Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 95 of 259
Found at i:30993637 original size:44 final size:44
Alignment explanation
Indices: 30993096--30993628 Score: 289
Period size: 44 Copynumber: 11.8 Consensus size: 44
30993086 TTATTAATAG
** ** * *
30993096 CTTCAATCTGTTCCACTGCAACTTCAGATAAATAAGATTCGCTAT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TAT
* * ** * * *
30993141 CTTCAGTCTGCTCCACTATAACTTCAAGGAGATAAGACTAGTGA-
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-AT
* * * *
30993185 CTTCAACCTTCTCCACTGCAACTTCAAGGAGATAAGGTTTGT-T
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAT
* * **
30993228 -TT-GATCTGCTCTGCTGCAACTTCAGAGG-GATAAGATCTGTGATTTAT
1 CTTCAATCTACTCCACTGCAACTTCAG-GGAGATAAGAT-T-TG---TAT
** * *
30993275 AGCTTCAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTGT-T
1 --CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAT
* * * * *
30993320 -TT-GATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGATTTAT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT-T-TG---TAT
** * *
30993367 AGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAGGATTTGT-T
1 --CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAT
* * * *
30993412 -TT-GATCTACTCTACTGCAACTTCAGAGAAATAAGATCTGTGATTTAT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT-T-TG---TAT
* **
30993459 AGCTTCAATATGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
1 --CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TAT
* * *
30993506 CTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGACTTGTAAT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-AT
* * * * * *
30993551 -TTCAACCTACTTCACTACAACTTCAAGGAGATAAGGTTTGTTT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAT
*
30993594 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
30993629 AGTTTGTTTT
Statistics
Matches: 373, Mismatches: 79, Indels: 73
0.71 0.15 0.14
Matches are distributed among these distances:
41 79 0.21
42 11 0.03
43 7 0.02
44 98 0.26
45 71 0.19
46 5 0.01
47 6 0.02
49 6 0.02
50 11 0.03
51 79 0.21
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAT
Found at i:30993794 original size:44 final size:43
Alignment explanation
Indices: 30993746--30994070 Score: 121
Period size: 44 Copynumber: 7.4 Consensus size: 43
30993736 CTATTACCCG
* *
30993746 ACTGCTTAGGGGGTTAAGTCTTACCGTCTTCGATCTACTCCACT
1 ACTGCTTAGGGGGATAAGTCTTA-CGTCTTCAATCTACTCCACT
* * ** *
30993790 ACTGCTTAGGGAGATAAGATCTGTA-AT-TTCTAGCCTATTACC-CT
1 ACTGCTTAGGGGGATAAG-TCT-TACGTCTTC-AATCTACT-CCACT
* * *
30993834 ACTGCTTAGGGGGGTAAGGCTTACTGTCTTCAATCTGCTCCACT
1 ACTGCTTAGGGGGATAAGTCTTAC-GTCTTCAATCTACTCCACT
* * * ** **
30993878 ACTGTTTAGGGAGATAAGATCTGTA-AT-TTCCAGCCTGTTACC-CT
1 ACTGCTTAGGGGGATAAG-TCT-TACGTCTT-CAATCTACT-CCACT
* * * * * *
30993922 ACTTCTTA-GGGGTTCAGGCTTACTGTCTTCGATCTGCTCCACT
1 ACTGCTTAGGGGGATAAGTCTTAC-GTCTTCAATCTACTCCACT
* * * ** * *
30993965 ACTGCTTAGGGAGATAAGATTTGTA-AT-TTCCAGCCTATTACC-TT
1 ACTGCTTAGGGGGATAAG-TCT-TACGTCTT-CAATCTACT-CCACT
* * *
30994009 ACTGCTTAAGGGGTTAAGTCTTACTGTCTTCAATCTGCTCCACT
1 ACTGCTTAGGGGGATAAGTCTTAC-GTCTTCAATCTACTCCACT
* *
30994053 ACTGCTTAAGGAGATAAG
1 ACTGCTTAGGGGGATAAG
30994071 ATCTGTAATT
Statistics
Matches: 197, Mismatches: 59, Indels: 50
0.64 0.19 0.16
Matches are distributed among these distances:
41 2 0.01
42 8 0.04
43 36 0.18
44 128 0.65
45 17 0.09
46 6 0.03
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (43 bp):
ACTGCTTAGGGGGATAAGTCTTACGTCTTCAATCTACTCCACT
Found at i:30993825 original size:88 final size:88
Alignment explanation
Indices: 30993652--30994214 Score: 808
Period size: 88 Copynumber: 6.4 Consensus size: 88
30993642 CTTCAACTTG
* * * * *
30993652 TTACCCTACTGCTTAGGGGATTAAGGCTTACCGTCTTCG-TCCGCTCCCCTACTGCTTAGGGTGA
1 TTACCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
**
30993716 TAAGATCTGTAATTTTTAGCCTA
66 TAAGATCTGTAATTTCCAGCCTA
* * * *
30993739 TTACCCGACTGCTTAGGGGGTTAAGTCTTACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGA
1 TTACCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
*
30993804 TAAGATCTGTAATTTCTAGCCTA
66 TAAGATCTGTAATTTCCAGCCTA
* * *
30993827 TTACCCTACTGCTTAGGGGGGTAAGGCTTACTGTCTTCAATCTGCTCCACTACTGTTTAGGGAGA
1 TTACCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
*
30993892 TAAGATCTGTAATTTCCAGCCTG
66 TAAGATCTGTAATTTCCAGCCTA
* *
30993915 TTACCCTACTTCTTA-GGGGTTCAGGCTTACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
1 TTACCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
*
30993979 TAAGATTTGTAATTTCCAGCCTA
66 TAAGATCTGTAATTTCCAGCCTA
* * * * *
30994002 TTACCTTACTGCTTAAGGGGTTAAGTCTTACTGTCTTCAATCTGCTCCACTACTGCTTAAGGAGA
1 TTACCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
*
30994067 TAAGATCTGTAATTTCCAGCCTG
66 TAAGATCTGTAATTTCCAGCCTA
* *
30994090 TTAGCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTTGATCTGCTCCA-TACTGCTTAGGGAGA
1 TTACCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
* *
30994154 TAAGATCTGTAATTTCAAGCCTG
66 TAAGATCTGTAATTTCCAGCCTA
* * * *
30994177 TTACCCTACTGCTTAGGAGGTTAAAGCTCACCGTCTTC
1 TTACCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTC
30994215 TAGGGAAATG
Statistics
Matches: 428, Mismatches: 46, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
87 183 0.43
88 245 0.57
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (88 bp):
TTACCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
TAAGATCTGTAATTTCCAGCCTA
Found at i:30993854 original size:175 final size:176
Alignment explanation
Indices: 30993652--30994214 Score: 826
Period size: 175 Copynumber: 3.2 Consensus size: 176
30993642 CTTCAACTTG
* * * * *
30993652 TTACCCTACTGCTTAGGGGATTAAGGCTTACCGTCTTC-GTCCGCTCCCCTACTGCTTAGGGTGA
1 TTACCCTACTGCTTAGGGGGTTAAGGCTTACCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGA
** * * * *
30993716 TAAGATCTGTAATTTTTAGCCTATTACCCGACTGCTTAGGGGGTTAAGTCTTACCGTCTTCGATC
66 TAAGATCTGTAATTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTCGATC
* *
30993781 TACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTA
131 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAAGCCTA
* * *
30993827 TTACCCTACTGCTTAGGGGGGTAAGGCTTACTGTCTTCAATCTGCTCCACTACTGTTTAGGGAGA
1 TTACCCTACTGCTTAGGGGGTTAAGGCTTACCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGA
* *
30993892 TAAGATCTGTAATTTCCAGCCTGTTACCCTACTTCTTA-GGGGTTCAGGCTTACTGTCTTCGATC
66 TAAGATCTGTAATTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTCGATC
* *
30993956 TGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTCCAGCCTA
131 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAAGCCTA
* * * * *
30994002 TTACCTTACTGCTTAAGGGGTTAAGTCTTACTGTCTTCAATCTGCTCCACTACTGCTTAAGGAGA
1 TTACCCTACTGCTTAGGGGGTTAAGGCTTACCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGA
* *
30994067 TAAGATCTGTAATTTCCAGCCTGTTAGCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTTGATC
66 TAAGATCTGTAATTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTCGATC
*
30994132 TGCTCCA-TACTGCTTAGGGAGATAAGATCTGTAATTTCAAGCCTG
131 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAAGCCTA
* * *
30994177 TTACCCTACTGCTTAGGAGGTTAAAGCTCACCGTCTTC
1 TTACCCTACTGCTTAGGGGGTTAAGGCTTACCGTCTTC
30994215 TAGGGAAATG
Statistics
Matches: 347, Mismatches: 39, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
175 262 0.76
176 85 0.24
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (176 bp):
TTACCCTACTGCTTAGGGGGTTAAGGCTTACCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGA
TAAGATCTGTAATTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTCGATC
TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAAGCCTA
Found at i:30993973 original size:263 final size:261
Alignment explanation
Indices: 30993650--30994214 Score: 860
Period size: 263 Copynumber: 2.1 Consensus size: 261
30993640 ATCTTCAACT
* *
30993650 TGTTACCCTACTGCTTAGGGGATTAAGGCTTACCGTCTTCGTCCGCTCCCCTACTGCTTAGGGTG
1 TGTTACCCTACTGCTTAGGGG-TTAAGGCTTACCGTCTTCGTCCGCTCCACTACTGCTTAGGGAG
** * *
30993715 ATAAGATCTGTAATTTTTAGCCTATTACCCGACTGCTTAGGGGGTTAAGTCTTACCGTCTTCGAT
65 ATAAGATCTGTAATTTCCAGCCTATTACCCGACTGCTTAAGGGGTTAAGTCTTACCGTCTTCAAT
* *
