Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008124.1 Hibiscus syriacus cultivar Beakdansim tig00110678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3296903
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 19
Found at i:2032313 original size:65 final size:64
Alignment explanation
Indices: 2032180--2032318 Score: 156
Period size: 65 Copynumber: 2.2 Consensus size: 64
2032170 ATGCATTTTG
* * * * **
2032180 TGTACCGATGCACAACCATGCATCGATGCACCCTTGAATTTATTGAAACATCGAATGCATTTTG
1 TGTACCGATGCACAACCATACATCAATGCACCCTTGAATTTATTGAAACATCAAATGCAATTAA
** *
2032244 TGTACCGATGCACATACCATACATCAATGCACTCC-TGGCTCTT-TTGAAACATCAAATGTAATT
1 TGTACCGATGCACA-ACCATACATCAATGCAC-CCTTGAAT-TTATTGAAACATCAAATGCAATT
2032307 AA
63 AA
2032309 TGTACCGATG
1 TGTACCGATG
2032319 AACCCCTAGT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
64 14 0.22
65 45 0.71
66 4 0.06
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (64 bp):
TGTACCGATGCACAACCATACATCAATGCACCCTTGAATTTATTGAAACATCAAATGCAATTAA
Found at i:2034006 original size:24 final size:24
Alignment explanation
Indices: 2033974--2034027 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2033964 TCGAGACATA
2033974 TCTATGTGGAACTTCAATGCAAAT
1 TCTATGTGGAACTTCAATGCAAAT
**
2033998 TCTATGTGGAACTTCGGTGCAAAT
1 TCTATGTGGAACTTCAATGCAAAT
*
2034022 TATATG
1 TCTATG
2034028 AGCAATGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (24 bp):
TCTATGTGGAACTTCAATGCAAAT
Found at i:2034150 original size:19 final size:19
Alignment explanation
Indices: 2034113--2034150 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2034103 TAATGAAATC
*
2034113 AATTGATATAAATTTAAAA
1 AATTGATATAAATTGAAAA
*
2034132 AATTGATATAGATTGAAAA
1 AATTGATATAAATTGAAAA
2034151 GTGTATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (19 bp):
AATTGATATAAATTGAAAA
Found at i:2039145 original size:21 final size:21
Alignment explanation
Indices: 2039120--2039159 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2039110 AAGATTTTAT
2039120 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
2039141 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
2039160 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:2053006 original size:27 final size:27
Alignment explanation
Indices: 2052959--2053014 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
2052949 GCTTGAATGC
* *
2052959 TTGAACTTATATTTATATATTTGATTT
1 TTGAACTTATATTGATATATTAGATTT
* *
2052986 TTGAACTTATATTGGTTTATTAGATTT
1 TTGAACTTATATTGATATATTAGATTT
2053013 TT
1 TT
2053015 TTCATCATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.11, T:0.59
Consensus pattern (27 bp):
TTGAACTTATATTGATATATTAGATTT
Found at i:2053635 original size:18 final size:19
Alignment explanation
Indices: 2053614--2053659 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
2053604 ACACACCATT
* *
2053614 TCGAATGCA-TTTTATGCA
1 TCGAATGCACTGTCATGCA
2053632 TCG-ATGCACTGTCATGCA
1 TCGAATGCACTGTCATGCA
2053650 TC-AATGCACT
1 TCGAATGCACT
2053660 CAGGTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (19 bp):
TCGAATGCACTGTCATGCA
Found at i:2053745 original size:64 final size:64
Alignment explanation
Indices: 2053614--2053768 Score: 163
Period size: 64 Copynumber: 2.4 Consensus size: 64
2053604 ACACACCATT
* * *
2053614 TCGAATGCATTTTATGCATCGATGCACTGTCATGCATCAATGCACTCAGGTTTTTATAAAAATA
1 TCGAATGCATTTTATGCATCGATGCACTGCCATGCATCAATGCACTCAGGTTGTTATAAAAACA
* * * * *
2053678 TCGAATACATTTTATGCATCGATGCA-TAGACCATGCATCGATGCATTTAGGCTTGTT-T-GAAA
1 TCGAATGCATTTTATGCATCGATGCACT-G-CCATGCATCAATGCACTCAGG-TTGTTATAAAAA
2053740 CA
63 CA
* * *
2053742 TCGAATGCATGTTATACATTGATGCAC
1 TCGAATGCATTTTATGCATCGATGCAC
2053769 CCTTAGTGCA
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
63 1 0.01
64 52 0.69
65 18 0.24
66 4 0.05
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (64 bp):
TCGAATGCATTTTATGCATCGATGCACTGCCATGCATCAATGCACTCAGGTTGTTATAAAAACA
Found at i:2056861 original size:24 final size:24
Alignment explanation
Indices: 2056828--2056881 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
2056818 TTTCTAAAAA
* * **
2056828 ATAAATATATTTTAAACTTTAAAT
1 ATAAAAATATTTAAAAAATTAAAT
2056852 ATAAAAATATTTAAAAAATTAAAT
1 ATAAAAATATTTAAAAAATTAAAT
2056876 ATAAAA
1 ATAAAA
2056882 TACCAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
ATAAAAATATTTAAAAAATTAAAT
Found at i:2057784 original size:18 final size:18
Alignment explanation
Indices: 2057741--2057786 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
2057731 TATTAAGCCT
*
2057741 TTTAATTTTTTTTACTAA
1 TTTAATATTTTTTACTAA
* *
2057759 TTTAATATTTTTTAGTAT
1 TTTAATATTTTTTACTAA
*
2057777 TTTTATATTT
1 TTTAATATTT
2057787 AATTTTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTAATATTTTTTACTAA
Found at i:2057803 original size:26 final size:26
Alignment explanation
Indices: 2057749--2057830 Score: 98
Period size: 25 Copynumber: 3.2 Consensus size: 26
2057739 CTTTTAATTT
*
2057749 TTTTTACTAATTTAATATTTT-TT-AGTA
1 TTTTTA-T-ATTTAAT-TTTTATTAAATA
2057776 TTTTTATATTTAATTTTTATTAAATA
1 TTTTTATATTTAATTTTTATTAAATA
*
2057802 TTTTTATATTT-AGTTTTATTAAATA
1 TTTTTATATTTAATTTTTATTAAATA
2057827 TTTT
1 TTTT
2057831 AAATTTTAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
24 4 0.08
25 26 0.51
26 15 0.29
27 6 0.12
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTTTATATTTAATTTTTATTAAATA
Found at i:2065365 original size:21 final size:20
Alignment explanation
Indices: 2065306--2065367 Score: 90
Period size: 20 Copynumber: 3.0 Consensus size: 20
2065296 TTGTGCGATA
*
2065306 TTTCTCGTTGTTTTGCTTGA
1 TTTCTCGTTGTTTTGCTTGG
2065326 TTTCTCGTTGTTTTGCTTGG
1 TTTCTCGTTGTTTTGCTTGG
2065346 TTTCTCTGTTGATTTT-CTTGG
1 TTTCTC-GTTG-TTTTGCTTGG
2065367 T
1 T
2065368 ATACTACTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
20 25 0.64
21 10 0.26
22 4 0.10
ACGTcount: A:0.03, C:0.15, G:0.21, T:0.61
Consensus pattern (20 bp):
TTTCTCGTTGTTTTGCTTGG
Found at i:2065849 original size:5 final size:5
Alignment explanation
Indices: 2065833--2065929 Score: 83
Period size: 5 Copynumber: 19.2 Consensus size: 5
2065823 AAACCAAAAA
* * * *
2065833 ATAAT AATAAT ATAAT ATAAT ATAAT ATAAT ATTAT ATTAT ATTAT ATTAT
1 ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* *
2065884 ATAAA ATAAT A-AAT AATACT ATAA- ATAATAT ATAAT ATAAT A-AAT
1 ATAAT ATAAT ATAAT -ATAAT ATAAT AT-A-AT ATAAT ATAAT ATAAT
2065929 A
1 A
2065930 ATACGTACAC
Statistics
Matches: 80, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
4 9 0.11
5 60 0.75
6 9 0.11
7 2 0.03
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:2065911 original size:19 final size:19
Alignment explanation
Indices: 2065831--2065932 Score: 79
Period size: 19 Copynumber: 5.4 Consensus size: 19
2065821 ATAAACCAAA
2065831 AAATAAT-AATAATATAAT
1 AAATAATAAATAATATAAT
*
2065849 ATAAT-ATAATATAATATTAT
1 A-AATAATAA-ATAATATAAT
* * * *
2065869 ATTATATTATATTATAT-A-
1 A-AATAATAAATAATATAAT
2065887 AAATAATAAATAATACT-AT
1 AAATAATAAATAATA-TAAT
*
2065906 AAATAATATATAATATAAT
1 AAATAATAAATAATATAAT
2065925 AAATAATA
1 AAATAATA
2065933 CGTACACTAT
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
17 10 0.15
18 7 0.10
19 29 0.43
20 19 0.28
21 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATAATAAATAATATAAT
Found at i:2065970 original size:27 final size:29
Alignment explanation
Indices: 2065940--2065996 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
2065930 ATACGTACAC
2065940 TATATT-TATTTT-AAAAACTATACAATA
1 TATATTATATTTTCAAAAACTATACAATA
*
2065967 TATATTATATTTTCAAAAACTATATAATA
1 TATATTATATTTTCAAAAACTATACAATA
2065996 T
1 T
2065997 GTTTTCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 6 0.22
28 6 0.22
29 15 0.56
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (29 bp):
TATATTATATTTTCAAAAACTATACAATA
Found at i:2065991 original size:22 final size:22
Alignment explanation
Indices: 2065965--2066015 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
2065955 AACTATACAA
2065965 TATATATTATATTTTCAAAAAC
1 TATATATTATATTTTCAAAAAC
* * *
2065987 TATATAATATGTTTTCAAAAAT
1 TATATATTATATTTTCAAAAAC
2066009 TATATAT
1 TATATAT
2066016 ATTATATATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (22 bp):
TATATATTATATTTTCAAAAAC
Found at i:2066108 original size:2 final size:2
Alignment explanation
Indices: 2066057--2066089 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2066047 AACTGTAATA
2066057 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2066090 TTAAATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2068260 original size:12 final size:13
Alignment explanation
Indices: 2068233--2068263 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2068223 GTTTTCTTGG
2068233 TTTTTCCTCTCTT
1 TTTTTCCTCTCTT
*
2068246 TTTTTCTTCTCTT
1 TTTTTCCTCTCTT
2068259 TTTTT
1 TTTTT
2068264 GAGGATGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTCCTCTCTT
Found at i:2069519 original size:29 final size:29
Alignment explanation
Indices: 2069457--2069519 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
2069447 GTGGAGCCCT
* *
2069457 CCAAA-AAAATAAAATAAAATAGTAATAA
1 CCAAATAAAATAAAATAAAATAGAAAGAA
*
2069485 CTAAATAAAATAAAATAAAATAGAAAGAA
1 CCAAATAAAATAAAATAAAATAGAAAGAA
2069514 CCAAAT
1 CCAAAT
2069520 CAATTCTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.70, C:0.08, G:0.05, T:0.17
Consensus pattern (29 bp):
CCAAATAAAATAAAATAAAATAGAAAGAA
Found at i:2071494 original size:19 final size:19
Alignment explanation
Indices: 2071470--2071514 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
2071460 GTAACCACAT
2071470 ATCCAAATCCAATCGAAAG
1 ATCCAAATCCAATCGAAAG
2071489 ATCCAAATCCAATCGAAAG
1 ATCCAAATCCAATCGAAAG
2071508 ATCCAAA
1 ATCCAAA
2071515 ACAAGGAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.49, C:0.27, G:0.09, T:0.16
Consensus pattern (19 bp):
ATCCAAATCCAATCGAAAG
Found at i:2071620 original size:23 final size:23
Alignment explanation
Indices: 2071571--2071621 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
2071561 AATAATTCTA
* * *
2071571 TCTTTGTGACAAGTTTTTCTTCG
1 TCTTTATGACAAGTTTTTCGTAG
* *
2071594 TCTTTATGACATGTTTTTCGTAT
1 TCTTTATGACAAGTTTTTCGTAG
2071617 TCTTT
1 TCTTT
2071622 CTATGTCCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.57
Consensus pattern (23 bp):
TCTTTATGACAAGTTTTTCGTAG
Found at i:2072060 original size:19 final size:20
Alignment explanation
Indices: 2072038--2072073 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
2072028 ACTTCTATTA
2072038 AAAAAT-ATGT-AACACAAT
1 AAAAATGATGTAAACACAAT
2072056 AAAAATGATGTAAACACA
1 AAAAATGATGTAAACACA
2072074 TGAGTAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.38
19 4 0.25
20 6 0.38
ACGTcount: A:0.61, C:0.11, G:0.08, T:0.19
Consensus pattern (20 bp):
AAAAATGATGTAAACACAAT
Found at i:2072593 original size:217 final size:216
Alignment explanation
Indices: 2072180--2072613 Score: 676
Period size: 217 Copynumber: 2.0 Consensus size: 216
2072170 TACAATTGTA
* * *
2072180 TGAAAATATAATAATATTTTTAATAATTACACGTGAGTATAATTGCAAGAAGTTTTACTTTTTTA
1 TGAAAATATAAT-ATATTTTTAATAATTACACGTGAGTATAATTACAAGAAATTTTAATTTTTTA
* *
2072245 AATATATTTGACTAACAAGAAATAATTACATTTTTATTTCTCATTTTATAATTGGTAATACAAAT
65 AATATATTTGACTAACAAGAAATAATTACATTTTAATTTCTCATTTTATAATTGGTAACACAAAT
* *
2072310 AATAATTAAAAATTTAAATTTAAATTTTAAATAATATTATTATGAAATCATCCTAGTGAGTGTGG
130 AATAATTAAAAAATT-AATTTAAATTATAAATAATATTATTATGAAATCATCCTAGTGAGTGTGG
2072375 GTAAAATCTACTCATATAATGTT
194 GTAAAATCTACTCATATAATGTT
* * *
2072398 TGAAAATATAAT-TATTATTTAATAATTTCATGTGAGTATAATTACAATAAATTTTAATTTTTTA
1 TGAAAATATAATATATT-TTTAATAATTACACGTGAGTATAATTACAAGAAATTTTAATTTTTTA
*
2072462 AATATATTTGACTAACAATAAATAATTACATTTTAATTTCTCATTTTATAATTGGTAACACAAAT
65 AATATATTTGACTAACAAGAAATAATTACATTTTAATTTCTCATTTTATAATTGGTAACACAAAT
* *
2072527 AATAATTAAAAAAATT-ATTTAAATTATAAATAATATTTTTATGAAATCATCCTTATGTG-TTGT
130 AATAATT-AAAAAATTAATTTAAATTATAAATAATATTATTATGAAATCATCC-TA-GTGAGTGT
2072590 GGGTAAAATCTACTCATATAATGT
192 GGGTAAAATCTACTCATATAATGT
2072614 AAAAAAATCA
Statistics
Matches: 199, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
216 38 0.19
217 139 0.70
218 22 0.11
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (216 bp):
TGAAAATATAATATATTTTTAATAATTACACGTGAGTATAATTACAAGAAATTTTAATTTTTTAA
ATATATTTGACTAACAAGAAATAATTACATTTTAATTTCTCATTTTATAATTGGTAACACAAATA
ATAATTAAAAAATTAATTTAAATTATAAATAATATTATTATGAAATCATCCTAGTGAGTGTGGGT
AAAATCTACTCATATAATGTT
Found at i:2075850 original size:45 final size:45
