Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 72 of 313
Found at i:24316194 original size:22 final size:22
Alignment explanation
Indices: 24316152--24316194 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24316142 CATAAAAAGG
*
24316152 GGAGGAGTTTGAATGGCATTTA
1 GGAGGAGTTTGAAGGGCATTTA
24316174 GGAGGAGTTT-AAGGGCTATTT
1 GGAGGAGTTTGAAGGGC-ATTT
24316195 TGAATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.26, C:0.05, G:0.37, T:0.33
Consensus pattern (22 bp):
GGAGGAGTTTGAAGGGCATTTA
Found at i:24317741 original size:16 final size:16
Alignment explanation
Indices: 24317686--24317741 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 16
24317676 TTCCATGAAC
24317686 TTTTATTATATATTCAT
1 TTTTATTATAT-TTCAT
* *
24317703 TTTAATTCT-TTTC-T
1 TTTTATTATATTTCAT
*
24317717 TTTT-GTATATTTCAT
1 TTTTATTATATTTCAT
24317732 TTTTATTATA
1 TTTTATTATA
24317742 ATTATTGACA
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
13 2 0.07
14 8 0.27
15 8 0.27
16 5 0.17
17 7 0.23
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (16 bp):
TTTTATTATATTTCAT
Found at i:24326702 original size:15 final size:15
Alignment explanation
Indices: 24326682--24326746 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
24326672 GTATCTTGGG
24326682 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
24326697 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
24326712 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
24326727 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
24326741 TTTCTT
1 TTTCTT
24326747 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 12 0.28
15 27 0.63
16 4 0.09
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:24326714 original size:30 final size:31
Alignment explanation
Indices: 24326678--24326746 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
24326668 TATCGTATCT
24326678 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTTATTC
24326708 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTTATTC
*
24326738 -GGTTTTCTT
1 TGGGTTTCTT
24326747 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.09, C:0.13, G:0.17, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTTATTC
Found at i:24330660 original size:23 final size:23
Alignment explanation
Indices: 24330633--24330677 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
24330623 AGATTTTTCC
24330633 TAAATATTATCACTAAATAATTT
1 TAAATATTATCACTAAATAATTT
24330656 TAAATATTATCACTAAATAATT
1 TAAATATTATCACTAAATAATT
24330678 CAAAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATTT
Found at i:24330683 original size:23 final size:23
Alignment explanation
Indices: 24330634--24330683 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
24330624 GATTTTTCCT
**
24330634 AAATATTATCACTAAATAATTTT
1 AAATATTATCACTAAATAATTCA
24330657 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATTCA
24330680 AAAT
1 AAAT
24330684 TTAAAAATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATATTATCACTAAATAATTCA
Found at i:24337864 original size:5 final size:5
Alignment explanation
Indices: 24337856--24337881 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24337846 GAAAATACGA
24337856 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
24337882 TATTCTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:24338816 original size:23 final size:23
Alignment explanation
Indices: 24338738--24338812 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
24338728 TAGATTTTTC
24338738 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
24338761 TTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
* *
24338784 CTAGATTTTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
24338807 CAAAAT
1 CTAAAT
24338813 TTTAAAATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.40
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:24349348 original size:11 final size:11
Alignment explanation
Indices: 24349334--24349369 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
24349324 TTAAAATAAT
24349334 TTTTTATTTTA
1 TTTTTATTTTA
*
24349345 TTTTTATTTTC
1 TTTTTATTTTA
*
24349356 TTTTAATTTTA
1 TTTTTATTTTA
24349367 TTT
1 TTT
24349370 CATCCTTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:24349359 original size:16 final size:16
Alignment explanation
Indices: 24349335--24349369 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24349325 TAAAATAATT
*
24349335 TTTTATTTTATTTTTA
1 TTTTATTTTAATTTTA
*
24349351 TTTTCTTTTAATTTTA
1 TTTTATTTTAATTTTA
24349367 TTT
1 TTT
24349370 CATCCTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATTTTAATTTTA
Found at i:24357687 original size:118 final size:118
Alignment explanation
Indices: 24357479--24357715 Score: 447
Period size: 118 Copynumber: 2.0 Consensus size: 118
24357469 TGTTTTGTTC
24357479 TTGATCATTTGATCGAAACTTAACACATACTTTACCCAGGTATAATACTTTGTTGCTCCAGTTTC
1 TTGATCATTTGATCGAAACTTAACACATACTTTACCCAGGTATAATACTTTGTTGCTCCAGTTTC
*
24357544 AACAAGTTGTTCATACTTTACCCGGGTAAAATAGATTTGTTATTCTTCCTGTG
66 AACAAGTTGTTCATACTTTACCCGGGTAAAATAGATTTGTTATTCATCCTGTG
* *
24357597 TTGATCATTTGATCGAAACTTAACACATACTTTACCCAGGTATAATTCTTTGTTGCTCTAGTTTC
1 TTGATCATTTGATCGAAACTTAACACATACTTTACCCAGGTATAATACTTTGTTGCTCCAGTTTC
24357662 AACAAGTTGTTCATACTTTACCCGGGTAAAATAGATTTGTTATTCATCCTGTG
66 AACAAGTTGTTCATACTTTACCCGGGTAAAATAGATTTGTTATTCATCCTGTG
24357715 T
1 T
24357716 GAAAAACTTA
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (118 bp):
TTGATCATTTGATCGAAACTTAACACATACTTTACCCAGGTATAATACTTTGTTGCTCCAGTTTC
AACAAGTTGTTCATACTTTACCCGGGTAAAATAGATTTGTTATTCATCCTGTG
Found at i:24375115 original size:48 final size:48
Alignment explanation
Indices: 24375040--24375179 Score: 199
Period size: 48 Copynumber: 2.9 Consensus size: 48
24375030 AACATAGTAA
* * * ** *
24375040 GATGCCAATGCCATATTCCAGATATGGTCTTACATGGGATCACATGTT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAAATC
* *
24375088 GATGCCAATGCCATGTCCCAGACATGGTCTGACATGGGATCTCAAATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAAATC
*
24375136 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
24375180 CATAACTCTA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAAATC
Found at i:24380775 original size:39 final size:39
Alignment explanation
Indices: 24380732--24380871 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 39
24380722 CTCGTTCAAG
* *
24380732 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCATACAA
1 TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAA
* *
24380771 TGCCTTCGGGACTTAACCCGGAATTA-A-TAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGG--TTATAGTAACTCACAC-AA
* * * *
24380811 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAA
1 TGCCTTCGGGA-CTTAGCCCGGTTATAGTAACTCA-CACAA
*
24380851 AGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
24380872 ACAGCATTCA
Statistics
Matches: 81, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
38 2 0.02
39 31 0.38
40 39 0.48
41 9 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAA
Found at i:24398396 original size:25 final size:25
Alignment explanation
Indices: 24398361--24398411 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
24398351 CTTATCAACA
*
24398361 ATTTTTAGGGAATTTAAGTCCTCAT
1 ATTTTTAGGGAATTCAAGTCCTCAT
*
24398386 ATTTTTGGGGAATTCAAGTCCTCAT
1 ATTTTTAGGGAATTCAAGTCCTCAT
24398411 A
1 A
24398412 CATTCCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (25 bp):
ATTTTTAGGGAATTCAAGTCCTCAT
Found at i:24400956 original size:42 final size:42
Alignment explanation
Indices: 24400857--24401012 Score: 181
Period size: 43 Copynumber: 3.6 Consensus size: 42
24400847 GCTCGTAGAG
* * *
24400857 TGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATTATCGA
1 TGCCAACGTCCCAGACATGGTCTTACACGAAATCAA-TATCGA
* *
24400900 TGCC-ACTGTCCCAGACAAGGTCTTACACGAAATC-GTATACGA
1 TGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAATAT-CGA
* *
24400942 TGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGA
1 TGCCAACGTCCCAGACATGGTCTTACACG-AAATCA-ATATCGA
*
24400986 TGCCAACGTCCCAGACGTGGTCTTACA
1 TGCCAACGTCCCAGACATGGTCTTACA
24401013 TGATAACACA
Statistics
Matches: 96, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
41 3 0.03
42 30 0.31
43 33 0.34
44 28 0.29
45 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (42 bp):
TGCCAACGTCCCAGACATGGTCTTACACGAAATCAATATCGA
Found at i:24401450 original size:8 final size:8
Alignment explanation
Indices: 24401439--24401463 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24401429 AAATTAGCCC
24401439 TCACATTT
1 TCACATTT
24401447 TCACATTT
1 TCACATTT
24401455 TCACATTT
1 TCACATTT
24401463 T
1 T
24401464 AGTCCTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:24426821 original size:42 final size:44
Alignment explanation
Indices: 24426721--24426913 Score: 187
Period size: 44 Copynumber: 4.5 Consensus size: 44
24426711 CAATGCTAAC
* * * * * *
24426721 GTCCCAGACGTGGTCTTACATGT-AATCA-ATTATTGATGACACT
1 GTCCCAGACATGGTCTTACACGTAAATCACA-AATCGATGCCAAT
* * * ** *
24426764 GTCCCAGATAGGGTCTTAGACG-AAATCGTATA-CGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAAATCACAAATCGATGCCAAT
24426806 GTCCCAGACATGGTCTTACACGTAAATCACAAATCGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAAATCACAAATCGATGCCAAT
* * *
24426850 GTCCCAGACATGGTCTTACACGTAAATCAAAAATTGATGCCAAC
1 GTCCCAGACATGGTCTTACACGTAAATCACAAATCGATGCCAAT
* * *
24426894 ATCCCAGACGTGGCCTTACA
1 GTCCCAGACATGGTCTTACA
24426914 TGATAACACA
Statistics
Matches: 125, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
42 26 0.21
43 30 0.24
44 69 0.55
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACGTAAATCACAAATCGATGCCAAT
Found at i:24429131 original size:30 final size:30
Alignment explanation
Indices: 24429057--24429119 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
24429047 CAATTTTCGT
* * * *
24429057 AAGGAAGCATTTGTAGTTATCTCTATTAAA
1 AAGGAAGCCTTTGTGGTGATCTCTAATAAA
*
24429087 AAGGAAGCCCTTGTGGTGATCTCTAATAAA
1 AAGGAAGCCTTTGTGGTGATCTCTAATAAA
24429117 AAG
1 AAG
24429120 AATGCTTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (30 bp):
AAGGAAGCCTTTGTGGTGATCTCTAATAAA
Found at i:24430128 original size:33 final size:33
Alignment explanation
Indices: 24430077--24430151 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
24430067 ATGGAATCAA
* *
24430077 AGAACAGAGTAAGAACAAATGACCATCCTATCT
1 AGAAAAGATTAAGAACAAATGACCATCCTATCT
*
24430110 ATAAAAGATTAAGAACAAATGACCATCCTATCT
1 AGAAAAGATTAAGAACAAATGACCATCCTATCT
