TAATAAAATT
5900684 AAAA-AATTAAAA-AATA
1 AAAATAATTAAAATAATA
5900700 GTAAAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
20 2 0.06
21 1 0.03
22 9 0.26
23 16 0.47
24 6 0.18
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (23 bp):
AAAATAATTAAAATAATAAAATT
Found at i:5900680 original size:7 final size:8
Alignment explanation
Indices: 5900669--5900698 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
5900659 TAACAATAAT
5900669 AAAAATTA
1 AAAAATTA
5900677 AAAAATTA
1 AAAAATTA
5900685 AAAAATTA
1 AAAAATTA
5900693 AAAAAT
1 AAAAAT
5900699 AGTAAAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAAATTA
Found at i:5901577 original size:2 final size:2
Alignment explanation
Indices: 5901570--5901595 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5901560 TTGATATTCG
5901570 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
5901596 TAGTGTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5902441 original size:14 final size:15
Alignment explanation
Indices: 5902424--5902457 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
5902414 TTACAATAGT
5902424 ATATTTTAAAGA-AA
1 ATATTTTAAAGATAA
*
5902438 ATATTTTAAGGATAA
1 ATATTTTAAAGATAA
5902453 ATATT
1 ATATT
5902458 GATGCGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (15 bp):
ATATTTTAAAGATAA
Found at i:5904071 original size:28 final size:29
Alignment explanation
Indices: 5904022--5904081 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
5904012 AAAAATAAAG
* *
5904022 AATACATAATTTTATTAAAAATT-TATTA
1 AATAAATAATTTTATTAAAAATTAAATTA
*
5904050 AATAAATAATTTATATT-CAAATTAAATTA
1 AATAAATAATTT-TATTAAAAATTAAATTA
5904079 AAT
1 AAT
5904082 CATTTAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (29 bp):
AATAAATAATTTTATTAAAAATTAAATTA
Found at i:5904152 original size:25 final size:27
Alignment explanation
Indices: 5904102--5904152 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 27
5904092 ATAAATTGAA
*
5904102 ATTATATATTAAAATAAATACTTTTTT
1 ATTATATATTAAAATAAATACGTTTTT
5904129 ATTA-ATA-TAAAATAAAATA-GTTTT
1 ATTATATATTAAAAT-AAATACGTTTT
5904153 AACAATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 10 0.45
26 8 0.36
27 4 0.18
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
ATTATATATTAAAATAAATACGTTTTT
Found at i:5905048 original size:18 final size:18
Alignment explanation
Indices: 5905021--5905055 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5905011 AGTAAAAAAT
* *
5905021 TACTTTAATAAAGTTCTC
1 TACTTCAATAAAATTCTC
5905039 TACTTCAATAAAATTCT
1 TACTTCAATAAAATTCT
5905056 TTATTTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.03, T:0.43
Consensus pattern (18 bp):
TACTTCAATAAAATTCTC
Found at i:5906434 original size:21 final size:21
Alignment explanation
Indices: 5906410--5906451 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
5906400 ACTTCACTTA
5906410 GTCTCTAGACAAAAAAAAGTT
1 GTCTCTAGACAAAAAAAAGTT
5906431 GTCTCTAGACAAAAAAAAGTT
1 GTCTCTAGACAAAAAAAAGTT
5906452 TACCTTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (21 bp):
GTCTCTAGACAAAAAAAAGTT
Found at i:5906659 original size:21 final size:21
Alignment explanation
Indices: 5906622--5906678 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
5906612 ACTAAAAATG
*
5906622 AAAATTAA-ATTAGAAAAAACTT
1 AAAAATAATATTA-AAAAAAC-T
* *
5906644 AAACAT-ATATTAAAAATACT
1 AAAAATAATATTAAAAAAACT
5906664 AAAAATAATATTAAA
1 AAAAATAATATTAAA
5906679 TTATTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 6 0.21
21 15 0.52
22 8 0.28