Alignment explanation
Indices: 2075786--2075891 Score: 203
Period size: 45 Copynumber: 2.4 Consensus size: 45
2075776 GCTGAAAACA
2075786 AAAACACTCCCAACTCGAATCAAACAACTCAGAGTGCTAAAGGTG
1 AAAACACTCCCAACTCGAATCAAACAACTCAGAGTGCTAAAGGTG
2075831 AAAACACTCCCAACTCGAATCAAACAACTCAGAGTGCTAAAGGTG
1 AAAACACTCCCAACTCGAATCAAACAACTCAGAGTGCTAAAGGTG
*
2075876 AAAACACTCCCGACTC
1 AAAACACTCCCAACTC
2075892 CCACCTTCCT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.42, C:0.29, G:0.14, T:0.15
Consensus pattern (45 bp):
AAAACACTCCCAACTCGAATCAAACAACTCAGAGTGCTAAAGGTG
Found at i:2083344 original size:58 final size:58
Alignment explanation
Indices: 2083274--2083387 Score: 176
Period size: 58 Copynumber: 2.0 Consensus size: 58
2083264 CAATTTTGTT
* * *
2083274 AAAAAAATAATTACAAAA-TTAGTAGCGTTTTTCCTTAGTTGTATATTAAGGTTGTCTA
1 AAAAAAAAAATTACAAAATTTA-TAGCGTTTTTCCGTAGTCGTATATTAAGGTTGTCTA
*
2083332 AAAAAAAAAATTACAAAATTTATAGTGTTTTTCCGTAGTCGTATATTAAGGTTGTC
1 AAAAAAAAAATTACAAAATTTATAGCGTTTTTCCGTAGTCGTATATTAAGGTTGTC
2083388 GCATGAGACT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 48 0.94
59 3 0.06
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (58 bp):
AAAAAAAAAATTACAAAATTTATAGCGTTTTTCCGTAGTCGTATATTAAGGTTGTCTA
Found at i:2083519 original size:12 final size:12
Alignment explanation
Indices: 2083487--2083512 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2083477 AGTATGAGAT
2083487 AATATATATTTA
1 AATATATATTTA
2083499 AATATATATTTA
1 AATATATATTTA
2083511 AA
1 AA
2083513 ATTATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AATATATATTTA
Found at i:2085309 original size:29 final size:29
Alignment explanation
Indices: 2085267--2085329 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
2085257 TTTTATTTAG
2085267 TCCCTTAACTATTAGAAGTTACAAAATTA
1 TCCCTTAACTATTAGAAGTTACAAAATTA
* *
2085296 TCCCTTAATTATTAGAAGTTACAAAATTG
1 TCCCTTAACTATTAGAAGTTACAAAATTA
2085325 TCCCT
1 TCCCT
2085330 CGACTATAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.37
Consensus pattern (29 bp):
TCCCTTAACTATTAGAAGTTACAAAATTA
Found at i:2085940 original size:11 final size:12
Alignment explanation
Indices: 2085924--2085956 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
2085914 TTTTTGTCCC
2085924 GTTATTATTA-A
1 GTTATTATTATA
2085935 GTTATTATTATA
1 GTTATTATTATA
2085947 -TTATTATTAT
1 GTTATTATTAT
2085957 TATTTAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 20 0.95
12 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (12 bp):
GTTATTATTATA
Found at i:2087593 original size:2 final size:2
Alignment explanation
Indices: 2087586--2087641 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
2087576 TTTGCATACA
2087586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2087628 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
2087642 GCGAGTCTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2088554 original size:2 final size:2
Alignment explanation
Indices: 2088547--2088609 Score: 55
Period size: 2 Copynumber: 33.5 Consensus size: 2
2088537 TTTTGTAAGC
* * *
2088547 AT AT AT AT AT AT -T AT AT -T AT TT A- AGT GT AT -T AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
2088586 AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2088610 GTATGTAGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
1 5 0.10
2 44 0.90
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2088735 original size:2 final size:2
Alignment explanation
Indices: 2088728--2088859 Score: 155
Period size: 2 Copynumber: 67.0 Consensus size: 2
2088718 ATTTACATAA
2088728 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* ** * * * *
2088770 AT AT A- AT TT AT GC AT AT -T AT TT TT AT -T AA AC AT CA- AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT
2088810 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2088852 AT AT AT AT
1 AT AT AT AT
2088860 TTGTTGTTTG
Statistics
Matches: 113, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
1 4 0.04
2 107 0.95
3 2 0.02
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2102062 original size:111 final size:111
Alignment explanation
Indices: 2101868--2102296 Score: 621
Period size: 111 Copynumber: 3.9 Consensus size: 111
2101858 GTGACAGCGG
* *
2101868 AATGGATCCACTCCTCCAGATCTGATATTCCCTTAGAAGAAGTGGAACATATCAC-CATATTCCA
1 AATGGATCAACTCCTCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATCACTC-TATTCCA
2101932 AGATTTGATATTCCCTGAGTAACAGCGGAACAAGTCTACCCCGATTC
65 AGATTTGATATTCCCTGAGTAACAGCGGAACAAGTCTACCCCGATTC
* * *
2101979 AATGGATTAAATCCTCCAGATCTGATATTCCCTTAGAAGAAGTGGAACATATCACTCTATTCCAA
1 AATGGATCAACTCCTCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATCACTCTATTCCAA
* *
2102044 GATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCCAGATTC
66 GATTTGATATTCCCTGAGTAACAGCGGAACAAGTCTACCCCGATTC
* *
2102090 AATGGATCAACTCCTCCAGATTTGATATTCCCTTAGAAGAAGTGGAACAGATCACCCTATTCCAA
1 AATGGATCAACTCCTCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATCACTCTATTCCAA
* *
2102155 GATTTGATATTCCCTTAGTAACAGCGGAACAAGTCTACCCCAATTC
66 GATTTGATATTCCCTGAGTAACAGCGGAACAAGTCTACCCCGATTC
* * * * * *
2102201 AATAGATCAACTCCCCCAGATCTGAT-TTCCCTTTAGAAGAAGCGGAATAGATCCCTCTCATCCC
1 AATGGATCAACTCCTCCAGATCTGATATTCCC-TTAGAAGAAGTGGAACAGATCACTCT-ATTCC
* * *
2102265 CAGATTTGATA-TCCCTTGAGTGACAGTGGAAC
64 AAGATTTGATATTCCC-TGAGTAACAGCGGAAC
2102297 TGATCATTTA
Statistics
Matches: 288, Mismatches: 26, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
110 5 0.02
111 255 0.89
112 28 0.10
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (111 bp):
AATGGATCAACTCCTCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATCACTCTATTCCAA
GATTTGATATTCCCTGAGTAACAGCGGAACAAGTCTACCCCGATTC
Found at i:2102429 original size:3 final size:3
Alignment explanation
Indices: 2102421--2102457 Score: 56
Period size: 3 Copynumber: 11.7 Consensus size: 3
2102411 TTTCGTCCCG
2102421 TTA TTA TTAA GTTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TT-A -TTA TTA TTA TTA TTA TTA TTA TTA TT
2102458 TAAGATTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 28 0.88
4 2 0.06
5 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2103924 original size:73 final size:73
Alignment explanation
Indices: 2103841--2103986 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
2103831 TTTACCTTTA
2103841 TATTATATATTAAAAGTTGGTAATTCTCATAATATATTTTATGCCATTTACTTTGTAGTTTGTAA
1 TATTATATATTAAAAGTTGGTAATTCTCATAATATATTTTATGCCATTTACTTTGTAGTTTGTAA
2103906 ACACATAC
66 ACACATAC
2103914 TATTATATATTAAAAGTTGGTAATTCTCATAATATATTTTATGCCATTTACTTTGTAGTTTGTAA
1 TATTATATATTAAAAGTTGGTAATTCTCATAATATATTTTATGCCATTTACTTTGTAGTTTGTAA
2103979 ACACATAC
66 ACACATAC
2103987 GGTATATAAC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (73 bp):
TATTATATATTAAAAGTTGGTAATTCTCATAATATATTTTATGCCATTTACTTTGTAGTTTGTAA
ACACATAC
Found at i:2104018 original size:2 final size:2
Alignment explanation
Indices: 2104011--2104116 Score: 132
Period size: 2 Copynumber: 54.5 Consensus size: 2
2104001 TTTTGTAAGC
* *
2104011 AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T AT TT A- AGT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
*
2104051 -T AT AT AA AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2104091 AT AT AT AT AT AT AT AT AT AGT AT AT A
1 AT AT AT AT AT AT AT AT AT A-T AT AT A
2104117 GTATTTAGAA
Statistics
Matches: 91, Mismatches: 6, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
1 5 0.05
2 84 0.92
3 2 0.02
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2104242 original size:2 final size:2
Alignment explanation
Indices: 2104235--2104259 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2104225 ATTTACATAA
2104235 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2104260 AAATTTATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2106770 original size:2 final size:2
Alignment explanation
Indices: 2106765--2106816 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
2106755 TTTTAATAAT
2106765 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2106807 TA TA TA TA TA
1 TA TA TA TA TA
2106817 ACGATATAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2111602 original size:38 final size:38
Alignment explanation
Indices: 2111491--2111603 Score: 88
Period size: 38 Copynumber: 3.0 Consensus size: 38
2111481 GTATATAGTA
* * * * *
2111491 ATATAGTTTGTGAAAATGTTTTTGACA-A-AATATAAT
1 ATATAGTTTTTGAAAATATTTTTAAAATATAATATATT
* * * * *
2111527 ATATAATTTTCAGAAAACGATTTTCGAAAAT-TTATATATT
1 ATATAGTTTT-TGAAAA-TATTTT-TAAAATATAATATATT
2111567 ATATAGTTTTTGAAAATATTTTTAAAATATAATATAT
1 ATATAGTTTTTGAAAATATTTTTAAAATATAATATAT
2111604 AGTTTTGAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
36 8 0.14
37 10 0.18
38 16 0.29
39 7 0.12
40 15 0.27
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (38 bp):
ATATAGTTTTTGAAAATATTTTTAAAATATAATATATT
Found at i:2111623 original size:27 final size:27
Alignment explanation
Indices: 2111556--2111646 Score: 83
Period size: 27 Copynumber: 3.1 Consensus size: 27
2111546 ATTTTCGAAA
* *
2111556 ATTTATATATTATATAGTTTTTGAAAAT
1 ATTTATATAATATATAG-TTTTGAAAAC
2111584 ATTTTTAAAATATAATATATAGTTTTGAAAAC
1 A--TTT---ATATAATATATAGTTTTGAAAAC
* * *
2111616 ATTTATATACTGTATAGTTTTTAAAAC
1 ATTTATATAATATATAGTTTTGAAAAC
2111643 ATTT
1 ATTT
2111647 TGAAAACTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
27 24 0.45
28 1 0.02
30 6 0.11
32 10 0.19
33 12 0.23
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (27 bp):
ATTTATATAATATATAGTTTTGAAAAC
Found at i:2111668 original size:36 final size:37
Alignment explanation
Indices: 2111606--2111923 Score: 221
Period size: 36 Copynumber: 9.2 Consensus size: 37
2111596 TAATATATAG
* *
2111606 TTTTGAAAACATTTATATACTGTATAGTTTTTAAAACA-
1 TTTTGAAAAC--TTATATAATATATAGTTTTTAAAACAT
*
2111644 TTTTGAAAACTTATATAGTATATAGTTTTTAAAACA-
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAACAT
*
2111680 -TTT------TTA-A-AATATA-A-TTTTAAAAACAT
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAACAT
** *
2111706 TTTTGAAGAA-TTATATAATATATAGTTTAAAAAAATATT
1 TTTTGAA-AACTTATATAATATATAGTTT-TTAAAACA-T
* *
2111745 TTTTGAAAAATTATATAATATAAAG-TTTTAAAAGCAT
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAA-CAT
2111782 TTTTGAAAA-TTATATAATATATAG-TTTTAAAACATT
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAACA-T
*
2111818 TTTTGAAAAC-T-TAT-ATA-ATA-TTTTTAAAGCA-
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAACAT
* *
2111849 TTTTGAAAAC-TATATAACATATAGTTTTGAAAAC-T
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAACAT
* *
2111884 TTTT-AAAA--TA-A-AATATATAG-TTTAAAAAAAT
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAACAT
2111915 ATTTTGAAA
1 -TTTTGAAA
2111924 TATATATATT
Statistics
Matches: 235, Mismatches: 18, Indels: 59
0.75 0.06 0.19
Matches are distributed among these distances:
25 10 0.04
26 1 0.00
27 8 0.03
28 1 0.00
29 3 0.01
30 7 0.03
31 20 0.09
32 8 0.03
33 22 0.09
34 11 0.05
35 26 0.11
36 58 0.25
37 17 0.07
38 21 0.09
39 22 0.09
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (37 bp):
TTTTGAAAACTTATATAATATATAGTTTTTAAAACAT
Found at i:2111901 original size:68 final size:68
Alignment explanation
Indices: 2111634--2111902 Score: 195
Period size: 67 Copynumber: 4.0 Consensus size: 68
2111624 ACTGTATAGT
**
2111634 TTTTAAAA-CA-TTTTGAAAACTTATATAGTATATAGTTTTTAAAACATTTTT-----AAA-ATA
1 TTTTAAAAGCATTTTTGAAAAC-TATATAACATATAG-TTTTAAAACATTTTTAAAAAAAATATA
2111691 T-AA-
64 TAAAG
* * * * * *
2111694 TTTTAAAAACATTTTTGAAGAATTATATAATATATAGTTTAAAAAAATATTTTTTGAAAAATTAT
1 TTTTAAAAGCATTTTTGAA-AACTATATAACATATAGTTT--TAAAACA-TTTTT-AAAAA--AA
2111759 ATAATATAAAG
59 AT-ATATAAAG
* * ** **
2111770 TTTTAAAAGCATTTTTGAAAATTATATAATATATAGTTTTAAAACATTTTTTGAAAACTTATATA
1 TTTTAAAAGCATTTTTGAAAACTATATAACATATAGTTTTAAAACATTTTTAAAAAAAATATATA
2111835 ATA-
66 A-AG
*
2111838 TTTTTAAAGCA-TTTTGAAAACTATATAACATATAGTTTTGAAAAC-TTTTTAAAATAAAATATA
1 TTTTAAAAGCATTTTTGAAAACTATATAACATATAGTTTT-AAAACATTTTTAAAA-AAAATATA
2111901 TA
64 TA
2111903 GTTTAAAAAA
Statistics
Matches: 169, Mismatches: 19, Indels: 34
0.76 0.09 0.15
Matches are distributed among these distances:
60 8 0.05
61 5 0.03
62 20 0.12
63 7 0.04
64 5 0.03
67 33 0.20
68 29 0.17
69 3 0.02
71 3 0.02
72 7 0.04
73 5 0.03
74 4 0.02
75 22 0.13
76 18 0.11
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (68 bp):
TTTTAAAAGCATTTTTGAAAACTATATAACATATAGTTTTAAAACATTTTTAAAAAAAATATATA
AAG