24430143 AGAAAAGAT
1 AGAAAAGAT
24430152 GTCCTACTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.20
Consensus pattern (33 bp):
AGAAAAGATTAAGAACAAATGACCATCCTATCT
Found at i:24433386 original size:48 final size:48
Alignment explanation
Indices: 24433313--24433449 Score: 220
Period size: 48 Copynumber: 2.9 Consensus size: 48
24433303 CTCGCACTTT
24433313 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCG
* * **
24433361 AGGTGCCAATATCATGGCTCGAAGCCAAATCAATGAAGCTCGTACCCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCG
* *
24433409 AAGTACCAATATCATGGCCCAAAGCCAAATCAATGAAGCTC
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTC
24433450 CTAATGACAT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCG
Found at i:24438472 original size:48 final size:48
Alignment explanation
Indices: 24438401--24438595 Score: 273
Period size: 48 Copynumber: 4.1 Consensus size: 48
24438391 GCTCGGGAGT
* *
24438401 CTCGCACCCTAAGTGCCAATATCATGGCCCGAAGCCAAATCAATAAAG
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATAAAG
* * *
24438449 CTCGCACCCGAAGTGCCAATATCATGGCTCGAAGCCAAATCAATGAAG
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATAAAG
* * * *
24438497 CCCGTACCCGAAGTGCAAATGTCATGGCCCAAAGCCAAATCAATAAAG
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATAAAG
* * * *
24438545 CTCTCACCCAAAGTTCCAATATCATGGCCCAAAGCCAAATCAATGAAG
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATAAAG
24438593 CTC
1 CTC
24438596 CTAATGACAT
Statistics
Matches: 129, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 129 1.00
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.17
Consensus pattern (48 bp):
CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATAAAG
Found at i:24438492 original size:24 final size:24
Alignment explanation
Indices: 24438417--24438492 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
24438407 CCCTAAGTGC
*
24438417 CAATATCATGGCCCGAAGCCAAAT
1 CAATATCATGGCTCGAAGCCAAAT
* * * *
24438441 CAATA--A-AGCTCGCACCCGAAGT
1 CAATATCATGGCTCGAAGCC-AAAT
24438463 GCCAATATCATGGCTCGAAGCCAAAT
1 --CAATATCATGGCTCGAAGCCAAAT
24438489 CAAT
1 CAAT
24438493 GAAGCCCGTA
Statistics
Matches: 37, Mismatches: 9, Indels: 12
0.64 0.16 0.21
Matches are distributed among these distances:
21 7 0.19
22 4 0.11
24 14 0.38
26 4 0.11
27 8 0.22
ACGTcount: A:0.37, C:0.29, G:0.17, T:0.17
Consensus pattern (24 bp):
CAATATCATGGCTCGAAGCCAAAT
Found at i:24446993 original size:27 final size:27
Alignment explanation
Indices: 24446962--24447139 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24446952 TAAATTGTAC
24446962 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
24446989 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24447015 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
24447043 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
24447071 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24447098 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
24447125 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24447140 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:24447076 original size:82 final size:81
Alignment explanation
Indices: 24446963--24447118 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24446953 AAATTGTACA
* *
24446963 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
24447027 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
24447044 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
24447109 TGCGAGTTGA
65 TGCGAATTGA
24447119 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:24447130 original size:82 final size:81
Alignment explanation
Indices: 24446959--24447139 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
24446949 GATTAAATTG
* *
24446959 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
24447024 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
24447040 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
24447104 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
24447122 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
24447140 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:24456386 original size:6 final size:6
Alignment explanation
Indices: 24456363--24456415 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
24456353 CAGTCAGAAA
* * * * *
24456363 CAGATA CAGTTT CAGATT CAGATT CAAATC CAGATT CAGTTT CAGATT
1 CAGATT CAGATT CAGATT CAGATT CAGATT CAGATT CAGATT CAGATT
24456411 ACAGA
1 -CAGA
24456416 AACAGTTATG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
6 33 0.89
7 4 0.11
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (6 bp):
CAGATT
Found at i:24457262 original size:26 final size:27
Alignment explanation
Indices: 24457233--24457288 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
24457223 TCAATTGGAG
24457233 AAAAAG-GACTAAATCGCATAAAATGC
1 AAAAAGTGACTAAATCGCATAAAATGC
* *
24457259 -AAAAGTTACTAAATCGCGTAAAATGC
1 AAAAAGTGACTAAATCGCATAAAATGC
24457285 AAAA
1 AAAA
24457289 GTTGCATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 5 0.19
26 18 0.69
27 3 0.12
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.18
Consensus pattern (27 bp):
AAAAAGTGACTAAATCGCATAAAATGC
Found at i:24457289 original size:26 final size:26
Alignment explanation
Indices: 24457240--24457291 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
24457230 GAGAAAAAGG
24457240 ACTAAATCGCATAAAATGCAAAAGTT
1 ACTAAATCGCATAAAATGCAAAAGTT
*
24457266 ACTAAATCGCGTAAAATGCAAAAGTT
1 ACTAAATCGCATAAAATGCAAAAGTT
24457292 GCATTTTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.23
Consensus pattern (26 bp):
ACTAAATCGCATAAAATGCAAAAGTT
Found at i:24463678 original size:34 final size:34
Alignment explanation
Indices: 24463640--24463707 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
24463630 AAAATAAAGT
* **
24463640 AAAATAAAATATTTGAATTCCCCCTAAATCCCAC
1 AAAATAAAAGATTCAAATTCCCCCTAAATCCCAC
24463674 AAAATAAAAGATTCAAATTCCCCCTAAATCCCAC
1 AAAATAAAAGATTCAAATTCCCCCTAAATCCCAC
24463708 TAATTCCACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.46, C:0.28, G:0.03, T:0.24
Consensus pattern (34 bp):
AAAATAAAAGATTCAAATTCCCCCTAAATCCCAC
Found at i:24464224 original size:20 final size:20
Alignment explanation
Indices: 24464199--24464252 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
24464189 TTTAAGAGCC
24464199 ACACGCCCGTGTGGCGTGGG
1 ACACGCCCGTGTGGCGTGGG
24464219 ACACGCCCGTGTGGCGTGGG
1 ACACGCCCGTGTGGCGTGGG
24464239 ACACGCCCGTGTGG
1 ACACGCCCGTGTGG
24464253 GCAGGCCATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.11, C:0.31, G:0.43, T:0.15
Consensus pattern (20 bp):
ACACGCCCGTGTGGCGTGGG
Found at i:24465456 original size:42 final size:42
Alignment explanation
Indices: 24465393--24465548 Score: 154
Period size: 42 Copynumber: 3.7 Consensus size: 42
24465383 AGTACCACAC
* * ** *
24465393 CAATGTCATATCCCAGATATGGTCTTACATGGGATCTCATAT
1 CAATGTCATAGCCCAGATATGGTCTTACACGAAATATCATAT
* *
24465435 CAATG-CAATAGCCTAGCTATGGTCTTACACGAAATATCATAT
1 CAATGTC-ATAGCCCAGATATGGTCTTACACGAAATATCATAT
* * *
24465477 CAATGTCATATCCCAGATATGGTCTTACACGAAATCTCGTAAT
1 CAATGTCATAGCCCAGATATGGTCTTACACGAAATATCAT-AT
* * * *
24465520 -GATGCCATAACCCAAATATGGTCTTACAC
1 CAATGTCATAGCCCAGATATGGTCTTACAC
24465549 ATAGTCTCGG
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 91 0.96
43 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (42 bp):
CAATGTCATAGCCCAGATATGGTCTTACACGAAATATCATAT
Found at i:24465540 original size:84 final size:84
Alignment explanation
Indices: 24465393--24465548 Score: 206
Period size: 84 Copynumber: 1.9 Consensus size: 84
24465383 AGTACCACAC
* ** * * **
24465393 CAATGTCATATCCCAGATATGGTCTTACATGGGATCTCATATCAATGCAATAGCCTAGCTATGGT
1 CAATGTCATATCCCAGATATGGTCTTACACGAAATCTCATATCAATGCAATAACCCAAATATGGT
24465458 CTTACACGAAATATCATAT
66 CTTACACGAAATATCATAT
* * *
24465477 CAATGTCATATCCCAGATATGGTCTTACACGAAATCTCGTAAT-GATGCCATAACCCAAATATGG
1 CAATGTCATATCCCAGATATGGTCTTACACGAAATCTCAT-ATCAATGCAATAACCCAAATATGG
24465541 TCTTACAC
65 TCTTACAC
24465549 ATAGTCTCGG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
84 59 0.97
85 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (84 bp):
CAATGTCATATCCCAGATATGGTCTTACACGAAATCTCATATCAATGCAATAACCCAAATATGGT
CTTACACGAAATATCATAT
Found at i:24484784 original size:46 final size:46
Alignment explanation
Indices: 24484732--24484821 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
24484722 GAAGGAAATA
*
24484732 AAAACCTAATATAATAGAA-AAAATAAGTAAAACTAAAAATCTTAAT
1 AAAACCTAATATAATA-AAGAAAATAAATAAAACTAAAAATCTTAAT
* *
24484778 AAAACCTTATATAATAAAGAAAATAAATAAAACTAAAACTCTTA
1 AAAACCTAATATAATAAAGAAAATAAATAAAACTAAAAATCTTA
24484822 TTGCAATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 2 0.05
46 38 0.95
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.24
Consensus pattern (46 bp):
AAAACCTAATATAATAAAGAAAATAAATAAAACTAAAAATCTTAAT
Found at i:24486489 original size:36 final size:36
Alignment explanation
Indices: 24486432--24486530 Score: 155
Period size: 36 Copynumber: 2.8 Consensus size: 36
24486422 TGCACATATC
* *
24486432 ACAATGCCATAGCCCCGCTATGGTCTTTCAATTTAT
1 ACAATCCCATAGCCCCACTATGGTCTTTCAATTTAT
*
24486468 ACGATCCCATAGCCCCACTATGGTCTTTCAATTTAT
1 ACAATCCCATAGCCCCACTATGGTCTTTCAATTTAT
24486504 ACAATCCCATAG-CCCAGCTATGGTCTT
1 ACAATCCCATAGCCCCA-CTATGGTCTT
24486531 ACACGTATAC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 4 0.07
36 54 0.93
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.31
Consensus pattern (36 bp):
ACAATCCCATAGCCCCACTATGGTCTTTCAATTTAT
Found at i:24490440 original size:14 final size:14
Alignment explanation
Indices: 24490421--24490451 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
24490411 ATATTTCATA
24490421 TATTTTAATAAAAT
1 TATTTTAATAAAAT
24490435 TATTTTAATAAAAT
1 TATTTTAATAAAAT
24490449 TAT
1 TAT
24490452 CTTGAAGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTTTAATAAAAT
Found at i:24490549 original size:16 final size:16
Alignment explanation
Indices: 24490528--24490558 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24490518 TTTAAATGAT
24490528 TTTTTTAAAATTTTTA
1 TTTTTTAAAATTTTTA
*
24490544 TTTTTTGAAATTTTT
1 TTTTTTAAAATTTTT
24490559 GAATTTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTTTAAAATTTTTA
Found at i:24490606 original size:20 final size:18
Alignment explanation
Indices: 24490570--24490630 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
24490560 AATTTTATTC