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAAATAATATTAAAAAAACT
Found at i:5906701 original size:49 final size:50
Alignment explanation
Indices: 5906580--5906704 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 50
5906570 CTTAAATTAT
* *
5906580 TTAAA-TATTTTAAAAA--AATTAAATA-TAAAAATACTAAAAATGAAAA
1 TTAAATTATTTTAAAAATTAAATATATATTAAAAATACTAAAAATGAAAA
** * *
5906626 TTAAATTA--GAAAAAACTTAAACATATATTAAAAATACTAAAAAT-AATA
1 TTAAATTATTTTAAAAA-TTAAATATATATTAAAAATACTAAAAATGAAAA
5906674 TTAAATTATTTTAAAAATTAAATATATATTA
1 TTAAATTATTTTAAAAATTAAATATATATTA
5906705 TAAACTATAG
Statistics
Matches: 63, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
45 5 0.08
46 5 0.08
47 2 0.03
48 17 0.27
49 29 0.46
50 5 0.08
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (50 bp):
TTAAATTATTTTAAAAATTAAATATATATTAAAAATACTAAAAATGAAAA
Found at i:5906862 original size:13 final size:13
Alignment explanation
Indices: 5906844--5906868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5906834 TTTTGTATCA
5906844 AAATATAGTTAGG
1 AAATATAGTTAGG
5906857 AAATATAGTTAG
1 AAATATAGTTAG
5906869 ATTTGTGTAT
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:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (13 bp):
AAATATAGTTAGG
Found at i:5906986 original size:3 final size:3
Alignment explanation
Indices: 5906978--5907035 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
5906968 GATTTATTAA
5906978 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5907026 ATT ATT ATT A
1 ATT ATT ATT A
5907036 ATTTAATTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:5908141 original size:109 final size:109
Alignment explanation
Indices: 5907947--5908204 Score: 312
Period size: 109 Copynumber: 2.4 Consensus size: 109
5907937 TGCATAAATC
* * *
5907947 CCCCATAGTTTAGCGTATTTTTGCATGTTGGTCAACC-G-CGAGGAACAAAGTTGTTATTTACCC
1 CCCCATAGTTTATCGTGTTTTTGCATGTTGGTC-ACCTGTAGAGGAACAAAGTTGTTATTTACCC
* * *
5908010 GTTTTCATGCATGTCATATATTTTTTGGTATATTTGTTGTTTAG-T
65 ATTTTCATGCATGTCATATA-TTTTTGGAATATTTGATGTTTAGTT
* *
5908055 CCCACATAGTTTATCGTGTTTTTGCATGTTGGTCACCTGTAGA-GACCAAAGTTGTTATTTATCC
1 CCC-CATAGTTTATCGTGTTTTTGCATGTTGGTCACCTGTAGAGGAACAAAGTTGTTATTTACCC
* *
5908119 ATTTTCATGCATGTTATGTATTTTTGGAATATTTGATGTTTAGTT
65 ATTTTCATGCATGTCATATATTTTTGGAATATTTGATGTTTAGTT
* * *
5908164 CCCCTTA-TTTAGGT-GTGTTTTTGCATTTTGGTCACGTGTAG
1 CCCCATAGTTTA--TCGTGTTTTTGCATGTTGGTCACCTGTAG
5908205 TGATTATTTA
Statistics
Matches: 131, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
107 4 0.03
108 55 0.42
109 70 0.53
110 2 0.02
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45
Consensus pattern (109 bp):
CCCCATAGTTTATCGTGTTTTTGCATGTTGGTCACCTGTAGAGGAACAAAGTTGTTATTTACCCA
TTTTCATGCATGTCATATATTTTTGGAATATTTGATGTTTAGTT
Found at i:5908890 original size:19 final size:20
Alignment explanation
Indices: 5908866--5908915 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
5908856 AAATGTTTTT
5908866 ATGAATAGTATTG-TACTGC
1 ATGAATAGTATTGATACTGC
** *
5908885 ATGAATAACATTGATACTGT
1 ATGAATAGTATTGATACTGC
5908905 ATGAATAGTAT
1 ATGAATAGTAT
5908916 CGACAATGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (20 bp):
ATGAATAGTATTGATACTGC
Found at i:5909706 original size:15 final size:16
Alignment explanation
Indices: 5909676--5909709 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
5909666 CTTTCAAAAA
5909676 TGAAAAATGAAAGTTT
1 TGAAAAATGAAAGTTT
*
5909692 TGAAAAA-GAATGTTT
1 TGAAAAATGAAAGTTT
5909707 TGA
1 TGA
5909710 TTTAAAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (16 bp):