Found at i:2111996 original size:19 final size:19
Alignment explanation
Indices: 2111940--2112005 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
2111930 TATTATATAA
*
2111940 ATTATATTTAG-TATATTATT
1 ATTATTTTTAGTTA-ATT-TT
*
2111960 ATTATTTTTTA-TTCATTTT
1 ATTA-TTTTTAGTTAATTTT
*
2111979 ATTATTTTTAGTTAATTTC
1 ATTATTTTTAGTTAATTTT
2111998 ATT-TTTTT
1 ATTATTTTT
2112006 TTCAGGTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 11 0.28
19 15 0.38
20 7 0.18
21 6 0.15
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (19 bp):
ATTATTTTTAGTTAATTTT
Found at i:2113255 original size:20 final size:21
Alignment explanation
Indices: 2113232--2113282 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
2113222 CTTATTAACT
* *
2113232 TTTTTTATTTGTTTTTA-TTC
1 TTTTTTATTTGCTTTGATTTC
2113252 TTTTTTATTTGCTTTGATTTC
1 TTTTTTATTTGCTTTGATTTC
2113273 TTATTTTATT
1 TT-TTTTATT
2113283 ATTCTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 15 0.56
21 5 0.19
22 7 0.26
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.76
Consensus pattern (21 bp):
TTTTTTATTTGCTTTGATTTC
Found at i:2116183 original size:28 final size:27
Alignment explanation
Indices: 2116152--2116231 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 27
2116142 GGATAATGGC
2116152 CAAAATATAAGTTTTAAAAGTTTAGTGG-
1 CAAAATATAA-TTTTAAAAGTTTAG-GGA
*
2116180 CAAAGTATAAATTTTGAAAAGTTTAGGGA
1 CAAAATAT-AATTTT-AAAAGTTTAGGGA
*
2116209 CCAAAAATGTAATTTTAAAAGTT
1 -C-AAAATATAATTTTAAAAGTT
2116232 ATATATTTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
28 13 0.30
29 19 0.43
30 7 0.16
31 5 0.11
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (27 bp):
CAAAATATAATTTTAAAAGTTTAGGGA
Found at i:2119202 original size:33 final size:35
Alignment explanation
Indices: 2119139--2119216 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 35
2119129 TTGCCACTAT
* * *
2119139 AGTGCATATTTTTATATCTGATTATTGCACC-TAA
1 AGTGCATATTCTGATATCTGATTATAGCACCGTAA
*
2119173 AGTGCATATTCTGAT-TCTGATTATAGCACCGTGA
1 AGTGCATATTCTGATATCTGATTATAGCACCGTAA
*
2119207 AGTGCTTATT
1 AGTGCATATT
2119217 GCACACACTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
33 14 0.37
34 24 0.63
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (35 bp):
AGTGCATATTCTGATATCTGATTATAGCACCGTAA
Found at i:2128633 original size:23 final size:23
Alignment explanation
Indices: 2128603--2128665 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2128593 AATCTTATAT
2128603 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* *
2128626 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
2128649 GGCACTTCGTTGCATTT
1 GGCACTTCGGTGCATTT
2128666 ATATGAGTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.14, C:0.27, G:0.25, T:0.33
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:2131043 original size:2 final size:2
Alignment explanation
Indices: 2131036--2131076 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2131026 AGCAATATTA
2131036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2131077 ACACTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2135060 original size:31 final size:31
Alignment explanation
Indices: 2135023--2135083 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
2135013 AATATACTAT
*
2135023 TAAAAAAATATGGTATCGATTTTGTTATTAGC
1 TAAAAAAA-ATAGTATCGATTTTGTTATTAGC
*
2135055 TAAAAAAAATAGTATCGGTTTTGTTATTA
1 TAAAAAAAATAGTATCGATTTTGTTATTA
2135084 TTATGTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 19 0.70
32 8 0.30
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (31 bp):
TAAAAAAAATAGTATCGATTTTGTTATTAGC
Found at i:2135514 original size:24 final size:24
Alignment explanation
Indices: 2135487--2135555 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
2135477 AACATCAAAT
2135487 ACAATAAAATAATATTATTTATTA
1 ACAATAAAATAATATTATTTATTA
*
2135511 ACAA-AATAATAATAATATTT-TTA
1 ACAATAA-AATAATATTATTTATTA
*
2135534 AAATATTAAAATAAT-TTATTTA
1 ACA-A-TAAAATAATATTATTTA
2135556 ATATTATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
23 7 0.19
24 22 0.59
25 6 0.16
26 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (24 bp):
ACAATAAAATAATATTATTTATTA
Found at i:2135662 original size:31 final size:31
Alignment explanation
Indices: 2135599--2135667 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
2135589 TATATCTATA
*
2135599 ATTTTA-TAAATAAAAAATTATGATTATTAT
1 ATTTTATTAAATAAAAAATTATGATAATTAT
* *
2135629 ATTTTATTAAA-ATAAAATTATTATAAATTAT
1 ATTTTATTAAATAAAAAATTATGAT-AATTAT
2135660 A-TTTATTA
1 ATTTTATTA
2135668 TTTATTATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 24 0.71
31 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (31 bp):
ATTTTATTAAATAAAAAATTATGATAATTAT
Found at i:2136216 original size:198 final size:199
Alignment explanation
Indices: 2135774--2136216 Score: 617
Period size: 200 Copynumber: 2.2 Consensus size: 199
2135764 CACATATGTT
* * *
2135774 ACATTGAAACCAATAATTATAATGTAATAGATAAATTTACAATATAACCAGTATAAATATACCGA
1 ACATCGAAACCGATAATTATAATGTAATAGATAAATTTACAATGTAACCAGTATAAATATACCGA
* *
2135839 TTTTATGAGATAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTGTCGATACATTTTGT
66 TTTTATGAGAAAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTATCGATACATTTTGT
* * *
2135904 CCAGAATGAATGTCAAACGAGGTGCTCACATAAAGTGTTGATACATTTATTAAAAGTATCGATCC
131 CCAGAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTA-TAAAAGTATCGATCC
2135969 CAAAA
195 CAAAA
* * **
2135974 ACATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGT-ACTTGGTATAAATATACC-
1 ACATCGAAACCGATAATTATAATGTAATAGATAAATTTACAATGTAAC-CAGTATAAATATACCG
* * ***
2136037 AGTTTTATGAGAAAATAGGTCTACATAATGTATCGACAC-ATTTTAAGTTTGTATCGATAC-TTT
65 A-TTTTATGAGAAAATAGGTCAACATAATGTATCGACACAAATTTAA-AAAGTATCGATACATTT
* * * *
2136100 TTTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTA-AAATTGTATCGA
128 TGTCCAGAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTATAAA-AGTATCGA
2136164 TCCCAAAA
192 TCCCAAAA
2136172 ACATCGAAACCGATAATTATAATGTAATAGATAAATTTACAATGT
1 ACATCGAAACCGATAATTATAATGTAATAGATAAATTTACAATGT
2136217 TTATTTTAAA
Statistics
Matches: 216, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
197 3 0.01
198 58 0.27
199 58 0.27
200 97 0.45
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (199 bp):
ACATCGAAACCGATAATTATAATGTAATAGATAAATTTACAATGTAACCAGTATAAATATACCGA
TTTTATGAGAAAATAGGTCAACATAATGTATCGACACAAATTTAAAAAGTATCGATACATTTTGT
CCAGAATGAATGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTATAAAAGTATCGATCCC
AAAA
Found at i:2136257 original size:24 final size:23
Alignment explanation
Indices: 2136216--2136271 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
2136206 ATTTACAATG
2136216 TTTATT-TTAAAAATAATAATAT
1 TTTATTGTTAAAAATAATAATAT
*
2136238 TATT-TTGTTAATAAATAATATTAT
1 T-TTATTGTTAA-AAATAATAATAT
2136262 TTTATTGTTA
1 TTTATTGTTA
2136272 TCATTTATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 3 0.10
23 8 0.28
24 18 0.62
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (23 bp):
TTTATTGTTAAAAATAATAATAT
Found at i:2136825 original size:23 final size:23
Alignment explanation
Indices: 2136805--2136855 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
2136795 AACTTATTTT
2136805 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
* *
2136828 GTTATATAAGCGCTACTTATTAC
1 ATTATATAAGCGCTACCTATTAC
*
2136851 GTTAT
1 ATTAT
2136856 TGTGCTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTATTAC
Found at i:2136918 original size:23 final size:23
Alignment explanation
Indices: 2136883--2136926 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2136873 CCAGTAATTA
**
2136883 ACCTATTTTATTATATAAGTGTT
1 ACCTATTACATTATATAAGTGTT
2136906 ACCTATTACATTATATAAGTG
1 ACCTATTACATTATATAAGTG
2136927 GTACATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.45
Consensus pattern (23 bp):
ACCTATTACATTATATAAGTGTT
Found at i:2136942 original size:23 final size:23
Alignment explanation
Indices: 2136892--2136936 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2136882 AACCTATTTT
* * *
2136892 ATTATATAAGTGTTACCTATTAC
1 ATTATATAAGTGGTACATAATAC
2136915 ATTATATAAGTGGTACATAATA
1 ATTATATAAGTGGTACATAATA
2136937 TGTTATTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (23 bp):
ATTATATAAGTGGTACATAATAC
Found at i:2136942 original size:87 final size:87
Alignment explanation
Indices: 2136788--2137017 Score: 352
Period size: 87 Copynumber: 2.6 Consensus size: 87
2136778 TAACAAATTA
* * * *
2136788 AGTAATTAACTTATTTTATTATATAAGCGCTACCTATTACGTTATATAAGCGCTACTTATTACGT
1 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACATAATACGT
2136853 TATTGTGCTTGATAATGTTTCC
66 TATTGTGCTTGATAATGTTTCC
* * * * *
2136875 AGTAATTAACCTATTTTATTATATAAGTGTTACCTATTACATTATATAAGTGGTACATAATATGT
1 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACATAATACGT
*
2136940 TATTGTGTTTGATAATGTTTCC
66 TATTGTGCTTGATAATGTTTCC
**
2136962 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTTTATTATATAAGCGCTAC
1 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTAC
2137018 CTATTACATT
Statistics
Matches: 127, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 127 1.00
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (87 bp):
AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACATAATACGT
TATTGTGCTTGATAATGTTTCC
Found at i:2137000 original size:23 final size:23
Alignment explanation
Indices: 2136970--2137043 Score: 130
Period size: 23 Copynumber: 3.2 Consensus size: 23
2136960 CCAGTAATTA
2136970 ACCTATTTTATTATATAAGCGCT
1 ACCTATTTTATTATATAAGCGCT
2136993 ACCTATTTTATTATATAAGCGCT
1 ACCTATTTTATTATATAAGCGCT
**
2137016 ACCTATTACATTATATAAGCGCT
1 ACCTATTTTATTATATAAGCGCT
2137039 ACCTA
1 ACCTA
2137044 ATATGTTATT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.39
Consensus pattern (23 bp):
ACCTATTTTATTATATAAGCGCT
Found at i:2137011 original size:110 final size:111
Alignment explanation
Indices: 2136883--2137140 Score: 410
Period size: 110 Copynumber: 2.3 Consensus size: 111
2136873 CCAGTAATTA
* * * *
2136883 ACCTATTTTATTATATAAGTGTTACCTATTACATTATATAAGTGGTACATAATATGTTATTGTGT
1 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACATAATATGTTATTGTGT
*
2136948 TTGATAATGTTTCCAGTAATTAACCTA-TTTTATTATATAAGCGCT
66 TTGATAATGTTTCCAGTAATTAACCTATTTTTATTATATAAGCGAT
*
2136993 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGT
1 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACATAATATGTTATTGTGT
*
2137058 TTGATAATGTTTCCAGTAATTAACCTATTTTTATTATATAAGTGAT
66 TTGATAATGTTTCCAGTAATTAACCTATTTTTATTATATAAGCGAT
* * * *
2137104 ACCTATTATATTATATAAGCGGTACCTAATATATTAT
1 ACCTATTTTATTATATAAGCGCTACCTATTACATTAT
2137141 TGTGCTTGAT
Statistics
Matches: 136, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
110 87 0.64
111 49 0.36
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (111 bp):
ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACATAATATGTTATTGTGT
TTGATAATGTTTCCAGTAATTAACCTATTTTTATTATATAAGCGAT
Found at i:2137052 original size:23 final size:23
Alignment explanation
Indices: 2136970--2137052 Score: 121
Period size: 23 Copynumber: 3.6 Consensus size: 23
2136960 CCAGTAATTA
*
2136970 ACCTATTTTATTATATAAGCGCT
1 ACCTATTATATTATATAAGCGCT
*
2136993 ACCTATTTTATTATATAAGCGCT
1 ACCTATTATATTATATAAGCGCT
*
2137016 ACCTATTACATTATATAAGCGCT
1 ACCTATTATATTATATAAGCGCT
* *
2137039 ACCTAATATGTTAT
1 ACCTATTATATTAT
2137053 TGTGTTTGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (23 bp):
ACCTATTATATTATATAAGCGCT
Found at i:2137119 original size:23 final size:23
Alignment explanation
Indices: 2137080--2137140 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
2137070 CCAGTAATTA
* *
2137080 ACCTATTTTTATTATATAAGTGAT
1 ACCTA-TTATATTATATAAGCGAT
*
2137104 ACCTATTATATTATATAAGCGGT
1 ACCTATTATATTATATAAGCGAT
*
2137127 ACCTAATATATTAT
1 ACCTATTATATTAT
2137141 TGTGCTTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 28 0.85
24 5 0.15
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.44
Consensus pattern (23 bp):
ACCTATTATATTATATAAGCGAT
Found at i:2137150 original size:88 final size:87
Alignment explanation
Indices: 2136993--2137240 Score: 381
Period size: 88 Copynumber: 2.8 Consensus size: 87
2136983 TATAAGCGCT
* * *
2136993 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGT
1 ACCTATTTTATTATATAAGTGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGC
2137058 TTGATAATGTTTCCAGTAATTA
66 TTGATAATGTTTCCAGTAATTA
* * *
2137080 ACCTATTTTTATTATATAAGTGATACCTATTATATTATATAAGCGGTACCTAATATATTATTGTG
1 ACCTA-TTTTATTATATAAGTGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTG
2137145 CTTGATAATGTTTCCAGTAATTA
65 CTTGATAATGTTTCCAGTAATTA
* * *
2137168 ACTTATTTTATTATATAAGCT-CTACCTATTACATTATATAAGTGGTACCTAATATGTTATTGTA
1 ACCTATTTTATTATATAAG-TGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTG
*
2137232 CTTGGTAAT
65 CTTGATAAT
2137241 ATTTTCGATT
Statistics
Matches: 146, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
87 65 0.45
88 81 0.55
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (87 bp):
ACCTATTTTATTATATAAGTGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGC
TTGATAATGTTTCCAGTAATTA
Found at i:2137714 original size:4 final size:4
Alignment explanation
Indices: 2137699--2137732 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
2137689 TGTTATCTCA
2137699 ATTT ACTTT ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT A
2137733 GATTTTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:2137953 original size:19 final size:19
Alignment explanation
Indices: 2137929--2137981 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
2137919 AATGACCAAC
2137929 AAAATCGCAATGCGAAATA
1 AAAATCGCAATGCGAAATA
*
2137948 AAAATCGTAATGCGAAATA
1 AAAATCGCAATGCGAAATA
2137967 AAAATCGCAATGCGA
1 AAAATCGCAATGCGA
2137982 TCTCCAGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATA
Found at i:2138074 original size:20 final size:20
Alignment explanation
Indices: 2138009--2138286 Score: 172
Period size: 20 Copynumber: 13.7 Consensus size: 20
2137999 CAGTTCCCAG
* *
2138009 AATCGCAATGCGAATATGAA
1 AATCGCAACGCGAATACGAA
*
2138029 GAATCGCAATGCGATAGTAC-AA
1 -AATCGCAACGCGA-A-TACGAA
*
2138051 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
*
2138071 AATCGCAACGCGAATA-TATA
1 AATCGCAACGCGAATACGA-A
* * *
2138091 AATCGTAACGCG-ATTCTGAC
1 AATCGCAACGCGAATAC-GAA
* * * *
2138111 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATACG-AA
2138132 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
* * * *
2138153 AATCGCAACACGTATCCGTA
1 AATCGCAACGCGAATACGAA
* *
2138173 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* *
2138193 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* * *
2138213 AATCGCAATGC-ATATCCGTA
1 AATCGCAACGCGA-ATACGAA
*
2138233 AATCGTAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
* * *
2138254 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
2138274 AATCGCAACGCGA
1 AATCGCAACGCGA
2138287 TTTTTAAAGT
Statistics
Matches: 206, Mismatches: 37, Indels: 29
0.76 0.14 0.11
Matches are distributed among these distances:
19 6 0.03
20 120 0.58
21 75 0.36
22 3 0.01
23 2 0.01
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:2138991 original size:52 final size:52
Alignment explanation
Indices: 2138891--2138991 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
2138881 CAAAATCGCA
**
2138891 TTACGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTAATTTCACG
1 TTACGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTAATTTCACG
*
2138943 TTACGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTC
1 TTACGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTAATTTC
2138992 CGCATTGCGA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (52 bp):
TTACGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTAATTTCACG
Found at i:2139019 original size:20 final size:20
Alignment explanation
Indices: 2138967--2139022 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
2138957 TCGCGTTGCG
2138967 ATTCTCTCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATAGTC
2138987 ATT-TC-CGCATTGCGATAGTC
1 ATTCTCTCG--TTGCGATAGTC
2139007 ATTCTCTCGTTGCGAT
1 ATTCTCTCGTTGCGAT
2139023 TTTCATTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 24 0.75
21 2 0.06
22 2 0.06
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATAGTC
Found at i:2139028 original size:20 final size:19
Alignment explanation
Indices: 2138894--2139031 Score: 91
Period size: 19 Copynumber: 7.7 Consensus size: 19
2138884 AATCGCATTA
*
2138894 CGATTTTCATTTCGCGTTG
1 CGATTTTCATTTCTCGTTG
2138913 CGA--TTC---TCTCGTTG
1 CGATTTTCATTTCTCGTTG
* * *
2138927 CGATTTTAATTTCACGTTA
1 CGATTTTCATTTCTCGTTG
*
2138946 CGATTTTCATTTCGCGTTG
1 CGATTTTCATTTCTCGTTG
2138965 CGA--TTC---TCTCGTTG
1 CGATTTTCATTTCTCGTTG
**
2138979 CGATAGTCATTTC-CGCATTG
1 CGATTTTCATTTCTCG--TTG
**
2138999 CGATAGTCATTCTCTCGTTG
1 CGATTTTCATT-TCTCGTTG
2139019 CGATTTTCATTTC
1 CGATTTTCATTTC
2139032 AACCAAAAGA
Statistics
Matches: 94, Mismatches: 11, Indels: 28
0.71 0.08 0.21
Matches are distributed among these distances:
14 20 0.21
16 4 0.04
17 6 0.06
18 2 0.02
19 32 0.34
20 26 0.28
21 2 0.02
22 2 0.02
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.44
Consensus pattern (19 bp):
CGATTTTCATTTCTCGTTG
Found at i:2140887 original size:94 final size:93
Alignment explanation
Indices: 2140726--2141105 Score: 625
Period size: 94 Copynumber: 4.1 Consensus size: 93
2140716 TAGATTGCTT
* * *
2140726 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTTTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2140791 ATTTGTCTTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
*
2140820 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTATGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
2140885 ATTTGTCTTTGTTTTGTCTTTTGGTTAAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTT-GA
*
2140914 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2140979 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * * * * *
2141008 AGTAAATTTGTTCCGTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAATACTATGAATTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2141073 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
2141101 AGTAA
1 AGTAA
2141106 TGCAATCCAT
Statistics
Matches: 271, Mismatches: 13, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
93 25 0.09
94 246 0.91
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:2141231 original size:14 final size:14
Alignment explanation
Indices: 2141208--2141259 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
2141198 AACGCAAAAT
*
2141208 GAATCGCAACGAGA
1 GAATCACAACGAGA
2141222 GAATCACAACGAGAAA
1 GAATCACAACGAG--A
2141238 TGAAAATCACAACGAGA
1 -G--AATCACAACGAGA
2141255 GAATC
1 GAATC
2141260 GCAATGCGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
14 16 0.50
16 2 0.06
17 2 0.06
19 12 0.38
ACGTcount: A:0.50, C:0.19, G:0.21, T:0.10
Consensus pattern (14 bp):
GAATCACAACGAGA
Found at i:2141256 original size:33 final size:33
Alignment explanation
Indices: 2141193--2141303 Score: 102
Period size: 33 Copynumber: 3.4 Consensus size: 33
2141183 AAAAATGACT
*
2141193 ATCACAACGCA-AAATG--AATCGCAACGAGAGA
1 ATCACAACG-AGAAATGAAAATCACAACGAGAGA
2141224 ATCACAACGAGAAATGAAAATCACAACGAGAGA
1 ATCACAACGAGAAATGAAAATCACAACGAGAGA
* * * ** * *
2141257 ATCGCAATGCGAAACCAAAATCACAACGACAAA
1 ATCACAACGAGAAATGAAAATCACAACGAGAGA
* *
2141290 ATCGCAACGCGAAA
1 ATCACAACGAGAAA
2141304 CTATAATCGC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.01
31 14 0.21
33 53 0.78
ACGTcount: A:0.50, C:0.23, G:0.17, T:0.09
Consensus pattern (33 bp):
ATCACAACGAGAAATGAAAATCACAACGAGAGA
Found at i:2141304 original size:33 final size:33
Alignment explanation
Indices: 2141240--2141304 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
2141230 ACGAGAAATG
* * *
2141240 AAAATCACAACGAGAGAATCGCAATGCGAAACC
1 AAAATCACAACGACAAAATCGCAACGCGAAACC
2141273 AAAATCACAACGACAAAATCGCAACGCGAAAC
1 AAAATCACAACGACAAAATCGCAACGCGAAAC
2141305 TATAATCGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.51, C:0.26, G:0.15, T:0.08
Consensus pattern (33 bp):
AAAATCACAACGACAAAATCGCAACGCGAAACC
Found at i:2141373 original size:20 final size:20
Alignment explanation
Indices: 2141348--2141414 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
2141338 GATTCTCTCG
**
2141348 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
2141368 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
2141388 TTGCAATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
2141408 TTGCGAT
1 TTGCGAT
2141415 TTTAAGTTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:2142159 original size:13 final size:13
Alignment explanation
Indices: 2142141--2142174 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
2142131 GAAGTGGAGA
*
2142141 GGAAACAACTACT
1 GGAAACAACTACC
2142154 GGAAACAACTACC
1 GGAAACAACTACC
2142167 GGAAACAA
1 GGAAACAA
2142175 TTCTGGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.50, C:0.24, G:0.18, T:0.09
Consensus pattern (13 bp):
GGAAACAACTACC
Found at i:2143390 original size:14 final size:14
Alignment explanation
Indices: 2143371--2143406 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2143361 ATTGTTTAAT
2143371 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2143385 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2143399 TGATTTGT
1 TGATTTGT
2143407 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2143629 original size:33 final size:33
Alignment explanation
Indices: 2143547--2143631 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 33
2143537 AGAAATTTCG
2143547 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
* * *
2143581 TGTTGCAATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
**
2143614 CGTTGCGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
2143632 CGCGCTGCGA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:2143720 original size:19 final size:19
Alignment explanation
Indices: 2143656--2143741 Score: 101
Period size: 19 Copynumber: 4.7 Consensus size: 19
2143646 CTATTTTGCA
*
2143656 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGATTTTCA-T
*
2143676 TTCACATTGCGA--TTCA-
1 TTCGCATTGCGATTTTCAT
*
2143692 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
2143709 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
2143728 TTCGCATTGCGATT
1 TTCGCATTGCGATT
2143742 CTCTCGTTGC
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
14 6 0.11
16 6 0.11
17 3 0.05
18 4 0.07
19 27 0.48
20 10 0.18
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:2143728 original size:53 final size:52
Alignment explanation
Indices: 2143648--2143752 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 52
2143638 GCGATAGTCT
*
2143648 ATTTTGCATTCGCGTTGCGATTTTCATTTTCACATTGCGATTCACTCGTTGCG
1 ATTTTGCATTCGCATTGCGATTTTCA-TTTCACATTGCGATTCACTCGTTGCG
* *
2143701 ATTTT-CATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCG
1 ATTTTGCA-TTCGCATTGCGATTTTCATTTCACATTGCGATTCACTCGTTGCG
2143753 GTAGTTATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
52 26 0.54
53 22 0.46
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (52 bp):
ATTTTGCATTCGCATTGCGATTTTCATTTCACATTGCGATTCACTCGTTGCG
Found at i:2143771 original size:20 final size:20
Alignment explanation
Indices: 2143746--2143834 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
2143736 GCGATTCTCT
* *
2143746 CGTTGCGGTAGTTATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
2143766 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
2143786 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
2143806 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
*
2143826 AGTTGCGAT
1 CGTTGCGAT
2143835 TTCCGCGTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:2143772 original size:53 final size:52
Alignment explanation
Indices: 2143656--2143794 Score: 163
Period size: 53 Copynumber: 2.6 Consensus size: 52
2143646 CTATTTTGCA
* *
2143656 TTCGCGTTGCGATTTTCATTTTCACATTGCGATTCACTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCA-TTTCGCATTGCGATTCACTCGTTGCGATGTTCAT
* * *
2143709 TTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGGTAGTT-AT
1 TTCGCGTTGCGATTTTCATTTCGCATTGCGATTCACTCGTTGCGAT-GTTCAT
** *
2143761 TTCCGCGTTGCGATAGTCAATTCCGCATTGCGAT
1 TT-CGCGTTGCGATTTTC-ATTTCGCATTGCGAT
2143795 AGTCATTTCC
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
52 29 0.39
53 31 0.42
54 14 0.19
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (52 bp):
TTCGCGTTGCGATTTTCATTTCGCATTGCGATTCACTCGTTGCGATGTTCAT
Found at i:2143803 original size:40 final size:41
Alignment explanation
Indices: 2143748--2143824 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 41
2143738 GATTCTCTCG
* *
2143748 TTGCGGTAGTTATTTCCGCGTTGCGATAGTCA-ATTCCGCA
1 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCCGCA
*
2143788 TTGCGATAGTCATTTCCGTGTTGCGATAGTCATATTC