* *
24490570 AATACTTTTAAAAATTTT
1 AATATTTTTCAAAATTTT
24490588 AATATTTTTCTACAAATTTAT
1 AATATTTTTC-A-AAATTT-T
*
24490609 AAT-TTTTTCAAAATTTA
1 AATATTTTTCAAAATTTT
24490626 AATAT
1 AATAT
24490631 ATATTATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 3 0.08
18 15 0.42
19 2 0.06
20 12 0.33
21 4 0.11
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.51
Consensus pattern (18 bp):
AATATTTTTCAAAATTTT
Found at i:24491559 original size:27 final size:29
Alignment explanation
Indices: 24491529--24491592 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 29
24491519 GGTATTCTTT
**
24491529 TTTTATTTATTTATTCTAA-ATTTTAGA-
1 TTTTATTTAAGTATTCTAATATTTTAGAG
*
24491556 TTTTTTTTAAGTATTCTAAGTTATTTTAGAG
1 TTTTATTTAAGTATTCTAA--TATTTTAGAG
24491587 TTTTAT
1 TTTTAT
24491593 GTTTCTTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 16 0.55
30 8 0.28
31 5 0.17
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (29 bp):
TTTTATTTAAGTATTCTAATATTTTAGAG
Found at i:24491760 original size:19 final size:19
Alignment explanation
Indices: 24491736--24491774 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
24491726 TTAAGAATAC
*
24491736 TTTTGTCCCAAAAGTATTT
1 TTTTGTCCCAAAAGCATTT
*
24491755 TTTTGTCCCCAAAGCATTT
1 TTTTGTCCCAAAAGCATTT
24491774 T
1 T
24491775 GTAGAAGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (19 bp):
TTTTGTCCCAAAAGCATTT
Found at i:24495745 original size:17 final size:17
Alignment explanation
Indices: 24495713--24495761 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
24495703 CGCACATCTA
*
24495713 CGAGCTCATTCAAAGATG
1 CGAGCTCA-CCAAAGATG
*
24495731 CGAGCTCAGCAAAGATG
1 CGAGCTCACCAAAGATG
24495748 CGAAGCTCACCAAA
1 CG-AGCTCACCAAA
24495762 TTTGCAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.36
18 18 0.64
ACGTcount: A:0.37, C:0.27, G:0.22, T:0.14
Consensus pattern (17 bp):
CGAGCTCACCAAAGATG
Found at i:24496440 original size:26 final size:26
Alignment explanation
Indices: 24496411--24496461 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
24496401 CTCATTTCCC
24496411 TTTTAAAATTTCTCATGTTATTTTTG
1 TTTTAAAATTTCTCATGTTATTTTTG
* * *
24496437 TTTTCATATTTCTCATTTTATTTTT
1 TTTTAAAATTTCTCATGTTATTTTT
24496462 AAATTTCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.10, G:0.04, T:0.67
Consensus pattern (26 bp):
TTTTAAAATTTCTCATGTTATTTTTG
Found at i:24498107 original size:16 final size:16
Alignment explanation
Indices: 24498088--24498140 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
24498078 AATAGGATTA
24498088 TAATCGAATAGAGTTG
1 TAATCGAATAGAGTTG
* * *
24498104 TAATTGAATAGAGCTA
1 TAATCGAATAGAGTTG
* *
24498120 TAATAGAATAGAATTG
1 TAATCGAATAGAGTTG
24498136 TAATC
1 TAATC
24498141 AGTAATTCAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (16 bp):
TAATCGAATAGAGTTG
Found at i:24501883 original size:19 final size:20
Alignment explanation
Indices: 24501861--24501900 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
24501851 TCTGTAACTT
24501861 TTTTTA-ATTTAAAATTTAG
1 TTTTTATATTTAAAATTTAG
* *
24501880 TTTTTATATTTTAATTTTAG
1 TTTTTATATTTAAAATTTAG
24501900 T
1 T
24501901 AGATTAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTTATATTTAAAATTTAG
Found at i:24501996 original size:31 final size:31
Alignment explanation
Indices: 24501961--24502021 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
24501951 AATTTTTTCG
*
24501961 TTAAAGTTAACAGTGTTAAAGGTAGAATAAC
1 TTAAAGTTAACAGTGTCAAAGGTAGAATAAC
*
24501992 TTAAAGTTAACGGTGTCAAAGGTAGAATAA
1 TTAAAGTTAACAGTGTCAAAGGTAGAATAA
24502022 TTTTTAAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (31 bp):
TTAAAGTTAACAGTGTCAAAGGTAGAATAAC
Found at i:24506642 original size:23 final size:23
Alignment explanation
Indices: 24506611--24506666 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
24506601 AAAAATTCAA
24506611 ATTTCGAGTTAA-TCAAATAGACTT
1 ATTT-GAGTTAACTCAAATA-ACTT
*
24506635 ATTTGAGTTAACTCGAATAACTT
1 ATTTGAGTTAACTCAAATAACTT
*
24506658 ATTCGAGTT
1 ATTTGAGTT
24506667 TTGAGTTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (23 bp):
ATTTGAGTTAACTCAAATAACTT
Found at i:24506796 original size:12 final size:12
Alignment explanation
Indices: 24506776--24506805 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24506766 TTAGTCTCTC
*
24506776 TCAACAAAAAAT
1 TCAAAAAAAAAT
24506788 TCAAAAAAAAAT
1 TCAAAAAAAAAT
24506800 TCAAAA
1 TCAAAA
24506806 TAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (12 bp):
TCAAAAAAAAAT
Found at i:24506819 original size:19 final size:19
Alignment explanation
Indices: 24506794--24506850 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
24506784 AAATTCAAAA
24506794 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
*
24506813 AATAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
24506832 AAAAATTTAAAAT-TTTAT
1 AAAAATTCAAAATATTTAT
24506850 A
1 A
24506851 TTTTTAAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.29
19 24 0.71
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:24507412 original size:29 final size:27
Alignment explanation
Indices: 24507357--24507412 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
24507347 TACTATTTCA
* *
24507357 AATTTTAAAATTTAGTTTTTATACTTT
1 AATTTTAAAATTGAGTGTTTATACTTT
*
24507384 AATTTTGAAAGATTGAGTGTTTGTACTTT
1 AATTTT-AAA-ATTGAGTGTTTATACTTT
24507413 TTTTGTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.25
28 3 0.12
29 15 0.62
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (27 bp):
AATTTTAAAATTGAGTGTTTATACTTT
Found at i:24508330 original size:14 final size:15
Alignment explanation
Indices: 24508303--24508334 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
24508293 TTTTAGAATT
24508303 TTTTTAATATTTTTA
1 TTTTTAATATTTTTA
24508318 TTTTTAATA-TTTTA
1 TTTTTAATATTTTTA
24508332 TTT
1 TTT
24508335 GCCTTGAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTAATATTTTTA
Found at i:24527051 original size:33 final size:33
Alignment explanation
Indices: 24527014--24527081 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
24527004 TTCGAGTCAA
*
24527014 AGAGTCAATTTTGATAAATCCACGGTGTTCTTT
1 AGAGTCAATTTTGATAAATCCACAGTGTTCTTT
24527047 AGAGTCAATTTTGATAAATCCACAGTGTTCTTT
1 AGAGTCAATTTTGATAAATCCACAGTGTTCTTT
24527080 AG
1 AG
24527082 CTCTAATACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (33 bp):
AGAGTCAATTTTGATAAATCCACAGTGTTCTTT
Found at i:24531072 original size:18 final size:18
Alignment explanation
Indices: 24531025--24531073 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
24531015 ATGAAAATAG
24531025 AAAATATTGTTTAAAATTA
1 AAAATATT-TTTAAAATTA
* *
24531044 AAAGA-AATTTTAAATTTA
1 AAA-ATATTTTTAAAATTA
24531062 AAAATATTTTTA
1 AAAATATTTTTA
24531074 TTTTTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 1 0.04
18 18 0.72
19 5 0.20
20 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (18 bp):
AAAATATTTTTAAAATTA
Found at i:24533441 original size:13 final size:13
Alignment explanation
Indices: 24533425--24533452 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24533415 TTTAAAGGCC
24533425 TAAATTAAAATTT
1 TAAATTAAAATTT
24533438 TAAATTAAAATTT
1 TAAATTAAAATTT
24533451 TA
1 TA
24533453 TTATATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAATTAAAATTT
Found at i:24533781 original size:21 final size:20
Alignment explanation
Indices: 24533752--24533791 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
24533742 TATTCATTTG
* *
24533752 AATTCTATTATGTCTTTTTTT
1 AATTATATTATAT-TTTTTTT
24533773 AATTATATTATATTTTTTT
1 AATTATATTATATTTTTTT
24533792 ATTTTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (20 bp):
AATTATATTATATTTTTTTT
Found at i:24535066 original size:18 final size:19
Alignment explanation
Indices: 24535026--24535071 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
24535016 TTAGACCTTC
*
24535026 AAAATTTTTAAATCTCTTT
1 AAAATTTTAAAATCTCTTT
24535045 AAAATTTTAAAAT-T-TTT
1 AAAATTTTAAAATCTCTTT
24535062 GAAAATTTTA
1 -AAAATTTTA
24535072 TTACACCCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 3 0.12
18 10 0.40
19 12 0.48
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (19 bp):
AAAATTTTAAAATCTCTTT
Found at i:24535637 original size:35 final size:35
Alignment explanation
Indices: 24535585--24535652 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
24535575 AGCAGTTGAT
* *
24535585 TTTCCTTTTATGTTTTTGGAAAATTAAAAATACCG
1 TTTCCTTTTATGGTTTTGGAAAACTAAAAATACCG
*
24535620 TTTCTTTTTATGGTTTTGGAAAACTAAAAATAC
1 TTTCCTTTTATGGTTTTGGAAAACTAAAAATAC
24535653 TCCACTTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTCCTTTTATGGTTTTGGAAAACTAAAAATACCG
Found at i:24540550 original size:14 final size:14
Alignment explanation
Indices: 24540531--24540561 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24540521 TATAGTCCTA
24540531 GGGTAGAGAGCACC
1 GGGTAGAGAGCACC
*
24540545 GGGTAGAGAGTACC
1 GGGTAGAGAGCACC
24540559 GGG
1 GGG
24540562 CAGATATGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.16, G:0.48, T:0.10
Consensus pattern (14 bp):
GGGTAGAGAGCACC
Found at i:24542369 original size:3 final size:3
Alignment explanation
Indices: 24542361--24542401 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
24542351 GGGGAGAGTG
*
24542361 TTA TTA TTA TTA TTA TTA TTA TTA TTA CTT- TTA CTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
24542402 CTATATACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:24542461 original size:31 final size:31
Alignment explanation
Indices: 24542424--24542496 Score: 137
Period size: 31 Copynumber: 2.4 Consensus size: 31
24542414 ACTGTGTTCT
*
24542424 TTTTTATTATTATTAGTAGTACGTAATAGTG
1 TTTTTATTATTAGTAGTAGTACGTAATAGTG
24542455 TTTTTATTATTAGTAGTAGTACGTAATAGTG
1 TTTTTATTATTAGTAGTAGTACGTAATAGTG
24542486 TTTTTATTATT
1 TTTTTATTATT
24542497 TTATTATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (31 bp):
TTTTTATTATTAGTAGTAGTACGTAATAGTG
Found at i:24542503 original size:3 final size:3
Alignment explanation
Indices: 24542489--24542849 Score: 66
Period size: 3 Copynumber: 118.3 Consensus size: 3
24542479 AATAGTGTTT
* ** **
24542489 TTA TTA TT- TTA TTA TTA TTT TTA CCA TT- TTA TTA CCA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* * * * * * *
24542536 CCTA CTA TTA TTA TTT TTA TTA ATA -TA GTA TTA TT- TTC TT- TTT
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * *
24542579 TTA -TA TTG TTA TTA TTA TTA GCA CGTA -TG TTA TTA TTA TTAA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A T-TA