TGAAAAATGAAAGTTT
Found at i:5916215 original size:2 final size:2
Alignment explanation
Indices: 5916203--5916279 Score: 129
Period size: 2 Copynumber: 38.5 Consensus size: 2
5916193 CAAAACAAAC
5916203 AT AT CAT AT AT AT AT AT AT AT -T 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 AT AT
*
5916245 AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5916280 ACGTTTTTAC
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
1 1 0.01
2 68 0.96
3 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5917302 original size:80 final size:77
Alignment explanation
Indices: 5917172--5917319 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 77
5917162 CGATAAAATA
* *
5917172 TTATTTAATTAATTCAATTAAATATACATTAAAGACTTATAATCTGAATTATAATC-TTTAATGT
1 TTATTTAATTAATTCAATTAAATATACATTAAAGACTTATAATCTAAATTACAATCTTTTAATGT
5917236 TTATTTAAAAAC
66 TTATTTAAAAAC
* * * *
5917248 TTATTTAATT-ATTCCGAATTATATATACCAATTAAAAGAGTTGTAATCTAAATTACATTCTTTT
1 TTATTTAATTAATT-C-AATTAAATATA-C-ATT-AAAGACTTATAATCTAAATTACAATCTTTT
5917312 AATGTTTA
61 AATGTTTA
5917320 CTTACTATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
75 3 0.05
76 11 0.18
77 10 0.17
78 1 0.02
79 3 0.05
80 21 0.35
81 11 0.18
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (77 bp):
TTATTTAATTAATTCAATTAAATATACATTAAAGACTTATAATCTAAATTACAATCTTTTAATGT
TTATTTAAAAAC
Found at i:5922880 original size:20 final size:20
Alignment explanation
Indices: 5922855--5922906 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
5922845 TGGAATAAGG
*
5922855 GTACCGATACACAACCGAAT
1 GTACCGACACACAACCGAAT
*
5922875 GTACCGACAAACAACCGAAT
1 GTACCGACACACAACCGAAT
5922895 GTACCGACACAC
1 GTACCGACACAC
5922907 TCCATGTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.33, G:0.15, T:0.12
Consensus pattern (20 bp):
GTACCGACACACAACCGAAT
Found at i:5928271 original size:22 final size:22
Alignment explanation
Indices: 5928244--5928291 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
5928234 TGTACACAAA
5928244 TATTATTA-AACTATTATTTATT
1 TATTATTATAACTATTA-TTATT
* *
5928266 TATTATTATTATTATTATTATT
1 TATTATTATAACTATTATTATT
5928288 TATT
1 TATT
5928292 TACATATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTATTATAACTATTATTATT
Found at i:5928927 original size:24 final size:22
Alignment explanation
Indices: 5928888--5928932 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
5928878 TCGGGGAGAG
5928888 GAAAAAGAAGAAAAGAAAAAAC
1 GAAAAAGAAGAAAAGAAAAAAC
*
5928910 GAAAAAGAAAAGATAAGAAAAAA
1 GAAAAAG--AAGAAAAGAAAAAA
5928933 GGGGAGAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
24 13 0.65
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (22 bp):
GAAAAAGAAGAAAAGAAAAAAC
Found at i:5929855 original size:36 final size:36
Alignment explanation
Indices: 5929780--5929880 Score: 152
Period size: 36 Copynumber: 2.9 Consensus size: 36
5929770 GTGGTCCTTT
* * *
5929780 ATATTTTTTGTTTA-TTTCATTT-TAGTCCTCAATA
1 ATATTTTTGGGTTATTTTCATTTATAGTACTCAATA
*
5929814 CTATTTTTGGGTTATTTTCATTTATAGTACTCAATA
1 ATATTTTTGGGTTATTTTCATTTATAGTACTCAATA
5929850 ATATTTTTGGGTTATTTTCATTTATAGTACT
1 ATATTTTTGGGTTATTTTCATTTATAGTACT
5929881 TGTACTGTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
34 11 0.18
35 8 0.13
36 41 0.68
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.56
Consensus pattern (36 bp):
ATATTTTTGGGTTATTTTCATTTATAGTACTCAATA
Found at i:5931002 original size:21 final size:21
Alignment explanation
Indices: 5930976--5931058 Score: 132