30993780 CTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTATTACCCTACTGCTTAGGG
130 CTACTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTCCAGCCTATTACCCTACTGCTTAGGG
* *
30993845 GGGTAAGGCTTACTGTCTTCAATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTCCA
195 GGGTAAGGCTTACTGTCTTCAATCTGCTCCA-TACTGCTTAGGGAGATAAGATCTGTAATTTCAA
30993910 GCC
259 GCC
* * * *
30993913 TGTTACCCTACTTCTTAGGGGTTCAGGCTTACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAG
1 TGTTACCCTACTGCTTAGGGGTTAAGGCTTACCGTCTTCG-TCCGCTCCACTACTGCTTAGGGAG
* ** *
30993978 ATAAGATTTGTAATTTCCAGCCTATTACCTTACTGCTTAAGGGGTTAAGTCTTACTGTCTTCAAT
65 ATAAGATCTGTAATTTCCAGCCTATTACCCGACTGCTTAAGGGGTTAAGTCTTACCGTCTTCAAT
* * *
30994043 CTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTCCAGCCTGTTAGCCTACTGCTTAGGG
130 CTACTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTCCAGCCTATTACCCTACTGCTTAGGG
* **
30994108 GGTTAAGGCTTACTGTCTTTGATCTGCTCCATACTGCTTAGGGAGATAAGATCTGTAATTTCAAG
195 GGGTAAGGCTTACTGTCTTCAATCTGCTCCATACTGCTTAGGGAGATAAGATCTGTAATTTCAAG
30994173 CC
260 CC
* *
30994175 TGTTACCCTACTGCTTAGGAGGTTAAAGCTCACCGTCTTC
1 TGTTACCCTACTGCTTAGG-GGTTAAGGCTTACCGTCTTC
30994215 TAGGGAAATG
Statistics
Matches: 271, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
262 69 0.25
263 202 0.75
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (261 bp):
TGTTACCCTACTGCTTAGGGGTTAAGGCTTACCGTCTTCGTCCGCTCCACTACTGCTTAGGGAGA
TAAGATCTGTAATTTCCAGCCTATTACCCGACTGCTTAAGGGGTTAAGTCTTACCGTCTTCAATC
TACTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTCCAGCCTATTACCCTACTGCTTAGGGG
GGTAAGGCTTACTGTCTTCAATCTGCTCCATACTGCTTAGGGAGATAAGATCTGTAATTTCAAGC
C
Found at i:30994099 original size:44 final size:43
Alignment explanation
Indices: 30993788--30994195 Score: 140
Period size: 44 Copynumber: 9.3 Consensus size: 43
30993778 ATCTACTCCA
* * *
30993788 CTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTATTACC
1 CTACTGCTTAAGGAGATAAGATCTGTAATTTCCAGCCTGTTA-C
* * * * * * ** * *
30993832 CTACTGCTTAGGGGGGTAAG-GCT-TACTGTCTTCAATCTGCTCC
1 CTACTGCTTAAGGAGATAAGATCTGTAAT-T-TCCAGCCTGTTAC
* *
30993875 ACTACTGTTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTACC
1 -CTACTGCTTAAGGAGATAAGATCTGTAATTTCCAGCCTGTTA-C
* * * * * * * * * *
30993920 CTACTTCTT-AGGGGTTCAG-GCT-TACTGTCTTC-GATCTGCTCC
1 CTACTGCTTAAGGAGATAAGATCTGTAAT-T-TCCAG-CCTGTTAC
* * *
30993962 ACTACTGCTTAGGGAGATAAGATTTGTAATTTCCAGCCTATTAC
1 -CTACTGCTTAAGGAGATAAGATCTGTAATTTCCAGCCTGTTAC
* * * * ** * *
30994006 CTTACTGCTTAAGGGGTTAAG-TCT-TACTGTCTTCAATCTGCTCC
1 C-TACTGCTTAAGGAGATAAGATCTGTAAT-T-TCCAGCCTGTTAC
30994050 ACTACTGCTTAAGGAGATAAGATCTGTAATTTCCAGCCTGTTAGC
1 -CTACTGCTTAAGGAGATAAGATCTGTAATTTCCAGCCTGTTA-C
* * * * * * * *
30994095 CTACTGCTTAGGGGGTTAAGGCTTACTGT-CTTT-GA-TCTGCT-C
1 CTACTGCTTAAGGAGATAA-G-AT-CTGTAATTTCCAGCCTGTTAC
* *
30994137 CATACTGCTTAGGGAGATAAGATCTGTAATTTCAAGCCTGTTACC
1 C-TACTGCTTAAGGAGATAAGATCTGTAATTTCCAGCCTGTTA-C
30994182 CTACTGCTT-AGGAG
1 CTACTGCTTAAGGAG
30994196 GTTAAAGCTC
Statistics
Matches: 253, Mismatches: 81, Indels: 61
0.64 0.21 0.15
Matches are distributed among these distances:
40 4 0.02
41 7 0.03
42 15 0.06
43 52 0.21
44 141 0.56
45 17 0.07
46 13 0.05
47 4 0.02
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (43 bp):
CTACTGCTTAAGGAGATAAGATCTGTAATTTCCAGCCTGTTAC
Found at i:31004234 original size:44 final size:44
Alignment explanation
Indices: 31004177--31004343 Score: 175
Period size: 43 Copynumber: 3.9 Consensus size: 44
31004167 ATGGTGATAT
* * * *
31004177 TCGGGCCTC-GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAATAA-ATTA
31004220 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGAT-AA-TA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA-ATAAATTA
* *
31004263 TCGGGCTTCGGGCCTAGTAGGCTATAATGCCGATGAA-AAGATTA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAATAA-ATTA
** * *
31004307 TCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGATGAAT
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAT
31004344 GAGTTCAGAC
Statistics
Matches: 107, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.02
43 57 0.53
44 38 0.36
45 8 0.07
46 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (44 bp):
TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAATAAATTA
Found at i:31006149 original size:27 final size:27
Alignment explanation
Indices: 31006117--31006172 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
31006107 GACACAAGTG
31006117 TGTATCTGCTTAAGTGGTTAAGTGTTC
1 TGTATCTGCTTAAGTGGTTAAGTGTTC
31006144 TGTATCTGCTTAAGTGGTTAAGTGTTC
1 TGTATCTGCTTAAGTGGTTAAGTGTTC
31006171 TG
1 TG
31006173 GGTGTGTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.11, G:0.27, T:0.45
Consensus pattern (27 bp):
TGTATCTGCTTAAGTGGTTAAGTGTTC
Found at i:31007481 original size:28 final size:29
Alignment explanation
Indices: 31007449--31007563 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
31007439 TATCTGTATC
* *
31007449 TGGCCCATTAAGCCC-TATCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* *
31007477 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAAGCCCAAATCACAT-TCATA
* *
31007506 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* * *
31007535 TGGCCCGTTAAGCCC-AGTCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
31007563 T
1 T
31007564 TCATACTCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 26 0.35
29 47 0.64
30 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATTCATA
Found at i:31007507 original size:29 final size:29
Alignment explanation
Indices: 31007443--31007550 Score: 121
Period size: 29 Copynumber: 3.8 Consensus size: 29
31007433 TTCACATATC
* * * *
31007443 TGTATCTGGCCCATTAAGCCC-TATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
31007471 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
31007500 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
31007529 TTTATATGGCCCGTTAAGCCCA
1 TGTATATGGCCCATTAGGCCCA
31007551 GTCATATTCA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.01
28 17 0.25
29 49 0.72
30 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:31012437 original size:11 final size:11
Alignment explanation
Indices: 31012421--31012445 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31012411 CACACTTCCC
31012421 TTCCCATCATT
1 TTCCCATCATT
31012432 TTCCCATCATT
1 TTCCCATCATT
31012443 TTC
1 TTC
31012446 TTTTTCTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (11 bp):
TTCCCATCATT
Found at i:31014408 original size:12 final size:12
Alignment explanation
Indices: 31014391--31014416 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31014381 CTGAAGTTTT
31014391 TCTTTTCTCTTC
1 TCTTTTCTCTTC
31014403 TCTTTTCTCTTC
1 TCTTTTCTCTTC
31014415 TC
1 TC
31014417 CATAATTCCC
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:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (12 bp):
TCTTTTCTCTTC
Found at i:31015680 original size:27 final size:27
Alignment explanation
Indices: 31015650--31015726 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 27
31015640 CCTTAAAATA
* *
31015650 GGTAAAATAACTATACTACCCTTGTAG
1 GGTAAAATAACCATAATACCCTTGTAG
* * *
31015677 GGTAAAATGACCGTAATACCCTTGTAT
1 GGTAAAATAACCATAATACCCTTGTAG
* * *
31015704 GGTAAAATGACGATTATACCCTT
1 GGTAAAATAACCATAATACCCTT
31015727 ATGTTTCGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (27 bp):
GGTAAAATAACCATAATACCCTTGTAG
Found at i:31015884 original size:27 final size:26
Alignment explanation
Indices: 31015854--31015935 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 26
31015844 GGAAGTATTG
* *
31015854 TACTGGTGACTATGTCACATTCACTGT
1 TACTGGTGGCTATGCCACATT-ACTGT
*
31015881 TACTGGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGCCAC-ATTACTGT
* *
31015908 TACCGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGGCTATGCCACA-TTACTGT
31015935 T
1 T
31015936 TCCTTTGCTG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.02
27 43 0.91
28 3 0.06
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (26 bp):
TACTGGTGGCTATGCCACATTACTGT
Found at i:31017158 original size:23 final size:23
Alignment explanation
Indices: 31017128--31017180 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