* * * * *
24542625 TCA TTG TTA TTT TCTA TT- TTA TTA TTA CTT- TTA TTA CTA TTG TT-
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * *
24542669 TCTA TTA TTA TTA TT- TTCA TTA CTTCCA TTA TTA TTA TCA TCA TTT
1 T-TA TTA TTA TTA TTA TT-A TTA -TT--A TTA TTA TTA TTA TTA TTA
* * * *
24542715 TCTA TTA TCA TTA ATA TGTCA TTTG TTCA TTA TTA TTA TTA TTA TTT
1 T-TA TTA TTA TTA TTA T-T-A -TTA TT-A TTA TTA TTA TTA TTA TTA
** * * * * * *
24542762 TTA ACA CTA TTA TCA TCA TTA TATA TTTA CTT- TTT TTA ATA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA -TTA -TTA TTA TTA TTA TTA TTA
** * * *
24542809 CCA TTA -TA TT- TTA TTA TTA TTA TTA CTA TAA TTT TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
24542850 CCGTCCTATT
Statistics
Matches: 257, Mismatches: 68, Indels: 66
0.66 0.17 0.17
Matches are distributed among these distances:
2 26 0.10
3 194 0.75
4 28 0.11
5 7 0.03
6 2 0.01
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:24542511 original size:20 final size:20
Alignment explanation
Indices: 24542486--24542597 Score: 59
Period size: 20 Copynumber: 5.5 Consensus size: 20
24542476 CGTAATAGTG
24542486 TTTTTATTATTTTATTATTA
1 TTTTTATTATTTTATTATTA
** **
24542506 TTTTTACCATTTTATTACCA
1 TTTTTATTATTTTATTATTA
* **
24542526 TTATTATTAACCTACTATTATTA
1 TTTTTATT-A--TTTTATTATTA
* * *
24542549 TTTTTATTAATATAGTATTA
1 TTTTTATTATTTTATTATTA
*
24542569 TTTTCT-TT-TTTTA-TATTG
1 TTTT-TATTATTTTATTATTA
*
24542587 TTATTATTATT
1 TTTTTATTATT
24542598 AGCACGTATG
Statistics
Matches: 66, Mismatches: 20, Indels: 13
0.67 0.20 0.13
Matches are distributed among these distances:
17 1 0.02
18 9 0.14
19 5 0.08
20 34 0.52
21 2 0.03
22 1 0.02
23 14 0.21
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTTATTATTTTATTATTA
Found at i:24542523 original size:11 final size:12
Alignment explanation
Indices: 24542502--24542548 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 12
24542492 TTATTTTATT
*
24542502 ATTATTTTTACC
1 ATTATTATTACC
24542514 ATT-TTATTACC
1 ATTATTATTACC
24542525 ATTATTATTAACC
1 ATTATTATT-ACC
*
24542538 TACTATTATTA
1 -ATTATTATTA
24542549 TTTTTATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 10 0.33
12 8 0.27
13 4 0.13
14 8 0.27
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTATTATTACC
Found at i:24543293 original size:125 final size:125
Alignment explanation
Indices: 24543048--24543315 Score: 310
Period size: 125 Copynumber: 2.1 Consensus size: 125
24543038 TTCGAGAAAC
* * *
24543048 CGTGTCCTAACGTACTGGGTTTCGATTTTTCGTTTGATCTAAGTAACTGATTATCCTTTTAAATT
1 CGTGTCCTAACGTACTGGGTTTCGATTTTCCGTTTGATCTAAATAACTGAATATCCTTTTAAATT
* * * *
24543113 AAAATACATGAGTTTTAAATAAAACAAAAGCAATATTCCGTATTTAGAAATTCGA-GTAGT
66 AAAATACATGAGTTTTAAATAAAACAAAAGCAATACTCCATATCTAGAAAGTCGAGGT-GT
* * *
24543173 CGTGTCCTAACGTACTGGGTTTTGATTTTCCGTTTGATCTAAATATCTGAATGTCCTTTTTAAAA
1 CGTGTCCTAACGTACTGGGTTTCGATTTTCCGTTTGATCTAAATAACTGAATATCC-TTTT-AAA
* * * * * * *
24543238 TTTAAATACATGAGTTTTAAATTAAATAGAAGGCAA-GCT-CATA-CTCGAAGGTCGAGGTGT
64 TTAAAATACATGAGTTTTAAATAAAACA-AAAGCAATACTCCATATCTAGAAAGTCGAGGTGT
*
24543298 TGTGTCCTAACGTACTGG
1 CGTGTCCTAACGTACTGG
24543316 ATATAACATT
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
125 77 0.64
126 9 0.07
127 29 0.24
128 6 0.05
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.37
Consensus pattern (125 bp):
CGTGTCCTAACGTACTGGGTTTCGATTTTCCGTTTGATCTAAATAACTGAATATCCTTTTAAATT
AAAATACATGAGTTTTAAATAAAACAAAAGCAATACTCCATATCTAGAAAGTCGAGGTGT
Found at i:24549479 original size:40 final size:40
Alignment explanation
Indices: 24549428--24549575 Score: 167
Period size: 40 Copynumber: 3.7 Consensus size: 40
24549418 CGGATGATAT
* * * *
24549428 CCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGACTAAG-TCCCGAAGGCATTCGTGCGAGTTATTATAA
24549468 CCGGACTAAGAT-CCGAAGGCAATT-GTGCGAGTTATTATAA
1 CCGGACTAAG-TCCCGAAGGC-ATTCGTGCGAGTTATTATAA
** *
24549508 CCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAA
1 CCGGACTAAGTCCCGAAGGCATTCGTGCGAGTTATTATAA
**
24549548 CCGGGTTAAGTCCCGAAGGCATTCGTGC
1 CCGGACTAAGTCCCGAAGGCATTCGTGC
24549576 TGGTTGTTAC
Statistics
Matches: 99, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
39 4 0.04
40 92 0.93
41 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGACTAAGTCCCGAAGGCATTCGTGCGAGTTATTATAA
Found at i:24560812 original size:26 final size:26
Alignment explanation
Indices: 24560783--24560890 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
24560773 TGATACAAAT
* *
24560783 TGATAATGGGTTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
24560809 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24560835 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
24560861 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
24560887 TGAT
1 TGAT
24560891 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:24563769 original size:117 final size:118
Alignment explanation
Indices: 24563532--24563769 Score: 284
Period size: 117 Copynumber: 2.0 Consensus size: 118
24563522 TAAATCGAAT
** * *
24563532 AAAAAACGAAGCCCTGTACGGTAGGGCACGTTTTTTAAAATGATTAAGTATAAAAAATTGTCCTT
1 AAAAAACGAAGCCCAATACGGTAGGGCACGTTTTTTAAAACGATTAAGTATAAAAAATTATCCTT
* * * * * * *
24563597 ATTAAAAACTATTTGGGAATAAAATGTTGAATAAAATACTTAAATCGAATATA
66 ATTAAAAACAAATTGAGAATAAAATGTGGAATAAAAGAATTAAAACGAATATA
* * * *
24563650 AAAAAACGAA-CCCAATATGGTAGGGCACGTTTTTTAAAACGGTTAAGTATAGAAAATTATCTTT
1 AAAAAACGAAGCCCAATACGGTAGGGCACGTTTTTTAAAACGATTAAGTATAAAAAATTATCCTT
* *
24563714 ATGTTAAAAACAAATTGAGAATACATTGTGGAATAAAAGAATTAAAAC-AAT-TA
66 A--TTAAAAACAAATTGAGAATAAAATGTGGAATAAAAGAATTAAAACGAATATA
24563767 AAA
1 AAA
24563770 TTTGGGGAGG
Statistics
Matches: 101, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
117 52 0.51
118 13 0.13
119 36 0.36
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (118 bp):
AAAAAACGAAGCCCAATACGGTAGGGCACGTTTTTTAAAACGATTAAGTATAAAAAATTATCCTT
ATTAAAAACAAATTGAGAATAAAATGTGGAATAAAAGAATTAAAACGAATATA
Found at i:24563932 original size:46 final size:45
Alignment explanation
Indices: 24563857--24563950 Score: 104
Period size: 46 Copynumber: 2.1 Consensus size: 45
24563847 AATATAGAGA
*
24563857 AAATTAGCAATAGCAATAATAATGATAAAAATATAAAA-AT-ATGAT
1 AAATTAGCAATAACAATAATAATGAT-AAAATA-AAAACATAATGAT
* *
24563902 AAATATAGCAATAATAATATTAAT-AGTAAAATAAAAACATAATGAT
1 AAAT-TAGCAATAACAATAATAATGA-TAAAATAAAAACATAATGAT
24563948 AAA
1 AAA
24563951 ATAATATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
44 4 0.10
45 13 0.31
46 25 0.60
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (45 bp):
AAATTAGCAATAACAATAATAATGATAAAATAAAAACATAATGAT
Found at i:24564029 original size:22 final size:22
Alignment explanation
Indices: 24563994--24564035 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
24563984 GATAAAAGTG
24563994 AAAATTAAAATAATAACTATACT
1 AAAATTAAAATAATAA-TATACT
*
24564017 AAAA-TAACATAATAATATA
1 AAAATTAAAATAATAATATA
24564036 GTATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATTAAAATAATAATATACT
Found at i:24564177 original size:21 final size:22
Alignment explanation
Indices: 24564147--24564191 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
24564137 TAATAAAAAT
*
24564147 ATAATGAATAT-ATAATATTAA
1 ATAATGAATATAATAATATGAA
*
24564168 ATAATTAATATAATAATATGAA
1 ATAATGAATATAATAATATGAA
24564190 AT
1 AT
24564192 CAAAACTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
ATAATGAATATAATAATATGAA
Found at i:24564411 original size:18 final size:17
Alignment explanation
Indices: 24564390--24564429 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
24564380 AAAAAAACAA
24564390 AATAATAATAAT--GTG
1 AATAATAATAATAGGTG
24564405 AATAAT-ATAATAGGTG
1 AATAATAATAATAGGTG
24564421 AAT-ATAATA
1 AATAATAATA
24564430 TTTAAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.23
15 8 0.36
16 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (17 bp):
AATAATAATAATAGGTG
Found at i:24565784 original size:44 final size:44
Alignment explanation
Indices: 24565601--24566603 Score: 212
Period size: 44 Copynumber: 22.7 Consensus size: 44
24565591 GAAATTGCAG
* * * * * *
24565601 ATCTTATCTCCCT-AAGCAGTAATGGAGCAGATTGAAGACAGTAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATA-CAA
* * * * **
24565645 ATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCAT-C-A
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAG--ATACAA
* * * * * * * *
24565689 GTCTTATCTCTCTAAAGTTGCAATGGAGCAGA-CTGAAAATTGCAG
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATC-GAAGA-TACAA
* * *
24565734 ACCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGACAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGAT-ACAA
* * * * * ** ** *
24565778 ATCTTATCTCCATGTAGCGGTAATGGAGCAGATTTAAGCCACCA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATACAA
** * * * ** *
24565822 GCCTTATCTCCCTAAAGTTGCAGCGGAATAGGTTC-AAGATACAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCA-GATCGAAGATACAA
* * * * *
24565866 ATCTTATCTCCCTGAAGTTGCAGTGAAGCAGA-CTAAAAATTACAG
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATC-GAAGA-TACAA
* * * ** *
24565911 ATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCAAAGACGGCGA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGA-TACAA
* * * * ** ** **
24565955 ATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACCT
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATACAA
** * * *
24565999 GCCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTC-AAGATACAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCA-GATCGAAGATACAA
* * * *
24566043 GTCTTATCTACCTGAAGTTGCACTGGAGCAGA-CTGAAGATAGCAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATC-GAAGATA-CAA
* * * * * * *
24566088 ATCTTATCTCTCT-AAGCAGTAGTGGAGCAAATTGAAGATGGCGA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGAT-ACAA
** * * ** ** *
24566132 ATCTTATCTCTATGTAA-CGGCAATGGAGCAGATTTAAGCCACCAG
1 ATCTTATCTCCCTG-AAGCTGCAGTGGAGCAGATCGAAGATA-CAA
* * * * * ** * *
24566177 A--TTATTTCCCTGAAGTTACAGCGAAATAGATTGAGGATAGCAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATA-CAA
* * * ** * * * * *
24566220 ACCTTATCTCTCTGAAGTTTTAG-AGAGCAGGTTGAAGTTACAT
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATACAA
* * ** * * * *
24566263 GTCTCATCTCCCTGAAATTGCAGTAGAGTAGATTGAAGATAGCAG
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATA-CAA
* * * * * * *
24566308 ATCTTATCTCCCTAAAGTTGTAGCGGAGCAGATCAAATATAGTAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATA-CAA