Period size: 21 Copynumber: 4.0 Consensus size: 21
5930966 CCGTTAGACA
*
5930976 GGGGGGAATCAGTACCCCCTT
1 GGGGGGAATCTGTACCCCCTT
*
5930997 GGGGGGAATCGGTACCCCCTT
1 GGGGGGAATCTGTACCCCCTT
5931018 GGGGGGAATCTGTA-CCCCTT
1 GGGGGGAATCTGTACCCCCTT
5931038 GGGGGAGAATCTGTACCCCCT
1 GGGGG-GAATCTGTACCCCCT
5931059 GGACAATCTG
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
20 11 0.19
21 42 0.72
22 5 0.09
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.20
Consensus pattern (21 bp):
GGGGGGAATCTGTACCCCCTT
Found at i:5932454 original size:20 final size:20
Alignment explanation
Indices: 5932429--5932476 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
5932419 CTAAATCCTT
* *
5932429 TTTCAAAATTTTATTTTGGC
1 TTTCAAAAATCTATTTTGGC
* *
5932449 TTTCAAAAATCTATTTTTGT
1 TTTCAAAAATCTATTTTGGC
5932469 TTTCAAAA
1 TTTCAAAA
5932477 GAAATCATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTCAAAAATCTATTTTGGC
Found at i:5933771 original size:21 final size:21
Alignment explanation
Indices: 5933746--5933835 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 21
5933736 CCGTTAGACA
*
5933746 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
* *
5933767 GGGGGAATTTGTTCCCCCTTGAGGGGGG
1 GGGGGAATCTGTACCCCC-T------GG
*
5933795 GGGGGAATCAGTA-CCCCTGG
1 GGGGGAATCTGTACCCCCTGG
5933815 GGGGGAATCTGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
5933836 ACAATCTGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
20 14 0.26
21 22 0.41
22 1 0.02
26 1 0.02
27 4 0.07
28 12 0.22
ACGTcount: A:0.14, C:0.24, G:0.42, T:0.19
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTGG
Found at i:5933818 original size:20 final size:20
Alignment explanation
Indices: 5933793--5933831 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
5933783 CCTTGAGGGG
5933793 GGGGGGGAATCAGTACCCCT
1 GGGGGGGAATCAGTACCCCT
*
5933813 GGGGGGGAATCTGTACCCC
1 GGGGGGGAATCAGTACCCC
5933832 CTGGACAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.26, G:0.41, T:0.15
Consensus pattern (20 bp):
GGGGGGGAATCAGTACCCCT
Found at i:5938572 original size:2 final size:2
Alignment explanation
Indices: 5938565--5938632 Score: 115
Period size: 2 Copynumber: 35.5 Consensus size: 2
5938555 ATGAAGGGTG
5938565 AT AT AT AT -T AT AT AT AT AT AT -T 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 AT AT
5938605 AT AT AT AT AT AT AT -T AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5938633 ATGTTCAAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
1 3 0.05
2 60 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:5944630 original size:20 final size:18
Alignment explanation
Indices: 5944595--5944635 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
5944585 AATCAAAACA
5944595 AAAAAGAAAAAGAAGAAG
1 AAAAAGAAAAAGAAGAAG
* *
5944613 AAAAAGAGAAAGTA-AAG
1 AAAAAGAAAAAGAAGAAG
5944630 AAAAAG
1 AAAAAG
5944636 GGACAAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (18 bp):
AAAAAGAAAAAGAAGAAG
Found at i:5945692 original size:32 final size:32
Alignment explanation
Indices: 5945651--5945738 Score: 122
Period size: 32 Copynumber: 2.8 Consensus size: 32
5945641 AAGCAATAGA
* *
5945651 GGGCATCTTTGAAGATTCAACATCAAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAATATTG
* *
5945683 GGGCATCTTTGGAGATTTAACATCGAATATTG
1 GGGCATCTTTGGAGATTCAACATCAAATATTG
* *
5945715 GGGCATTTTTGGGGATTCAACATC
1 GGGCATCTTTGGAGATTCAACATC
5945739 CTGATGTGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (32 bp):
GGGCATCTTTGGAGATTCAACATCAAATATTG
