Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 78 of 328
Found at i:21333182 original size:30 final size:30
Alignment explanation
Indices: 21333148--21333208 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
21333138 TCATTAACTC
21333148 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
21333178 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
21333208 A
1 A
21333209 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:21334406 original size:21 final size:20
Alignment explanation
Indices: 21334378--21334416 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
21334368 CAAAACAGGT
21334378 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
21334398 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
21334417 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:21335781 original size:31 final size:31
Alignment explanation
Indices: 21335746--21335809 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
21335736 CTTTTTCATA
*
21335746 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
21335777 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
21335808 TT
1 TT
21335810 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:21335892 original size:42 final size:42
Alignment explanation
Indices: 21335833--21335924 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
21335823 TGGCCCATAG
* **
21335833 GCCCATTTCAATATCACATATAATGTCAATGAAAGAATGCAA
1 GCCCATTTCAATATCACATAAAATACCAATGAAAGAATGCAA
* *
21335875 GCCCATTTCAATATCACATAAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATAAAATACCAATGAAAGAATGCAA
*
21335917 ACCCATTT
1 GCCCATTT
21335925 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATATCACATAAAATACCAATGAAAGAATGCAA
Found at i:21336100 original size:23 final size:23
Alignment explanation
Indices: 21336046--21336326 Score: 352
Period size: 23 Copynumber: 12.0 Consensus size: 23
21336036 CTTTATCATA
*
21336046 TAACTGGAGGCCT-AGCCTCTTTTAG
1 TAACTGG-GGCATAAGCC-CTTTT-G
*
21336071 TAACTGGGGCAAAAGCCCTTTTG
1 TAACTGGGGCATAAGCCCTTTTG
21336094 TAACTGGGGCATAAGCCCTTTTG
1 TAACTGGGGCATAAGCCCTTTTG
* **
21336117 ATCACTGGGGCATAAGCCCTTTAA
1 -TAACTGGGGCATAAGCCCTTTTG
*
21336141 TAACTGGGGTATAAGCCCTTTTG
1 TAACTGGGGCATAAGCCCTTTTG
*
21336164 ATAATTGGGGCATAAGCCCTTTTG
1 -TAACTGGGGCATAAGCCCTTTTG
21336188 ATAACTGGGGCATAAGCCCTTTTG
1 -TAACTGGGGCATAAGCCCTTTTG
**
21336212 ATAACTGGGGCATAAGCCCTTTAA
1 -TAACTGGGGCATAAGCCCTTTTG
21336236 TAACTGGGGCATAAGCCCTTTTG
1 TAACTGGGGCATAAGCCCTTTTG
**
21336259 ATAACT-GGGCATAAG-CCTTTAA
1 -TAACTGGGGCATAAGCCCTTTTG
**
21336281 TAACTGGGGCATAAGCCCTTTAA
1 TAACTGGGGCATAAGCCCTTTTG
21336304 TAACTGGGGCATAAGCCCTTTTG
1 TAACTGGGGCATAAGCCCTTTTG
21336327 CACTTCCTCC
Statistics
Matches: 229, Mismatches: 21, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
21 5 0.02
22 14 0.06
23 100 0.44
24 99 0.43
25 11 0.05
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (23 bp):
TAACTGGGGCATAAGCCCTTTTG
Found at i:21336124 original size:47 final size:47
Alignment explanation
Indices: 21336045--21336324 Score: 408
Period size: 47 Copynumber: 6.0 Consensus size: 47
21336035 GCTTTATCAT
* * *
21336045 ATAACTGGAGGCCT-AGCCTCTTTT-AGTAACTGGGGCAAAAGCCCTTTT
1 ATAACTGG-GGCATAAGCC-CTTTTGA-TAACTGGGGCATAAGCCCTTTA
* *
21336093 GTAACTGGGGCATAAGCCCTTTTGATCACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
* * *
21336140 ATAACTGGGGTATAAGCCCTTTTGATAATTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTA
21336188 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
21336235 ATAACTGGGGCATAAGCCCTTTTGATAACT-GGGCATAAG-CCTTTA
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
*
21336280 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
21336325 TGCACTTCCT
Statistics
Matches: 213, Mismatches: 14, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
44 9 0.04
45 34 0.16
46 14 0.07
47 100 0.47
48 56 0.26
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
Found at i:21336128 original size:24 final size:24
Alignment explanation
Indices: 21336045--21336326 Score: 393
Period size: 24 Copynumber: 12.0 Consensus size: 24
21336035 GCTTTATCAT
*
21336045 ATAACTGGAGGCCT-AGCCTCTTTT-
1 ATAACTGG-GGCATAAGCC-CTTTTG
*
21336069 AGTAACTGGGGCAAAAGCCCTTTTG
1 A-TAACTGGGGCATAAGCCCTTTTG
21336094 -TAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
* *
21336117 ATCACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
*
21336140 ATAACTGGGGTATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
21336164 ATAATTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
21336188 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
21336212 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
21336235 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
21336259 ATAACT-GGGCATAAG-CC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
*
21336280 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
21336303 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
21336327 CACTTCCTCC
Statistics
Matches: 234, Mismatches: 15, Indels: 18
0.88 0.06 0.07
Matches are distributed among these distances:
21 9 0.04
22 11 0.05
23 98 0.42
24 105 0.45
25 11 0.05
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:21336400 original size:20 final size:20
Alignment explanation
Indices: 21336375--21336441 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
21336365 TTATGATTAC
21336375 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
21336395 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
21336415 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
21336435 ACCATGT
1 ATCATGT
21336442 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:21336406 original size:11 final size:11
Alignment explanation
Indices: 21336375--21336430 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
21336365 TTATGATTAC
21336375 ATCATGTGCAT
1 ATCATGTGCAT
*
21336386 ATCA--TACAT
1 ATCATGTGCAT
21336395 ATCATGTGCAT
1 ATCATGTGCAT
*
21336406 ATCA--TACAT
1 ATCATGTGCAT
*
21336415 GTCATGTGCAT
1 ATCATGTGCAT
21336426 ATCAT
1 ATCAT
21336431 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:21336510 original size:25 final size:25
Alignment explanation
Indices: 21336478--21336525 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
21336468 ATACATAAAC
* *
21336478 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
21336503 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
21336526 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:21337746 original size:27 final size:27
Alignment explanation
Indices: 21337684--21337748 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
21337674 GGGCATATTC
21337684 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
21337711 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
21337738 GTCTTTTTACC
1 GTCATTTTACC
21337749 TTTTAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:21337832 original size:27 final size:27
Alignment explanation
Indices: 21337799--21338015 Score: 172
Period size: 27 Copynumber: 8.0 Consensus size: 27
21337789 TGGGTAAATC
*
21337799 TACAAACCAAAGGTATTTTAGTAATTT
1 TACAAACCAAGGGTATTTTAGTAATTT
** *
21337826 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAACCAAGGGTATTT-TAGTAA-TTT
* * * *
21337854 TAGAAAGTCAAGGGT-TTTTCTGTAACTT
1 TACAAA-CCAAGGGTATTTT-AGTAATTT
** * *
21337882 TGTAAATCAGGGGTATTTTAGTAATTT
1 TACAAACCAAGGGTATTTTAGTAATTT
*** **
21337909 TACAAATTGA-GGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTTAGTAATTT
* *
21337935 CACAAACC-AGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTTAGTAATTT
* * *
21337961 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTTAGTAATTT
21337988 TACAAACCAAGGGTATTTTAGTAATTT
1 TACAAACCAAGGGTATTTTAGTAATTT
21338015 T
1 T
21338016 GTAAATGAGG
Statistics
Matches: 151, Mismatches: 31, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
25 1 0.01
26 40 0.26
27 79 0.52
28 22 0.15
29 9 0.06
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.41
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTTAGTAATTT
Found at i:21337922 original size:26 final size:27
Alignment explanation
Indices: 21337892--21338015 Score: 137
Period size: 26 Copynumber: 4.7 Consensus size: 27
21337882 TGTAAATCAG
* *
21337892 GGGTATTTTAGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* * *
21337919 -GGTATTTCGGTAATTTCACAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATCGA
*
21337944 GGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
21337970 GGGGTATTTTGGTAATTTTACAAACCAA
1 -GGGTATTTTGGTAATTTTACAAATCGA
*
21337998 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
21338016 GTAAATGAGG
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.01
26 41 0.49
27 40 0.48
28 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:21337984 original size:53 final size:53
Alignment explanation
Indices: 21337892--21338015 Score: 187
Period size: 53 Copynumber: 2.3 Consensus size: 53
21337882 TGTAAATCAG
*
21337892 GGGTATTTTAGTAATTTTACAAATTGAGGTATTTCGGTAATTTCACAAACC-A
1 GGGTATTTTAGTAATTTTACAAATAGAGGTATTTCGGTAATTTCACAAACCAA
* * * *
21337944 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTACAAA-TAGAGGTATTTCGGTAATTTCACAAACCAA
21337998 GGGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
21338016 GTAAATGAGG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 22 0.34
53 24 0.38
54 18 0.28
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (53 bp):
GGGTATTTTAGTAATTTTACAAATAGAGGTATTTCGGTAATTTCACAAACCAA
Found at i:21338062 original size:27 final size:27
Alignment explanation
Indices: 21338008--21338296 Score: 365
Period size: 27 Copynumber: 10.8 Consensus size: 27
21337998 GGGTATTTTA
* *
21338008 GTAATTTTGTAAAT-GA-GGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
21338033 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
21338060 GTAATTCTATAAATCGAGGGGAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACG
21338086 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
21338113 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
21338140 ATAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
*
21338167 GTAATTATGTAAATCG-GGGTTAAAACG
1 GTAATTCTGTAAATCGAGGG-TAAAACG
21338194 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
21338221 ATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* *