* ** * * *
24566353 ACCTTATCTCTTTGAAGTTGCAGTAGAGCA-ACTTGAAG-TAGCAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGA-TCGAAGATA-CAA
* * * * *
24566397 GTCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAA-ATTACCAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGA-TA-CAA
* * * * * * * * *
24566442 CTCTTACCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTAGAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATACAA
* ** * * * * * *
24566486 ATCTCT-TCTCCTTGAAATTACATTGGAGTAGAT-TAAAACCACAA
1 ATCT-TATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGA-TACAA
* * * * *
24566530 GTCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-CTGAAGACAGCTA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATC-GAAGATA-CAA
*
24566575 ATCTTATCTCCCTGAAGTTGCAGTGGAGC
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGC
24566604 GGATTAAGGC
Statistics
Matches: 687, Mismatches: 231, Indels: 81
0.69 0.23 0.08
Matches are distributed among these distances:
42 5 0.01
43 48 0.07
44 366 0.53
45 265 0.39
46 2 0.00
47 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATACAA
Found at i:24565830 original size:133 final size:133
Alignment explanation
Indices: 24565592--24565843 Score: 407
Period size: 133 Copynumber: 1.9 Consensus size: 133
24565582 AACACTGATG
* * *
24565592 AAATTGCAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATTGAAGACAGTAAATCTTATCTCCA
1 AAATTGCAGACCTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGACAGCAAATCTTATCTCCA
* * *
24565657 TGTAGCGGCAATGGAGCAGATTTAAGCCATCAGTCTTATCTCTCTAAAGTTGCAATGGAGCAGAC
66 TGTAGCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAATGGAGCAGAC
24565722 TGA
131 TGA
* *
24565725 AAATTGCAGACCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGACAAATCTTATCTCC
1 AAATTGCAGACCTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGACAG-CAAATCTTATCTCC
*
24565789 ATGTAGCGGTAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCA
65 ATGTAGCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCA
24565844 GCGGAATAGG
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
132 1 0.01
133 108 0.99
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (133 bp):
AAATTGCAGACCTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGACAGCAAATCTTATCTCCA
TGTAGCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAATGGAGCAGAC
TGA
Found at i:24565896 original size:133 final size:133
Alignment explanation
Indices: 24565603--24565897 Score: 333
Period size: 133 Copynumber: 2.2 Consensus size: 133
24565593 AATTGCAGAT
* * * * * *
24565603 CTTATCTCCCTAAGCAGTAATGGAGCAGATTGAAGA-CAGTAAATCTTATCTCCATGTAGCGGCA
1 CTTATCTCCCTAAGCAGCAGTGAAGCAGATCGAAGATGA-CAAATCTTATCTCCATGTAGCGGCA
* * * * * * *
24565667 ATGGAGCAGATTTAAGCCATCAGTCTTATCTCTCTAAAGTTGCAATGGAGCAGACTGAAAATTGC
65 ATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAACGGAACAGACTCAAAATTAC
*
24565732 AGAC
130 AAAC
* * *
24565736 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACAAATCTTATCTCCATGTAGCGGTAA
1 CTTATCTCCCTAAGCAGCAGTGAAGCAGATCGAAGATGACAAATCTTATCTCCATGTAGCGGCAA
* * ** *
24565801 TGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAATAGGTTCAAGA-TACA
66 TGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAACGGAACAGACTCAAAATTACA
*
24565865 AAT
131 AAC
**
24565868 CTTATCTCCCTGAAGTTGCAGTGAAGCAGA
1 CTTATCTCCCT-AAGCAGCAGTGAAGCAGA
24565898 CTAAAAATTA
Statistics
Matches: 137, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
132 15 0.11
133 121 0.88
134 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (133 bp):
CTTATCTCCCTAAGCAGCAGTGAAGCAGATCGAAGATGACAAATCTTATCTCCATGTAGCGGCAA
TGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAACGGAACAGACTCAAAATTACA
AAC
Found at i:24565898 original size:177 final size:177
Alignment explanation
Indices: 24565690--24566238 Score: 740
Period size: 177 Copynumber: 3.1 Consensus size: 177
24565680 AAGCCATCAG
* * *
24565690 TCTTATCTCTCTAAAGTTGCAATGGAGCAGACTGAAAATTGCAGACCTTATCTCCCTAAGCAGTA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTA
* * *
24565755 GTGGAGCAGATCGAAGATGACAAATCTTATCTCCATGTAGCGGTAATGGAGCAGATTTAAGCCAC
66 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCAC
*
24565820 CAGCCTTATCTCCCTAAAGTTGCAGCGGAATAGGTTCAAGATACAAA
131 CAGCCTTATCTCCCTGAAGTTGCAGCGGAATAGGTTCAAGATACAAA
* * * *
24565867 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAAATTACAGATCTTATCTCCCTAAGCAGTA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTA
* *
24565932 GTGGAGCAGATCAAAGACGGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCAC
66 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCAC
* * * ** *
24565997 CTGCCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTCAAGATACAAG
131 CAGCCTTATCTCCCTGAAGTTGCAGCGGAATAGGTTCAAGATACAAA
* * * * * *
24566044 TCTTATCTACCTGAAGTTGCACTGGAGCAGACTGAAGATAGCAAATCTTATCTCTCTAAGCAGTA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTA
* * * *
24566109 GTGGAGCAAATTGAAGATGGCGAATCTTATCTCTATGTAACGGCAATGGAGCAGATTTAAGCCAC
66 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCAC
* * * * * * *
24566174 CAG-ATTATTTCCCTGAAGTTACAGCGAAATAGATTGAGGATAGCAAA
131 CAGCCTTATCTCCCTGAAGTTGCAGCGGAATAGGTTCAAGATA-CAAA
* *
24566221 CCTTATCTCTCTGAAGTT
1 TCTTATCTCCCTGAAGTT
24566239 TTAGAGAGCA
Statistics
Matches: 321, Mismatches: 50, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
176 28 0.09
177 293 0.91
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (177 bp):
TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCAC
CAGCCTTATCTCCCTGAAGTTGCAGCGGAATAGGTTCAAGATACAAA
Found at i:24566317 original size:45 final size:45
Alignment explanation
Indices: 24565824--24566602 Score: 338
Period size: 44 Copynumber: 17.6 Consensus size: 45
24565814 AGCCACCAGC
* * * * *
24565824 CTTATCTCCCTAAAGTTGCAGCGGAATAGGTTCAAGATA-CAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* * * * * *
24565868 CTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAAATTA-CAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGA-TAGCAAAT
** * * ** ** *
24565913 CTTATCTCCCT-AAGCAGTAGTGGAGCAGATCAAAGACGGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* * ** * * * ** ****
24565957 CTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCA-CCTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* * * * *
24566001 CTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTCAAGATA-CAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* * * *
24566045 CTTATCTACCTGAAGTTGCACTGGAGCAGACTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* ** * * * * *
24566090 CTTATCTCTCT-AAGCAGTAGTGGAGCAAATTGAAGATGGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
** * * * ** * *
24566134 CTTATCTCTATGTAACG--GCAATGGAGCAGATTTAAGCCACCAGA-
1 CTTATCTCCCTG-AA-GTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* * * * * * *
24566178 -TTATTTCCCTGAAGTTACAGCGAAATAGATTGAGGATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* ** * * * * **
24566222 CTTATCTCTCTGAAGTTTTAG-AGAGCAGGTTGAAGTTA-CATGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* * * *
24566265 CTCATCTCCCTGAAATTGCAGTAGAGTAGATTGAAGATAGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* * * * ** * * *
24566310 CTTATCTCCCTAAAGTTGTAGCGGAGCAGATCAAATATAGTAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
** * * *
24566355 CTTATCTCTTTGAAGTTGCAGTAGAGCA-ACTTGAAG-TAGCAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TTGAAGATAGCAAAT
** * * *
24566399 CTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAA-ATTACCAACT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGA-TAGCAAAT
* * * * * *
24566444 CTTACCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTAG-AAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* * * * *
24566488 CTCT-TCTCCTTGAAATTACATTGGAGTAGATT-AA-A-ACCACAAGT
1 CT-TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCA-AA-T
* * *
24566532 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGACAGCTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
24566577 CTTATCTCCCTGAAGTTGCAGTGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
24566603 CGGATTAAGG
Statistics
Matches: 538, Mismatches: 171, Indels: 51
0.71 0.22 0.07
Matches are distributed among these distances:
41 2 0.00
42 3 0.01
43 46 0.09
44 272 0.51
45 207 0.38
46 5 0.01
47 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
Found at i:24566447 original size:134 final size:133
Alignment explanation
Indices: 24566213--24566475 Score: 289
Period size: 134 Copynumber: 2.0 Consensus size: 133
24566203 TAGATTGAGG
** ** *
24566213 ATAGCAAACCTTATCTCTCTGAAGTTTTAGAGAGCAGGTTGAAGTTACATGTCTCATCTCCCTGA
1 ATAGCAAACCTTATCTCTCTGAAGTTGCAGAGAGCAACTTGAAGTTACAAGTCTCATCTCCCTGA
** * * **
24566278 AATTGCAGTAGAGTAGATTGAAGATAGCAGATCTTATCTCCCTAAAGTTGTAGCGGAGCAGATCA
66 AATTGCAGTAGAACAGATTGAAGATACCAGATCTTACCTCCCTAAAGTTCCAGCGGAGCAGATCA
24566343 AAT
131 AAT
* * *
24566346 ATAGTAAACCTTATCTCTTTGAAGTTGCAGTAGAGCAACTTGAAG-TAGCAAGTCTTATCTCCCT
1 ATAGCAAACCTTATCTCTCTGAAGTTGCAG-AGAGCAACTTGAAGTTA-CAAGTCTCATCTCCCT
* * * * * *
24566410 GAAGTTGCAGTGGAACAGGTTGAA-ATTACCA-ACTCTTACCTCCTTGAAGTTCCAGCGGAGTAG
64 GAAATTGCAGTAGAACAGATTGAAGA-TACCAGA-TCTTACCTCCCTAAAGTTCCAGCGGAGCAG
24566473 ATC
127 ATC
24566476 GAAGCTAGAA
Statistics
Matches: 106, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
133 30 0.28
134 76 0.72
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (133 bp):
ATAGCAAACCTTATCTCTCTGAAGTTGCAGAGAGCAACTTGAAGTTACAAGTCTCATCTCCCTGA
AATTGCAGTAGAACAGATTGAAGATACCAGATCTTACCTCCCTAAAGTTCCAGCGGAGCAGATCA
AAT
Found at i:24566609 original size:89 final size:87
Alignment explanation
Indices: 24566263--24566610 Score: 254
Period size: 89 Copynumber: 3.9 Consensus size: 87
24566253 GAAGTTACAT
* * * * *
24566263 GTCTCATCTCCCTGAAATTGCAGTAGAGTAGATTGAAGATAGCAGATCTTATCTCCCTAAAGTTG
1 GTCTTATCTCCCTGAAGTTGCAGTAGAGTAGACTGAAG-CAGCA-ATCTTATCTCCCTGAAGTTG
* * * **
24566328 TAGCGGAGCAGATCAAATATAGTAA
64 CAGTGGAGCAGATTAAA-ATACCAA
** ** * *
24566353 ACCTTATCTCTTTGAAGTTGCAGTAGAGCA-ACTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTG
1 GTCTTATCTCCCTGAAGTTGCAGTAGAGTAGAC-TGAAGCAGCAA-TCTTATCTCCCTGAAGTTG
* * *
24566417 CAGTGGAACAGGTTGAAATTACCAA
64 CAGTGGAGCAGATT-AAAATACCAA
* * * * ** * * *
24566442 CTCTTACCTCCTTGAAGTTCCAGCGGAGTAGA-TCGAAGCTAGAAATCTCT-TCTCCTTGAAATT
1 GTCTTATCTCCCTGAAGTTGCAGTAGAGTAGACT-GAAGC-AGCAATCT-TATCTCCCTGAAGTT
* * * *