Found at i:5946057 original size:64 final size:61
Alignment explanation
Indices: 5945895--5946065 Score: 229
Period size: 61 Copynumber: 2.8 Consensus size: 61
5945885 AATATTTTGC
* *
5945895 AGCTCTTAGAGTCAATTTCAACTTCAGAACGAAGGATATTGGACTCAACAAACAACTTTAT
1 AGCTTTTAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTAT
* * *
5945956 GGCTTTTAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTCAATAAACAACTTT-T
1 AGCTTTTAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTAT
*
5946016 CAG-TTTCAATCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTC
1 -AGCTTT---T-AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTC
5946066 GAAGCGAACA
Statistics
Matches: 97, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
60 4 0.04
61 55 0.57
63 1 0.01
64 37 0.38
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (61 bp):
AGCTTTTAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTAT
Found at i:5946434 original size:34 final size:34
Alignment explanation
Indices: 5946375--5946482 Score: 118
Period size: 34 Copynumber: 3.3 Consensus size: 34
5946365 ACCCTTGGAT
* *
5946375 TTCAACTTCACGACAAAGGATATCCAATTCAAGG
1 TTCAACTTCATGACGAAGGATATCCAATTCAAGG
* * *
5946409 CTCAACTTCATGACGAAGGGA-ATCC-A--CGA-T
1 TTCAACTTCATGACGAA-GGATATCCAATTCAAGG
*
5946439 TTCAACTTCATGATGAAGGATATCCAATTCAAGG
1 TTCAACTTCATGACGAAGGATATCCAATTCAAGG
5946473 TTCAACTTCA
1 TTCAACTTCA
5946483 CAACGAAGAG
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
29 3 0.05
30 19 0.32
31 3 0.05
33 3 0.05
34 28 0.47
35 3 0.05
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (34 bp):
TTCAACTTCATGACGAAGGATATCCAATTCAAGG
Found at i:5946446 original size:30 final size:30
Alignment explanation
Indices: 5946410--5946520 Score: 98
Period size: 30 Copynumber: 3.5 Consensus size: 30
5946400 AATTCAAGGC
5946410 TCAACTTCATGACGAAGGGAATCCACGATT
1 TCAACTTCATGACGAAGGGAATCCACGATT
* * *
5946440 TCAACTTCATGATGAA-GGATATCCAATTCAAGGT
1 TCAACTTCATGACGAAGGGA-ATCC-A--CGA-TT
** *
5946474 TCAACTTCACAACGAAGAGGCCATCCACGATT
1 TCAACTTCATGACGAAG-GG-AATCCACGATT
5946506 TCAACTTCATGACGA
1 TCAACTTCATGACGA
5946521 TGGATATCCA
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
29 3 0.05
30 19 0.31
31 1 0.02
32 14 0.23
33 4 0.06
34 14 0.23
35 1 0.02
36 6 0.10
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (30 bp):
TCAACTTCATGACGAAGGGAATCCACGATT
Found at i:5946478 original size:64 final size:66
Alignment explanation
Indices: 5946372--5946536 Score: 235
Period size: 64 Copynumber: 2.5 Consensus size: 66
5946362 AACACCCTTG
* * **
5946372 GATTTCAACTTCACGACAAAGGATATCCAATTCAAGGCTCAACTTCATGACGAAG-GG-AATCCA
1 GATTTCAACTTCATGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGAGGCAATCCA
5946435 C
66 C
* * *
5946436 GATTTCAACTTCATGATGAAGGATATCCAATTCAAGGTTCAACTTCACAACGAAGAGGCCATCCA
1 GATTTCAACTTCATGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGAGGCAATCCA
5946501 C
66 C
* *
5946502 GATTTCAACTTCATGACGATGGATATCCAACTCAA
1 GATTTCAACTTCATGACGAAGGATATCCAATTCAA
5946537 AGAAGGAGTG
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 49 0.55
65 2 0.02
66 38 0.43
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (66 bp):
GATTTCAACTTCATGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGAGGCAATCCA
C
Found at i:5946889 original size:84 final size:84
Alignment explanation
Indices: 5946762--5947506 Score: 931
Period size: 84 Copynumber: 9.0 Consensus size: 84
5946752 GTCATCTGTC
* * * * *
5946762 AACAAAAGACCTTCGAGTTGGATTACACTCAGTTCAAAGGCACATCATTTGTAGAATAGCTCAAG