31017118 AACATAGTTT
* **
31017128 CTAATAGTAACGTAGTAAAGCTG
1 CTAATAGTAACGCAACAAAGCTG
*
31017151 CTAATAGTGACGCAACAAAGCTG
1 CTAATAGTAACGCAACAAAGCTG
31017174 CTAATAG
1 CTAATAG
31017181 CGGCAAACGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (23 bp):
CTAATAGTAACGCAACAAAGCTG
Found at i:31017681 original size:76 final size:76
Alignment explanation
Indices: 31017572--31017724 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
31017562 GGGCCCACAC
31017572 TCTCGTGTGGCCCACTTAGCCCAAATTTAGCTATGGCTACGTGACCTACATAGCCTAGTCCAAAA
1 TCTCGTGTGGCCCACTTAGCCCAAATTTAGCTATGGCTACGTGACCTACATAGCCTAGTCCAAAA
31017637 TTTATCACTTA
66 TTTATCACTTA
31017648 TCTCGTGTGGCCCACTTAGCCCAAATTTAGCTATGGCTACGTGACCTACATAGCCTAGTCCAAAA
1 TCTCGTGTGGCCCACTTAGCCCAAATTTAGCTATGGCTACGTGACCTACATAGCCTAGTCCAAAA
31017713 TTTATCACTTA
66 TTTATCACTTA
31017724 T
1 T
31017725 TGTGGATTTA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (76 bp):
TCTCGTGTGGCCCACTTAGCCCAAATTTAGCTATGGCTACGTGACCTACATAGCCTAGTCCAAAA
TTTATCACTTA
Found at i:31023178 original size:24 final size:23
Alignment explanation
Indices: 31023151--31023221 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 23
31023141 GAAATTGAAA
* *
31023151 GAAAAAGTACAAGAAAAAAAGAGT
1 GAAAAAGAAAAAGAAAAAAA-AGT
* *
31023175 GAAAAAGAAAAAGACAAAAAATT
1 GAAAAAGAAAAAGAAAAAAAAGT
31023198 G-AAAA-AAAAAGAAAAGAAAAGT
1 GAAAAAGAAAAAGAAAA-AAAAGT
31023220 GA
1 GA
31023222 GAGATAGGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 9 0.23
22 10 0.26
23 3 0.08
24 17 0.44
ACGTcount: A:0.72, C:0.03, G:0.18, T:0.07
Consensus pattern (23 bp):
GAAAAAGAAAAAGAAAAAAAAGT
Found at i:31024470 original size:27 final size:26
Alignment explanation
Indices: 31024422--31024473 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
31024412 GCGAGGCTGC
*
31024422 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
31024448 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
31024474 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:31033103 original size:15 final size:15
Alignment explanation
Indices: 31033064--31033119 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
31033054 CAAGGAAACC
*
31033064 GAATAAAGAAATTCA
1 GAATAAAGAAATCCA
*
31033079 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
31033094 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
31033109 GAATAAAGAAA
1 GAATAAAGAAA
31033120 CCCAAGATAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 1 0.03
15 34 0.94
16 1 0.03
ACGTcount: A:0.61, C:0.09, G:0.16, T:0.14
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:31054172 original size:39 final size:40
Alignment explanation
Indices: 31054049--31054189 Score: 139
Period size: 39 Copynumber: 3.6 Consensus size: 40
31054039 ACTACTCACT
* * * *
31054049 CAAATGCCTTTGGGACATAGCCCGG-TTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTAGCA
* * * *
31054089 CAATTGCCTTCTGGA---GGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
* *
31054126 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTCACTAGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
*
31054165 CAGATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
31054190 TTATCATCCA
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
37 30 0.35
38 2 0.02
39 34 0.40
40 19 0.22
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCA
Found at i:31057950 original size:19 final size:19
Alignment explanation
Indices: 31057928--31057992 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
31057918 GGCGAAGCCA
31057928 CCAGATTGCAGCGAGGCTG
1 CCAGATTGCAGCGAGGCTG
** * **
31057947 CCAGATATTGTGGCGAAGCCA
1 CCAG--ATTGCAGCGAGGCTG
31057968 CCAGATTGCAGCGAGGCTG
1 CCAGATTGCAGCGAGGCTG
31057987 CCAGAT
1 CCAGAT
31057993 ATTGTGACGA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 20 0.59
21 14 0.41
ACGTcount: A:0.25, C:0.26, G:0.32, T:0.17
Consensus pattern (19 bp):
CCAGATTGCAGCGAGGCTG
Found at i:31057970 original size:40 final size:40
Alignment explanation
Indices: 31057915--31058012 Score: 178
Period size: 40 Copynumber: 2.5 Consensus size: 40
31057905 TATATGTATA
31057915 TGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATAT
1 TGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATAT
31057955 TGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATAT
1 TGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATAT
* *
31057995 TGTGACGAAGTCACCAGA
1 TGTGGCGAAGCCACCAGA
31058013 ACAGATATAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.27, C:0.24, G:0.32, T:0.17
Consensus pattern (40 bp):
TGTGGCGAAGCCACCAGATTGCAGCGAGGCTGCCAGATAT
Found at i:31058036 original size:27 final size:26
Alignment explanation
Indices: 31057988--31058040 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
31057978 GCGAGGCTGC
*
31057988 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
31058014 CAGATATATGTGGCGAGGCCACCAGAA
1 CAGATAT-TGTGACGAAGCCACCAGAA
31058041 TGCAGCGAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:31063157 original size:10 final size:10
Alignment explanation
Indices: 31063142--31063169 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
31063132 ATGGAATTTG
31063142 AATCGAATTA
1 AATCGAATTA
31063152 AATCGAATTA
1 AATCGAATTA
31063162 AATCGAAT
1 AATCGAAT
31063170 ATATTTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.29
Consensus pattern (10 bp):
AATCGAATTA
Found at i:31063648 original size:25 final size:25
Alignment explanation
Indices: 31063601--31063648 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 25
31063591 AAGGGAAAGT
31063601 AAATGGGGGGAAAATATTCAAAAAA
1 AAATGGGGGGAAAATATTCAAAAAA
31063626 AAAT-GGGGGAAAATATTCAAAAA
1 AAATGGGGGGAAAATATTCAAAAA
31063649 CATGGGGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.56, C:0.04, G:0.23, T:0.17
Consensus pattern (25 bp):
AAATGGGGGGAAAATATTCAAAAAA
Found at i:31063653 original size:22 final size:23
Alignment explanation
Indices: 31063601--31063656 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
31063591 AAGGGAAAGT
31063601 AAATGGGGGGAAAATATTCAAAAAA
1 AAAT-GGGGGAAAATATTC-AAAAA
31063626 AAATGGGGGAAAATATTC-AAAA
1 AAATGGGGGAAAATATTCAAAAA
*
31063648 ACATGGGGG
1 AAATGGGGG
31063657 GGGAATGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 12 0.40
24 14 0.47
25 4 0.13
ACGTcount: A:0.50, C:0.05, G:0.29, T:0.16
Consensus pattern (23 bp):
AAATGGGGGAAAATATTCAAAAA
Found at i:31065472 original size:144 final size:143
Alignment explanation
Indices: 31065207--31065486 Score: 379
Period size: 144 Copynumber: 2.0 Consensus size: 143
31065197 TTGAGGTTGA
* * * * * *
31065207 TGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGTTGCCATTCCCAGACATG
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGACACAATACCGATGCCATTCCCAAACATG
* * *
31065272 CTCTTACACTAGCTCTCATGATGTGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGTACAC
66 CTCTTACACTAGCTCTCATGATGTGGCCGACGCCATGTCCCAGACATGGTCATACACTAGCACAC
31065337 ATATCAATGCCGG
131 ATATCAATGCCGG
* *
31065350 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ACA-ACATCACCGATGCCATGTTCCAAAC
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGACACA-AT-ACCGATGCCAT-TCCCAAAC
*
31065413 AT-CGTCTTACACTAGCTCTCAT-ATCGTGGCTGACGCCATGTCCCAGACATGGTCATACACTAG
63 ATGC-TCTTACACTAGCTCTCATGAT-GTGGCCGACGCCATGTCCCAGACATGGTCATACACTAG
31065476 CACACATATCA
126 CACACATATCA
31065487 CCCAAATGTC
Statistics
Matches: 120, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
141 1 0.01
142 3 0.03
143 45 0.38
144 71 0.59
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.26
Consensus pattern (143 bp):
TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGACACAATACCGATGCCATTCCCAAACATG
CTCTTACACTAGCTCTCATGATGTGGCCGACGCCATGTCCCAGACATGGTCATACACTAGCACAC
ATATCAATGCCGG
Found at i:31065484 original size:48 final size:48
Alignment explanation
Indices: 31065157--31065486 Score: 303
Period size: 48 Copynumber: 6.9 Consensus size: 48
31065147 GTGAATTGCT
* * * * * * **
31065157 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATTTTGA-GGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-TATCATGGCC
* * *
31065205 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTCTCAAT-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGCC
* * *
31065253 GTTGCCAT-TCCCAGACATGCTCTTACACTAGCTCTCATGAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCATGGCC
*
31065300 GATGCCATGTCCCAGACATGGTCTTACACTAG-TACACATATCAAT-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCT-CTCATATC-ATGGCC
* * * * **
31065348 GGTGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATCACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGCC
* * * * *
31065396 GATGCCATGTTCCAAACATCGTCTTACACTAGCTCTCATATCGTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGCC
* * * *
31065444 GACGCCATGTCCCAGACATGGTCATACACTAGCACACATATCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA
31065487 CCCAAATGTC
Statistics
Matches: 227, Mismatches: 45, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
46 1 0.00
47 44 0.19
48 180 0.79
49 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGCC
Found at i:31067575 original size:20 final size:21
Alignment explanation
Indices: 31067533--31067575 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
31067523 CTGACGTAGT
31067533 TCGATTCTAGCTCAATGGAGC
1 TCGATTCTAGCTCAATGGAGC
*
31067554 TCGATTCTAGCTC-ATTGAGC
1 TCGATTCTAGCTCAATGGAGC
31067574 TC
1 TC
31067576 AATTTTATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.33
Consensus pattern (21 bp):
TCGATTCTAGCTCAATGGAGC
Found at i:31068570 original size:27 final size:26
Alignment explanation
Indices: 31068521--31068575 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
31068511 TAGTATATGC
31068521 TTTAATGTGTCTAGTTTCAGACATAAT
1 TTTAATGTGTCTAGTTTCAGACA-AAT
31068548 TTTAATGTGTCTAGTTT-AGGACAAAT
1 TTTAATGTGTCTAGTTTCA-GACAAAT
31068574 TT
1 TT
31068576 ATTAGCTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.45
Consensus pattern (26 bp):
TTTAATGTGTCTAGTTTCAGACAAAT
Found at i:31073217 original size:24 final size:26
Alignment explanation
Indices: 31073163--31073236 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 26
31073153 AAATACACTA
*
31073163 ATTTTCTCACTTTCT-TTTTCTTTTCTC
1 ATTTTCT-A-TTTCTCTTCTCTTTTCTC
31073190 ATTTTCT-TTTC-CTTCTCTTTTGCT-
1 ATTTTCTATTTCTCTTCTCTTTT-CTC
* *
31073214 ATTTTTTATTTCTTTTCTCTTTT
1 ATTTTCTATTTCTCTTCTCTTTT
31073237 TTTTTTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
24 18 0.45
25 6 0.15
26 9 0.22
27 7 0.17
ACGTcount: A:0.07, C:0.22, G:0.01, T:0.70
Consensus pattern (26 bp):
ATTTTCTATTTCTCTTCTCTTTTCTC
Found at i:31091228 original size:23 final size:22
Alignment explanation
Indices: 31091177--31091228 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
31091167 CCTCGTCTTT
*
31091177 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
31091199 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
31091222 TTCTTTT
1 TTCTTTT
31091229 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:31093004 original size:6 final size:6
Alignment explanation
Indices: 31092993--31093025 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
31092983 GTAAATAAAT
31092993 AAATAA AAATAA AAATAAA AAATAA AAATAA AA
1 AAATAA AAATAA AAAT-AA AAATAA AAATAA AA
31093026 CTTTACAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:31093015 original size:13 final size:13
Alignment explanation
Indices: 31092993--31093025 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
31092983 GTAAATAAAT
31092993 AAAT-AAAAATAA
1 AAATAAAAAATAA
31093005 AAATAAAAAATAA
1 AAATAAAAAATAA
31093018 AAATAAAA
1 AAATAAAA
31093026 CTTTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:31093017 original size:19 final size:20
Alignment explanation
Indices: 31092985--31093025 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
31092975 TAAACTAAGT
31092985 AAATAAATAAATAAAAATAA
1 AAATAAATAAATAAAAATAA
31093005 AAATAAA-AAATAAAAATAA
1 AAATAAATAAATAAAAATAA
31093024 AA
1 AA
31093026 CTTTACAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATAAATAAATAAAAATAA
Found at i:31094424 original size:23 final size:22
Alignment explanation
Indices: 31094372--31094424 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
31094362 TCCACGTCTT
*
31094372 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
31094394 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
31094417 TTTCTTTT
1 TTTCTTTT
31094425 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:31096810 original size:6 final size:6
Alignment explanation
Indices: 31096799--31096831 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
31096789 GTAAATAAAT
31096799 AAATAA AAATAA AAATAAA AAATAA AAATAA AA
1 AAATAA AAATAA AAAT-AA AAATAA AAATAA AA
31096832 CTTTACAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:31096821 original size:13 final size:13
Alignment explanation
Indices: 31096799--31096831 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
31096789 GTAAATAAAT
31096799 AAAT-AAAAATAA
1 AAATAAAAAATAA
31096811 AAATAAAAAATAA
1 AAATAAAAAATAA
31096824 AAATAAAA
1 AAATAAAA
31096832 CTTTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:31096823 original size:19 final size:20
Alignment explanation
Indices: 31096791--31096831 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
31096781 TAAACTAAGT
31096791 AAATAAATAAATAAAAATAA
1 AAATAAATAAATAAAAATAA
31096811 AAATAAA-AAATAAAAATAA
1 AAATAAATAAATAAAAATAA
31096830 AA
1 AA
31096832 CTTTACAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (20 bp):
AAATAAATAAATAAAAATAA
Found at i:31099503 original size:20 final size:20
Alignment explanation
Indices: 31099480--31099526 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
31099470 GGGTTAAGAT
* *
31099480 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTAAGCTCGAG
* *
31099500 TGAGTTGACTTAAGCTCGAG
1 TGAGCTGAATTAAGCTCGAG
31099520 TGAGCTG
1 TGAGCTG
31099527 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTAAGCTCGAG
Found at i:31101251 original size:48 final size:48
Alignment explanation
Indices: 31101196--31101301 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
31101186 TTGTCTTTTC
*
31101196 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
31101244 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
31101292 TTTCTTTTTC
1 TTTCTTTTTC
31101302 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:31101393 original size:21 final size:21
Alignment explanation
Indices: 31101364--31101500 Score: 53
Period size: 21 Copynumber: 6.7 Consensus size: 21
31101354 CAAGCTCTCT
*
31101364 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
31101385 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
31101406 TTCATTTTCTTTTTCTCTCACTTT-
1 TTCATTTTC-TTTT-T-TC-CTTTC
31101430 TTCGA-TTTC-TTTTT-CTTT-
1 TTC-ATTTTCTTTTTTCCTTTC
* *
31101448 TGCAATTTC-TTTTT-C-TTC
1 TTCATTTTCTTTTTTCCTTTC
31101466 TTCATTTTCTTTTTGT--TTTC
1 TTCATTTTCTTTTT-TCCTTTC
*
31101486 TTTCAATTTCTTTTT
1 -TTCATTTTCTTTTT
31101501 CAATCTCTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
17 3 0.03
18 23 0.25
19 4 0.04
20 8 0.09
21 34 0.37
22 5 0.05
23 1 0.01
24 9 0.10
25 4 0.04
ACGTcount: A:0.09, C:0.19, G:0.03, T:0.69
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:31101412 original size:14 final size:14
Alignment explanation
Indices: 31101363--31101419 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
31101353 TCAAGCTCTC
31101363 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
31101376 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
31101390 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
31101404 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
31101418 TT
1 TT
31101420 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:31101495 original size:57 final size:55
Alignment explanation
Indices: 31101381--31101501 Score: 138
Period size: 57 Copynumber: 2.1 Consensus size: 55
31101371 TCTTTTTTCG
* *
31101381 CTTTTTCTTTTTCAATTTTCTTTTCTTCATTTTCTTTTTCTCTCACTTTTTCGATTT
1 CTTTTTCTTTTGCAATTTTCTTTTCTTCATTTTCTTTTTCTCT--CTTTTTCAATTT
* *
31101438 CTTTTTCTTTTGCAATTTCTTTTTCTTCTTCATTTTCTTTTTGT-T-TTCTTTCAATTT
1 CTTTTTCTTTTGCAA-TT-TTCTT-TTCTTCATTTTCTTTTTCTCTCTT-TTTCAATTT
31101495 CTTTTTC
1 CTTTTTC
31101502 AATCTCTTTC
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
56 2 0.04
57 29 0.52