1 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTC
2143825 GAGTTGCGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 29 0.88
41 4 0.12
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (41 bp):
TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCCGCA
Found at i:2143832 original size:40 final size:41
Alignment explanation
Indices: 2143747--2143834 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 41
2143737 CGATTCTCTC
* *
2143747 GTTGCGGTAGTTATTTCCGCGTTGCGATAGTCAATTCCGCA
1 GTTGCGATAGTCATTTCCGCGTTGCGATAGTCAATTCCGCA
*
2143788 -TTGCGATAGTCATTTCCGTGTTGCGATAGTCATATT-CG-A
1 GTTGCGATAGTCATTTCCGCGTTGCGATAGTCA-ATTCCGCA
2143827 GTTGCGAT
1 GTTGCGAT
2143835 TTCCGCGTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
39 1 0.02
40 38 0.90
41 3 0.07
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.36
Consensus pattern (41 bp):
GTTGCGATAGTCATTTCCGCGTTGCGATAGTCAATTCCGCA
Found at i:2146775 original size:23 final size:23
Alignment explanation
Indices: 2146749--2146793 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2146739 CACCACAGCT
*
2146749 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
2146772 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
2146794 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:2146958 original size:150 final size:149
Alignment explanation
Indices: 2146761--2147076 Score: 544
Period size: 150 Copynumber: 2.1 Consensus size: 149
2146751 TATAAATGCA
*
2146761 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
1 CCGAA-TGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAA
2146825 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTT-CAAGACTTCACACATGT
* *
2146890 TCCACAGAATATATATATATC
129 TCCAAAGAATATACATATATC
**
2146911 CCGAATGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAATGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAAT
2146976 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
2147041 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
*
2147060 CCGAAGGACCGCGTAGA
1 CCGAATGACCGCGTAGA
2147077 CCCTCTACCC
Statistics
Matches: 158, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
149 53 0.34
150 105 0.66
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (149 bp):
CCGAATGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:2153721 original size:23 final size:23
Alignment explanation
Indices: 2153695--2153739 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2153685 CACCACAGCT
*
2153695 CGTATAAATGCACCGAAGTGCCG
1 CGTATAAATACACCGAAGTGCCG
* *
2153718 CGTATAATTACACCGTAGTGCC
1 CGTATAAATACACCGAAGTGCC
2153740 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (23 bp):
CGTATAAATACACCGAAGTGCCG
Found at i:2157465 original size:55 final size:54
Alignment explanation
Indices: 2157396--2157875 Score: 675
Period size: 55 Copynumber: 8.8 Consensus size: 54
2157386 TGGGTTCGCT
*
2157396 CCCTATTTCTTCAGAGAGTATAAGACTTGAATC-ATCTTCAACAAACTT-GTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAA-CAATCTTCAAC-AA-TTCGTCTGCC
*
2157451 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATT-CGTCTGCC
* *
2157506 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGTGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATT-CGTCTGCC
* *
2157561 CCCTATTTCTTCAGAGAGTATAAGACTTGAACAATCTTCAACTATTGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATT-CGTCTGCC
* * *
2157616 CCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT-TCGTCTGCC
*
2157669 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATT-CGTCTGCC
* * * * *
2157724 CCCTATTTTTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTTTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT-TCGTCTGCC
* *
2157777 CCCTATTTCTTCAGAGAGTATAAGACCCGAACAATCTTCAACGATTGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATT-CGTCTGCC
2157832 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA
2157876 ACGGGTTCGC
Statistics
Matches: 385, Mismatches: 29, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
53 94 0.24
54 5 0.01
55 286 0.74
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (54 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTCGTCTGCC
Found at i:2157704 original size:108 final size:109
Alignment explanation
Indices: 2157396--2157928 Score: 763
Period size: 108 Copynumber: 4.9 Consensus size: 109
2157386 TGGGTTCGCT
* * **
2157396 CCCTATTTCTTCAGAGAGTATAAGACTTGAATC-ATCTTCAACAAACTTGTCTGCCCCCTATTTC
1 CCCTATTTCTTCAGAGAGTATAAGAC-TCAA-CAATCTTCAACAATCGCGTCTGCCCCCTATTTC
2157460 TTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
64 TTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
* * *
2157506 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGTGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTC-AACAATCTTCAACAATCGCGTCTGCCCCCTATTTCT
* *
2157571 TCAGAGAGTATAAGACTTGAACAATCTTCAACTATTGCGTCTGCC
65 TCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
* *
2157616 CCCTATTTCTTCAGAGAGTATAAGAC-CCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTT
1 CCCTATTTCTTCAGAGAGTATAAGACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTT
2157680 CAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
66 CAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
* * * *
2157724 CCCTATTTTTTCAGAGAGTATAAGAC-CCACAATCTTCATCAATCGCGTTTGCCCCCTATTTCTT
1 CCCTATTTCTTCAGAGAGTATAAGACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTT
*
2157788 CAGAGAGTATAAGACCCGAACAATCTTCAACGATTGCGTCTGCC
66 CAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
* * *
2157832 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGGGT-TCGCTCCCTATTTC
1 CCCTATTTCTTCAGAGAGTATAAGACTC-AACAATCTTCAACAATCGCGTCT-GCCCCCTATTTC
* *
2157896 -TCTAGGGAGTAT-AGAACTCGAACATCTCTTCAA
64 TTC-AGAGAGTATAAG-ACTCGAACA-ATCTTCAA
2157929 ACGGGTTCGC
Statistics
Matches: 389, Mismatches: 26, Indels: 15
0.90 0.06 0.03
Matches are distributed among these distances:
108 204 0.52
109 9 0.02
110 169 0.43
111 7 0.02
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (109 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTT
CAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
Found at i:2157723 original size:163 final size:163
Alignment explanation
Indices: 2157396--2157873 Score: 750
Period size: 163 Copynumber: 2.9 Consensus size: 163
2157386 TGGGTTCGCT
2157396 CCCTATTTCTTCAGAGAGTATAAGACTTGAATC-ATCTTCAACAAACTT--GTCTGCCCCCTATT
1 CCCTATTTCTTCAGAGAGTATAAGACTTGAA-CAATCTTCAAC-AA-TTGCGTCTGCCCCCTATT
*
2157458 TCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGA
63 TCTTCAGAGAGTATAAGAC-C-CACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGA
*
2157523 GTATAAGACTCGAACAATCTTCAACGATTGTGTCTGCC
126 GTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
*
2157561 CCCTATTTCTTCAGAGAGTATAAGACTTGAACAATCTTCAACTATTGCGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTTGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCT
* * *
2157626 TCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
66 TCAGAGAGTATAAGACCCACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
2157691 AGACTCGAACAATCTTCAACGATTGCGTCTGCC
131 AGACTCGAACAATCTTCAACGATTGCGTCTGCC
* ** * * *
2157724 CCCTATTTTTTCAGAGAGTATAAGAC--CCACAATCTTCATCAATCGCGTTTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTTGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCT
2157787 TCAGAGAGTATAAGACCCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTA
66 TCAGAGAGTATAAGACCC--ACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTA
2157852 TAAGACTCGAACAATCTTCAAC
129 TAAGACTCGAACAATCTTCAAC
2157874 AAACGGGTTC
Statistics
Matches: 292, Mismatches: 16, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
161 49 0.17
163 167 0.57
164 3 0.01
165 73 0.25
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (163 bp):
CCCTATTTCTTCAGAGAGTATAAGACTTGAACAATCTTCAACAATTGCGTCTGCCCCCTATTTCT
TCAGAGAGTATAAGACCCACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
AGACTCGAACAATCTTCAACGATTGCGTCTGCC
Found at i:2157961 original size:163 final size:163
Alignment explanation
Indices: 2157396--2157979 Score: 622
Period size: 163 Copynumber: 3.6 Consensus size: 163
2157386 TGGGTTCGCT
* ** *
2157396 CCCTATTTCT-TCAGAGAGTATAAGACTTGAATCA-TCTTCAACAAACTTGTCTGCCCCCTATTT
1 CCCTATTTCTCTCAGAGAGTATAAGACTCGAA-CACTCTTCAA-ACGCGT-TC-GCCCCCTATTT
* *
2157459 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAG
62 CTTAAGAGAGTATAAGACCCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAG
* ** *
2157524 TATAAGACTCGAACAATCTTCAACGATTGTGTCTGCC
127 TATAAGACTCGAACAATCTTCAACAAACGGGTCTGCC
* * *
2157561 CCCTATTTCT-TCAGAGAGTATAAGACTTGAACAATCTTCAACTATTGCG-TCTGCCCCCTATTT
1 CCCTATTTCTCTCAGAGAGTATAAGACTCGAACACTCTTCAA--A-CGCGTTC-GCCCCCTATTT
* * * *
2157624 CTTCAGAGAGTATAAGACCC--ACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAG
62 CTTAAGAGAGTATAAGACCCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAG
* ** *
2157687 TATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
127 TATAAGACTCGAACAATCTTCAACAAACGGGTCTGCC
* * * *
2157724 CCCTATTT-TTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTTTGCCCCCTATTTC
1 CCCTATTTCTCTCAGAGAGTATAAGACTCGAACACTCTTCA--AA-CGCGTTCGCCCCCTATTTC
*
2157786 TTCAGAGAGTATAAGACCCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGT
63 TTAAGAGAGTATAAGACCCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGT
*
2157851 ATAAGACTCGAACAATCTTCAACAAACGGGT-TCGCT
128 ATAAGACTCGAACAATCTTCAACAAACGGGTCT-GCC
* * * * *
2157887 CCCTATTTCTCT-AGGGAGTAT-AGAACTCGAACATCTCTTCAAACGGGTTCGCTCCTTCTTTCT
1 CCCTATTTCTCTCAGAGAGTATAAG-ACTCGAACA-CTCTTCAAACGCGTTCGCCCCCTATTTC-
*
2157950 TTAAG-GAGTAT-AGAACTCGAAC-ATCTTCAA
63 TTAAGAGAGTATAAG-ACCCGAACAATCTTCAA
2157980 ACGGGTTCGC
Statistics
Matches: 370, Mismatches: 32, Indels: 37
0.84 0.07 0.08
Matches are distributed among these distances:
161 46 0.12
162 15 0.04
163 216 0.58
164 11 0.03
165 74 0.20
166 7 0.02
167 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (163 bp):
CCCTATTTCTCTCAGAGAGTATAAGACTCGAACACTCTTCAAACGCGTTCGCCCCCTATTTCTTA
AGAGAGTATAAGACCCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
AGACTCGAACAATCTTCAACAAACGGGTCTGCC
Found at i:2157998 original size:51 final size:51
Alignment explanation
Indices: 2157847--2158121 Score: 410
Period size: 51 Copynumber: 5.3 Consensus size: 51
2157837 TTTCTTCAGA
* * * *
2157847 GAGTATA-AGACTCGAACAATCTTCAACAAACGGGTTCGCTCCCTATTTCTCTAGG
1 GAGTATAGA-ACTCGAAC-ATCTT---CAAACGGGTTCGCTCCTTCTTTCTTTAAG
2157902 GAGTATAGAACTCGAACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
1 GAGTATAGAACTCGAACA--TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
2157955 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
* *
2158006 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAAG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
2158057 GAGTAT-GTAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
1 GAGTATAG-AACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
2158108 GAGTATAGAACTCG
1 GAGTATAGAACTCG
2158122 CATATTTTCA
Statistics
Matches: 207, Mismatches: 8, Indels: 14
0.90 0.03 0.06
Matches are distributed among these distances:
50 1 0.00
51 141 0.68
52 1 0.00
53 43 0.21
54 1 0.00
55 15 0.07
56 5 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (51 bp):
GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
Found at i:2158559 original size:36 final size:36
Alignment explanation
Indices: 2158501--2158730 Score: 275
Period size: 36 Copynumber: 6.4 Consensus size: 36
2158491 ACTCTTCTGA
* * **
2158501 GAAGGCTTAAAATGGATCTGCTTCACTACTT-TTTGGT
1 GAAGGCTTAAGATGG-TTTGCTTCACTA-TTCTCCGGT
* * *
2158538 GAAGACTTAAGATGGTTTGCTTCACTACTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
2158574 GAAGACTTATGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * *
2158610 GAAGGCTTCAGATTGATTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
2158646 GAAGGCTTCAGATGGTTTGCTTCACTATTCTCCAGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
2158682 GAAGGCTTAGGATGGTTTGCTTCACT-TCTCTTCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTAT-TCTCCGGT
2158718 GAAGGCTTAAGAT
1 GAAGGCTTAAGAT
2158731 TGACTTTTCT
Statistics
Matches: 170, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
35 2 0.01
36 155 0.91
37 13 0.08
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
Found at i:2158665 original size:108 final size:108
Alignment explanation
Indices: 2158501--2158733 Score: 308