24566505 ACATTGGAGTAGATTAAAA-CCACAA
63 GCAGTGGAGCAGATTAAAATAC-CAA
*
24566530 GTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGACAGCTAATCTTATCTCCCTGAAGTTG
1 GTCTTATCTCCCTGAAGTTGCAGTAGAGTAGACTGAAG-CAGC-AATCTTATCTCCCTGAAGTTG
*
24566595 CAGTGGAGCGGATTAA
64 CAGTGGAGCAGATTAA
24566611 GGCGACAACA
Statistics
Matches: 198, Mismatches: 48, Indels: 25
0.73 0.18 0.09
Matches are distributed among these distances:
87 1 0.01
88 42 0.21
89 118 0.60
90 37 0.19
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (87 bp):
GTCTTATCTCCCTGAAGTTGCAGTAGAGTAGACTGAAGCAGCAATCTTATCTCCCTGAAGTTGCA
GTGGAGCAGATTAAAATACCAA
Found at i:24566652 original size:20 final size:20
Alignment explanation
Indices: 24566627--24566666 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24566617 AACAAAGTAG
24566627 ATCAAAACTACAAGTTTTAT
1 ATCAAAACTACAAGTTTTAT
24566647 ATCAAAACTACAAGTTTTAT
1 ATCAAAACTACAAGTTTTAT
24566667 CTTTCTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (20 bp):
ATCAAAACTACAAGTTTTAT
Found at i:24567214 original size:3 final size:3
Alignment explanation
Indices: 24567200--24567548 Score: 60
Period size: 3 Copynumber: 113.3 Consensus size: 3
24567190 AATAGTGTTT
* * *
24567200 TTA TTA TT- TTA TTA TTA TTT TTA CCTTT TTA TTA CTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TT-A
* * * * * ** *
24567247 CCTA CTA TTA TTA TTT TTA TTA ATA -TA ATA TTA TT- TCC TT- TTT
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** *
24567290 TTA -TA TTG TTA TTA TTA TTA GCA CGTA -TA TTA TTA TTA TTAA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A T-TA
* * * *
24567336 TCA TTG TTA CTT- TCTA TT- TTA TTA TTA CTT- TTA TTA CTA TTG TT-
1 TTA TTA TTA -TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * *
24567380 TCTA TTA TTA TTA TT- TTCA TTA CTTCCA TTA TTA TTA TCA TCA TTT
1 T-TA TTA TTA TTA TTA TT-A TTA -TT--A TTA TTA TTA TTA TTA TTA
* * * ** *
24567426 TCTA TTA TGA TTA ATA TGTCA TTTG TTCA TTA TTA TTA TTA ACA CTA
1 T-TA TTA TTA TTA TTA T-T-A -TTA TT-A TTA TTA TTA TTA TTA TTA
* * * * * **
24567473 TTA TCA TCA TTA TATA TTTA CTT- TTT TTA ATA TCA TTA CCA TTA -TA
1 TTA TTA TTA TTA T-TA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
24567519 TT- TTA TTA TTA TTA CTA TTA TTT TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
24567549 CCGTCCTATT
Statistics
Matches: 252, Mismatches: 58, Indels: 72
0.66 0.15 0.19
Matches are distributed among these distances:
2 25 0.10
3 187 0.74
4 29 0.12
5 9 0.04
6 2 0.01
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:24567222 original size:20 final size:20
Alignment explanation
Indices: 24567197--24567282 Score: 57
Period size: 20 Copynumber: 4.2 Consensus size: 20
24567187 CGTAATAGTG
24567197 TTTTTATTATTTTATTATTA
1 TTTTTATTATTTTATTATTA
* *
24567217 TTTTTACCT-TTTTATTACTA
1 TTTTTA-TTATTTTATTATTA
* **
24567237 TTATTATTAACCTACTATTATTA
1 TTTTTATT-A--TTTTATTATTA
* * *
24567260 TTTTTATTAATATAATATTA
1 TTTTTATTATTTTATTATTA
24567280 TTT
1 TTT
24567283 CCTTTTTTTA
Statistics
Matches: 49, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
19 1 0.02
20 31 0.63
21 1 0.02
22 1 0.02
23 15 0.31
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTATTATTTTATTATTA
Found at i:24567278 original size:23 final size:23
Alignment explanation
Indices: 24567229--24567281 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
24567219 TTTACCTTTT
* * *
24567229 TATTACTATTATTATTAACCTAC
1 TATTATTATTATTATTAACATAA
* *
24567252 TATTATTATTTTTATTAATATAA
1 TATTATTATTATTATTAACATAA
24567275 TATTATT
1 TATTATT
24567282 TCCTTTTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTATTATTATTATTAACATAA
Found at i:24567532 original size:22 final size:21
Alignment explanation
Indices: 24567496--24567549 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
24567486 ATATTTACTT
*
24567496 TTTTTAATATCATTACCATTA
1 TTTTTATTATCATTACCATTA
* *
24567517 TATTTTATTATTATTACTATTA
1 T-TTTTATTATCATTACCATTA
24567539 TTTTTATTATC
1 TTTTTATTATC
24567550 CGTCCTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTATTATCATTACCATTA
Found at i:24567991 original size:125 final size:125
Alignment explanation
Indices: 24567745--24568013 Score: 287
Period size: 125 Copynumber: 2.2 Consensus size: 125
24567735 ATTCAAGAAA
** * * *
24567745 TCGTGTCCTAACGTACTGGGTTTCGGTTTTTCGTTTGATCTAAGTAACCGATTATCCTTTTAAAT
1 TCGTGTCCTAACGTACTGGGTTTCAATTTTCCGTTTGATCTAAATAACCGAATATCCTTTTAAAT
* * *
24567810 TAAAATACATGAGGTTTAAATAAAACAAAAGTAATATTCTGTATTTAGAAATTCGA-GTAG
66 TAAAATACATGAGGTTTAAATAAAACAAAAGTAATATGCTGTATCTAGAAAGTCGAGGT-G
* * *
24567870 TCGTGCCCTAACGTACTGGGTTTCAATTTTCCGTTTGATCTAAATATCCGAATGTCCTTTTTAAA
1 TCGTGTCCTAACGTACTGGGTTTCAATTTTCCGTTTGATCTAAATAACCGAATATCC-TTTT-AA
* * * * * *
24567935 ATTTAAATACATGAGTTTTAAATGAAATAAAAGGT-A-A-GCT-TATACTCGAAGGTCGAGGTG
64 ATTAAAATACATGAGGTTTAAATAAAACAAAA-GTAATATGCTGTAT-CTAGAAAGTCGAGGTG
* *
24567995 TTGTGTCGTAACGTACTGG
1 TCGTGTCCTAACGTACTGG
24568014 ATATAACATT
Statistics
Matches: 119, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
124 3 0.03
125 76 0.64
126 7 0.06
127 31 0.26
128 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (125 bp):
TCGTGTCCTAACGTACTGGGTTTCAATTTTCCGTTTGATCTAAATAACCGAATATCCTTTTAAAT
TAAAATACATGAGGTTTAAATAAAACAAAAGTAATATGCTGTATCTAGAAAGTCGAGGTG
Found at i:24575276 original size:37 final size:37
Alignment explanation
Indices: 24575235--24575308 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
24575225 ACCAAAATAA
24575235 GCTTTTGATAAAACAATTTTAATAAAGAAACAATTTT
1 GCTTTTGATAAAACAATTTTAATAAAGAAACAATTTT
*
24575272 GCTTTTGATAAAACAATTTTAATAAAGAAACTATTTT
1 GCTTTTGATAAAACAATTTTAATAAAGAAACAATTTT
24575309 ACTCATTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (37 bp):
GCTTTTGATAAAACAATTTTAATAAAGAAACAATTTT
Found at i:24575616 original size:104 final size:103
Alignment explanation
Indices: 24575408--24575616 Score: 312
Period size: 104 Copynumber: 2.0 Consensus size: 103
24575398 TTTTTCTTTG
*
24575408 CTTATCTGTTTGTGTAATAAAAGTTCGTCTACTTCACTTGATTCAAGTTTCAAAATTTCAGTTTC
1 CTTACCTGTTTGTGTAATAAAAGTTCGTCTACTTCACTTGATTCAAGTTTCAAAATTTCAGTTTC
*** **
24575473 TTTATTATTGCAACTCTTTTGCTGGTTTTTTTTTCTTTT
66 TTTATTATTGCAACTCTTTTGCTGG-TTTCCCTAATTTT
24575512 CTTACCTGTTTGTGTAATAAAAGTTCGTCTACTTCACTTGATTCAAGTTTCAAAATTTCACAGTT
1 CTTACCTGTTTGTGTAATAAAAGTTCGTCTACTTCACTTGATTCAAGTTTCAAAATTT--CAGTT
* *
24575577 TGTTTATTATTGTAACTCTTTTGCTGG-TTCCCTAATTTT
64 TCTTTATTATTGCAACTCTTTTGCTGGTTTCCCTAATTTT
24575616 C
1 C
24575617 CATAATTTAA
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
104 65 0.68
106 30 0.32
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.50
Consensus pattern (103 bp):
CTTACCTGTTTGTGTAATAAAAGTTCGTCTACTTCACTTGATTCAAGTTTCAAAATTTCAGTTTC
TTTATTATTGCAACTCTTTTGCTGGTTTCCCTAATTTT
Found at i:24586516 original size:22 final size:21
Alignment explanation
Indices: 24586480--24586533 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
24586470 ATATTTACTT
*
24586480 TTTTTAATATCATTACCATTA
1 TTTTTATTATCATTACCATTA
* *
24586501 TATTTTATTATTATTACTATTA
1 T-TTTTATTATCATTACCATTA
24586523 TTTTTATTATC
1 TTTTTATTATC
24586534 CGTCCTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTATTATCATTACCATTA
Found at i:24586975 original size:125 final size:125
Alignment explanation
Indices: 24586729--24586997 Score: 287
Period size: 125 Copynumber: 2.2 Consensus size: 125
24586719 ATTCAAGAAA
** * * *
24586729 TCGTGTCCTAACGTACTGGGTTTCGGTTTTTCGTTTGATCTAAGTAACCGATTATCCTTTTAAAT
1 TCGTGTCCTAACGTACTGGGTTTCAATTTTCCGTTTGATCTAAATAACCGAATATCCTTTTAAAT
* * *
24586794 TAAAATACATGAGGTTTAAATAAAACAAAAGTAATATTCTGTATTTAGAAATTCGA-GTAG
66 TAAAATACATGAGGTTTAAATAAAACAAAAGTAATATGCTGTATCTAGAAAGTCGAGGT-G
* * *
24586854 TCGTGCCCTAACGTACTGGGTTTCAATTTTCCGTTTGATCTAAATATCCGAATGTCCTTTTTAAA
1 TCGTGTCCTAACGTACTGGGTTTCAATTTTCCGTTTGATCTAAATAACCGAATATCC-TTTT-AA
* * * * * *
24586919 ATTTAAATACATGAGTTTTAAATGAAATAAAAGGT-A-A-GCT-TATACTCGAAGGTCGAGGTG
64 ATTAAAATACATGAGGTTTAAATAAAACAAAA-GTAATATGCTGTAT-CTAGAAAGTCGAGGTG
* *
24586979 TTGTGTCGTAACGTACTGG
1 TCGTGTCCTAACGTACTGG
24586998 ATATAACATT
Statistics
Matches: 119, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
124 3 0.03
125 76 0.64
126 7 0.06
127 31 0.26
128 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (125 bp):
TCGTGTCCTAACGTACTGGGTTTCAATTTTCCGTTTGATCTAAATAACCGAATATCCTTTTAAAT
TAAAATACATGAGGTTTAAATAAAACAAAAGTAATATGCTGTATCTAGAAAGTCGAGGTG
Found at i:24594260 original size:37 final size:37
Alignment explanation
Indices: 24594219--24594292 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
24594209 ACCAAAATAA
24594219 GCTTTTGATAAAACAATTTTAATAAAGAAACAATTTT
1 GCTTTTGATAAAACAATTTTAATAAAGAAACAATTTT
*
24594256 GCTTTTGATAAAACAATTTTAATAAAGAAACTATTTT
1 GCTTTTGATAAAACAATTTTAATAAAGAAACAATTTT
24594293 ACTCATTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (37 bp):
GCTTTTGATAAAACAATTTTAATAAAGAAACAATTTT
Found at i:24594600 original size:104 final size:103
Alignment explanation
Indices: 24594392--24594600 Score: 312
Period size: 104 Copynumber: 2.0 Consensus size: 103
24594382 TTTTTCTTTG
*
24594392 CTTATCTGTTTGTGTAATAAAAGTTCGTCTACTTCACTTGATTCAAGTTTCAAAATTTCAGTTTC
1 CTTACCTGTTTGTGTAATAAAAGTTCGTCTACTTCACTTGATTCAAGTTTCAAAATTTCAGTTTC
*** **
24594457 TTTATTATTGCAACTCTTTTGCTGGTTTTTTTTTCTTTT
66 TTTATTATTGCAACTCTTTTGCTGG-TTTCCCTAATTTT
24594496 CTTACCTGTTTGTGTAATAAAAGTTCGTCTACTTCACTTGATTCAAGTTTCAAAATTTCACAGTT
1 CTTACCTGTTTGTGTAATAAAAGTTCGTCTACTTCACTTGATTCAAGTTTCAAAATTT--CAGTT
* *
24594561 TGTTTATTATTGTAACTCTTTTGCTGG-TTCCCTAATTTT
64 TCTTTATTATTGCAACTCTTTTGCTGGTTTCCCTAATTTT
24594600 C
1 C
24594601 CATAATTTAA
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
104 65 0.68
106 30 0.32
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.50
Consensus pattern (103 bp):
CTTACCTGTTTGTGTAATAAAAGTTCGTCTACTTCACTTGATTCAAGTTTCAAAATTTCAGTTTC
TTTATTATTGCAACTCTTTTGCTGGTTTCCCTAATTTT
Found at i:24610099 original size:24 final size:24
Alignment explanation
Indices: 24610067--24610114 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
24610057 GGGTTGTTGC
24610067 CCATCTCATGTAATATGTAGGGAT
1 CCATCTCATGTAATATGTAGGGAT
24610091 CCATCTCATGTAATATGTAGGGAT
1 CCATCTCATGTAATATGTAGGGAT
24610115 TTGGACTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (24 bp):
CCATCTCATGTAATATGTAGGGAT
Found at i:24616426 original size:3 final size:3
Alignment explanation
Indices: 24616418--24616706 Score: 202