58 2 0.04
59 5 0.09
60 18 0.32
ACGTcount: A:0.08, C:0.20, G:0.02, T:0.69
Consensus pattern (55 bp):
CTTTTTCTTTTGCAATTTTCTTTTCTTCATTTTCTTTTTCTCTCTTTTTCAATTT
Found at i:31101501 original size:6 final size:6
Alignment explanation
Indices: 31101381--31101488 Score: 65
Period size: 6 Copynumber: 17.7 Consensus size: 6
31101371 TCTTTTTTCG
* * * **
31101381 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** * *
31101432 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTCTT CATTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
31101480 -GTTTT CTTT
1 CTTTTT CTTT
31101489 CAATTTCTTT
Statistics
Matches: 72, Mismatches: 27, Indels: 6
0.69 0.26 0.06
Matches are distributed among these distances:
5 4 0.06
6 56 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.07, C:0.19, G:0.03, T:0.70
Consensus pattern (6 bp):
CTTTTT
Found at i:31102731 original size:12 final size:13
Alignment explanation
Indices: 31102704--31102736 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
31102694 ACAACTCAAA
31102704 TTTTTTTTTAGAT
1 TTTTTTTTTAGAT
*
31102717 TTTTTTTTTA-CT
1 TTTTTTTTTAGAT
31102729 TTTTTTTT
1 TTTTTTTT
31102737 CGTTACGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTAGAT
Found at i:31104397 original size:20 final size:20
Alignment explanation
Indices: 31104374--31104420 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
31104364 AGGTTAAGAT
*
31104374 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
31104394 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
31104414 TGAGCTG
1 TGAGCTG
31104421 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:31106305 original size:17 final size:18
Alignment explanation
Indices: 31106266--31106307 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
31106256 AAGAAGAAAA
31106266 ACAAAA-AGATGAGTGAT
1 ACAAAAGAGATGAGTGAT
*
31106283 AAAAAAGAGA-GAGTGAT
1 ACAAAAGAGATGAGTGAT
*
31106300 TCAAAAGA
1 ACAAAAGA
31106308 AAAAGAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.24, T:0.14
Consensus pattern (18 bp):
ACAAAAGAGATGAGTGAT
Found at i:31108455 original size:28 final size:27
Alignment explanation
Indices: 31108422--31108483 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
31108412 GCATAAGTAG
31108422 GAATAAAGAAATA-AAA-TGAAACAGCAA
1 GAATAAAGAAA-AGAAATTG-AACAGCAA
31108449 GAAATAAAGAAAAGAAATTGAACAGCAA
1 G-AATAAAGAAAAGAAATTGAACAGCAA
31108477 GAATAAA
1 GAATAAA
31108484 AGATAAGTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
27 8 0.25
28 22 0.69
29 2 0.06
ACGTcount: A:0.66, C:0.06, G:0.16, T:0.11
Consensus pattern (27 bp):
GAATAAAGAAAAGAAATTGAACAGCAA
Found at i:31108901 original size:13 final size:13
Alignment explanation
Indices: 31108883--31108908 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31108873 TTCCTACAGC
31108883 TTAAAAAATTAAA
1 TTAAAAAATTAAA
31108896 TTAAAAAATTAAA
1 TTAAAAAATTAAA
31108909 ATGTTTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAAAAATTAAA
Found at i:31110921 original size:21 final size:21
Alignment explanation
Indices: 31110895--31110934 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
31110885 ACCAAATACC
31110895 ACCATTTCATACCAATTCCAT
1 ACCATTTCATACCAATTCCAT
*
31110916 ACCATTTCGTACCAATTCC
1 ACCATTTCATACCAATTCC
31110935 CAAATACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.35, G:0.03, T:0.33
Consensus pattern (21 bp):
ACCATTTCATACCAATTCCAT
Found at i:31113440 original size:20 final size:20
Alignment explanation
Indices: 31113415--31113457 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
31113405 AAAAGAAAAG
31113415 AAAGAAGAGAGATTGAGAGA
1 AAAGAAGAGAGATTGAGAGA
** *
31113435 AAAGAATCGAGATTGTGAGA
1 AAAGAAGAGAGATTGAGAGA
31113455 AAA
1 AAA
31113458 ACAAGAGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.30, T:0.14
Consensus pattern (20 bp):
AAAGAAGAGAGATTGAGAGA
Found at i:31115710 original size:10 final size:10
Alignment explanation
Indices: 31115695--31115756 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
31115685 TTTGAACCAT
31115695 TACCAATTCA
1 TACCAATTCA
*
31115705 TACCAAATACCA
1 TACC-AAT-TCA
*
31115717 TACCATTTCA
1 TACCAATTCA
31115727 TACCAATTCCA
1 TACCAATT-CA
* *
31115738 TACCATTTCG
1 TACCAATTCA
31115748 TACCAATTC
1 TACCAATTC
31115757 CCAAATACCA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
10 22 0.52
11 14 0.33
12 6 0.14
ACGTcount: A:0.35, C:0.32, G:0.02, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:31115740 original size:21 final size:21
Alignment explanation
Indices: 31115695--31115757 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
31115685 TTTGAACCAT
* *
31115695 TACCAATTCATACCAAATACCA
1 TACCATTTCATACC-AATTCCA
31115717 TACCATTTCATACCAATTCCA
1 TACCATTTCATACCAATTCCA
*
31115738 TACCATTTCGTACCAATTCC
1 TACCATTTCATACCAATTCC
31115758 CAAATACCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
21 25 0.66
22 13 0.34
ACGTcount: A:0.35, C:0.33, G:0.02, T:0.30
Consensus pattern (21 bp):
TACCATTTCATACCAATTCCA
Found at i:31117645 original size:20 final size:20
Alignment explanation
Indices: 31117622--31117668 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
31117612 GGGTTAAGAT
* *
31117622 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTAAGCTCGAG
* *
31117642 TGAGTTGACTTAAGCTCGAG
1 TGAGCTGAATTAAGCTCGAG
31117662 TGAGCTG
1 TGAGCTG
31117669 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTAAGCTCGAG
Found at i:31119394 original size:48 final size:48
Alignment explanation
Indices: 31119338--31119443 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
31119328 TTGTCTTTTC
*
31119338 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
31119386 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
31119434 TTTCTTTTTC
1 TTTCTTTTTC
31119444 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:31122154 original size:20 final size:20
Alignment explanation
Indices: 31122131--31122177 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
31122121 GGGTTAAGAT
* *
31122131 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTAAGCTCGAG
* *
31122151 TGAGTTGACTTAAGCTCGAG
1 TGAGCTGAATTAAGCTCGAG
31122171 TGAGCTG
1 TGAGCTG
31122178 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTAAGCTCGAG
Found at i:31129558 original size:15 final size:14
Alignment explanation
Indices: 31129538--31129585 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
31129528 CTCATTTTCA
31129538 TCTTTTTCTTTTATT
1 TCTTTTTCTTTT-TT
*
31129553 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTT
*
31129567 TCTCATTTCTTTTTT
1 TCT-TTTTCTTTTTT
31129582 TCTT
1 TCTT
31129586 CTCTCAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (14 bp):
TCTTTTTCTTTTTT
Found at i:31129590 original size:22 final size:21
Alignment explanation
Indices: 31129538--31129596 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
31129528 CTCATTTTCA
* *
31129538 TCTTTTTCTTTTATTTCTTTT
1 TCTTTTTCTCTCATTTCTTTT
31129559 TCTTTTTCTCTCATTTCTTTT
1 TCTTTTTCTCTCATTTCTTTT
*
31129580 T-TTCTTCTCTCAATTTC
1 TCTTTTTCTCTC-ATTTC
31129597 ATTCAAGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 9 0.26
21 25 0.74
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (21 bp):
TCTTTTTCTCTCATTTCTTTT
Found at i:31130525 original size:31 final size:31
Alignment explanation
Indices: 31130483--31130558 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
31130473 TTTCAATCAC
** *
31130483 TCTT-TTTTTTTTCAATTTTGATTTTTTTTT
1 TCTTCTTTTTTTTCAATTCCGAATTTTTTTT
*
31130513 TCTTCTTTTTTTTTAATTCCGAATTTTTTTT
1 TCTTCTTTTTTTTCAATTCCGAATTTTTTTT
31130544 TCTTCTTCTTTTTTC
1 TCTTCTT-TTTTTTC
31130559 TTCAATACTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 4 0.10
31 29 0.74
32 6 0.15
ACGTcount: A:0.09, C:0.13, G:0.03, T:0.75
Consensus pattern (31 bp):
TCTTCTTTTTTTTCAATTCCGAATTTTTTTT
Found at i:31130620 original size:13 final size:13
Alignment explanation
Indices: 31130602--31130632 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31130592 GAATACAAAC
*
31130602 TTTTTTTTTTGAA
1 TTTTTTTTTCGAA
31130615 TTTTTTTTTCGAA
1 TTTTTTTTTCGAA
31130628 TTTTT
1 TTTTT
31130633 ATATATTTTT