21338248 GTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
21338275 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
21338297 CTTTGGTAAT
Statistics
Matches: 235, Mismatches: 20, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
25 13 0.06
26 30 0.13
27 189 0.80
28 3 0.01
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:21338307 original size:81 final size:81
Alignment explanation
Indices: 21338008--21338296 Score: 417
Period size: 81 Copynumber: 3.6 Consensus size: 81
21337998 GGGTATTTTA
* * * * * *
21338008 GTAATTTTGTAAAT--GAGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC-AGTAATTCTAT
1 GTAATTATGTAAATCGGGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTATGT
21338070 AAATCGAGGGG-AAAAC-
65 AAATC-AGGGGTAAAACG
* * *
21338086 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTA
1 GTAATTATGTAAATCGGGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
*
21338151 AATTAGGGGTAAAACG
66 AATCAGGGGTAAAACG
*
21338167 GTAATTATGTAAATCGGGGTTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
1 GTAATTATGTAAATCGGGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
21338232 AATCAGGGGTAAAACG
66 AATCAGGGGTAAAACG
*
21338248 GTAATTATGTAAATCGGGGGTAAAACGGTAATTCTGTAAATCGGGGGTA
1 GTAATTATGTAAATCGGGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
21338297 CTTTGGTAAT
Statistics
Matches: 190, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
78 13 0.07
79 5 0.03
80 48 0.25
81 124 0.65
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (81 bp):
GTAATTATGTAAATCGGGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
AATCAGGGGTAAAACG
Found at i:21338323 original size:27 final size:26
Alignment explanation
Indices: 21338293--21338391 Score: 92
Period size: 27 Copynumber: 3.7 Consensus size: 26
21338283 GTAAATCGGG
21338293 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAATTTTACAA-TCGAA
* *
21338320 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAATTTTAC-AATCGAA
* * * *
21338347 GGTATTTCAGTATTTTTACAAACTAA
1 GGTATTTCGGTAATTTTACAATCGAA
*
21338373 GGGTATTTTGGTAATTTTA
1 -GGTATTTCGGTAATTTTA
21338392 GTAAACTAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
26 7 0.12
27 49 0.84
28 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (26 bp):
GGTATTTCGGTAATTTTACAATCGAA
Found at i:21341743 original size:23 final size:23
Alignment explanation
Indices: 21341710--21341827 Score: 112
Period size: 24 Copynumber: 4.9 Consensus size: 23
21341700 GAGCTAATGG
*
21341710 ACAGTAAGCTC-TATTGAGCTGAA
1 ACAGTAAGCTCTTA-CGAGCTGAA
* *
21341733 ACGGTAAGCTCTAACGAGCTGAAA
1 ACAGTAAGCTCTTACGAGCTG-AA
*
21341757 ACAGTAAGCTCTTACGAGCTAAAA
1 ACAGTAAGCTCTTACGAGCT-GAA
*
21341781 ACAGTAAGCTCTTATGAGCTGATA
1 ACAGTAAGCTCTTACGAGCTGA-A
* *
21341805 TATCGGTAAGCTCATACGAGCTG
1 -A-CAGTAAGCTCTTACGAGCTG
21341828 TGGTGAGTCT
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
23 17 0.22
24 43 0.55
25 1 0.01
26 17 0.22
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (23 bp):
ACAGTAAGCTCTTACGAGCTGAA
Found at i:21341763 original size:24 final size:24
Alignment explanation
Indices: 21341710--21341802 Score: 116
Period size: 24 Copynumber: 3.9 Consensus size: 24
21341700 GAGCTAATGG
**
21341710 ACAGTAAGCTCTATTGAGCTG-AA
1 ACAGTAAGCTCTAACGAGCTGAAA
*
21341733 ACGGTAAGCTCTAACGAGCTGAAA
1 ACAGTAAGCTCTAACGAGCTGAAA
* *
21341757 ACAGTAAGCTCTTACGAGCTAAAA
1 ACAGTAAGCTCTAACGAGCTGAAA
* *
21341781 ACAGTAAGCTCTTATGAGCTGA
1 ACAGTAAGCTCTAACGAGCTGA
21341803 TATATCGGTA
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
23 18 0.30
24 43 0.70
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.23
Consensus pattern (24 bp):
ACAGTAAGCTCTAACGAGCTGAAA
Found at i:21345488 original size:40 final size:39
Alignment explanation
Indices: 21345380--21345490 Score: 186
Period size: 39 Copynumber: 2.8 Consensus size: 39
21345370 TGTTCGGGTA
*
21345380 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
21345419 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
* *
21345458 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
21345491 GGCTACCATA
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
39 51 0.75
40 17 0.25
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:21348248 original size:14 final size:14
Alignment explanation
Indices: 21348229--21348261 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
21348219 ATACATATGT
*
21348229 ATGTATGTATGCAA
1 ATGTATGTATACAA
21348243 ATGTATGTATACAA
1 ATGTATGTATACAA
21348257 ATGTA
1 ATGTA
21348262 CCAATTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.36
Consensus pattern (14 bp):
ATGTATGTATACAA
Found at i:21351134 original size:17 final size:17
Alignment explanation
Indices: 21351112--21351157 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
21351102 CGTACTTCTA
21351112 TCATACATTCAATCATT
1 TCATACATTCAATCATT
*
21351129 TCATACAATC-ATCATT
1 TCATACATTCAATCATT
*
21351145 T-A-AAATTCAATCA
1 TCATACATTCAATCA
21351158 ATTTGTCCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 5 0.20
16 7 0.28
17 9 0.36
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (17 bp):
TCATACATTCAATCATT
Found at i:21352456 original size:24 final size:24
Alignment explanation
Indices: 21352414--21352484 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
21352404 TGAGCTGATG
*
21352414 AACAATAAGCTC-GATCGAGTTGGA
1 AACAATAAGCTCTGA-CGAGTTGAA
* *
21352438 AATAATAAGCTCTGACGAGCTGAA
1 AACAATAAGCTCTGACGAGTTGAA
* *
21352462 AACAGTAAGCTCTTACGAGTTGA
1 AACAATAAGCTCTGACGAGTTGA
21352485 TATAACGGTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 37 0.95
25 2 0.05
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (24 bp):
AACAATAAGCTCTGACGAGTTGAA
Found at i:21352498 original size:26 final size:24
Alignment explanation
Indices: 21352443--21352499 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
21352433 TTGGAAATAA
21352443 TAAGCTCTGACGAGCTGAAAACAG
1 TAAGCTCTGACGAGCTGAAAACAG
* * *
21352467 TAAGCTCTTACGAGTTGATATAACGG
1 TAAGCTCTGACGAGCTGA-A-AACAG
21352493 TAAGCTC
1 TAAGCTC
21352500 ATAAAAGCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 16 0.57
25 1 0.04
26 11 0.39
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAGCTCTGACGAGCTGAAAACAG
Found at i:21355813 original size:40 final size:40
Alignment explanation
Indices: 21355663--21355830 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
21355653 CGGAATACAA
* * *
21355663 CCGGATATAACCA-CATGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAATCACCA-GCACAAATGCCTTCGGGTCTTAGC
* ** *
21355703 CCGGATAGAA-CGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACCAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
21355743 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
** * * *
21355783 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
21355823 CCGGATAT
1 CCGGATAT
21355831 CATTCAATTG
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
Found at i:21357084 original size:19 final size:20
Alignment explanation
Indices: 21357060--21357100 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
21357050 GGATGAACAA
21357060 TTTTCTTCCTTTCTTT-TTT
1 TTTTCTTCCTTTCTTTGTTT
*
21357079 TTTTCTTTCTTTCTTTGTTT
1 TTTTCTTCCTTTCTTTGTTT
21357099 TT
1 TT
21357101 GTTTCTCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTTCTTCCTTTCTTTGTTT
Found at i:21359966 original size:68 final size:68
Alignment explanation
Indices: 21359852--21359988 Score: 229
Period size: 68 Copynumber: 2.0 Consensus size: 68
21359842 AAAGCCGAAC
* * *
21359852 GGCTAATGTGAAATACATGTGTGATATGTATGTGTGGTAAAACCGAATGGCTAATGTGAAATACA
1 GGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAACCGAATGGCTAATGTGAAATACA
21359917 TGT
66 TGT
* *
21359920 GGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACA
1 GGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAACCGAATGGCTAATGTGAAATACA
21359985 TGT
66 TGT
21359988 G
1 G
21359989 TGATATGTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (68 bp):
GGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAACCGAATGGCTAATGTGAAATACA
TGT
Found at i:21359971 original size:48 final size:48
Alignment explanation
Indices: 21359919--21360267 Score: 558
Period size: 48 Copynumber: 7.3 Consensus size: 48
21359909 GAAATACATG
* * *
21359919 TGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAA
1 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
*
21359967 TGGCTAATGTGAAATACATGTGTGATATGTATGTGTGGTAAAGCCGAA
1 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
21360015 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
1 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
21360063 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
1 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
21360111 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
1 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
* * * * *
21360159 TGGCTAATGTGAAATATATATGAGATGTGTATATGTCGTAAAGCCGAA
1 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
* * *
21360207 TGGCGAATGTGAAAT--ATGCATGAGATATGAATATGTGGTAAAGCCGAA
1 TGGCTAATGTGAAATACATG--TGTGATATGTATATGTGGTAAAGCCGAA
21360255 TGGCTAATGTGAA
1 TGGCTAATGTGAA
21360268 TGTTGTAACA
Statistics
Matches: 283, Mismatches: 16, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
46 2 0.01
48 281 0.99
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.30
Consensus pattern (48 bp):
TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
Found at i:21360362 original size:37 final size:37
Alignment explanation
Indices: 21360312--21360434 Score: 228
Period size: 37 Copynumber: 3.3 Consensus size: 37
21360302 GGAAATATAT
*
21360312 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
21360349 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
21360386 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
21360423 TCCAGGTAAGAC
1 TCCGGGTAAGAC
21360435 TTTGTAATAA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 84 1.00
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:21362371 original size:40 final size:40
Alignment explanation
Indices: 21362304--21362615 Score: 473
Period size: 40 Copynumber: 7.8 Consensus size: 40
21362294 TGAGAATTGA
* * *
21362304 AGTGATATATCCAGG-CTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCC-GGACTAAGTTCCGAAGAGCATTCGTGCT