1 AACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATAACTCAAG
*
5946827 GCAAGAAGAGCTATCTGCT
66 GCAAGAAGGGCTATCTGCT
* * **
5946846 AACAAAATACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATAACTCAAG
1 AACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATAACTCAAG
* * *
5946911 GCTAGAAGGGTTATC-GGT
66 GCAAGAAGGGCTATCTGCT
* * * * *
5946929 CAAC-AAAGACATTTGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATATCTCAA
1 -AACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATAACTCAA
* *
5946993 GGTAAGAAGGGCTATCT-AT
65 GGCAAGAAGGGCTATCTGCT
* * *
5947012 CAACAAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCACATAATTTACAGTATAACTCAA
1 -AACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATAACTCAA
* * *
5947077 GGCTAGAAGGGTTATCTGCC
65 GGCAAGAAGGGCTATCTGCT
*
5947097 AACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGAACATCATTTGCAGTATAACTCAAG
1 AACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATAACTCAAG
*
5947162 GCAAGAAGGGCTATTTGC-
66 GCAAGAAGGGCTATCTGCT
* *
5947180 --C-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCATTTGCAGTATAGCTCAAG
1 AACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATAACTCAAG
* * * *
5947242 ACGAGAAGGGTTATCTGCC
66 GCAAGAAGGGCTATCTGCT
*
5947261 AACAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATAACTCAAG
1 AACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATAACTCAAG
*
5947326 GCGAGAAGGGCTATCTG-T
66 GCAAGAAGGGCTATCTGCT
* * ** * *
5947344 CAACAATGAA-ACCTTCGAGTTTGATTACACTCAGCTTAAAGGCACATCATTTGCAACATAGCTT
1 -AACAA--AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATAACTC
*
5947408 AAGGCAAGAAGGGTTATCTGC-
63 AAGGCAAGAAGGGCTATCTGCT
*
5947429 --C-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGTAGTATAACTCAAG
1 AACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATAACTCAAG
* * *
5947491 GCGAGAATGGTTATCT
66 GCAAGAAGGGCTATCT
5947507 ATCATCAAAT
Statistics
Matches: 576, Mismatches: 72, Indels: 30
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.00
80 136 0.24
81 2 0.00
82 1 0.00
83 74 0.13
84 292 0.51
85 67 0.12
86 2 0.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (84 bp):
AACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATAACTCAAG
GCAAGAAGGGCTATCTGCT
Found at i:5947252 original size:164 final size:166
Alignment explanation
Indices: 5946755--5947506 Score: 998
Period size: 164 Copynumber: 4.5 Consensus size: 166
5946745 CGAAAGAGTC
* * * * *
5946755 ATCTGTCAACAAAAGACCTTCGAGTTGGATTACACTCAGTTCAAAGGCACATCATTTGTAGAATA
1 ATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATA
* * *
5946820 GCTCAAGGCAAGAAGAGCTATCTGCTAACAAAATACCTTCGAGTTCGATTACACTCAGCTCAAAG
66 ACTCAAGGCAAGAAGGGCTATCTGC--ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
5946885 GCACATCATTTACAACATAACTCAAGGCTAGAAGGGTT
129 GCACATCATTTACAACATAACTCAAGGCTAGAAGGGTT
* * * * * *
5946923 ATCGGTCAAC-AAAGACATTTGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATA
1 ATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATA
* * * *
5946987 TCTCAAGGTAAGAAGGGCTATCTATCAACAAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAG
66 ACTCAAGGCAAGAAGGGCTATCT-GC-ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
* **
5947052 GCACATAATTTACAGTATAACTCAAGGCTAGAAGGGTT
129 GCACATCATTTACAACATAACTCAAGGCTAGAAGGGTT
*
5947090 ATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGAACATCATTTGCAGTATA
1 ATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATA
*
5947155 ACTCAAGGCAAGAAGGGCTATTTGC-C-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGC