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:0.13, C:0.03, G:0.06, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTCGAA
Found at i:31134189 original size:20 final size:20
Alignment explanation
Indices: 31134143--31134189 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
31134133 AGCTCGTTTC
*
31134143 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
31134163 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
31134183 CAGCTCA
1 CAGCTCA
31134190 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:31136354 original size:24 final size:23
Alignment explanation
Indices: 31136296--31136354 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
31136286 AAATAATGTT
*
31136296 GATTTTGGTACGATATGGTAATG
1 GATTTTGGTACGAAATGGTAATG
**
31136319 GGGTTTGGTACGAAATGGT-ATG
1 GATTTTGGTACGAAATGGTAATG
31136341 GAAATTTTGGTACG
1 G--ATTTTGGTACG
31136355 TAATAAACCA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 4 0.14
23 16 0.55
24 9 0.31
ACGTcount: A:0.25, C:0.05, G:0.34, T:0.36
Consensus pattern (23 bp):
GATTTTGGTACGAAATGGTAATG
Found at i:31143362 original size:15 final size:17
Alignment explanation
Indices: 31143342--31143379 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
31143332 CTTTTTCGAA
31143342 TTCTTTCTCT-TCA-TT
1 TTCTTTCTCTCTCACTT
*
31143357 TTCTTTTTCTCTCACTT
1 TTCTTTCTCTCTCACTT
31143374 TTCTTT
1 TTCTTT
31143380 GTTTTCTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 3 0.15
17 8 0.40
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.68
Consensus pattern (17 bp):
TTCTTTCTCTCTCACTT
Found at i:31143367 original size:17 final size:17
Alignment explanation
Indices: 31143345--31143379 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
31143335 TTTCGAATTC
31143345 TTTCTCTTCA-TTTTCTT
1 TTTCTC-TCACTTTTCTT
31143362 TTTCTCTCACTTTTCTT
1 TTTCTCTCACTTTTCTT
31143379 T
1 T
31143380 GTTTTCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTCTCTCACTTTTCTT
Found at i:31144325 original size:12 final size:12
Alignment explanation
Indices: 31144310--31144362 Score: 70
Period size: 12 Copynumber: 4.3 Consensus size: 12
31144300 CGATTTTTCG
31144310 ATTTTTTTTTAA
1 ATTTTTTTTTAA
**
31144322 ATTTTTTTTTCG
1 ATTTTTTTTTAA
*
31144334 ATTTTTTTTTCA
1 ATTTTTTTTTAA
31144346 ATTTTTTTTTCAA
1 ATTTTTTTTT-AA
31144359 ATTT
1 ATTT
31144363 CCTCTTCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
12 31 0.86
13 5 0.14
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.74
Consensus pattern (12 bp):
ATTTTTTTTTAA
Found at i:31144330 original size:24 final size:24
Alignment explanation
Indices: 31144303--31144356 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
31144293 TATACTTCGA
31144303 TTTTTCGATTTTTTTTTAAATTTT
1 TTTTTCGATTTTTTTTTAAATTTT
*
31144327 TTTTTCGATTTTTTTTTCAATTTT
1 TTTTTCGATTTTTTTTTAAATTTT
31144351 TTTTTC
1 TTTTTC
31144357 AAATTTCCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.13, C:0.07, G:0.04, T:0.76
Consensus pattern (24 bp):
TTTTTCGATTTTTTTTTAAATTTT
Found at i:31151508 original size:13 final size:13
Alignment explanation
Indices: 31151490--31151541 Score: 70
Period size: 13 Copynumber: 4.0 Consensus size: 13
31151480 ACTAGCTCTC
*
31151490 TTTTTTTT-TCAA
1 TTTTTTTTCACAA
31151502 TTTTTTTTCACAA
1 TTTTTTTTCACAA
*
31151515 TTTTTTTTCAAAA
1 TTTTTTTTCACAA
31151528 TTTTTTTTTCACAA
1 -TTTTTTTTCACAA
31151542 CTTGATATCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
12 8 0.23
13 15 0.43
14 12 0.34
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTTTTTCACAA
Found at i:31151532 original size:27 final size:24
Alignment explanation
Indices: 31151491--31151541 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 24
31151481 CTAGCTCTCT
31151491 TTTTTTTTCAATTTTTTTTCACAA
1 TTTTTTTTCAATTTTTTTTCACAA
31151515 TTTTTTTTCAAAATTTTTTTTTCACAA
1 TTTTTTTTC--AA-TTTTTTTTCACAA
31151542 CTTGATATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 9 0.38
26 2 0.08
27 13 0.54
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTTTTTTCAATTTTTTTTCACAA
Found at i:31151610 original size:11 final size:11
Alignment explanation
Indices: 31151580--31151620 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
31151570 GGAAACTAGT
*
31151580 TTTTTTTTCAAA
1 TTTTTTTT-GAA
31151592 TTTTTTTTGAA
1 TTTTTTTTGAA
*
31151603 TTTTTTTTGAG
1 TTTTTTTTGAA
31151614 TTTTTTT
1 TTTTTTT
31151621 CGAGAAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 19 0.70
12 8 0.30
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:31154541 original size:14 final size:14
Alignment explanation
Indices: 31154524--31154558 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
31154514 TAATTTCAAA
31154524 TTTTTTTCCGAACT
1 TTTTTTTCCGAACT
*
31154538 TTTTTTT-TGAACT
1 TTTTTTTCCGAACT
31154551 TTTTTTTC
1 TTTTTTTC
31154559 TCTTACTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.11, C:0.14, G:0.06, T:0.69
Consensus pattern (14 bp):
TTTTTTTCCGAACT
Found at i:31157580 original size:20 final size:20
Alignment explanation
Indices: 31157557--31157603 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
31157547 GGGTTAAGAT
* *
31157557 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTAAGCTCGAG
* *
31157577 TGAGTTGACTTAAGCTCGAG
1 TGAGCTGAATTAAGCTCGAG
31157597 TGAGCTG
1 TGAGCTG
31157604 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTAAGCTCGAG
Found at i:31159329 original size:48 final size:48
Alignment explanation
Indices: 31159274--31159379 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
31159264 TTGTCTTTTC
*
31159274 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
31159322 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
31159370 TTTCTTTTTC
1 TTTCTTTTTC
31159380 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:31161964 original size:20 final size:20
Alignment explanation
Indices: 31161941--31161987 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
31161931 GGGTTAAGAT
* *
31161941 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTAAGCTCGAG
* *
31161961 TGAGTTGACTTAAGCTCGAG
1 TGAGCTGAATTAAGCTCGAG
31161981 TGAGCTG
1 TGAGCTG
31161988 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTAAGCTCGAG
Found at i:31162847 original size:12 final size:12
Alignment explanation
Indices: 31162830--31162868 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
31162820 TAGTAGTTTC
31162830 TTCAAAAAAAAA
1 TTCAAAAAAAAA
31162842 TTCAAAAAAAAAA
1 TTC-AAAAAAAAA
31162855 TTCAAAAAAAAA
1 TTCAAAAAAAAA
31162867 TT
1 TT
31162869 GGTTTCCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 14 0.54
13 12 0.46
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (12 bp):
TTCAAAAAAAAA
Found at i:31162851 original size:13 final size:13
Alignment explanation
Indices: 31162833--31162866 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
31162823 TAGTTTCTTC
31162833 AAAAAAAAATTCA
1 AAAAAAAAATTCA
31162846 AAAAAAAAATTCA
1 AAAAAAAAATTCA
31162859 AAAAAAAA
1 AAAAAAAA
31162867 TTGGTTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAAAAATTCA
Found at i:31162930 original size:18 final size:16
Alignment explanation
Indices: 31162905--31162946 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
31162895 GATATCAAGT
*
31162905 TGAAAAAAAAATTTTCG
1 TGAAAAAAAAA-ATTCG
31162922 TGAAAAAAAAAATTCG
1 TGAAAAAAAAAATTCG
31162938 TGAAAAAAA
1 TGAAAAAAA
31162947 GAAGAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.21
Consensus pattern (16 bp):
TGAAAAAAAAAATTCG
Found at i:31167337 original size:18 final size:17
Alignment explanation
Indices: 31167310--31167344 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
31167300 AAAAACTTGG
31167310 GAGGAGTGTATGGATTT
1 GAGGAGTGTATGGATTT
31167327 GAGGTAGTGTATGGATTT
1 GAGG-AGTGTATGGATTT
31167345 AATCCCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.37
Consensus pattern (17 bp):
GAGGAGTGTATGGATTT
Found at i:31172008 original size:20 final size:19
Alignment explanation
Indices: 31171980--31172029 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
31171970 CCACTCTCAA
31171980 TCTCTTTTTTCTCTTTTTCAT
1 TCTC-TTTTTCT-TTTTTCAT
*
31172001 TCTCTTTTTCTTTTTTGAT
1 TCTCTTTTTCTTTTTTCAT
31172020 T-TCTTTTTCT
1 TCTCTTTTTCT