*
21362344 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
21362384 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
21362424 AGTGATGTATCCGAACTAAGTTCTGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
21362464 AGTGATGTATCCGGACTAAGTTCCGGAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
21362504 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * * *
21362544 AGTAATGCAACCGGACTAAGTCCCGAAGAGTATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
21362584 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
21362616 ATCATGCTGG
Statistics
Matches: 249, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 2 0.01
40 247 0.99
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:21366609 original size:68 final size:68
Alignment explanation
Indices: 21366495--21366631 Score: 229
Period size: 68 Copynumber: 2.0 Consensus size: 68
21366485 AAAGCCGAAC
* * *
21366495 GGCTAATGTGAAATACATGTGTGATATGTATGTGTGGTAAAACCGAATGGCTAATGTGAAATACA
1 GGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAACCGAATGGCTAATGTGAAATACA
21366560 TGT
66 TGT
* *
21366563 GGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACA
1 GGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAACCGAATGGCTAATGTGAAATACA
21366628 TGT
66 TGT
21366631 G
1 G
21366632 TGATATGTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (68 bp):
GGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAACCGAATGGCTAATGTGAAATACA
TGT
Found at i:21366614 original size:48 final size:48
Alignment explanation
Indices: 21366562--21366910 Score: 563
Period size: 48 Copynumber: 7.3 Consensus size: 48
21366552 GAAATACATG
* * *
21366562 TGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAA
1 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
*
21366610 TGGCTAATGTGAAATACATGTGTGATATGTATGTGTGGTAAAGCCGAA
1 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
21366658 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
1 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
21366706 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
1 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
21366754 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
1 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
* * * * *
21366802 TGGCTAATGTGAAATATATATGAGATGTGTATATGTCGTAAAGCCGAA
1 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
* ** * * *
21366850 TGGCGAATGTGAAATATGTATGAGATATGAATATGTGGTAAAGCCGAA
1 TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
21366898 TGGCTAATGTGAA
1 TGGCTAATGTGAA
21366911 TGTTGTAACA
Statistics
Matches: 285, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 285 1.00
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (48 bp):
TGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAA
Found at i:21367005 original size:37 final size:37
Alignment explanation
Indices: 21366955--21367077 Score: 228
Period size: 37 Copynumber: 3.3 Consensus size: 37
21366945 GGAAATATAT
*
21366955 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
21366992 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
21367029 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
21367066 TCCAGGTAAGAC
1 TCCGGGTAAGAC
21367078 TTTGTAATAA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 84 1.00
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:21375025 original size:40 final size:40
Alignment explanation
Indices: 21374875--21375042 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
21374865 CGGAATACAA
* * *
21374875 CCGGATATAACCA-CATGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAATCACCA-GCACAAATGCCTTCGGGTCTTAGC
* ** *
21374915 CCGGATAGAA-CGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACCAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
21374955 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
** * * *
21374995 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
21375035 CCGGATAT
1 CCGGATAT
21375043 CATTCAATTG
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
Found at i:21376240 original size:17 final size:18
Alignment explanation
Indices: 21376220--21376256 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
21376210 ACTTTTCTTC
*
21376220 CTTTCTTT-TTTTTTTTT
1 CTTTCTTTGTTTTTGTTT
21376237 CTTTCTTTGTTTTTGTTT
1 CTTTCTTTGTTTTTGTTT
21376255 CT
1 CT
21376257 CTCATGTACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (18 bp):
CTTTCTTTGTTTTTGTTT
Found at i:21383009 original size:40 final size:40
Alignment explanation
Indices: 21382859--21383026 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
21382849 CGGAATACAA
* * *
21382859 CCGGATATAACCA-CATGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAATCACCA-GCACAAATGCCTTCGGGTCTTAGC
* ** *
21382899 CCGGATAGAA-CGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACCAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
21382939 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
** * * *
21382979 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
21383019 CCGGATAT
1 CCGGATAT
21383027 CATTCAATTG
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
Found at i:21400441 original size:29 final size:29
Alignment explanation
Indices: 21400309--21400527 Score: 289
Period size: 29 Copynumber: 7.5 Consensus size: 29
21400299 ACTCGATTTC
* * **
21400309 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
21400338 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
21400366 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
21400396 GCAACACTTAGTGCCATATATTTCCAGCAT
1 GC-ACACTTAGTGCCATATATTTCCAGCAT
21400426 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
21400455 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
21400484 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
21400513 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
21400528 ATCTCGTCAC
Statistics
Matches: 169, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
28 2 0.01
29 140 0.83
30 27 0.16
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:21400471 original size:117 final size:116
Alignment explanation
Indices: 21400309--21400527 Score: 289
Period size: 117 Copynumber: 1.9 Consensus size: 116
21400299 ACTCGATTTC
* * * *
21400309 GCACACTTAGTGCCATGTGATTTAAGCCCGCACACATAGTGCCATACCCTTCGAGC-TCGCACAC
1 GCACACTTAGTGCCATATGATTTAAGCACGCACACATAGTGCCATACACTTCCAGCAT-GCACAC
*
21400373 CCAGTGCCGTATATTTCCAGCATGCAACACTTAGTGCCATATATTTCCAGCAT
65 CCAGTGCCATATATTTCCAGCATGC-ACACTTAGTGCCATATATTTCCAGCAT
* * * * *
21400426 GCACACTTAGTGCCATAT-ATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCATGCACAC
1 GCACACTTAGTGCCATATGATTT-AAGCACGCACACATAGTGCCATACACTTCCAGCATGCACAC
**
21400490 TTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCA
65 CCAGTGCCATATATTTCCAGCATGCACACTTAGTGCCA
21400528 ATCTCGTCAC
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
116 17 0.19
117 70 0.80
118 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (116 bp):
GCACACTTAGTGCCATATGATTTAAGCACGCACACATAGTGCCATACACTTCCAGCATGCACACC
CAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
Found at i:21411994 original size:40 final size:40
Alignment explanation
Indices: 21411866--21411996 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
21411856 TATGCTGGAA
* * * *
21411866 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
21411906 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
21411946 ATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
21411986 ATTATATCCGG
1 ATTATATCCGG
21411997 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:21414226 original size:29 final size:29
Alignment explanation
Indices: 21414094--21414312 Score: 289
Period size: 29 Copynumber: 7.5 Consensus size: 29
21414084 ACTCGATTTC
* * **
21414094 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
21414123 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
21414151 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
21414181 GCAACACTTAGTGCCATATATTTCCAGCAT
1 GC-ACACTTAGTGCCATATATTTCCAGCAT
21414211 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
21414240 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
21414269 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
21414298 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
21414313 ATCTCGTCAC
Statistics
Matches: 169, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
28 2 0.01
29 140 0.83
30 27 0.16
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:21414244 original size:117 final size:116
Alignment explanation
Indices: 21414094--21414312 Score: 289
Period size: 117 Copynumber: 1.9 Consensus size: 116
21414084 ACTCGATTTC
* * * *
21414094 GCACACTTAGTGCCATGTGATTTAAGCCCGCACACATAGTGCCATACCCTTCGAGC-TCGCACAC
1 GCACACTTAGTGCCATATGATTTAAGCACGCACACATAGTGCCATACACTTCCAGCAT-GCACAC
*
21414158 CCAGTGCCGTATATTTCCAGCATGCAACACTTAGTGCCATATATTTCCAGCAT
65 CCAGTGCCATATATTTCCAGCATGC-ACACTTAGTGCCATATATTTCCAGCAT
* * * * *
21414211 GCACACTTAGTGCCATAT-ATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCATGCACAC
1 GCACACTTAGTGCCATATGATTT-AAGCACGCACACATAGTGCCATACACTTCCAGCATGCACAC
**
21414275 TTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCA
65 CCAGTGCCATATATTTCCAGCATGCACACTTAGTGCCA
21414313 ATCTCGTCAC
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
116 17 0.19
117 70 0.80
118 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (116 bp):
GCACACTTAGTGCCATATGATTTAAGCACGCACACATAGTGCCATACACTTCCAGCATGCACACC
CAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
Found at i:21419029 original size:29 final size:28
Alignment explanation
Indices: 21418995--21419097 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
21418985 GTGACGAGAT
* *
21418995 TGGCACTAAGTGTGCAAGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCT-CAAATATA
* * *
21419024 TGGCACTGAGTGTGTGAGCTCAAATTGTA
1 TGGCACTAAGTGTGCGAGCTCAAA-TATA
* * * *
21419053 TGGCACTATGTGTGCGGGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTCAAAT-ATA
21419082 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
21419098 TGATCGAGTA
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
28 4 0.07
29 55 0.93
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTCAAATATA
Found at i:21421369 original size:16 final size:16
Alignment explanation