66 ACTCAAGGCAAGAAGGGCTATCTGCACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGC
* * ** * * *
5947218 ATATCATTTGCAGTATAGCTCAAGACGAGAAGGGTT
131 ACATCATTTACAACATAACTCAAGGCTAGAAGGGTT
*
5947254 ATCTGCCAACAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATA
1 ATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATA
* * *
5947319 ACTCAAGGCGAGAAGGGCTATCTGTCAACAATGAA-ACCTTCGAGTTTGATTACACTCAGCTTAA
66 ACTCAAGGCAAGAAGGGCTATCTG-C-ACAA--AAGACCTTCGAGTTCGATTACACTCAGCTCAA
* * * *
5947383 AGGCACATCATTTGCAACATAGCTTAAGGCAAGAAGGGTT
127 AGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTT
*
5947423 ATCTG-C--C-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGTAGTATA
1 ATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATA
* * *
5947484 ACTCAAGGCGAGAATGGTTATCT
66 ACTCAAGGCAAGAAGGGCTATCT
5947507 ATCATCAAAT
Statistics
Matches: 526, Mismatches: 50, Indels: 19
0.88 0.08 0.03
Matches are distributed among these distances:
164 151 0.29
165 75 0.14
166 1 0.00
167 150 0.29
168 81 0.15
169 66 0.13
170 2 0.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (166 bp):
ATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATA
ACTCAAGGCAAGAAGGGCTATCTGCACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGC
ACATCATTTACAACATAACTCAAGGCTAGAAGGGTT
Found at i:5947927 original size:50 final size:50
Alignment explanation
Indices: 5947852--5947949 Score: 142
Period size: 50 Copynumber: 2.0 Consensus size: 50
5947842 AATCCATCAC
* * * *
5947852 AGAAGGAGTTGAATTAGCGTCAACTTTTAGCTTGATTCTATCACAGAAGG
1 AGAAGGAATTGAATCAGCGTCAACTTTTAGCTCGATTCTACCACAGAAGG
* *
5947902 AGAAGGAATTGGATCAGCGTCAACTTTTTGCTCGATTCTACCACAGAA
1 AGAAGGAATTGAATCAGCGTCAACTTTTAGCTCGATTCTACCACAGAA
5947950 AGAGGTAGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (50 bp):
AGAAGGAATTGAATCAGCGTCAACTTTTAGCTCGATTCTACCACAGAAGG
Found at i:5950361 original size:3 final size:3
Alignment explanation
Indices: 5950353--5950388 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
5950343 TAGATTAAAA
5950353 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5950389 TCCTAATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:5950484 original size:24 final size:25
Alignment explanation
Indices: 5950436--5950484 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
5950426 CTTTTAGAAA
5950436 TTAACATTTTCTTAATTTTTTATTT
1 TTAACATTTTCTTAATTTTTTATTT
* *
5950461 TTAATATTTTCTTCA-TTTTTATTT
1 TTAACATTTTCTTAATTTTTTATTT
5950485 ATTTATCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (25 bp):
TTAACATTTTCTTAATTTTTTATTT
Found at i:5961182 original size:11 final size:13
Alignment explanation
Indices: 5961150--5961179 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
5961140 TGGCCAAAGA
5961150 TGAAAAGGTATGT
1 TGAAAAGGTATGT
5961163 TGAAAAGGTATG-
1 TGAAAAGGTATGT
5961175 TGAAA
1 TGAAA
5961180 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:5968754 original size:49 final size:49
Alignment explanation
Indices: 5968700--5968795 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
5968690 ACAAACCAAT
* *
5968700 GATTCTTGAACCGTTGAAGAATAGGATCAAAGAAAATTAAACCCTTCAC
1 GATTCTTGAACCGCTGAAGAATAGGATCAAAGAAAATGAAACCCTTCAC
5968749 GATTCTTGAACCGCTGAAGAATAGGATCAAAGAAAATGAAACCCTTC
1 GATTCTTGAACCGCTGAAGAATAGGATCAAAGAAAATGAAACCCTTC
5968796 TTAATGGCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.23
Consensus pattern (49 bp):
GATTCTTGAACCGCTGAAGAATAGGATCAAAGAAAATGAAACCCTTCAC