Period size: 3 Copynumber: 97.3 Consensus size: 3
24616408 ATAAACAAGA
* * * *
24616418 AAT AAT AAT AGT AA- AAA AAT AAT AAT AGT AAT AAT GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
24616465 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AA- AGAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * * * *
24616510 AAC AAC AAT AGT AAT AAT AAT -AG AAT -AT AAT AAT AA- AAT AAGG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * *
24616553 AAT AAT AAT AAC AAC AAT AAT -AT AAAT AAT AAT AA- AA- AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
* * * * * *
24616596 AAT AGT AAT AAT AAT AAT GAT AGT AAT AAT AAT AGT AAA AAT AGAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* ** * *
24616642 AAT AAT AGT -AT CGT AAA AAT AAT AAT AAT AGT AAT AATT AATT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AA-T AA-T
**
24616689 AAT TTT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT A
24616707 GCAAAATAAC
Statistics
Matches: 228, Mismatches: 44, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
2 17 0.07
3 193 0.85
4 18 0.08
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:24621432 original size:39 final size:40
Alignment explanation
Indices: 24621337--24621598 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
24621327 TTGAATGATG
*
24621337 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
24621375 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
24621416 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
24621455 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
24621494 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
24621533 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
24621572 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
24621599 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:24629366 original size:40 final size:39
Alignment explanation
Indices: 24629335--24629544 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
24629325 GGACTAAGAT
* *
24629335 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
24629375 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
24629415 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
24629455 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
24629495 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
24629534 CCGAAGGCATT
1 CCGAAGGCATT
24629545 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:24629498 original size:120 final size:120
Alignment explanation
Indices: 24629282--24629544 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
24629272 TTGAATGCTG
* *
24629282 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
24629346 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
24629402 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
24629465 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
24629521 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
24629545 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:24629564 original size:79 final size:80
Alignment explanation
Indices: 24629335--24629579 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
24629325 GGACTAAGAT
* * * * * * * ** *
24629335 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
24629398 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
24629415 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
24629480 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
24629495 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
24629559 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
24629573 CCGAAGG
1 CCGAAGG
24629580 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:24632503 original size:173 final size:173
Alignment explanation
Indices: 24632211--24632549 Score: 651
Period size: 173 Copynumber: 2.0 Consensus size: 173
24632201 ATAGATCAAG
24632211 ATTTGAACCAATCAGTAGATAAACGTAAAAAAGGAAAAATTGTGGAATAGTCCTCAGAGTCGTGT
1 ATTTGAACCAATCAGTAGATAAACGTAAAAAAGGAAAAATTGTGGAATAGTCCTCAGAGTCGTGT
24632276 TTGTAGCTTTTTTGGTTAGGTAAGTTCGTATCGACTCACTCTATTAACTTTTTATATGATTGTGT
66 TTGTAGCTTTTTTGGTTAGGTAAGTTCGTATCGACTCACTCTATTAACTTTTTATATGATTGTGT
24632341 TATTTTTTTATTGCTGGTTAGAAATTATATATATATGTATATA
131 TATTTTTTTATTGCTGGTTAGAAATTATATATATATGTATATA
24632384 ATTTGAACCAATCAGTAGATAAACGTAAAAAAGGAAAAATTGTGGAATAGTCCTCAGAGTCGTGT
1 ATTTGAACCAATCAGTAGATAAACGTAAAAAAGGAAAAATTGTGGAATAGTCCTCAGAGTCGTGT
* * *
24632449 TTGTAGCTTTTTTGGTTAGGTAAGTTCGTATGGACTCACTTTATTAATTTTTTATATGATTGTGT
66 TTGTAGCTTTTTTGGTTAGGTAAGTTCGTATCGACTCACTCTATTAACTTTTTATATGATTGTGT
24632514 TATTTTTTTATTGCTGGTTAGAAATTATATATATAT
131 TATTTTTTTATTGCTGGTTAGAAATTATATATATAT
24632550 AAAGTTTTGG
Statistics
Matches: 163, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
173 163 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (173 bp):
ATTTGAACCAATCAGTAGATAAACGTAAAAAAGGAAAAATTGTGGAATAGTCCTCAGAGTCGTGT
TTGTAGCTTTTTTGGTTAGGTAAGTTCGTATCGACTCACTCTATTAACTTTTTATATGATTGTGT
TATTTTTTTATTGCTGGTTAGAAATTATATATATATGTATATA
Found at i:24634544 original size:15 final size:16
Alignment explanation
Indices: 24634524--24634562 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
24634514 AATTGGAAAG
*
24634524 ATGAAAAGTT-ATTAA
1 ATGAAAAATTAATTAA
24634539 ATGAAAAATTAATTAA
1 ATGAAAAATTAATTAA
24634555 ATGAAAAA
1 ATGAAAAA
24634563 GAAAACAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (16 bp):
ATGAAAAATTAATTAA
Found at i:24643162 original size:74 final size:73
Alignment explanation
Indices: 24643010--24643163 Score: 159
Period size: 74 Copynumber: 2.1 Consensus size: 73
24643000 TTGTAAAAAG
* * * * *
24643010 TTGAATGAATTTCCTACCATTTGGATGCTTCAAAGACTGACCGAATCTTCTCACAAGCTAGATGT
1 TTGATTGAACTTCCCACCATTTGGATGCTTCAAAGACTGACCAAATCTTCCCACAAGCTAGATGT
*
24643075 TTCAAAGGG
66 TT-AAAGGA
* * * * *
24643084 TTGATTGAACTTCCCACCATTTGGATGCTTCAAAG-GTAGACTAAATCTTCCCACGATCTTGATG
1 TTGATTGAACTTCCCACCATTTGGATGCTTCAAAGACT-GACCAAATCTTCCCACAAGCTAGATG
24643148 CTATT-AAGGA
65 -T-TTAAAGGA
24643158 TTGATT
1 TTGATT
24643164 TGACTTTTCA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
73 1 0.02
74 62 0.94
75 1 0.02
76 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (73 bp):
TTGATTGAACTTCCCACCATTTGGATGCTTCAAAGACTGACCAAATCTTCCCACAAGCTAGATGT
TTAAAGGA
Found at i:24647495 original size:79 final size:78
Alignment explanation
Indices: 24647393--24647615 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
24647383 GCTCCTCGTT
* *
24647393 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
24647458 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
24647473 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
24647537 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
24647551 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
24647614 GA
63 GA
24647616 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:24647510 original size:39 final size:40
Alignment explanation
Indices: 24647393--24647615 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
24647383 GCTCCTCGTT
* *
24647393 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
24647433 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
24647473 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
24647512 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
24647551 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
24647592 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24647616 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:24655414 original size:40 final size:40
Alignment explanation
Indices: 24655370--24655631 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
24655360 GCTCCTCGTT
* *
24655370 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
24655410 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
24655450 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
24655489 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
24655528 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
24655567 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
24655608 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24655632 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:24661508 original size:31 final size:31
Alignment explanation
Indices: 24661470--24661531 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
24661460 TCCTGTAAAA
*
24661470 AATTCCAACAAGGTTGAAGCTCATGTATAGT
1 AATTCCAACAAGGTTGAAACTCATGTATAGT
*
24661501 AATTCCAACAAGGTTGAAATTCATGTATAGT
1 AATTCCAACAAGGTTGAAACTCATGTATAGT
24661532 TTTGATCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (31 bp):
AATTCCAACAAGGTTGAAACTCATGTATAGT
Found at i:24661562 original size:18 final size:20
Alignment explanation
Indices: 24661539--24661579 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
24661529 AGTTTTGATC
24661539 TTTATCC-AT-TTTCTTAAA
1 TTTATCCTATATTTCTTAAA
*
24661557 TTTATCCTTTATTTCTTAAA
1 TTTATCCTATATTTCTTAAA
24661577 TTT
1 TTT
24661580 TGTTTCTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 1 0.05
20 12 0.60
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTATCCTATATTTCTTAAA
Found at i:24671357 original size:6 final size:6
Alignment explanation
Indices: 24671346--24671378 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
24671336 TTTTTGATGT
24671346 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTT
24671379 CAAAACTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:24673500 original size:21 final size:21
Alignment explanation
Indices: 24673474--24673527 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
24673464 CAGCGGTGGT
*
24673474 GGTGAGATTAGTTACTGTAGC
1 GGTGAGATTAGATACTGTAGC
24673495 GGTGAGATTAGATACTGTAGC
1 GGTGAGATTAGATACTGTAGC
*
24673516 AGTGAGATTAGA
1 GGTGAGATTAGA
24673528 AACAATGGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (21 bp):
GGTGAGATTAGATACTGTAGC
Found at i:24677019 original size:20 final size:20
Alignment explanation
Indices: 24676991--24677031 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
24676981 AGGGGCACAC
*
24676991 GCCCGTGTGGCCTGGGACAT
1 GCCCATGTGGCCTGGGACAT
*
24677011 GCCCATGTGGCTTGGGACAT
1 GCCCATGTGGCCTGGGACAT
24677031 G
1 G
24677032 GCCGTGGGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.27, G:0.39, T:0.22
Consensus pattern (20 bp):
GCCCATGTGGCCTGGGACAT
Found at i:24691374 original size:48 final size:48
Alignment explanation
Indices: 24691314--24691513 Score: 332
Period size: 48 Copynumber: 4.2 Consensus size: 48