Indices: 21421348--21421380 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
21421338 ATAACTAATC
21421348 TAAAAGAAATGAAACT
1 TAAAAGAAATGAAACT
21421364 TAAAAGAAATGAAACT
1 TAAAAGAAATGAAACT
21421380 T
1 T
21421381 GAATGATAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.61, C:0.06, G:0.12, T:0.21
Consensus pattern (16 bp):
TAAAAGAAATGAAACT
Found at i:21426992 original size:49 final size:49
Alignment explanation
Indices: 21426939--21427169 Score: 327
Period size: 49 Copynumber: 4.7 Consensus size: 49
21426929 CTGGTACGCA
* **
21426939 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATTTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCGGTACACG
* * *
21426988 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATAATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCGGTACACG
* * * * *
21427037 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TAATCCGGTACACG
*
21427088 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCGGTACACG
*
21427137 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
21427170 TCACAATAGG
Statistics
Matches: 159, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
49 113 0.71
50 6 0.04
51 40 0.25
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCGGTACACG
Found at i:21427114 original size:100 final size:98
Alignment explanation
Indices: 21426939--21427169 Score: 372
Period size: 100 Copynumber: 2.3 Consensus size: 98
21426929 CTGGTACGCA
** * *
21426939 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATTTGGTACACGTAGTAGCTTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCGGGTACACATAGTAGCCTGCACTTA
21427004 GTACTACACATGCGACCAATAATCCAGTACACG
66 GTACTACACATGCGACCAATAATCCAGTACACG
* *
21427037 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCGGGTACACATAGTAGCCTGCACT
*
21427102 TAGTACTACACATGTGACCAATAATCCAGTACACG
64 TAGTACTACACATGCGACCAATAATCCAGTACACG
*
21427137 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
21427170 TCACAATAGG
Statistics
Matches: 122, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
98 31 0.25
99 4 0.03
100 87 0.71
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCGGGTACACATAGTAGCCTGCACTTA
GTACTACACATGCGACCAATAATCCAGTACACG
Found at i:21452739 original size:21 final size:20
Alignment explanation
Indices: 21452711--21452753 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
21452701 AGATTTTCAG
*
21452711 TCTGGATGG-TGAATTCGGCT
1 TCTGGATGGATCAATT-GGCT
21452731 TCTGAGATGGATCAATTGGCT
1 TCTG-GATGGATCAATTGGCT
21452752 TC
1 TC
21452754 CTTGGAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.19, C:0.16, G:0.30, T:0.35
Consensus pattern (20 bp):
TCTGGATGGATCAATTGGCT
Found at i:21460339 original size:13 final size:13
Alignment explanation
Indices: 21460321--21460346 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21460311 TACTTAATTA
21460321 AGCCTCAATCATG
1 AGCCTCAATCATG
21460334 AGCCTCAATCATG
1 AGCCTCAATCATG
21460347 TTTTATTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (13 bp):
AGCCTCAATCATG
Found at i:21462611 original size:41 final size:43
Alignment explanation
Indices: 21462494--21462655 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
21462484 ATAGGATTTC
* * * *
21462494 CGATATGTG-TTCTCATGTAAGACCACGTCTGGGA-TGTTGGCAT
1 CGATATGTGATT-ACATGTAAGACCATGTCTGGGACAG-TAGCAT
**
21462537 CGATATGTGATTATGTGTAAGACCATGTCTGGGACA-TCAGCAT
1 CGATATGTGATTACATGTAAGACCATGTCTGGGACAGT-AGCAT
* * * *
21462580 C-ATATTTGATT-CATGTAAGACCCTGTGTGGGACAGTGGCAT
1 CGATATGTGATTACATGTAAGACCATGTCTGGGACAGTAGCAT
**
21462621 CGATATGTGATTACATGTAAGACCACATCTGGGAC
1 CGATATGTGATTACATGTAAGACCATGTCTGGGAC
21462656 GTTGGCACTG
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
41 24 0.25
42 20 0.21
43 50 0.52
44 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
CGATATGTGATTACATGTAAGACCATGTCTGGGACAGTAGCAT
Found at i:21466614 original size:29 final size:29
Alignment explanation
Indices: 21466590--21466683 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
21466580 TCGCACACCC
*
21466590 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
21466619 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
21466648 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
21466677 AGTGCCA
1 AGTGCCA
21466684 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:21466615 original size:58 final size:58
Alignment explanation
Indices: 21466552--21466683 Score: 167
Period size: 58 Copynumber: 2.3 Consensus size: 58
21466542 GATTTAAGCC
* * * *
21466552 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
21466610 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
21466668 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
21466684 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 62 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:21468867 original size:21 final size:21
Alignment explanation
Indices: 21468843--21468885 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
21468833 GCCTACTTCT
21468843 AGTAGACATGATTCAAAGTAA
1 AGTAGACATGATTCAAAGTAA
21468864 AGTAGACATGATTCAAAGTAA
1 AGTAGACATGATTCAAAGTAA
21468885 A
1 A
21468886 TAAATCCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (21 bp):
AGTAGACATGATTCAAAGTAA
Found at i:21468937 original size:44 final size:44
Alignment explanation
Indices: 21468874--21468964 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
21468864 AGTAGACATG
21468874 ATTCAAAGTAAATAAATCCCAAAAGAAAAACTTTAAAAGGCCTT
1 ATTCAAAGTAAATAAATCCCAAAAGAAAAACTTTAAAAGGCCTT
21468918 ATTCAAAGTAAATAAATCCCAAAAGAAAAACTTTAAAAGGCCTT
1 ATTCAAAGTAAATAAATCCCAAAAGAAAAACTTTAAAAGGCCTT
21468962 ATT
1 ATT
21468965 AGAAAACAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (44 bp):
ATTCAAAGTAAATAAATCCCAAAAGAAAAACTTTAAAAGGCCTT
Found at i:21469236 original size:34 final size:34
Alignment explanation
Indices: 21469193--21469270 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
21469183 AGTGATAGTC
* *
21469193 CAGTATCAGT-TAGGGTCATAGCCCATTACAGTAT
1 CAGTATCAGTGTA-GGCCATAGCCCATTACAGTAA
*
21469227 CAGTATCAGTGTAGGCCTTAGCCCATTACAGTAA
1 CAGTATCAGTGTAGGCCATAGCCCATTACAGTAA
*
21469261 CAGTAACAGT
1 CAGTATCAGT
21469271 AATACAATCA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 37 0.95
35 2 0.05
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (34 bp):
CAGTATCAGTGTAGGCCATAGCCCATTACAGTAA
Found at i:21471391 original size:76 final size:76
Alignment explanation
Indices: 21471289--21471437 Score: 271
Period size: 76 Copynumber: 2.0 Consensus size: 76
21471279 CTTGATATCC
* *
21471289 CCACACACATTTAAAAACCCACTATCCAAAACCTAGGGTTTTATTCAAATTTAACAAAAATTTTA
1 CCACACACATTTAAAAACCCACTATCCAAAACCCACGGTTTTATTCAAATTTAACAAAAATTTTA
21471354 CTAAAACCTCT
66 CTAAAACCTCT
*
21471365 CCACACACATTTAAAAACCCACTATCCAAAACCCACGGTTTTATTCAAATTTAACAAAAATTTTG
1 CCACACACATTTAAAAACCCACTATCCAAAACCCACGGTTTTATTCAAATTTAACAAAAATTTTA
21471430 CTAAAACC
66 CTAAAACC
21471438 CAAGTTTGAA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.42, C:0.26, G:0.04, T:0.28
Consensus pattern (76 bp):
CCACACACATTTAAAAACCCACTATCCAAAACCCACGGTTTTATTCAAATTTAACAAAAATTTTA
CTAAAACCTCT
Found at i:21478516 original size:40 final size:39
Alignment explanation
Indices: 21478451--21478654 Score: 221
Period size: 40 Copynumber: 5.1 Consensus size: 39
21478441 CGGAATACAA
* *
21478451 CCGGATATAACCAC-ACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAA-CACTA-GCACAAATGCCTTCGGGTCTTAGC
* *
21478491 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
21478531 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
21478571 CCGGATATAGTCACTAGAACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
21478611 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGC
21478651 CCGG
1 CCGG
21478655 GTATCATTCA
Statistics
Matches: 141, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 139 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:21478901 original size:123 final size:122
Alignment explanation
Indices: 21478623--21478960 Score: 577
Period size: 123 Copynumber: 2.8 Consensus size: 122
21478613 GGATATAATT
* * * * * * *
21478623 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
* *
21478688 ATAATCATTACACATCCATATTTCATTTTGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTATTACTAAGGCTCAAACACAAACATATC
21478745 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
21478810 ATAATCATTACACATCCATATTTCATTTTCATTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTT-ATTACTAAGGCTCAAACACAAACATATC
*
21478868 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
21478933 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
21478961 CACATAATTC
Statistics
Matches: 205, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
122 87 0.42
123 118 0.58
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (122 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTATTACTAAGGCTCAAACACAAACATATC
Found at i:21486047 original size:43 final size:43
Alignment explanation
Indices: 21485930--21486053 Score: 185
Period size: 43 Copynumber: 2.9 Consensus size: 43
21485920 TCATATAATG
* * * *
21485930 ATGCCAATATCCCAGACACGGTCTTACACGTAATTACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATACA
*
21485973 ATGCCAATGTCTCAGACATGGTCTTACATGTAATCACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATACA
* *
21486016 ATGCCAATGTCCCAGACATGGTCTTATATGTATTCACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
21486054 TCTCGATAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATACA
Found at i:21491168 original size:32 final size:32
Alignment explanation
Indices: 21491124--21491197 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
21491114 ATGGTTCAAA
* * *
21491124 AAATTTAAAATGCCAACATATCGCAGTAATAC
1 AAATTTACAATGCCAACATATCACAATAATAC
21491156 AAATTTACAATGCCAACATATCACAATAATAC
1 AAATTTACAATGCCAACATATCACAATAATAC
21491188 AAATTTACAA
1 AAATTTACAA
21491198 ATCACGTCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.50, C:0.19, G:0.05, T:0.26
Consensus pattern (32 bp):
AAATTTACAATGCCAACATATCACAATAATAC
Found at i:21498930 original size:28 final size:27
Alignment explanation
Indices: 21498882--21498987 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
21498872 ATGCCAGAAT
* *
21498882 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
*
21498909 AGATAATCGTGGCAGAGCCACCAGA-AT