Period size: 108 Copynumber: 2.1 Consensus size: 108
2158491 ACTCTTCTGA
* * **
2158501 GAAGGCTTAAAATGGATCTGCTTCACTACTT-TTTGGTGAAGACTTAAGATGGTTTGCTTCACTA
1 GAAGGCTTAAGATTGAT-TGCTTCACTA-TTCTCCGGTGAAGACTTAAGATGGTTTGCTTCACTA
** *
2158565 CTCTCTGGTGAAGACTTATGATGGTTTGCTTCACTAT-TCTCCGGT
64 CTCTCCAGTGAAGACTTAGGATGGTTTGCTTCACT-TCTCTCCGGT
* * * *
2158610 GAAGGCTTCAGATTGATTGCTTCACTATTCTCCGGTGAAGGCTTCAGATGGTTTGCTTCACTATT
1 GAAGGCTTAAGATTGATTGCTTCACTATTCTCCGGTGAAGACTTAAGATGGTTTGCTTCACTACT
* *
2158675 CTCCAGTGAAGGCTTAGGATGGTTTGCTTCACTTCTCTTCGGT
66 CTCCAGTGAAGACTTAGGATGGTTTGCTTCACTTCTCTCCGGT
2158718 GAAGGCTTAAGATTGA
1 GAAGGCTTAAGATTGA
2158734 CTTTTCTCCA
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
107 3 0.03
108 91 0.84
109 14 0.13
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (108 bp):
GAAGGCTTAAGATTGATTGCTTCACTATTCTCCGGTGAAGACTTAAGATGGTTTGCTTCACTACT
CTCCAGTGAAGACTTAGGATGGTTTGCTTCACTTCTCTCCGGT
Found at i:2161428 original size:15 final size:15
Alignment explanation
Indices: 2161410--2161475 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 15
2161400 CATTCTTTTT
2161410 TTTTCATTTTTCTCA
1 TTTTCATTTTTCTCA
2161425 TTTTCAATTTTTCTC-
1 TTTTC-ATTTTTCTCA
* * *
2161440 -TTTCTTTTTTTTTA
1 TTTTCATTTTTCTCA
2161454 TTTTC--TTTT-TCA
1 TTTTCATTTTTCTCA
2161466 -TTTCATTTTT
1 TTTTCATTTTT
2161476 TTTATCTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
11 4 0.10
12 2 0.05
13 14 0.33
14 4 0.10
15 9 0.21
16 9 0.21
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTCATTTTTCTCA
Found at i:2161428 original size:16 final size:16
Alignment explanation
Indices: 2161410--2161439 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2161400 CATTCTTTTT
2161410 TTTTC-ATTTTTCTCA
1 TTTTCAATTTTTCTCA
2161425 TTTTCAATTTTTCTC
1 TTTTCAATTTTTCTC
2161440 TTTCTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTCAATTTTTCTCA
Found at i:2161463 original size:28 final size:28
Alignment explanation
Indices: 2161402--2161496 Score: 92
Period size: 29 Copynumber: 3.5 Consensus size: 28
2161392 TTTTCTTTCA
* *
2161402 TTCTTTTT-T-TTTCATTTTTCTCAT-T
1 TTCTTTTTCTCTTTCATTTTTTTTATCT
*
2161427 TTCAATTTTTCTCTTTCTTTTTTTTTAT-T
1 TTC--TTTTTCTCTTTCATTTTTTTTATCT
*
2161456 TTCTTTTTC-ATTTCATTTTTTTTATCTT
1 TTCTTTTTCTCTTTCATTTTTTTTATC-T
2161484 TTCTTTTTCTCTT
1 TTCTTTTTCTCTT
2161497 CTATTTCTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
25 3 0.05
26 14 0.25
27 11 0.19
28 11 0.19
29 18 0.32
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (28 bp):
TTCTTTTTCTCTTTCATTTTTTTTATCT
Found at i:2161476 original size:14 final size:14
Alignment explanation
Indices: 2161392--2161477 Score: 56
Period size: 14 Copynumber: 6.3 Consensus size: 14
2161382 GTTTGATCGA
2161392 TTTTC-TTTCATTCT
1 TTTTCATTTCATT-T
*
2161406 TTTT-TTTTCATTT
1 TTTTCATTTCATTT
*
2161419 TTCTCATTTTCAATTT
1 TTTTCA-TTTC-ATTT
* *
2161435 TTCTC-TTTCTTTT
1 TTTTCATTTCATTT
* *
2161448 TTTTTATTT--TCT
1 TTTTCATTTCATTT
2161460 TTTTCATTTCATTT
1 TTTTCATTTCATTT
2161474 TTTT
1 TTTT
2161478 TATCTTTTCT
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
12 10 0.18
13 10 0.18
14 24 0.42
15 4 0.07
16 9 0.16
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTCATTTCATTT
Found at i:2161477 original size:15 final size:14
Alignment explanation
Indices: 2161392--2161478 Score: 51
Period size: 15 Copynumber: 6.3 Consensus size: 14
2161382 GTTTGATCGA
2161392 TTTTCTTTCATTCTT
1 TTTTCTTTCATT-TT
2161407 TTTT-TTTCA-TTT
1 TTTTCTTTCATTTT
* *
2161419 TTCTCATTTTCAATTT
1 TTTTC--TTTCATTTT
*
2161435 TTCTCTTTC-TTTT
1 TTTTCTTTCATTTT
*
2161448 TTTT-TATT--TTCT
1 TTTTCT-TTCATTTT
2161460 TTTTCATTTCATTTT
1 TTTTC-TTTCATTTT
2161475 TTTT
1 TTTT
2161479 ATCTTTTCTT
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
12 13 0.22
13 11 0.19
14 10 0.17
15 16 0.28
16 8 0.14
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTCTTTCATTTT
Found at i:2163904 original size:20 final size:21
Alignment explanation
Indices: 2163878--2164032 Score: 180
Period size: 20 Copynumber: 7.6 Consensus size: 21
2163868 CCATGTGATG
* *
2163878 TGGTCTTCTCGTCTTTACGAA
1 TGGTCTTCTCGTCTTGATGAA
2163899 -GGTCTTCTCGTCGTT-ATGAA
1 TGGTCTTCTCGTC-TTGATGAA
*
2163919 AGGTC-TCTCGTC-TGATGAA
1 TGGTCTTCTCGTCTTGATGAA
2163938 TGGTCTTCTCGTCTTGATGAA
1 TGGTCTTCTCGTCTTGATGAA
*
2163959 TGGCCTTCTCGTCTTGATGAA
1 TGGTCTTCTCGTCTTGATGAA
*
2163980 TGG-CATCTCGTCTTGATG-A
1 TGGTCTTCTCGTCTTGATGAA
*
2163999 T-GACATTCTCGTCTTGATGAA
1 TGGTC-TTCTCGTCTTGATGAA
*
2164020 TGCTCTTCTCGTC
1 TGGTCTTCTCGTC
2164033 CTTGGTACAA
Statistics
Matches: 118, Mismatches: 7, Indels: 18
0.83 0.05 0.13
Matches are distributed among these distances:
18 2 0.02
19 12 0.10
20 57 0.48
21 46 0.39
22 1 0.01
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (21 bp):
TGGTCTTCTCGTCTTGATGAA
Found at i:2163989 original size:61 final size:61
Alignment explanation
Indices: 2163873--2164032 Score: 181
Period size: 61 Copynumber: 2.7 Consensus size: 61
2163863 ATCTTCCATG
* * *
2163873 TGATG-TGGTCTTCTCGTCTTTACGAA-GGTCTTCTCGTCGTTATGAAAGGTCTCTCGTC-
1 TGATGATGGTCTTCTCGTCTTGATGAATGGCCTTCTCGTCGTTATGAAAGGTCTCTCGTCT
*
2163931 TGATGAATGGTCTTCTCGTCTTGATGAATGGCCTTCTCGTC-TTGATGAATGG-CATCTCGTCT
1 TGATG-ATGGTCTTCTCGTCTTGATGAATGGCCTTCTCGTCGTT-ATGAAAGGTC-TCTCGTCT
*
2163993 TGATGAT-GACATTCTCGTCTTGATGAAT-GCTCTTCTCGTC
1 TGATGATGGTC-TTCTCGTCTTGATGAATGGC-CTTCTCGTC
2164033 CTTGGTACAA
Statistics
Matches: 89, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
58 5 0.06
60 26 0.29
61 53 0.60
62 5 0.06
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (61 bp):
TGATGATGGTCTTCTCGTCTTGATGAATGGCCTTCTCGTCGTTATGAAAGGTCTCTCGTCT
Found at i:2164820 original size:152 final size:152
Alignment explanation
Indices: 2164544--2164849 Score: 596
Period size: 152 Copynumber: 2.0 Consensus size: 152
2164534 ATTCGAGGAA
2164544 AAGGTTAGAATGAGTTTCCCCTTCGTGTCTGCAGACAGAGATTCAACATAAGATGGGCAGAGTTT
1 AAGGTTAGAATGAGTTTCCCCTTCGTGTCTGCAGACAGAGATTCAACATAAGATGGGCAGAGTTT
2164609 CAGTATTTCTAAAAGGGTCCCTCGAATTTCCTTTGCTGGTGCCCCCTTGGGCTTGCCAGACCCTC
66 CAGTATTTCTAAAAGGGTCCCTCGAATTTCCTTTGCTGGTGCCCCCTTGGGCTTGCCAGACCCTC
2164674 GATTCTCACCCATTATAGGCTT
131 GATTCTCACCCATTATAGGCTT
2164696 AAGGTTAGAATGAGTTTCCCCTTCGTGTCTGCAGACAGAGATTCAACATAAGATGGGCAGAGTTT
1 AAGGTTAGAATGAGTTTCCCCTTCGTGTCTGCAGACAGAGATTCAACATAAGATGGGCAGAGTTT
2164761 CAGTATTTCTAAAAGGGT-CCTCGAATTTTCCTTTGCTGGTGCCCCCTTGGGCTTGCCAGACCCT
66 CAGTATTTCTAAAAGGGTCCCTCGAA-TTTCCTTTGCTGGTGCCCCCTTGGGCTTGCCAGACCCT
2164825 CGATTCTCACCCATTATAGGCTT
130 CGATTCTCACCCATTATAGGCTT
2164848 AA
1 AA
2164850 AACGAATCAA
Statistics
Matches: 153, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
151 7 0.05
152 146 0.95
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (152 bp):
AAGGTTAGAATGAGTTTCCCCTTCGTGTCTGCAGACAGAGATTCAACATAAGATGGGCAGAGTTT
CAGTATTTCTAAAAGGGTCCCTCGAATTTCCTTTGCTGGTGCCCCCTTGGGCTTGCCAGACCCTC
GATTCTCACCCATTATAGGCTT
Found at i:2169810 original size:24 final size:24
Alignment explanation
Indices: 2169776--2169853 Score: 129
Period size: 24 Copynumber: 3.2 Consensus size: 24
2169766 CTGAAAAATA
* * *
2169776 ATCAAAATCTGAGTATTAACCAAG
1 ATCAAAGTCTGGGTATTGACCAAG
2169800 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAGTCTGGGTATTGACCAAG
2169824 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAGTCTGGGTATTGACCAAG
2169848 ATCAAA
1 ATCAAA
2169854 TTTCGAATAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCTGGGTATTGACCAAG
Found at i:2170757 original size:20 final size:20
Alignment explanation
Indices: 2170732--2170944 Score: 214
Period size: 20 Copynumber: 10.5 Consensus size: 20
2170722 ATTATCGATT
2170732 GCGTTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
* *
2170752 GCGTTGCGATTTTACGTAT-T
1 GCGTTGCGA-TTTACGGATAC
2170772 GCCGTTGCGATTTACGGATAC
1 G-CGTTGCGATTTACGGATAC
* * *
2170793 GCATTGCGATTTACGTATTC
1 GCGTTGCGATTTACGGATAC
* * *
2170813 TCGTTGTGATTTACAGATAC
1 GCGTTGCGATTTACGGATAC
* * *
2170833 GCGTTGTGATTTACGTATTC
1 GCGTTGCGATTTACGGATAC
* * *
2170853 TCGTTGCGATTTACAGATAT
1 GCGTTGCGATTTACGGATAC
* *
2170873 GCGTTGCGATTTTACGTAT-T
1 GCGTTGCGA-TTTACGGATAC
2170893 GTCGTTGCGATTTACGGATAC
1 G-CGTTGCGATTTACGGATAC
2170914 GCGTTGCGATTTTACGGATAC
1 GCGTTGCGA-TTTACGGATAC
*
2170935 TCGTTGCGAT
1 GCGTTGCGAT
2170945 AGTCAGAATC
Statistics
Matches: 157, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
20 105 0.67
21 52 0.33
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GCGTTGCGATTTACGGATAC
Found at i:2170926 original size:41 final size:40
Alignment explanation
Indices: 2170712--2171006 Score: 303
Period size: 40 Copynumber: 7.3 Consensus size: 40
2170702 TACCGGAGAT
* *
2170712 CGCGTTGCGAATTATCG-ATT-GCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTA-CGTATTCTCGTTGCGATTTACGGATA
2170751 CGCGTTGCGATTTTACGTATTGC-CGTTGCGATTTACGGATA
1 CGCGTTGCGA-TTTACGTATT-CTCGTTGCGATTTACGGATA
* * *
2170792 CGCATTGCGATTTACGTATTCTCGTTGTGATTTACAGATA
1 CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
* *
2170832 CGCGTTGTGATTTACGTATTCTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
* *
2170872 TGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATA
* * * *
2170913 CGCGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAGA-A
1 CGCGTTGCGA-TTTACGTATTCTCGTTGCGAT-TTACGGATA
** * * * ** *
2170953 TCGCGTTGCGATTTATATGTTCGCGTTGCGATTTTCATATT
1 -CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
2170994 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2171007 TGGAAAATCG
Statistics
Matches: 220, Mismatches: 26, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
39 14 0.06
40 109 0.50
41 96 0.44
42 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (40 bp):
CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATA
Found at i:2170976 original size:20 final size:20
Alignment explanation
Indices: 2170953--2171007 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
2170943 ATAGTCAGAA
*
2170953 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
2170973 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
2170993 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
2171008 GGAAAATCGC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 32 0.97
ACGTcount: A:0.13, C:0.18, G:0.24, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:2184710 original size:16 final size:16
Alignment explanation
Indices: 2184689--2184719 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2184679 TAGGGTAAGT
2184689 AAAATTCGACTCGAAA
1 AAAATTCGACTCGAAA
2184705 AAAATTCGACTCGAA
1 AAAATTCGACTCGAA
2184720 TTGACTTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (16 bp):
AAAATTCGACTCGAAA
Found at i:2185323 original size:53 final size:53
Alignment explanation
Indices: 2185266--2185366 Score: 150
Period size: 53 Copynumber: 1.9 Consensus size: 53
2185256 GAAATTCGAA
* * *
2185266 TTTTCTTCGATTAATTACTTATTTTATTGG-TGGTGTTCACTCTGAAATCTGAG
1 TTTTCTTCGATTAATTACTTATTTTA-CGGATGATGTCCACTCTGAAATCTGAG
*
2185319 TTTTCTTCGATTAGTTACTTATTTTACGGATGATGTCCACTCTGAAAT
1 TTTTCTTCGATTAATTACTTATTTTACGGATGATGTCCACTCTGAAAT
2185367 TTTATTTGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 2 0.05
53 41 0.95
ACGTcount: A:0.22, C:0.15, G:0.16, T:0.48
Consensus pattern (53 bp):
TTTTCTTCGATTAATTACTTATTTTACGGATGATGTCCACTCTGAAATCTGAG
Found at i:2190626 original size:197 final size:196
Alignment explanation
Indices: 2190278--2190728 Score: 518
Period size: 196 Copynumber: 2.3 Consensus size: 196
2190268 TTTCTCATAA
* * * * * * **
2190278 AACCGATAAATTTAAACCGGTTACATTATAAATTGACCTATTACATTATAAATATCGGTTTCGAT
1 AACCGGTATATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAATTTCGAT
* *
2190343 GTTTTCGGGATCGATACAATTTTAAATGTATCGACACTTTATGAGTGCAACTCGTTTTTGCTTTA
66 GTTTTCGGGATCGATACAATTTTAAATGTATCGACACTTTATGAGTACAACTCG-TTTTGCTTCA
* * *
2190408 TTTTGGAAAAAAGTATCGACACATATTTAAAGAGTG-CGATACATAATGTAGACCTATT-TGCTA
130 TTTTGGAAAAAAGTATCGACACAAATTAAAAAAGTGTCGATACATAATGTAGACCTATTCT-CTA
*
2190471 ATT
194 ATG
* *
2190474 AACCGGTATATTTTAACCGGTTACATTGTAAATTTACCTGTTACATAATAATTATCAATTTCGAT
1 AACCGGTATATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAATTTCGAT
** * *
2190539 G-TTTCGAGGATCGATA-TTTTTTACAAATGTATCGACACTTTATGCGTACACCTCG-TTTGCCA
66 GTTTTCG-GGATCGATACAATTTT--AAATGTATCGACACTTTATGAGTACAACTCGTTTTG-C-
* * * * *
2190601 TTCATTTTGGAAAAATGTATCGACACAAATTAAAAAAGTGTTGATACTTTATGTTGACCTATTCT
126 TTCATTTTGGAAAAAAGTATCGACACAAATTAAAAAAGTGTCGATACATAATGTAGACCTATTCT
*
2190666 CTCATG