31172030 GTCTTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 7 0.25
21 4 0.14
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTTCAT
Found at i:31172014 original size:18 final size:17
Alignment explanation
Indices: 31171986--31172029 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
31171976 TCAATCTCTT
31171986 TTTTCTCTTTTTCATTCTC
1 TTTT-TCTTTTTCATT-TC
*
31172005 TTTTTCTTTTTTGATTTC
1 TTTTTC-TTTTTCATTTC
31172023 TTTTTCT
1 TTTTTCT
31172030 GTCTTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTTCTTTTTCATTTC
Found at i:31173669 original size:20 final size:20
Alignment explanation
Indices: 31173646--31173692 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
31173636 GGGTTAAGAT
31173646 TGAGCTGAATTAAGCTCGAA-
1 TGAGCTGAATTAAGCTC-AAG
* *
31173666 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTAAGCTCAAG
31173686 TGAGCTG
1 TGAGCTG
31173693 GAAACGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTAAGCTCAAG
Found at i:31175827 original size:10 final size:10
Alignment explanation
Indices: 31175814--31175933 Score: 93
Period size: 10 Copynumber: 11.9 Consensus size: 10
31175804 TTCTCGTGCA
31175814 AGCTCATTTC
1 AGCTCATTTC
*
31175824 AGCTCCATTTT
1 AGCT-CATTTC
* *
31175835 AGCTCCTCT-
1 AGCTCATTTC
*
31175844 AGCTCGTTTC
1 AGCTCATTTC
****
31175854 AGCTCCGACC
1 AGCTCATTTC
* *
31175864 AGCTCAATTG
1 AGCTCATTTC
31175874 AGCTCATTTC
1 AGCTCATTTC
31175884 AGCTCATTTC
1 AGCTCATTTC
31175894 AGCTCA-TTC
1 AGCTCATTTC
31175903 GAGCTCAATTT-
1 -AGCTC-ATTTC
31175914 AGCTACATTTC
1 AGCT-CATTTC
31175925 AGCTCATTT
1 AGCTCATTT
31175934 ATTTTATTGG
Statistics
Matches: 87, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
9 10 0.11
10 60 0.69
11 15 0.17
12 2 0.02
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.36
Consensus pattern (10 bp):
AGCTCATTTC
Found at i:31175897 original size:30 final size:30
Alignment explanation
Indices: 31175814--31175932 Score: 104
Period size: 30 Copynumber: 4.0 Consensus size: 30
31175804 TTCTCGTGCA
* * *
31175814 AGCTCATTTCAGCTCCATTTTAGCTCCTCT-
1 AGCTCATTTCAGCTACATTTCAGCTCAT-TG
* * *
31175844 AGCTCGTTTCAGCTCCGA--CCAGCTCAATTG
1 AGCTCATTTCAGCTAC-ATTTCAGCTC-ATTG
31175874 AGCTCATTTCAGCT-CATTTCAGCTCATTCG
1 AGCTCATTTCAGCTACATTTCAGCTCATT-G
31175904 AGCTCAATTT-AGCTACATTTCAGCTCATT
1 AGCTC-ATTTCAGCTACATTTCAGCTCATT
31175933 TATTTTATTG
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
28 1 0.01
29 10 0.13
30 45 0.60
31 19 0.25
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.35
Consensus pattern (30 bp):
AGCTCATTTCAGCTACATTTCAGCTCATTG
Found at i:31180805 original size:30 final size:30
Alignment explanation
Indices: 31180771--31180867 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
31180761 AGCTCACTCC
31180771 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
31180801 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
31180831 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
31180861 TAGCTCA
1 TAGCTCA
31180868 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:31185114 original size:12 final size:12
Alignment explanation
Indices: 31185053--31185114 Score: 88
Period size: 12 Copynumber: 5.0 Consensus size: 12
31185043 AGACCGTATG
31185053 CAATTTTTTTTT
1 CAATTTTTTTTT
31185065 CAAATTTTTTTTTT
1 C-AA-TTTTTTTTT
31185079 CAATTTTTTTTT
1 CAATTTTTTTTT
*
31185091 CGATTTTTTTTT
1 CAATTTTTTTTT
*
31185103 CGATTTTTTTTT
1 CAATTTTTTTTT
31185115 GAATCTACAA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
12 33 0.70
13 4 0.09
14 10 0.21
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:31186868 original size:20 final size:20
Alignment explanation
Indices: 31186845--31186891 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
31186835 GGGTTAAGAT
*
31186845 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
31186865 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
31186885 TGAGCTG
1 TGAGCTG
31186892 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:31191960 original size:30 final size:29
Alignment explanation
Indices: 31191860--31191962 Score: 98
Period size: 30 Copynumber: 3.4 Consensus size: 29
31191850 CGAGTTTAAA
* *
31191860 CTAAAGTGAGCTAAGTTTTAGCTCGTGAG
1 CTAAATTGAGCTAAGGTTTAGCTCGTGAG
* * * * * *
31191889 CTAAAGTTGAGCTGAGGCTAAACTCCTAAG
1 CTAAA-TTGAGCTAAGGTTTAGCTCGTGAG
*
31191919 CTGAAGTTGAGCTAAGGTTTAGCTCGTGAG
1 CT-AAATTGAGCTAAGGTTTAGCTCGTGAG
31191949 CTAAATATGAGCTA
1 CTAAAT-TGAGCTA
31191963 GGAGTGAGCT
Statistics
Matches: 55, Mismatches: 16, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
29 8 0.15
30 45 0.82
31 2 0.04
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (29 bp):
CTAAATTGAGCTAAGGTTTAGCTCGTGAG
Found at i:31197432 original size:22 final size:22
Alignment explanation
Indices: 31197398--31197447 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
31197388 TGGACTGAAT
*
31197398 ATAAAAAATTAAACTAAGT-AAA
1 ATAAAAAATTAAA-TAAATAAAA
31197420 ATAAATAAA-TAAATAAATAAAA
1 ATAAA-AAATTAAATAAATAAAA
31197442 ATAAAA
1 ATAAAA
31197448 CTTTACAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 5 0.20
22 17 0.68
23 3 0.12
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (22 bp):
ATAAAAAATTAAATAAATAAAA
Found at i:31201605 original size:48 final size:47
Alignment explanation
Indices: 31201526--31201631 Score: 126
Period size: 48 Copynumber: 2.2 Consensus size: 47
31201516 GAGTGTCATG
*
31201526 GAAAAAGAAATTGAGAATGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGAATGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* * *
31201574 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGAATGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
31201622 GAAAAAGAAA
1 GAAAAAGAAA
31201632 GAAAAGACAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
48 39 0.76
49 8 0.16
50 4 0.08
ACGTcount: A:0.60, C:0.02, G:0.25, T:0.13
Consensus pattern (47 bp):
GAAAAAGAAATTGAGAATGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:31204113 original size:20 final size:18
Alignment explanation
Indices: 31204068--31204114 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
31204058 TTTTTCTGGA
31204068 AAGTTCATGTCTTAATTT
1 AAGTTCATGTCTTAATTT
*
31204086 AGGTTCAT-TACTTAATCATT
1 AAGTTCATGT-CTTAAT--TT
31204106 AAGTTCATG
1 AAGTTCATG
31204115 AATGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 1 0.04
18 13 0.57
20 9 0.39
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.45
Consensus pattern (18 bp):
AAGTTCATGTCTTAATTT
Found at i:31209319 original size:17 final size:17
Alignment explanation
Indices: 31209294--31209348 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
31209284 TCTCTTTTCA
*
31209294 TTCTCTTTTTTTGAATT
1 TTCTTTTTTTTTGAATT
* *
31209311 TTCTTTTTTTTATCATTT
1 TTCTTTTTTTT-TGAATT
* *
31209329 TTCTTTTCTTTTGTATT
1 TTCTTTTTTTTTGAATT
31209346 TTC
1 TTC
31209349 ACTCTTTTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.09, C:0.13, G:0.04, T:0.75
Consensus pattern (17 bp):
TTCTTTTTTTTTGAATT
Found at i:31211588 original size:12 final size:11
Alignment explanation
Indices: 31211561--31211604 Score: 61
Period size: 11 Copynumber: 3.7 Consensus size: 11
31211551 TGCAATTTTT
31211561 TTTTCTTTTCAA
1 TTTT-TTTTCAA
31211573 TTTTTTTTCAA
1 TTTTTTTTCAA
31211584 TTTTTTTTCGAA
1 TTTTTTTTC-AA
31211596 CTTTTTTTT
1 -TTTTTTTT
31211605 TACGTACCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 16 0.53
12 6 0.20
13 8 0.27
ACGTcount: A:0.14, C:0.11, G:0.02, T:0.73
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:31218178 original size:52 final size:52
Alignment explanation
Indices: 31218100--31218200 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
31218090 TATGCACATA
* *
31218100 TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAGCTACTGTCTATTATTG
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTACTGTCCATTATTG
*
31218152 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTACTGTCCATTA
31218201 CGTTTCCTTA
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:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (52 bp):
TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTACTGTCCATTATTG
Found at i:31220346 original size:10 final size:10