1 AGATAAT-GTGGCAGAGCCACCAGATAC
21498936 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
* *
21498963 AGATAATTTGTGGCATAACCACCAG
1 AGATAA--TGTGGCAGAGCCACCAG
21498988 GACACTTCCT
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.01
27 35 0.51
28 32 0.47
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:21498958 original size:55 final size:54
Alignment explanation
Indices: 21498875--21498987 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
21498865 AGCATGGATG
* *
21498875 CCAGAATAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAATAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAACCA
* * *
21498929 CCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAACCA
1 CCAGAATAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAACCA
21498984 CCAG
1 CCAG
21498988 GACACTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 19 0.37
55 33 0.63
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (54 bp):
CCAGAATAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAACCA
Found at i:21506756 original size:27 final size:27
Alignment explanation
Indices: 21506724--21506829 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
21506714 TTGCCAGAAT
** *
21506724 AGATAATGTGATAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
21506751 AGATAATTGTGGCAGAGCCACCAGA-AC
1 AGATAA-TGTGGCAGAGCCACCAGATAC
21506778 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
*
21506805 AGATAATTTGTGGCATAGCCACCAG
1 AGATAA--TGTGGCAGAGCCACCAG
21506830 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
26 1 0.01
27 37 0.53
28 32 0.46
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:21506767 original size:28 final size:28
Alignment explanation
Indices: 21506736--21506829 Score: 131
Period size: 27 Copynumber: 3.4 Consensus size: 28
21506726 ATAATGTGAT
*
21506736 AGAGTCACCAGATACAGATAATTGTGGC
1 AGAGCCACCAGATACAGATAATTGTGGC
21506764 AGAGCCACCAGA-ACAGAT-ATATGTGGC
1 AGAGCCACCAGATACAGATAAT-TGTGGC
21506791 AGAGCCACCAGAT-CAGATAATTTGTGGC
1 AGAGCCACCAGATACAGATAA-TTGTGGC
*
21506819 ATAGCCACCAG
1 AGAGCCACCAG
21506830 GACGCTTCCT
Statistics
Matches: 60, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
26 2 0.03
27 29 0.48
28 28 0.47
29 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (28 bp):
AGAGCCACCAGATACAGATAATTGTGGC
Found at i:21506801 original size:55 final size:54
Alignment explanation
Indices: 21506717--21506829 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
21506707 AGCATGGTTG
* * *
21506717 CCAGAATAGATAATGTGATAGAGTCACCAGATACAGATAA-TTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTTGTGGCAGAGCCA
* *
21506771 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTTGTGGCAGAGCCA
21506826 CCAG
1 CCAG
21506830 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 18 0.35
55 34 0.65
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTTGTGGCAGAGCCA
Found at i:21510202 original size:40 final size:40
Alignment explanation
Indices: 21510145--21510346 Score: 284
Period size: 40 Copynumber: 5.1 Consensus size: 40
21510135 TGGATGATAA
* * * *
21510145 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTA-GT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
21510184 CCTGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CC-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
21510225 CCGGGCTAAGTCCCGAAGGCATTTGTG-GAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
21510264 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
21510304 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
21510344 CCG
1 CCG
21510347 ATTAAATCCC
Statistics
Matches: 150, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
39 42 0.28
40 105 0.70
41 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:21510292 original size:79 final size:80
Alignment explanation
Indices: 21510145--21510335 Score: 278
Period size: 79 Copynumber: 2.4 Consensus size: 80
21510135 TGGATGATAA
* * * *
21510145 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTCCTGGGCTAAGTTCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAATCCTGGGCTAAGTCCCGAAGGCATTCG
21510210 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* *
21510225 CCGGGCTAAGTCCCGAAGGCATTTGTG-GAGTTACTATATCC-GGGCTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTA-ATCCTGGGCTAAGTCCCGAAGGCATTC
21510288 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAT
* * *
21510304 CCGGGCTATGTCCCGAAGGCATTCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGT
21510336 AGCTATATCC
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 67 0.67
80 33 0.33
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAATCCTGGGCTAAGTCCCGAAGGCATTCG
TGCGAGTTACTATAT
Found at i:21510357 original size:79 final size:79
Alignment explanation
Indices: 21510145--21510361 Score: 242
Period size: 79 Copynumber: 2.7 Consensus size: 79
21510135 TGGATGATAA
* * * * * * * * *
21510145 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTA-GTCCTGGGCTAAGTTCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGAG-GAGTTACTATATCC-GGACTAAATCCCGAAGGCATTC
21510209 GTGCGAGTTACTATAT
64 GTGCGAGTTACTATAT
* * * *
21510225 CCGGGCTAAGTCCCGAAGGCATTTGTGGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGT
1 CCGGGCTAAGTCCCGAAGGCATTCGAGGAGTTACTATATCCGGACTAAATCCCGAAGGCATTCGT
21510290 GCGAGTTACTATAT
66 GCGAGTTACTATAT
* *
21510304 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC-GATTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAG-GAGTTA-CTATATCCGGACTAAATCCCGAAGG
21510362 TACTTGGCTT
Statistics
Matches: 122, Mismatches: 12, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
79 82 0.67
80 40 0.33
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAGGAGTTACTATATCCGGACTAAATCCCGAAGGCATTCGT
GCGAGTTACTATAT
Found at i:21514377 original size:24 final size:24
Alignment explanation
Indices: 21514350--21514412 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
21514340 CTTATTATGT
21514350 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
21514374 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
21514398 TCACACACATAGTGC
1 TCGCACACATAGTGC
21514413 AATTGAGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:21522987 original size:39 final size:39
Alignment explanation
Indices: 21522933--21523123 Score: 346
Period size: 39 Copynumber: 4.9 Consensus size: 39
21522923 TGTTCGGGTA
*
21522933 ATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
21522972 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
21523011 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
21523050 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
* *
21523089 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAG
21523124 CTACTATAAC
Statistics
Matches: 148, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
39 129 0.87
40 19 0.13
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:21523172 original size:79 final size:78
Alignment explanation
Indices: 21522933--21523189 Score: 261
Period size: 78 Copynumber: 3.3 Consensus size: 78
21522923 TGTTCGGGTA
* * ** *
21522933 ATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 ATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGTACTGATAACCGGGCTAAGCCCGAAGGCAAT
** *
21522998 TGTGCGAGTTGTG
66 TGAACGAGTAGTG
* ** *
21523011 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 ATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGTACTGATAACCGGGCTAAGCCCGAAGGCAAT
** *
21523076 TGTGCGAGTTGTG
66 TGAACGAGTAGTG
* *
21523089 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACT-ATAACCGGGCTATGTCCCGAAGGC
1 ATATCCGGGTTAAG-CCCGAAGGCAATTGTGCGAG-TACTGATAACCGGGCTAAG-CCCGAAGGC
**
21523153 GTTTGAAC-AGTAGCT-
63 AATTGAACGAGTAG-TG
*
21523168 ATATCC-GGTTAAACTCCGAAGG
1 ATATCCGGGTTAAGC-CCGAAGG
21523190 TACGTGATTT
Statistics
Matches: 161, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
77 1 0.01
78 103 0.64
79 41 0.25
80 16 0.10
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (78 bp):
ATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGTACTGATAACCGGGCTAAGCCCGAAGGCAAT
TGAACGAGTAGTG
Found at i:21531096 original size:40 final size:39
Alignment explanation
Indices: 21530955--21531067 Score: 199
Period size: 39 Copynumber: 2.9 Consensus size: 39
21530945 TGTTCGGGTA
21530955 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
21530994 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
* *
21531033 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAG
21531068 CTACTATAAC
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 52 0.73
40 19 0.27
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:21531115 original size:40 final size:40
Alignment explanation
Indices: 21530959--21531120 Score: 100
Period size: 40 Copynumber: 4.1 Consensus size: 40
21530949 CGGGTAATAT
* ** ** *
21530959 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAG-TTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTACT-ATAA
* ** ** *
21530998 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAG-TTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTACT-ATAA
* **
21531037 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTACTATAA
* * *
21531077 CCGGGCTATGTCCCGAAGGCGTTTGAACGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTA-CTATAA
21531117 CCGG
1 CCGG
21531121 TTAAACTCCG
Statistics
Matches: 109, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 50 0.46
40 57 0.52
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTACTATAA
Found at i:21531123 original size:79 final size:78
Alignment explanation
Indices: 21530955--21531134 Score: 186
Period size: 79 Copynumber: 2.3 Consensus size: 78
21530945 TGTTCGGGTA
* ** *
21530955 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 ATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGTACTGATAACCGGGCTAAGCCCGAAGGCAAT
** *
21531020 TGTGCGAGTTGTG
66 TGAACGAGTAGTG
* *
21531033 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACT-ATAACCGGGCTATGTCCCGAAGGC
1 ATATCCGGGTTAAG-CCCGAAGGCAATTGTGCGAG-TACTGATAACCGGGCTAAG-CCCGAAGGC
**
21531097 GTTTGAACGAGTAGCT-
63 AATTGAACGAGTAG-TG
*
21531113 ATATCC-GGTTAAACTCCGAAGG
1 ATATCCGGGTTAAGC-CCGAAGG
21531135 TACGTGATTT
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
78 14 0.16
79 44 0.52
80 26 0.31
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (78 bp):
ATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGTACTGATAACCGGGCTAAGCCCGAAGGCAAT
TGAACGAGTAGTG
Found at i:21533263 original size:28 final size:28
Alignment explanation
Indices: 21533218--21533286 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
21533208 ATTTAAACCC
*
21533218 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
21533245 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
21533273 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
21533287 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:21535049 original size:12 final size:12
Alignment explanation
Indices: 21535034--21535058 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21535024 ACAGTAAATA
21535034 ATAAAAATTTTC
1 ATAAAAATTTTC
21535046 ATAAAAATTTTC
1 ATAAAAATTTTC
21535058 A
1 A
21535059 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:21535109 original size:19 final size:18
Alignment explanation
Indices: 21535072--21535115 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
21535062 ATACATACAG
21535072 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
21535089 TAATAATTTTATCTTATAA
1 TAATAATTTT-TCTAATAA
*
21535108 TACTAATT
1 TAATAATT
21535116 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:21536061 original size:40 final size:40
Alignment explanation
Indices: 21536002--21536218 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
21535992 TGGATGATAA
* * * * *
21536002 CCGGGCTAAGTCCCAAAGGCATTTGCGCTAGTGACTAGT-C
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
21536042 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
21536082 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
21536122 CCGGGCTAAGTCCCAAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
21536162 CCGGGCTATGT-CCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
21536201 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
21536219 TACTTGGCTT
Statistics
Matches: 159, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 7 0.04
39 33 0.21
40 119 0.75
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:21540359 original size:40 final size:40
Alignment explanation
Indices: 21540232--21540361 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
21540222 ATGCTGGAAA
* *
21540232 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
21540272 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
21540312 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
21540352 TTATATCCGG
1 TTATATCCGG
21540362 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:21548288 original size:40 final size:40
Alignment explanation
Indices: 21548222--21548365 Score: 150
Period size: 40 Copynumber: 3.6 Consensus size: 40
21548212 AAATTGAATG
* * *
21548222 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
21548261 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
21548301 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
*
21548341 CTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
21548366 TTCGTGCACG
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.19
40 69 0.81
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:21548386 original size:40 final size:40
Alignment explanation
Indices: 21548259--21548388 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
21548249 ATGCTGGAAA
* *
21548259 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
21548299 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
21548339 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
21548379 TTATATCCGG
1 TTATATCCGG
21548389 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:21551103 original size:28 final size:28
Alignment explanation
Indices: 21551057--21551125 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
21551047 TTTAAAACCC
*
21551057 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
21551084 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
21551112 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
21551126 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:21552954 original size:19 final size:18
Alignment explanation
Indices: 21552917--21552960 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
21552907 ATACATACAG
21552917 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
21552934 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
21552953 TACTAATT
1 TAATAATT
21552961 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:21555378 original size:28 final size:28
Alignment explanation
Indices: 21555332--21555400 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
21555322 TTTAAAACCC
*
21555332 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
21555359 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
21555387 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
21555401 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:21557230 original size:19 final size:18
Alignment explanation
Indices: 21557193--21557236 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
21557183 ATACATACAG
21557193 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
21557210 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
21557229 TACTAATT
1 TAATAATT
21557237 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:21559622 original size:28 final size:28
Alignment explanation
Indices: 21559576--21559644 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
21559566 TTTAAAACCC
*
21559576 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
21559603 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
21559631 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
21559645 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:21561969 original size:46 final size:48
Alignment explanation
Indices: 21561865--21562089 Score: 241
Period size: 46 Copynumber: 4.8 Consensus size: 48
21561855 TCACATTATC
* **
21561865 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-CA
1 AGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGATGT
* * *
21561913 AGAGCTAGTGTAAGA-CATGTCTAGGACATGCATCGGCCTCGAGATGT
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGATGT
21561960 A-AGCCAGTGTAAGA-CATGTCTGGGACATGCATCGGC-TACGAGATGT
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCAT-CGAGATGT
* * * *
21562006 ---GTCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATGGATATGT
1 AGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGATGT
* *
21562052 GAGAGCTAGTGTAAGACCATGTTTGGGACATGTCATCG
1 -AGAGCCAGTGTAAGACCATGTCTGGGACATG-CATCG
21562090 ACATTATACC
Statistics
Matches: 151, Mismatches: 16, Indels: 18
0.82 0.09 0.10
Matches are distributed among these distances:
44 11 0.07
45 15 0.10
46 67 0.44
47 15 0.10
48 14 0.09
49 1 0.01
50 28 0.19
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (48 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGATGT
Found at i:21571495 original size:26 final size:27
Alignment explanation
Indices: 21571463--21571517 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
21571453 GTCTCCACAT
21571463 ACAGATA-TTATGGCAGAGCCACCAGA
1 ACAGATATTTATGGCAGAGCCACCAGA
* *
21571489 ACAGATATTTGTGGCATAGCCACCAGA
1 ACAGATATTTATGGCAGAGCCACCAGA
21571516 AC
1 AC
21571518 GCTTCCTCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (27 bp):
ACAGATATTTATGGCAGAGCCACCAGA
Found at i:21577583 original size:29 final size:28
Alignment explanation
Indices: 21577481--21577583 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 28
21577471 GTGACGAGAT
* *
21577481 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
*
21577510 TGGCACTAAGTGTGAGAGCTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
21577539 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
21577568 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
21577584 TGATCGATTA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
28 4 0.06
29 61 0.94
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:21585762 original size:29 final size:28
Alignment explanation
Indices: 21585660--21585762 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 28
21585650 GTGACGAGAT
* *
21585660 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
*
21585689 TGGCACTAAGTGTGAGAGCTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
21585718 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
21585747 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
21585763 TGATCGATTA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
28 4 0.06
29 61 0.94
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:21587481 original size:27 final size:27
Alignment explanation
Indices: 21587427--21587509 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
21587417 AGCATGGCTG
* ** *
21587427 CCAGAACAGATA-TTGTGACCTAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
*
21587453 CCAGATACAGATA-TTGTGGTAGAGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
*
21587480 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
21587507 CCA
1 CCA
21587510 AAACGCTTCC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 12 0.25
27 36 0.75
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.22
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:21593571 original size:46 final size:46
Alignment explanation
Indices: 21593504--21593678 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
21593494 TGTAACCCGC
21593504 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGAATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGAATTCGCAT
21593550 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GG-A--CGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGAATTCG-C-A--T
* *** **
21593596 ACATCTCTCGAACTCGGACTCAACTCAACGAG-TTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGA-ATTCGCAT
*
21593643 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
21593679 ATGCCCAAAC
Statistics
Matches: 107, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 2 0.02
45 2 0.02
46 63 0.59
47 32 0.30
49 2 0.02
50 1 0.01
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGAATTCGCAT
Found at i:21595916 original size:27 final size:27
Alignment explanation
Indices: 21595895--21596193 Score: 347
Period size: 27 Copynumber: 11.1 Consensus size: 27
21595885 ATACCCCTGG
*