24691304 CAGCCACAAT
* *
24691314 ATACACACATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
*
24691362 ATACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
24691410 --ACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
*
24691456 ATACACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
* *
24691504 ACACATATAT
1 ATACACATAT
24691514 ATTTATCTTG
Statistics
Matches: 143, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
46 45 0.31
48 98 0.69
ACGTcount: A:0.32, C:0.31, G:0.06, T:0.32
Consensus pattern (48 bp):
ATACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
Found at i:24691420 original size:94 final size:94
Alignment explanation
Indices: 24691316--24691511 Score: 374
Period size: 94 Copynumber: 2.1 Consensus size: 94
24691306 GCCACAATAT
* *
24691316 ACACACATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATACACATATCTCATACAT
1 ACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATACACATATCTCATACAT
24691381 ATTTCACATTAGCCATTCGGCTTTACCAC
66 ATTTCACATTAGCCATTCGGCTTTACCAC
24691410 ACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATACACATATCTCATACAT
1 ACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATACACATATCTCATACAT
24691475 ATTTCACATTAGCCATTCGGCTTTACCAC
66 ATTTCACATTAGCCATTCGGCTTTACCAC
24691504 ACACATAT
1 ACACATAT
24691512 ATATTTATCT
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 100 1.00
ACGTcount: A:0.31, C:0.32, G:0.06, T:0.31
Consensus pattern (94 bp):
ACACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATACACATATCTCATACAT
ATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:24694454 original size:22 final size:23
Alignment explanation
Indices: 24694427--24694475 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
24694417 AGCCCGTGTG
*
24694427 GCCCACACACCCA-ATTAGTCTT
1 GCCCACACACCCAGATTAGCCTT
*
24694449 GCCCACACACCCAGATTGGCCTT
1 GCCCACACACCCAGATTAGCCTT
24694472 GCCC
1 GCCC
24694476 GTGTGGCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.22, C:0.45, G:0.14, T:0.18
Consensus pattern (23 bp):
GCCCACACACCCAGATTAGCCTT
Found at i:24696596 original size:13 final size:13
Alignment explanation
Indices: 24696574--24696613 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
24696564 GGAGTAATCG
*
24696574 CACACAGGCGTGT
1 CACACGGGCGTGT
24696587 CACACGGGCGTGT
1 CACACGGGCGTGT
24696600 CACACGGGCGTGT
1 CACACGGGCGTGT
24696613 C
1 C
24696614 CCTGCCGAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.17, C:0.33, G:0.35, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:24702706 original size:39 final size:39
Alignment explanation
Indices: 24702657--24702770 Score: 133
Period size: 39 Copynumber: 2.9 Consensus size: 39
24702647 TAAACCCGGT
* * * *
24702657 ATAATACCAGCTCGAAGCCTGCGAGA-CTTTAGTCCGGAC
1 ATAATTCCAGCACGAAGCCTGCG-GACCCTAAGTCCGGAC
* * *
24702696 ATATTTCCAGCACGTAGCCTGCGGACCCTAAGTCCGGAT
1 ATAATTCCAGCACGAAGCCTGCGGACCCTAAGTCCGGAC
24702735 ATAATTCCAGCAC-ATAGCCTGCGGACCCTAAGTCCG
1 ATAATTCCAGCACGA-AGCCTGCGGACCCTAAGTCCG
24702771 AATATACATC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.03
39 62 0.97
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.21
Consensus pattern (39 bp):
ATAATTCCAGCACGAAGCCTGCGGACCCTAAGTCCGGAC
Found at i:24702776 original size:39 final size:39
Alignment explanation
Indices: 24702700--24702776 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
24702690 CCGGACATAT
* *
24702700 TTCCAGCACGTAGCCTGCGGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGAATATAA
24702739 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGAATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGAATATA
24702777 CATCACTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGAATATAA
Found at i:24707000 original size:201 final size:201
Alignment explanation
Indices: 24706655--24707054 Score: 791
Period size: 201 Copynumber: 2.0 Consensus size: 201
24706645 ATATTATTAT
24706655 TGCTGGCAATCCGTTCCAATCAGTAGACTCAACTCGGATTATCTCATTATTTGCACATCTCAAAT
1 TGCTGGCAATCCGTTCCAATCAGTAGACTCAACTCGGATTATCTCATTATTTGCACATCTCAAAT
24706720 CAATGGTTTTACTTTTGCAATTCACAACTGAATCATGTACGGTCAACCAATCCATACCGAGGATA
66 CAATGGTTTTACTTTTGCAATTCACAACTGAATCATGTACGGTCAACCAATCCATACCGAGGATA
24706785 ACATCAAATTCATCAAATGGTAAAAGCATCAAATCGGCCGGAAAGCAGTAATCTCAGACTACTAG
131 ACATCAAATTCATCAAATGGTAAAAGCATCAAATCGGCCGGAAAGCAGTAATCTCAGACTACTAG
24706850 GGGGTA
196 GGGGTA
24706856 TGCTGGCAATCCGTTCCAATCAGTAGACTCAACTCGGATTATCTCATTATTTGCACATCTCAAAT
1 TGCTGGCAATCCGTTCCAATCAGTAGACTCAACTCGGATTATCTCATTATTTGCACATCTCAAAT
*
24706921 CAATGGTTTTACTTTTGCAATTCACAACTGCATCATGTACGGTCAACCAATCCATACCGAGGATA
66 CAATGGTTTTACTTTTGCAATTCACAACTGAATCATGTACGGTCAACCAATCCATACCGAGGATA
24706986 ACATCAAATTCATCAAATGGTAAAAGCATCAAATCGGCCGGAAAGCAGTAATCTCAGACTACTAG
131 ACATCAAATTCATCAAATGGTAAAAGCATCAAATCGGCCGGAAAGCAGTAATCTCAGACTACTAG
24707051 GGGG
196 GGGG
24707055 CATTTCTTAC
Statistics
Matches: 198, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
201 198 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (201 bp):
TGCTGGCAATCCGTTCCAATCAGTAGACTCAACTCGGATTATCTCATTATTTGCACATCTCAAAT
CAATGGTTTTACTTTTGCAATTCACAACTGAATCATGTACGGTCAACCAATCCATACCGAGGATA
ACATCAAATTCATCAAATGGTAAAAGCATCAAATCGGCCGGAAAGCAGTAATCTCAGACTACTAG
GGGGTA
Found at i:24709506 original size:39 final size:40
Alignment explanation
Indices: 24709411--24709602 Score: 155
Period size: 39 Copynumber: 4.9 Consensus size: 40
24709401 ACTTGAAACC
** * * *
24709411 AATTACCAGCACA-AGCCTGCGGGAATTTAAACCTGG-TAT
1 AATT-CCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* * *
24709450 AATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACAT
1 AATTCCAGCAC-ATAGCCTGCGGGACCTTAAGCCCGGACAT
* * * * *
24709489 ATTTCCAGTACGTAGCCTGC-GGACCTTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* * *
24709528 AATTCCAGCACATAGCCTGC-GGACCCTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* *
24709567 AATTCCAGCACATAGCCTGC-GGACCCTAAGTCCGGA
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGA
24709603 TATACATCAC
Statistics
Matches: 130, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
38 16 0.12
39 114 0.88
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (40 bp):
AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
Found at i:24709603 original size:39 final size:39
Alignment explanation
Indices: 24709481--24709606 Score: 207
Period size: 39 Copynumber: 3.2 Consensus size: 39
24709471 GGACTTTAGC
* * * * *
24709481 CCGGACATATTTCCAGTACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
24709520 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
24709559 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
24709598 CCGGATATA
1 CCGGATATA
24709607 CATCACTGAA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:24712471 original size:40 final size:39
Alignment explanation
Indices: 24712440--24712649 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
24712430 GGACTAAGAT
* *
24712440 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
24712480 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
24712520 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
24712560 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
24712600 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
24712639 CCGAAGGCATT
1 CCGAAGGCATT
24712650 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:24712603 original size:120 final size:120
Alignment explanation
Indices: 24712387--24712649 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
24712377 TTGAATGCTG
* *
24712387 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
24712451 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
24712507 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
24712570 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
24712626 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
24712650 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:24712669 original size:79 final size:80
Alignment explanation
Indices: 24712440--24712684 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
24712430 GGACTAAGAT
* * * * * * * ** *
24712440 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
24712503 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
24712520 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
24712585 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
24712600 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
24712664 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
24712678 CCGAAGG
1 CCGAAGG
24712685 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:24722909 original size:84 final size:83
Alignment explanation
Indices: 24722769--24722941 Score: 310
Period size: 84 Copynumber: 2.1 Consensus size: 83
24722759 ATTATCATGC
*
24722769 TCAGAACATAATATCAAACTAACAGATCCACAATTTTAGGGTTTGGTTAGCTTTTACCTACTATA
1 TCAGAACATAATATCAAACTAACAGATCCACAAGTTTAGGGTTTGGTTAGCTTTTACCTACTATA
*
24722834 CGGTAGGTCCACAGTTAA
66 CGGTAGGTCCACAATTAA
*
24722852 TCAGAACATAATATATAAACTAACAGATCCACAAGTTTAGGGTTTGGTTAGCTTTTACCTACTAT
1 TCAGAACATAATAT-CAAACTAACAGATCCACAAGTTTAGGGTTTGGTTAGCTTTTACCTACTAT
24722917 ACGGTAGGTCCACAATTAA
65 ACGGTAGGTCCACAATTAA
24722936 TCAGAA
1 TCAGAA
24722942 TGACCCGTGC
Statistics
Matches: 86, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
83 14 0.16
84 72 0.84
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (83 bp):
TCAGAACATAATATCAAACTAACAGATCCACAAGTTTAGGGTTTGGTTAGCTTTTACCTACTATA
CGGTAGGTCCACAATTAA
Found at i:24725614 original size:16 final size:18
Alignment explanation
Indices: 24725576--24725616 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
24725566 CTGCATCTCA
*
24725576 ATATAGGCTCTCATACTT
1 ATATAGGCTCCCATACTT
*
24725594 ATATAGGCTCCCATATTT
1 ATATAGGCTCCCATACTT
24725612 ATATA
1 ATATA
24725617 AGGTTCGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.39
Consensus pattern (18 bp):
ATATAGGCTCCCATACTT
Found at i:24725655 original size:24 final size:22
Alignment explanation
Indices: 24725604--24725656 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
24725594 ATATAGGCTC
24725604 CCATATTTATATAAGGTTCGCA
1 CCATATTTATATAAGGTTCGCA
* *
24725626 CAATATTTTTAT-AGAGTTCGCGTA
1 CCATATTTATATAAG-GTTCGC--A
24725650 CCATATT
1 CCATATT
24725657 GTGGGGTTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 2 0.08
22 16 0.64
24 7 0.28
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (22 bp):
CCATATTTATATAAGGTTCGCA
Done.