191 CTAATG
* * *
2190672 AACCCAGTATATTTCT-ACCGGTTACATTGGAAATTTTCCTATTACATTATAATTATC
1 AA-CCGGTATATTT-TAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATC
2190729 GGTCTCTTTG
Statistics
Matches: 215, Mismatches: 31, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
195 13 0.06
196 66 0.31
197 63 0.29
198 24 0.11
199 48 0.22
200 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (196 bp):
AACCGGTATATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAATTTCGAT
GTTTTCGGGATCGATACAATTTTAAATGTATCGACACTTTATGAGTACAACTCGTTTTGCTTCAT
TTTGGAAAAAAGTATCGACACAAATTAAAAAAGTGTCGATACATAATGTAGACCTATTCTCTAAT
G
Found at i:2194679 original size:200 final size:200
Alignment explanation
Indices: 2193947--2195707 Score: 2581
Period size: 200 Copynumber: 8.8 Consensus size: 200
2193937 ACTAATTTAA
* * ** * * *
2193947 AAAGTGTCGATACATTATGTAGACCTATT-TTCTCATAA-AACCGGTAAATTTAAATCGGTTACA
1 AAAGTATCGATACATTATGTATACCT-TTCTT-TTTTAATAACCGGTATATTTAGACCGGTTACA
* * * * * * *
2194010 TTGTAAAGTGACCTATTACATTATAATTATGGGTTTCGATGTTTTTAGGATCGACACTTTTTCTA
64 TTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATA
* *
2194075 AATGTATCAACACTTTTTCGTGAACTTGTTAGGAAAATTTATTATGGACATAAAGTGTCGACACA
129 AATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACACA
2194140 AATGTAT
194 AATGTAT
*
2194147 AAAGTATCGATACATTATGTATACC-TT-TTTTTTAATAACCGGTATATTTAGACCAGTTACATT
1 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
* *
2194210 GTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGGATCGACACTTG-T-T-AA
66 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
2194272 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACACAAA
131 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACACAAA
2194337 TGTAT
196 TGTAT
* *
2194342 AAAGTATCGATACATTATGTATACC-TT-TTTTTTAATAACCGATATATTTGGACCGGTTACATT
1 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
*
2194405 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATATTTTTGGGATCGACACTTGTTATAAA
66 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
2194470 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACACAAA
131 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACACAAA
2194535 TGTAT
196 TGTAT
2194540 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
1 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
** *
2194605 GTTATGTTATGTATTACATTATAATTATGTGTGTCGATGTTTTTGGGATCGACACTTGTTATAAA
66 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
2194670 TGTATCGACACTTTTTCGTGAACTTGTTTGG-AAATTTATTATGGACATAAAGTGTCGACACAAA
131 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACACAAA
2194734 TGTAT
196 TGTAT
*
2194739 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAATCGGTATATTTAGACCGGTTACATT
1 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
*
2194804 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCAACACTTGTTATAAA
66 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
*
2194869 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCAACACAAA
131 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACACAAA
2194934 TGTAT
196 TGTAT
2194939 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
1 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
*
2195004 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATATTTTTGGGATCGACACTTGTTATAAA
66 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
* *
2195069 TGTATCGACACTTTTTCATGAACTTGTTTGGAAAATTTATTATGGACATGAAGTGTCGACACAAA
131 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACACAAA
2195134 TGTAT
196 TGTAT
2195139 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
1 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
*
2195204 GTTATGTTACCTATTACATTATAATTATGTGTTTTGATGTTTTTGGGATCGACACTTGTTATAAA
66 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
* * ** * * *
2195269 TGTATCGACACTTTTTTCGTGCACTTGGTTTAG-AAATACATTTTGGACA-ACATGTATCGACAC
131 TGTATCGACAC-TTTTTCGTGAACTT-GTTTGGAAAATTTATTATGGACATA-AAGTGTCGACAC
*
2195332 AAATGAAT
193 AAATGTAT
* * ** * * * * * *
2195340 AAAGTGTCGATACA-TATTGTAGACCTATT-TTCTCATAA-AATCAGTAAATTTAAACTGATTAC
1 AAAGTATCGATACATTA-TGTATACCT-TTCTT-TTTTAATAACCGGTATATTTAGACCGGTTAC
* * * * * *
2195402 ATTGTAAAGTGACCTATTACATTATAGTTACAG-GTTTCGATGTTTTTGGGATCGACACTTGATA
63 ATTGTTATGTTACCTATTACATTATAATTA-TGTGTTTCGATGTTTTTGGGATCGACACTTGTTA
** * *
2195466 TAAATGTATCGACAC-TTTT-GTGAACTTGTTTTGGTTGGAAAATACATTATGGACACAAAGTAT
127 TAAATGTATCGACACTTTTTCGTGAACTTG---T--TTGGAAAATTTATTATGGACATAAAGTGT
2195529 CGACACAAATGTAT
187 CGACACAAATGTAT
* * * * *
2195543 AAAGTGTCGATACTTTATGTATACC--TCTTTTCTCATAAACTGGTATATTTAGACCGGTTACAT
1 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAAT-AACCGGTATATTTAGACCGGTTACAT
* * * * *
2195606 TGTTATTTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGATACTTTTTATAA
65 TGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATAA
* *
2195671 ATGTATCGACACTTTGTTTGTGCACTTGGTTTGGAAA
130 ATGTATCGACACTTT-TTCGTGAACTT-GTTTGGAAA
2195708 TACATTCTGG
Statistics
Matches: 1434, Mismatches: 97, Indels: 59
0.90 0.06 0.04
Matches are distributed among these distances:
195 185 0.13
196 2 0.00
197 7 0.00
198 183 0.13
199 200 0.14
200 526 0.37
201 163 0.11
202 99 0.07
203 56 0.04
204 5 0.00
205 7 0.00
206 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (200 bp):
AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACACAAA
TGTAT
Found at i:2194868 original size:399 final size:399
Alignment explanation
Indices: 2193947--2195707 Score: 2577
Period size: 399 Copynumber: 4.4 Consensus size: 399
2193937 ACTAATTTAA
* * ** * * *
2193947 AAAGTGTCGATACATTATGTAGACCTATT-TTCTCATAA-AACCGGTAAATTTAAATCGGTTACA
1 AAAGTATCGATACATTATGTATACCT-TTCTT-TTTTAATAACCGGTATATTTAGACCGGTTACA
* * * * * * *
2194010 TTGTAAAGTGACCTATTACATTATAATTATGGGTTTCGATGTTTTTAGGATCGACACTTTTTCTA
64 TTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATA
* *
2194075 AATGTATCAACACTTTTTCGTGAACTTGTTAGGAAAATTTATTATGGACATAAAGTGTCGACACA
129 AATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACACA
*
2194140 AATGTATAAAGTATCGATACATTATGTATACC-TTTTTTTTAATAACCGGTATATTTAGACCAGT
194 AATGTATAAAGTATCGATACATTATGTATACCTTTTTTTTTAATAACCGGTATATTTAGACCGGT
* *
2194204 TACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGGATCGACACTTG-
259 TACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGT
2194268 T-T-AATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGA
324 TATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGA
2194331 CACAAATGTAT
389 CACAAATGTAT
* *
2194342 AAAGTATCGATACATTATGTATACC-TT-TTTTTTAATAACCGATATATTTGGACCGGTTACATT
1 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
*
2194405 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATATTTTTGGGATCGACACTTGTTATAAA
66 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
2194470 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACACAAA
131 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACACAAA
2194535 TGTATAAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTT
196 TGTATAAAGTATCGATACATTATGTATACCTTT-TTTTTTAATAACCGGTATATTTAGACCGGTT
** *
2194600 ACATTGTTATGTTATGTATTACATTATAATTATGTGTGTCGATGTTTTTGGGATCGACACTTGTT
260 ACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTT
2194665 ATAAATGTATCGACACTTTTTCGTGAACTTGTTTGG-AAATTTATTATGGACATAAAGTGTCGAC
325 ATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGAC
2194729 ACAAATGTAT
390 ACAAATGTAT
*
2194739 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAATCGGTATATTTAGACCGGTTACATT
1 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
*
2194804 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCAACACTTGTTATAAA
66 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
*
2194869 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCAACACAAA
131 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACACAAA
2194934 TGTATAAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTT
196 TGTATAAAGTATCGATACATTATGTATACCTTT-TTTTTTAATAACCGGTATATTTAGACCGGTT
*
2194999 ACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATATTTTTGGGATCGACACTTGTT
260 ACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTT
* *
2195064 ATAAATGTATCGACACTTTTTCATGAACTTGTTTGGAAAATTTATTATGGACATGAAGTGTCGAC
325 ATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGAC
2195129 ACAAATGTAT
390 ACAAATGTAT
2195139 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
1 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
*
2195204 GTTATGTTACCTATTACATTATAATTATGTGTTTTGATGTTTTTGGGATCGACACTTGTTATAAA
66 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
* * ** * * *
2195269 TGTATCGACACTTTTTTCGTGCACTTGGTTTAG-AAATACATTTTGGACA-ACATGTATCGACAC
131 TGTATCGACAC-TTTTTCGTGAACTT-GTTTGGAAAATTTATTATGGACATA-AAGTGTCGACAC
* * * ** * * * *
2195332 AAATGAATAAAGTGTCGATACA-TATTGTAGACCTATTTTCTCATAA-AATCAGTAAATTTAAAC
193 AAATGTATAAAGTATCGATACATTA-TGTATACCT-TTTT-TTTTAATAACCGGTATATTTAGAC
* * * * * * *
2195395 TGATTACATTGTAAAGTGACCTATTACATTATAGTTACAG-GTTTCGATGTTTTTGGGATCGACA
255 CGGTTACATTGTTATGTTACCTATTACATTATAATTA-TGTGTTTCGATGTTTTTGGGATCGACA
* ** *
2195459 CTTGATATAAATGTATCGACAC-TTTT-GTGAACTTGTTTTGGTTGGAAAATACATTATGGACAC
319 CTTGTTATAAATGTATCGACACTTTTTCGTGAACTTG---T--TTGGAAAATTTATTATGGACAT
*
2195522 AAAGTATCGACACAAATGTAT
379 AAAGTGTCGACACAAATGTAT
* * * * *
2195543 AAAGTGTCGATACTTTATGTATACC--TCTTTTCTCATAAACTGGTATATTTAGACCGGTTACAT
1 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAAT-AACCGGTATATTTAGACCGGTTACAT
* * * * *
2195606 TGTTATTTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGATCGATACTTTTTATAA
65 TGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATAA
* *
2195671 ATGTATCGACACTTTGTTTGTGCACTTGGTTTGGAAA
130 ATGTATCGACACTTT-TTCGTGAACTT-GTTTGGAAA
2195708 TACATTCTGG
Statistics
Matches: 1257, Mismatches: 85, Indels: 39
0.91 0.06 0.03
Matches are distributed among these distances:
392 4 0.00
393 176 0.14
394 2 0.00
395 111 0.09
396 1 0.00
397 64 0.05
398 35 0.03
399 329 0.26
400 182 0.14
401 153 0.12
402 25 0.02
403 112 0.09
404 63 0.05
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (399 bp):
AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
TGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACACAAA
TGTATAAAGTATCGATACATTATGTATACCTTTTTTTTTAATAACCGGTATATTTAGACCGGTTA
CATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTA
TAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACA
CAAATGTAT
Found at i:2195084 original size:599 final size:595
Alignment explanation
Indices: 2193947--2195707 Score: 2610
Period size: 599 Copynumber: 2.9 Consensus size: 595
2193937 ACTAATTTAA
* * ** * * *
2193947 AAAGTGTCGATACATTATGTAGACCTATT-TTCTCATAA-AACCGGTAAATTTAAATCGGTTACA
1 AAAGTATCGATACATTATGTATACCT-TTCTT-TTTTAATAACCGGTATATTTAGACCGGTTACA
* * * * * * *
2194010 TTGTAAAGTGACCTATTACATTATAATTATGGGTTTCGATGTTTTTAGGATCGACACTTTTTCTA
64 TTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATA
* *
2194075 AATGTATCAACACTTTTTCGTGAACTTGTTAGGAAAATTTATTATGGACATAAAGTGTCGACACA
129 AATGTATCGACACTTTTTCGTGAACTTGTTTGG-AAATTTATTATGGACATAAAGTGTCGACACA
* *
2194140 AATGTATAAAGTATCGATACATTATGTATACC-TTTTTTTTAATAACCGGTATATTTAGACCAGT
193 AATGTATAAAGTATCGATACATTATGTATACCTTTTTTTTTAATAATCGGTATATTTAGACCGGT
*
2194204 TACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGGATCGACACTTGT
258 TACATTGTTATGTTACCTATTACATTATAATTA-AGGTTTCGATGTTTTTGGGATCGACACTTGT
2194269 -T-AATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGAC
322 ATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGAC
* *
2194332 ACAAATGTATAAAGTATCGATACATTATGTATACCTT-TTTTTTAATAACCGATATATTTGGACC
387 ACAAATGTATAAAGTATCGATACATTATGTATACCTTCTTTTTTAATAACCGGTATATTTAGACC
2194396 GGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATATTTTTGGGATCGACACT
452 GGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATATTTTTGGGATCGACACT
2194461 TGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGT
517 TGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGT
2194526 CGACACAAATGTAT
582 CGACACAAATGTAT
2194540 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
1 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
** *
2194605 GTTATGTTATGTATTACATTATAATTATGTGTGTCGATGTTTTTGGGATCGACACTTGTTATAAA
66 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
2194670 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAATTTATTATGGACATAAAGTGTCGACACAAAT
131 TGTATCGACACTTTTTCGTGAACTTGTTTGGAAATTTATTATGGACATAAAGTGTCGACACAAAT