21595895 TTTATAGAATTACCGTTTTACCCTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
***
21595921 GTTTACAGAATTATTATTTTACCCTCGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
*
21595949 TTTACAGAATTACCATTTTACCCTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
**
21595975 GTTTACAGAATTACTATTTTACCCTCGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
21596003 TTTACAGAATTACCGTTTTACCCTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
*
21596029 GTTTACAGAATTACTGTTTTACCCTCGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
*
21596057 TTTACAGAATTACCATTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
** *
21596084 TTTGTAAAATTACCGTTTTACCCGT-GA
1 TTTACAGAATTACCGTTTTACCC-TCGA
* ** *
21596111 TTTATAGAATTATTGGTTTACCCTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
* *
21596137 GTTTACAAAATTATCGTTTTACCCTCGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
*
21596165 TTTACAGAATTACCGTTTTACCCTTGA
1 TTTACAGAATTACCGTTTTACCCTCGA
21596192 TT
1 TT
21596194 GTGAAATTAC
Statistics
Matches: 235, Mismatches: 28, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.02
27 226 0.96
28 5 0.02
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
TTTACAGAATTACCGTTTTACCCTCGA
Found at i:21595958 original size:54 final size:54
Alignment explanation
Indices: 21595895--21596188 Score: 407
Period size: 54 Copynumber: 5.4 Consensus size: 54
21595885 ATACCCCTGG
* * *
21595895 TTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTATTATTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCGA
* *
21595949 TTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCGA
21596003 TTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCGA
* * *
21596057 TTTACAGAATTACCATTTTACCCTCGATTTGTA-A-AATTACCGTTTTACCCGT-GA
1 TTTACAGAATTACCGTTTTACCCTC-AGTT-TACAGAATTACTGTTTTACCC-TCGA
* ** * *
21596111 TTTATAGAATTATTGGTTTACCCTCAGTTTACAAAATTA-TCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACT-GTTTTACCCTCGA
21596165 TTTACAGAATTACCGTTTTACCCT
1 TTTACAGAATTACCGTTTTACCCT
21596189 TGATTGTGAA
Statistics
Matches: 214, Mismatches: 19, Indels: 14
0.87 0.08 0.06
Matches are distributed among these distances:
52 2 0.01
53 5 0.02
54 200 0.93
55 5 0.02
56 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (54 bp):
TTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCGA
Found at i:21596228 original size:27 final size:27
Alignment explanation
Indices: 21596198--21596365 Score: 176
Period size: 27 Copynumber: 6.3 Consensus size: 27
21596188 TTGATTGTGA
*
21596198 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* ** * *
21596225 AATTACTGAAATACCTTTATAAGATAG
1 AATTACCGAAATACCCCTATAGGGTAG
*
21596252 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * * *
21596279 AATTATCGAAATACTCTTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* *
21596306 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * * *
21596333 AATTACCGAGATACCCTTGT-GGGTAA
1 AATTACCGAAATACCCCTATAGGGTAG
21596359 AATTACC
1 AATTACC
21596366 ATTTTGCCCC
Statistics
Matches: 118, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
26 12 0.10
27 106 0.90
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCCTATAGGGTAG
Found at i:21596352 original size:54 final size:54
Alignment explanation
Indices: 21596196--21596361 Score: 201
Period size: 54 Copynumber: 3.1 Consensus size: 54
21596186 CCTTGATTGT
* * * * * *
21596196 GAAATTACTGAAATACCCCTATAGGGTAGAATTACTGAAATACCTTTATAAGATA
1 GAAA-TACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
* * * *
21596251 GAATTACCAAAATACCCCTATAGGGTAGAATTATCGAAATACTCTTGTAGGGTA
1 GAAATACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
* *
21596305 GAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGT-GGGTA
1 GAAATACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
21596358 -AAAT
1 GAAAT
21596362 TACCATTTTG
Statistics
Matches: 95, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 4 0.04
53 5 0.05
54 83 0.87
55 3 0.03
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (54 bp):
GAAATACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
Found at i:21596602 original size:27 final size:26
Alignment explanation
Indices: 21596564--21596646 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
21596554 CGGAGGAAGC
*
21596564 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
21596591 GTTCTGGTGGCTCTGCGACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
21596617 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
21596644 GTT
1 GTT
21596647 GACCGATTGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 10 0.20
27 39 0.80
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:21596766 original size:22 final size:22
Alignment explanation
Indices: 21596741--21596792 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
21596731 TTAATAGCTC
21596741 TGTGCCAACCTAAATATGGCTT
1 TGTGCCAACCTAAATATGGCTT
* * * *
21596763 TGTGCCATCTTGACTATGGCTT
1 TGTGCCAACCTAAATATGGCTT
*
21596785 CGTGCCAA
1 TGTGCCAA
21596793 ACGTATTTAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (22 bp):
TGTGCCAACCTAAATATGGCTT
Found at i:21597157 original size:6 final size:6
Alignment explanation
Indices: 21597148--21597407 Score: 202
Period size: 6 Copynumber: 42.8 Consensus size: 6
21597138 TTGCATTCAC
* * *
21597148 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTA ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
*
21597197 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * *
21597245 ATTCT- ATCACGTA ATTCTA ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
* *
21597294 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
21597343 ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
21597391 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
21597408 CATTTTGGTT
Statistics
Matches: 210, Mismatches: 17, Indels: 54
0.75 0.06 0.19
Matches are distributed among these distances:
5 19 0.09
6 169 0.80
7 15 0.07
8 7 0.03
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:21597288 original size:85 final size:85
Alignment explanation
Indices: 21597148--21597407 Score: 427
Period size: 85 Copynumber: 3.2 Consensus size: 85
21597138 TTGCATTCAC
21597148 ATTCTGATTCTGATTCTGTCACGTAATTCTAATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACGTAATTCTAATTCTGATTCTGATTCTGTTACTAATATTGATTC
21597213 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
*
21597233 ATTCTGATTCTGATTCTATCACGTAATTCTAATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACGTAATTCTAATTCTGATTCTGATTCTGTTACTAATATTGATTC
21597298 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
21597318 ATTCTGATTCTGATTCTGTCAC------CT-A-----ATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACGTAATTCTAATTCTGATTCTGATTCTGTTACTAATATTGATTC
21597371 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
21597391 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
21597408 CATTTTGGTT
Statistics
Matches: 173, Mismatches: 2, Indels: 12
0.93 0.01 0.06
Matches are distributed among these distances:
73 65 0.38
78 1 0.01
79 2 0.01
85 105 0.61
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACGTAATTCTAATTCTGATTCTGATTCTGTTACTAATATTGATTC
TGATTCTGATTCTGTTACTG
Found at i:21597348 original size:19 final size:18
Alignment explanation
Indices: 21597324--21597372 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
21597314 ACTGATTCTG
21597324 ATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGTCA-CTA
*
21597343 ATTCTGATTCTGTTACTA
1 ATTCTGATTCTGTCACTA
21597361 ATAT-TGATTCTG
1 AT-TCTGATTCTG
21597373 ATTCTGATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 13 0.46
19 15 0.54
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.47
Consensus pattern (18 bp):
ATTCTGATTCTGTCACTA
Found at i:21597389 original size:30 final size:30
Alignment explanation
Indices: 21597148--21597335 Score: 239
Period size: 30 Copynumber: 6.4 Consensus size: 30
21597138 TTGCATTCAC
* *
21597148 ATTCTGATTCTGATTCTGTCACGTAATTCTA
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
21597179 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
21597209 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
21597239 ATTCTGATTCT-A-TC----ACGTAATTCTA
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
21597264 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
21597294 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
21597324 ATTCTGATTCTG
1 ATTCTGATTCTG
21597336 TCACCTAATT
Statistics
Matches: 139, Mismatches: 7, Indels: 23
0.82 0.04 0.14
Matches are distributed among these distances:
24 2 0.01
25 17 0.12
26 1 0.01
27 2 0.01
28 2 0.01
29 3 0.02
30 87 0.63
31 25 0.18
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:21599560 original size:33 final size:33
Alignment explanation
Indices: 21599518--21599622 Score: 129
Period size: 33 Copynumber: 3.1 Consensus size: 33
21599508 ATTGCATTAC
21599518 ACTGTTACTGTATAGGGCTAAGGCCCAGATTGT
1 ACTGTTACTGTATAGGGCTAAGGCCCAGATTGT
* *
21599551 ACTGTTACTGTATAGGGCCAAGACCCAGATTGT
1 ACTGTTACTGTATAGGGCTAAGGCCCAGATTGT
* * * * *
21599584 ATTGATTACTGAATAGGGATCAGGCCTAGATTGTT
1 ACTG-TTACTGTATAGGGCTAAGGCCCAGATTG-T
21599619 ACTG
1 ACTG
21599623 CATGCATTGT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 34 0.57
34 22 0.37
35 4 0.07
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (33 bp):
ACTGTTACTGTATAGGGCTAAGGCCCAGATTGT
Found at i:21604413 original size:46 final size:46
Alignment explanation
Indices: 21604247--21604419 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
21604237 TGTAACCCGC
* * * * * *
21604247 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
* * *
21604293 CCATGAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTT-CAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-A-TTTGCAT
*
21604343 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
*
21604386 CCATAAGTGAACTCGGAATCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
21604420 GGATGCTCAA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 3 0.03
45 3 0.03
46 56 0.53
47 26 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
Found at i:21604418 original size:93 final size:93
Alignment explanation
Indices: 21604255--21604425 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
21604245 GCCCATAAGC
* * * * *
21604255 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGAATCAACTCAA
*
21604320 TGAGTTCGGATGCCTAGTTTCATCTCAT
66 CGAGTTCGGATGCCTAGTTTCATCTCAT
* *
21604348 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGAATCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGAATCAACTCAA
21604413 CGAGTTCGGATGC
66 CGAGTTCGGATGC
21604426 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGAATCAACTCAA
CGAGTTCGGATGCCTAGTTTCATCTCAT
Found at i:21609567 original size:16 final size:15
Alignment explanation
Indices: 21609542--21609571 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
21609532 CTAGATCGGC
21609542 AAAAGCCGAAAAGCT
1 AAAAGCCGAAAAGCT
21609557 AAAATGCCGAAAAGC
1 AAAA-GCCGAAAAGC
21609572 CGGTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.20, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAAGCCGAAAAGCT
Found at i:21609874 original size:28 final size:28
Alignment explanation
Indices: 21609819--21609910 Score: 143
Period size: 28 Copynumber: 3.3 Consensus size: 28
21609809 ATGTACTAGA
*
21609819 ATACCCCTATTTATG-AAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
21609846 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
21609874 ATACCCCTATGTATGCAAAATGACC-TCT
1 ATACCCCTATGTATGCAAAATTACCAT-T
21609902 ATACCCCTA
1 ATACCCCTA
21609911 GGGTTAATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
27 15 0.25
28 46 0.75
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:21610073 original size:27 final size:28
Alignment explanation
Indices: 21610026--21610105 Score: 108
Period size: 27 Copynumber: 2.9 Consensus size: 28
21610016 CTAGTGGCTA
* *
21610026 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGGCAC
**
21610054 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGGCAC
21610081 TGCCACAAAATATCTGTATCTGGTG
1 TGCCACAAAATATCTGT-TCTGGTG
21610106 ACTCTGTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 23 0.52
28 14 0.32
29 7 0.16
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGGCAC
Found at i:21610116 original size:29 final size:28
Alignment explanation
Indices: 21610026--21610116 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
21610016 CTAGTGGCTA
* * *
21610026 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
21610054 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
21610081 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
21610110 TGTCACA
1 TGCCACA
21610117 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:21610124 original size:55 final size:56
Alignment explanation
Indices: 21610026--21610130 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 56
21610016 CTAGTGGCTA
* * *
21610026 TGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-TCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTATCTGGTGGCAC
* * *
21610081 TGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTATCTGG
1 TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTATCTGG
21610131 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
55 22 0.52
56 20 0.48
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (56 bp):
TGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTATCTGGTGGCAC
Found at i:21611498 original size:30 final size:30
Alignment explanation
Indices: 21611457--21611515 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
21611447 AATAAAATTG
*
21611457 AAATGAAAATAAAAAGAAAAAGAAAAAGAA
1 AAATAAAAATAAAAAGAAAAAGAAAAAGAA
* *
21611487 AAATAAAAATAAAAATAAAAATAAAAAGA
1 AAATAAAAATAAAAAGAAAAAGAAAAAGA
21611516 TAAGAGGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.10
Consensus pattern (30 bp):
AAATAAAAATAAAAAGAAAAAGAAAAAGAA
Found at i:21611513 original size:6 final size:6
Alignment explanation
Indices: 21611457--21611513 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
21611447 AATAAAATTG
* * * *
21611457 AAATGA AAATAA AAAGAA AAAGAA AAAGAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
21611505 AAATAA AAA
1 AAATAA AAA
21611514 GATAAGAGGA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (6 bp):
AAATAA
Found at i:21614067 original size:46 final size:46
Alignment explanation
Indices: 21614017--21614179 Score: 172
Period size: 46 Copynumber: 3.5 Consensus size: 46
21614007 GTTGAGCATT
21614017 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * * *
21614063 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TC
* * *
21614110 CGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* *
21614156 CGAGCTCGTTGAGTTGAGCCCGAG
1 CGAACTCGTTGAGTTGAGTCCGAG
21614180 CTCGTTGAGT
Statistics
Matches: 94, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 49 0.52
47 28 0.30
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
Found at i:21614179 original size:93 final size:93
Alignment explanation
Indices: 21614012--21614184 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
21614002 GGATGGTTGA
* * *
21614012 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
* *
21614077 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGCCCGAGCTCGTGAAATGTAACTAG
* *
21614105 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21614170 TGAGCCCGAGCTCGT
66 TGAGCCCGAGCTCGT
21614185 TGAGTTGGGT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGCCCGAGCTCGTGAAATGTAACTAG
Found at i:21614199 original size:20 final size:20
Alignment explanation
Indices: 21614153--21614191 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
21614143 GGATGCGAAC
21614153 GCCCGAGCTCGTTGAGTTGA
1 GCCCGAGCTCGTTGAGTTGA
21614173 GCCCGAGCTCGTTGAGTTG
1 GCCCGAGCTCGTTGAGTTG
21614192 GGTCCGAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.13, C:0.26, G:0.36, T:0.26
Consensus pattern (20 bp):
GCCCGAGCTCGTTGAGTTGA
Found at i:21615989 original size:11 final size:11
Alignment explanation
Indices: 21615981--21616006 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21615971 AGGAAAAATA
21615981 GAGGGAAAAGT
1 GAGGGAAAAGT
21615992 GAGGGAAAAGT
1 GAGGGAAAAGT
21616003 GAGG
1 GAGG
21616007 ATTGATGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.50, T:0.08
Consensus pattern (11 bp):
GAGGGAAAAGT
Found at i:21631750 original size:20 final size:20
Alignment explanation
Indices: 21631725--21631772 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
21631715 AGTGAGCATG
*
21631725 AAAGAATTAATAAATACTCA-
1 AAAGAATTAAAAAAT-CTCAC
*
21631745 AAAGAATCAAAAAATCTCAC
1 AAAGAATTAAAAAATCTCAC
21631765 AAA-AATTA
1 AAAGAATTA
21631773 TGGCTTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.62, C:0.12, G:0.04, T:0.21
Consensus pattern (20 bp):
AAAGAATTAAAAAATCTCAC
Found at i:21633740 original size:27 final size:27
Alignment explanation
Indices: 21633710--21633851 Score: 128
Period size: 27 Copynumber: 5.3 Consensus size: 27
21633700 TAAGTTGTAG
21633710 AATTACCGAAATACCCTTGTAAGGTAA
1 AATTACCGAAATACCCTTGTAAGGTAA
* *
21633737 AATTACCGAAATACCCCTGT-AGGATAG
1 AATTACCGAAATACCCTTGTAAGG-TAA
* * *
21633764 AATTATCGAAATATCCTTGT-TGGCTAGA
1 AATTACCGAAATACCCTTGTAAGG-TA-A
* * *
21633792 AA-TACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAAGGTAA
* * * *
21633818 AATTATCGAGATACTCTTGTAGGGTAA
1 AATTACCGAAATACCCTTGTAAGGTAA
21633845 AATTACC
1 AATTACC
21633852 ATTTTGTCCC
Statistics
Matches: 92, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
26 5 0.05
27 83 0.90
28 4 0.04
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAAGGTAA
Found at i:21633782 original size:54 final size:53
Alignment explanation
Indices: 21633707--21633851 Score: 186
Period size: 54 Copynumber: 2.7 Consensus size: 53
21633697 GGATAAGTTG
*
21633707 TAGAATTACCGAAATACCCTTGTAAGGTAAAATTACCGAAATACCCCTGTAGGA
1 TAGAATTATCGAAATA-CCTTGTAAGGTAAAATTACCGAAATACCCCTGTAGGA
* *
21633761 TAGAATTATCGAAATATCCTTGT-TGGCTAGAAA-TACCGAAATACCCCTGTAGGG
1 TAGAATTATCGAAATA-CCTTGTAAGG-TA-AAATTACCGAAATACCCCTGTAGGA
* *
21633815 TAGAATTATCGAGATACTCTTGTAGGGTAAAATTACC
1 TAGAATTATCGAAATAC-CTTGTAAGGTAAAATTACC
21633852 ATTTTGTCCC
Statistics
Matches: 80, Mismatches: 6, Indels: 10
0.83 0.06 0.10
Matches are distributed among these distances:
53 6 0.08
54 69 0.86
55 5 0.06
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.28
Consensus pattern (53 bp):
TAGAATTATCGAAATACCTTGTAAGGTAAAATTACCGAAATACCCCTGTAGGA
Found at i:21636920 original size:13 final size:13
Alignment explanation
Indices: 21636902--21636926 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21636892 TGTGGGTTCA
21636902 CACGACCGTGTCG
1 CACGACCGTGTCG
21636915 CACGACCGTGTC
1 CACGACCGTGTC
21636927 TAGCTTTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.28, T:0.16
Consensus pattern (13 bp):
CACGACCGTGTCG
Found at i:21653435 original size:27 final size:27
Alignment explanation
Indices: 21653412--21653600 Score: 182
Period size: 27 Copynumber: 7.0 Consensus size: 27
21653402 TAAAATTATT
**
21653412 GAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
21653439 GAAATACCCCTGAAGGGAAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
21653466 GAAATAACCTTGTTA-GGTAGAAATACC
1 GAAATACCCCTG-TAGGGTAGAATTACC
*
21653493 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
21653520 AAAATACCCTTGAAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
21653547 AAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * ** * *
21653574 TAGATACCTTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
21653601 ATTTTGCCCT
Statistics
Matches: 131, Mismatches: 29, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
26 2 0.02
27 128 0.98
28 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:21653598 original size:81 final size:81
Alignment explanation
Indices: 21653412--21653573 Score: 218
Period size: 81 Copynumber: 2.0 Consensus size: 81
21653402 TAAAATTATT
** * * *
21653412 GAAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTGAAGGGAAGAATTACCGAAATAACCTT
1 GAAATACCCCTGTAGGGTAGAATTATCAAAATACCCCTGAAGGGAAGAAATACCAAAATAACCCT
*
21653477 GTTAGGTAGAAATACC
66 GATAGGTAGAAATACC
* * *
21653493 GAAATACCCCTGTAGGGTAGAATTATCAAAATACCCTTGAAGGGTAGAAATACCAAAATACCCCT
1 GAAATACCCCTGTAGGGTAGAATTATCAAAATACCCCTGAAGGGAAGAAATACCAAAATAACCCT
*
21653558 -ATAGGGTAGAATTACC
66 GATA-GGTAGAAATACC
21653574 TAGATACCTT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
80 2 0.03
81 68 0.97
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.23
Consensus pattern (81 bp):
GAAATACCCCTGTAGGGTAGAATTATCAAAATACCCCTGAAGGGAAGAAATACCAAAATAACCCT
GATAGGTAGAAATACC
Done.