Found at i:5973273 original size:20 final size:20
Alignment explanation
Indices: 5973248--5973285 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
5973238 TCCCTTGAGC
5973248 TGCTTGAAGAAAACATAAGT
1 TGCTTGAAGAAAACATAAGT
5973268 TGCTTGAAGAAAACATAA
1 TGCTTGAAGAAAACATAA
5973286 ACTGCTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (20 bp):
TGCTTGAAGAAAACATAAGT
Found at i:5973291 original size:20 final size:20
Alignment explanation
Indices: 5973247--5973292 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
5973237 TTCCCTTGAG
*
5973247 CTGCTTGAAGAAAACATAAG
1 CTGCTTGAAGAAAACATAAA
*
5973267 TTGCTTGAAGAAAACATAAA
1 CTGCTTGAAGAAAACATAAA
5973287 CTGCTT
1 CTGCTT
5973293 ATGACTTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.26
Consensus pattern (20 bp):
CTGCTTGAAGAAAACATAAA
Found at i:5990388 original size:134 final size:134
Alignment explanation
Indices: 5990080--5990721 Score: 824
Period size: 134 Copynumber: 4.8 Consensus size: 134
5990070 GAAGACAAGA
*
5990080 GGAACAAGTCTGCCT-AGATTCAATATTCCCTGAAGAATAGTGGAATGAATCAACATTTCCATAT
1 GGAACAAGTCTGCCTCA-ATTCAATATTCCCTGAAGAATAGTGGAATGAATCAACATTTCCAGAT
* * * * * * *
5990144 ATGATCTACCCTGAAGAAGTAGCGGAGCATATCCTTTTTCTTTTTCCAGATTTGATCTTCCCTAA
65 CTGATCTACCCTGAAGAAGTAGCGAAGTAGATCC----CCTTTTTCCATATTTGATCTTCCCTGA
*
5990209 AGAAGTAGT
126 AGAAGCAGT
* * * * *
5990218 GAAACAAGTCTGCCTCAATTCAATATTCCCTAAAGAATAGTAGAATGGATCAACATTTCTAGATC
1 GGAACAAGTCTGCCTCAATTCAATATTCCCTGAAGAATAGTGGAATGAATCAACATTTCCAGATC
*
5990283 TGATCTACCCTGAAGAAGTAGCGAAGTAGATCCCCTTTTTCCATATTTGATCTTCCCTGAAGAAC
66 TGATCTACCCTGAAGAAGTAGCGAAGTAGATCCCCTTTTTCCATATTTGATCTTCCCTGAAGAAG
5990348 CAGT
131 CAGT
* * * * * *
5990352 GGAACAAGTCTGACTCTATTCAATATTCCCTGAAGAACATTGGAATGAATCAATATTTCTAGATC
1 GGAACAAGTCTGCCTCAATTCAATATTCCCTGAAGAATAGTGGAATGAATCAACATTTCCAGATC
* *
5990417 TGATCTACCCTGAAGAAGTAGCGAAGTAGATCCCCTTTTTCCAGATTTGATCTTCCCTGAAGTAG
66 TGATCTACCCTGAAGAAGTAGCGAAGTAGATCCCCTTTTTCCATATTTGATCTTCCCTGAAGAAG
*
5990482 CACT
131 CAGT
* * * * *
5990486 AGAACAAGTCTGCCTCAATTGAATCTTCCCTGAAAAATAGTGGAATGAATCATCATTTCCAGATC
1 GGAACAAGTCTGCCTCAATTCAATATTCCCTGAAGAATAGTGGAATGAATCAACATTTCCAGATC
* * * * *
5990551 TGATCTACCCTGAAGAAGCAGCGGAGCATATCCCCTTTTTCCATATTTGATCTTCCCTGAAGTAG
66 TGATCTACCCTGAAGAAGTAGCGAAGTAGATCCCCTTTTTCCATATTTGATCTTCCCTGAAGAAG
5990616 CAGT
131 CAGT
* * * * * *
5990620 GGAACAAGTCTGCTTGAATTCAATCTTCTCTGAAGAACAGTGGAATGAATCAACATTTCCAGATA
1 GGAACAAGTCTGCCTCAATTCAATATTCCCTGAAGAATAGTGGAATGAATCAACATTTCCAGATC
* *
5990685 TGATCTACCCTAAAG-AGCAGCGGAA-TAGA-CCCCTTTT
66 TGATCTACCCTGAAGAAGTAGC-GAAGTAGATCCCCTTTT
5990722 CAGATTCGAT
Statistics
Matches: 444, Mismatches: 58, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
132 8 0.02
133 8 0.02
134 341 0.77
138 86 0.19
139 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (134 bp):
GGAACAAGTCTGCCTCAATTCAATATTCCCTGAAGAATAGTGGAATGAATCAACATTTCCAGATC
TGATCTACCCTGAAGAAGTAGCGAAGTAGATCCCCTTTTTCCATATTTGATCTTCCCTGAAGAAG
CAGT
Found at i:5990931 original size:6 final size:6
Alignment explanation
Indices: 5990906--5990973 Score: 75
Period size: 6 Copynumber: 10.8 Consensus size: 6
5990896 TTTTCGTCGG
*
5990906 ATAATT -TAATT ATCTAATT ATAATT ATAATT TTAAATT ATAATT ATAATT
1 ATAATT ATAATT A--TAATT ATAATT ATAATT AT-AATT ATAATT ATAATT
*
5990956 TTAAATT ATAATT ATAAT
1 AT-AATT ATAATT ATAAT
5990974 GTTTAATTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
5 5 0.09
6 32 0.60
7 10 0.19
8 6 0.11
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (6 bp):
ATAATT
Done.