2194735 GTATAAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAATCGGTATATTTAGACCGGTTA
196 GTATAAAGTATCGATACATTATGTATACCTTT-TTTTTTAATAATCGGTATATTTAGACCGGTTA
* *
2194800 CATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCAACACTTGTTA
260 CATTGTTATGTTACCTATTACATTATAATTAAG-GTTTCGATGTTTTTGGGATCGACACTTG-TA
*
2194865 TAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCAACA
323 TAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACA
2194930 CAAATGTATAAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACC
388 CAAATGTATAAAGTATCGATACATTATGTATACC-TTCTTTTTTAATAACCGGTATATTTAGACC
2194995 GGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATATTTTTGGGATCGACACT
452 GGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATATTTTTGGGATCGACACT
* *
2195060 TGTTATAAATGTATCGACACTTTTTCATGAACTTGTTTGGAAAATTTATTATGGACATGAAGTGT
517 TGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGT
2195125 CGACACAAATGTAT
582 CGACACAAATGTAT
2195139 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
1 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
*
2195204 GTTATGTTACCTATTACATTATAATTATGTGTTTTGATGTTTTTGGGATCGACACTTGTTATAAA
66 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
* * ** * * *
2195269 TGTATCGACACTTTTTTCGTGCACTTGGTTTAGAAATACATTTTGGACA-ACATGTATCGACACA
131 TGTATCGACAC-TTTTTCGTGAACTT-GTTTGGAAATTTATTATGGACATA-AAGTGTCGACACA
* * * ** * * * *
2195333 AATGAATAAAGTGTCGATACA-TATTGTAGACCTATTTTCTCATAA-AATCAGTAAATTTAAACT
193 AATGTATAAAGTATCGATACATTA-TGTATACCT-TTTT-TTTTAATAATCGGTATATTTAGACC
* * * * *
2195396 GATTACATTGTAAAGTGACCTATTACATTATAGTTACAGGTTTCGATGTTTTTGGGATCGACACT
255 GGTTACATTGTTATGTTACCTATTACATTATAATTA-AGGTTTCGATGTTTTTGGGATCGACACT
** *
2195461 TGATATAAATGTATCGACAC-TTTT-GTGAACTTGTTTTGGTTGGAAAATACATTATGGACACAA
319 TG-TATAAATGTATCGACACTTTTTCGTGAACTTG---T--TTGGAAAATTTATTATGGACATAA
* * * * * *
2195524 AGTATCGACACAAATGTATAAAGTGTCGATACTTTATGTATACC-TCTTTTCTCATAAACTGGTA
378 AGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCTTCTTTTTTAAT-AACCGGTA
* * * *
2195588 TATTTAGACCGGTTACATTGTTATTTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGG
442 TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATATTTTTGG
* * * *
2195653 GATCGATACTTTTTATAAATGTATCGACACTTTGTTTGTGCACTTGGTTTGGAAA
507 GATCGACACTTGTTATAAATGTATCGACACTTT-TTCGTGAACTT-GTTTGGAAA
2195708 TACATTCTGG
Statistics
Matches: 1068, Mismatches: 75, Indels: 38
0.90 0.06 0.03
Matches are distributed among these distances:
592 69 0.06
593 137 0.13
594 88 0.08
595 1 0.00
596 1 0.00
597 96 0.09
598 2 0.00
599 313 0.29
600 20 0.02
601 147 0.14
602 17 0.02
603 99 0.09
604 69 0.06
605 9 0.01
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (595 bp):
AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCGGTATATTTAGACCGGTTACATT
GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
TGTATCGACACTTTTTCGTGAACTTGTTTGGAAATTTATTATGGACATAAAGTGTCGACACAAAT
GTATAAAGTATCGATACATTATGTATACCTTTTTTTTTAATAATCGGTATATTTAGACCGGTTAC
ATTGTTATGTTACCTATTACATTATAATTAAGGTTTCGATGTTTTTGGGATCGACACTTGTATAA
ATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGACACAA
ATGTATAAAGTATCGATACATTATGTATACCTTCTTTTTTAATAACCGGTATATTTAGACCGGTT
ACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATATTTTTGGGATCGACACTTGTT
ATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTCGAC
ACAAATGTAT
Found at i:2199002 original size:15 final size:15
Alignment explanation
Indices: 2198982--2199033 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
2198972 TGATTTCCTC
*
2198982 AGAAGAGTTGGGTTG
1 AGAAGAGATGGGTTG
*
2198997 AGAAGAGGTGGGTTG
1 AGAAGAGATGGGTTG
*
2199012 AGAAGTGATGGGTTG
1 AGAAGAGATGGGTTG
2199027 AGAAGAG
1 AGAAGAG
2199034 CCCCGATTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.48, T:0.21
Consensus pattern (15 bp):
AGAAGAGATGGGTTG
Found at i:2199999 original size:198 final size:197
Alignment explanation
Indices: 2199508--2200077 Score: 937
Period size: 197 Copynumber: 2.9 Consensus size: 197
2199498 TTACCATTTA
2199508 CATTCTGGACA-AAACGTATCGACACAAATTCAA-AGAGTGTCGATACTTTATGTACACCTGTTT
1 CATTCTGGACACAAA-GTATCGACACAAATTCAACA-AGTGTCGATACTTTATGTACACCTGTTT
* * *
2199571 TTTCATAAATTGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGAG
64 TCTCATAAATCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGG
*
2199636 TCTCGATGTTTTTGGAATCGATACTTTTTATAAATGTATCGACACATTATGGTAACCTTGGTAAA
129 TCTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTATGGTAACCTTGGTAAA
2199701 AAAT
194 AAAT
*
2199705 CATTCTGGACACAAAGTATCGACACAAATTAAACAAGTGTCGATACTTTATGTACACCTGTTTTC
1 CATTCTGGACACAAAGTATCGACACAAATTCAACAAGTGTCGATACTTTATGTACACCTGTTTTC
* *
2199770 TCATAAATCGGTATATTTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTATGGGTC
66 TCATAAATCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
* * * * *
2199835 TCGATGTTTTTGGGATCGATACATTTTATAAATGTTTCGACACATTATGGTGACTTTGGTAAGGA
131 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTATGGTAACCTTGGTAA-AA
2199900 AAT
195 AAT
* *
2199903 CATTTTGGACACAAAGTATCGACACAAATTCAACAAGTGTCGATACTTTATGTACATCTGTTTTC
1 CATTCTGGACACAAAGTATCGACACAAATTCAACAAGTGTCGATACTTTATGTACACCTGTTTTC
* * *
2199968 TCATAAACCGGTGTATTTAGACCGTTTAGATTCATAATTTACCTATTACATTATAATTATAGGTC
66 TCATAAATCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
*
2200033 TCAATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACAT
131 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACAT
2200078 ATGTTTACCA
Statistics
Matches: 347, Mismatches: 23, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
197 175 0.50
198 172 0.50
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (197 bp):
CATTCTGGACACAAAGTATCGACACAAATTCAACAAGTGTCGATACTTTATGTACACCTGTTTTC
TCATAAATCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTATGGTAACCTTGGTAAAAA
AT
Found at i:2200434 original size:19 final size:19
Alignment explanation
Indices: 2200410--2200459 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
2200400 TTACATTCAC
*
2200410 ATACAAAATTATAAATCGT
1 ATACAAAATTAAAAATCGT
*
2200429 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCGT
2200448 ATACAAAATTAA
1 ATACAAAATTAA
2200460 CCCTACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTAAAAATCGT
Found at i:2201630 original size:17 final size:17
Alignment explanation
Indices: 2201608--2201643 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
2201598 GAATCATTAG
*
2201608 GATTAATATCTTTTCAT
1 GATTAATATATTTTCAT
2201625 GATTAATATATTTTCAT
1 GATTAATATATTTTCAT
2201642 GA
1 GA
2201644 AATATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.50
Consensus pattern (17 bp):
GATTAATATATTTTCAT
Found at i:2202654 original size:22 final size:24
Alignment explanation
Indices: 2202626--2202681 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
2202616 AACCTGAATT
2202626 TATAATAAAAT-TA-ATCATTTTA
1 TATAATAAAATATACATCATTTTA
*
2202648 TATAAT-AACTATACCATCATTTTA
1 TATAATAAAATATA-CATCATTTTA
*
2202672 TATAAAAAAA
1 TATAATAAAA
2202682 CAAAAACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 3 0.11
22 8 0.30
24 14 0.52
25 2 0.07
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (24 bp):
TATAATAAAATATACATCATTTTA
Found at i:2204603 original size:20 final size:20
Alignment explanation
Indices: 2204557--2204603 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2204547 ACCGTTAGCG
2204557 CTTTACCGGTTTTGTCATTT
1 CTTTACCGGTTTTGTCATTT
**
2204577 CGATACCGGTTTTGTCATATT
1 CTTTACCGGTTTTGTCAT-TT
2204598 -TTTACC
1 CTTTACC
2204604 TATTATATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (20 bp):
CTTTACCGGTTTTGTCATTT
Found at i:2204841 original size:182 final size:180
Alignment explanation
Indices: 2204531--2205167 Score: 783
Period size: 182 Copynumber: 3.5 Consensus size: 180
2204521 ATTAAAGTAC
* * * * *
2204531 CGACACTTTCAACATAACCGTTAGCGCTTTACCGGTTTTGTCATTTCGATACCGGTTTTGTCATA
1 CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATA
* *
2204596 TTTTTACCTATTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTTTTAGGCGCT
66 TTTTTACCTATTATATTGCTATGGATCGATACATTTT-ATAAAGTATCGACACTTTATAGGCGCT
*
2204661 ATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTATATTAATTTAT
130 ATAACTTCTTCTCTTTTAAATT-CAAAAGTGTCGATACTTATATTAATTTAT
* ** **
2204713 CGACACTTTCAATATATCTGGTAGCTTTTTACCGGTTTTATCATTTCGAGACTTGTTTTGTCATA
1 CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATA
*
2204778 TTCTTACCTATTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTATAGGCGCT
66 TTTTTACCTATTATATTGCTATGGATCGATACATTT-TATAAAGTATCGACACTTTATAGGCGCT
* * **
2204843 ATAACTTCTTCTCCTTTAAATTCAAAAATTGTCGATACTTATATTAACGTAT
130 ATAACTTCTTCTCTTTTAAATTC-AAAAGTGTCGATACTTATATTAATTTAT
* ** * *
2204895 CGACACTTTCAATATATCCGGTAGCTCTTTATTGGTTTTATCATTTCGTGACCGATTTTGTCATA
1 CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATA
* * * * * * * *
2204960 CTTATACCTGTTATATTGTTATGGATCAATACGTTTTTATAAAGTATCGAAACTTTATAGGTGCT
66 TTTTTACCTATTATATTGCTATGGATCGATAC-ATTTTATAAAGTATCGACACTTTATAGGCGCT
* * *
2205025 ATTACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTAT-TTAAATCTAAT
130 ATAACTTCTTCTCTTTTAAATT-CAAAAGTGTCGATACTTATATT-AAT-TTAT
* * * * * * * *
2205078 CGATACTTTCGATATATCCAGCAGCGGTTTACCGGTTTTATCATAAT-GAAACCGGTTTTATCAT
1 CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCAT-TTCGAGACCGGTTTTGTCAT
* *
2205142 ATTTTTACTTGTTATATTGCTATGGA
65 ATTTTTACCTATTATATTGCTATGGA
2205168 GGGATACCTT
Statistics
Matches: 389, Mismatches: 59, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
181 3 0.01
182 307 0.79
183 78 0.20
184 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (180 bp):
CGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATA
TTTTTACCTATTATATTGCTATGGATCGATACATTTTATAAAGTATCGACACTTTATAGGCGCTA
TAACTTCTTCTCTTTTAAATTCAAAAGTGTCGATACTTATATTAATTTAT
Found at i:2207991 original size:6 final size:6
Alignment explanation
Indices: 2207980--2208036 Score: 114
Period size: 6 Copynumber: 9.5 Consensus size: 6
2207970 GATCCTGATT
2207980 ATATGG ATATGG ATATGG ATATGG ATATGG ATATGG ATATGG ATATGG
1 ATATGG ATATGG ATATGG ATATGG ATATGG ATATGG ATATGG ATATGG
2208028 ATATGG ATA
1 ATATGG ATA
2208037 GAACAACATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (6 bp):
ATATGG
Found at i:2208594 original size:5 final size:5
Alignment explanation
Indices: 2208584--2208617 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
2208574 GAGAGAGATA
2208584 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
2208618 GGGGTGGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:2209883 original size:16 final size:16
Alignment explanation
Indices: 2209864--2209922 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 16
2209854 CAGTGTATCC
2209864 ATACACTGGTGTACCG
1 ATACACTGGTGTACCG
* *
2209880 ATACACCCTGCAGTGTATCT
1 ATACA--CTG--GTGTACCG
2209900 ATACACTGGTGTACCG
1 ATACACTGGTGTACCG
2209916 ATACACT
1 ATACACT
2209923 CTGTAGTGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 18 0.51
18 6 0.17
20 11 0.31
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (16 bp):
ATACACTGGTGTACCG
Found at i:2209883 original size:36 final size:36
Alignment explanation
Indices: 2209836--2209941 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 36
2209826 AAATGCTAAA
*
2209836 GTGTACTGATACACTCTGCAGTGTATCCATACACTG
1 GTGTACCGATACACTCTGCAGTGTATCCATACACTG
* *
2209872 GTGTACCGATACACCCTGCAGTGTATCTATACACTG
1 GTGTACCGATACACTCTGCAGTGTATCCATACACTG
*
2209908 GTGTACCGATACACTCTGTAGTGTATCCATACAC
1 GTGTACCGATACACTCTGCAGTGTATCCATACAC
2209942 CCTGGCTGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 64 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (36 bp):
GTGTACCGATACACTCTGCAGTGTATCCATACACTG
Found at i:2209939 original size:20 final size:18
Alignment explanation
Indices: 2209844--2209942 Score: 75
Period size: 20 Copynumber: 5.4 Consensus size: 18
2209834 AAGTGTACTG
2209844 ATACACTCTGCAGTGTATCC
1 ATACAC-CTG-AGTGTATCC
2209864 ATACA-CTG-GTGTA-CC
1 ATACACCTGAGTGTATCC
*
2209879 GATACACCCTGCAGTGTATCT
1 -ATACA-CCTG-AGTGTATCC
2209900 ATACA-CTG-GTGTA-CC
1 ATACACCTGAGTGTATCC
2209915 GATACACTCTGTAGTGTATCC
1 -ATACAC-CTG-AGTGTATCC
2209936 ATACACC
1 ATACACC
2209943 CTGGCTGTAA
Statistics
Matches: 65, Mismatches: 2, Indels: 25
0.71 0.02 0.27
Matches are distributed among these distances:
15 3 0.05
16 20 0.31
18 12 0.18
19 1 0.02
20 26 0.40
21 3 0.05
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (18 bp):
ATACACCTGAGTGTATCC
Done.