Alignment explanation
Indices: 31220331--31220392 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
31220321 TTTGAACCAT
*
31220331 TACCAATTCG
1 TACCAATTCA
*
31220341 TACCAAATACTA
1 TACC-AATTC-A
*
31220353 TACCATTTCA
1 TACCAATTCA
31220363 TACCAATTCCA
1 TACCAATT-CA
* *
31220374 TACCATTTCG
1 TACCAATTCA
31220384 TACCAATTC
1 TACCAATTC
31220393 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 21 0.51
11 16 0.39
12 4 0.10
ACGTcount: A:0.34, C:0.31, G:0.03, T:0.32
Consensus pattern (10 bp):
TACCAATTCA
Found at i:31220378 original size:21 final size:21
Alignment explanation
Indices: 31220352--31220393 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
31220342 ACCAAATACT
31220352 ATACCATTTCATACCAATTCC
1 ATACCATTTCATACCAATTCC
*
31220373 ATACCATTTCGTACCAATTCC
1 ATACCATTTCATACCAATTCC
31220394 CAAATACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.33, G:0.02, T:0.33
Consensus pattern (21 bp):
ATACCATTTCATACCAATTCC
Found at i:31221617 original size:12 final size:12
Alignment explanation
Indices: 31221600--31221650 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
31221590 AGGCCGTATA
31221600 CAATTTTTTTTT
1 CAATTTTTTTTT
31221612 CAATTTTTTTTCTTTT
1 CAA---TTTTT-TTTT
*
31221628 CGATTTTTTTTT
1 CAATTTTTTTTT
31221640 CAATTTTTTTT
1 CAATTTTTTTT
31221651 CGAAACTACA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
12 17 0.52
13 5 0.15
15 5 0.15
16 6 0.18
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.75
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:31221634 original size:15 final size:15
Alignment explanation
Indices: 31221603--31221650 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
31221593 CCGTATACAA
31221603 TTTTTTTTTCAATTT
1 TTTTTTTTTCAATTT
*
31221618 TTTTTCTTTTCGA---
1 TTTTT-TTTTCAATTT
31221631 TTTTTTTTTCAATTT
1 TTTTTTTTTCAATTT
31221646 TTTTT
1 TTTTT
31221651 CGAAACTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 6 0.22
13 5 0.19
15 10 0.37
16 6 0.22
ACGTcount: A:0.10, C:0.08, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTTTTTTTCAATTT
Found at i:31224680 original size:14 final size:14
Alignment explanation
Indices: 31224663--31224689 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31224653 AAAAAGAAGG
31224663 AAAAAAAATTGCAA
1 AAAAAAAATTGCAA
31224677 AAAAAAAATTGCA
1 AAAAAAAATTGCA
31224690 TACGGTCTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (14 bp):
AAAAAAAATTGCAA
Found at i:31226973 original size:24 final size:25
Alignment explanation
Indices: 31226946--31226999 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
31226936 ATGAGTGATA
*
31226946 AAAAAAGAGA-GAGTGATTCAAAA-G
1 AAAAAAGAAACGAGTGA-TCAAAATG
*
31226970 -AAAAAGAAACGAGTGATGAAAATG
1 AAAAAAGAAACGAGTGATCAAAATG
31226994 AAAAAA
1 AAAAAA
31227000 AGAATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 13 0.52
24 7 0.28
25 5 0.20
ACGTcount: A:0.63, C:0.04, G:0.22, T:0.11
Consensus pattern (25 bp):
AAAAAAGAAACGAGTGATCAAAATG
Found at i:31232375 original size:107 final size:107
Alignment explanation
Indices: 31232237--31232432 Score: 356
Period size: 107 Copynumber: 1.8 Consensus size: 107
31232227 GATGGATCAC
31232237 AAGCCCAAATTCTTAAAGGCGAGGCCCAATAAGCAAATTCCCAGCCCAATCAAGAAACCCATACA
1 AAGCCCAAATTCTTAAAGGCGAGGCCCAATAAGCAAATTCCCAGCCCAATCAAGAAACCCATACA
*
31232302 TATTTAGTTGAAAATCAGGCCAAAATGTGATACGAGTCACAA
66 TACTTAGTTGAAAATCAGGCCAAAATGTGATACGAGTCACAA
* * *
31232344 AAGCCCAAATTCTTGAAGGCGAGGCCCAATAAGCAAATTCCCAGCCCAATCAAGAAATCCATCCA
1 AAGCCCAAATTCTTAAAGGCGAGGCCCAATAAGCAAATTCCCAGCCCAATCAAGAAACCCATACA
31232409 TACTTAGTTGAAAATCAGGCCAAA
66 TACTTAGTTGAAAATCAGGCCAAA
31232433 TTGTCAAAGT
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 85 1.00
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.18
Consensus pattern (107 bp):
AAGCCCAAATTCTTAAAGGCGAGGCCCAATAAGCAAATTCCCAGCCCAATCAAGAAACCCATACA
TACTTAGTTGAAAATCAGGCCAAAATGTGATACGAGTCACAA
Found at i:31234534 original size:20 final size:19
Alignment explanation
Indices: 31234511--31234575 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
31234501 AAGCTCAAAC
31234511 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
31234531 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
31234551 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
31234571 GAGCT
1 GAGCT
31234576 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:31238015 original size:20 final size:20
Alignment explanation
Indices: 31237969--31238015 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
31237959 AGCTCGTTTC
*
31237969 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
31237989 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
31238009 CAGCTCA
1 CAGCTCA
31238016 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:31239489 original size:6 final size:6
Alignment explanation
Indices: 31239478--31239503 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
31239468 AGTTGTAAAG
31239478 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
31239504 ATTTATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:31243896 original size:21 final size:21
Alignment explanation
Indices: 31243861--31243913 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
31243851 AACCAATTCG
* * *
31243861 TACCAAATACCATACTATTTCA
1 TACC-AATTCCATACCATCTCA
*
31243883 TACCAATTCCATACCATCTCG
1 TACCAATTCCATACCATCTCA
31243904 TACCAATTCC
1 TACCAATTCC
31243914 CAAATACCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
TACCAATTCCATACCATCTCA
Found at i:31250416 original size:30 final size:30
Alignment explanation
Indices: 31250382--31250478 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
31250372 TAAACTAAAA
*
31250382 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
31250412 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
31250442 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
31250471 ATGAGCTA
1 -TGAGCTA
31250479 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:31252825 original size:10 final size:10
Alignment explanation
Indices: 31252812--31252849 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
31252802 TTGTAGCTAA
31252812 ATTGAGCTCG
1 ATTGAGCTCG
31252822 ATTGAGCT-G
1 ATTGAGCTCG
31252831 ACTTGAGCTCG
1 A-TTGAGCTCG
*
31252842 AGTGAGCT
1 ATTGAGCT
31252850 GGAAACGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (10 bp):
ATTGAGCTCG
Found at i:31252829 original size:20 final size:20
Alignment explanation
Indices: 31252789--31252849 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
31252779 ACCAATAAAA
31252789 TAAA-TGAGCT-GAATTGTAGC
1 TAAATTGAGCTCG-ATTG-AGC
31252809 TAAATTGAGCTCGATTGAGC
1 TAAATTGAGCTCGATTGAGC
* * *
31252829 TGACTTGAGCTCGAGTGAGC
1 TAAATTGAGCTCGATTGAGC
31252849 T
1 T
31252850 GGAAACGAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 25 0.69
21 10 0.28
22 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (20 bp):
TAAATTGAGCTCGATTGAGC
Found at i:31252850 original size:20 final size:20
Alignment explanation
Indices: 31252813--31252850 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
31252803 TGTAGCTAAA
*
31252813 TTGAGCTCGATTGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
31252833 TTGAGCTCGAGTGAGCTG
1 TTGAGCTCGAGTGAGCTG
31252851 GAAACGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (20 bp):
TTGAGCTCGAGTGAGCTGAC
Found at i:31255648 original size:13 final size:14
Alignment explanation
Indices: 31255625--31255679 Score: 94
Period size: 14 Copynumber: 3.9 Consensus size: 14
31255615 AAACCGTATG
31255625 CAAATTTTTTTTTT
1 CAAATTTTTTTTTT
31255639 CAAATTTTTTTTTT
1 CAAATTTTTTTTTT
31255653 C-AATTTTTTTTTT
1 CAAATTTTTTTTTT
31255666 CAAACTTTTTTTTT
1 CAAA-TTTTTTTTT
31255680 ACGCACCTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.33
14 17 0.44
15 9 0.23
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (14 bp):
CAAATTTTTTTTTT
Found at i:31255657 original size:27 final size:27
Alignment explanation
Indices: 31255627--31255679 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
31255617 ACCGTATGCA
*
31255627 AATTTTTTTTTTCAAATTTTTTTTTTC
1 AATTTTTTTTTTCAAACTTTTTTTTTC
31255654 AATTTTTTTTTTCAAACTTTTTTTTT
1 AATTTTTTTTTTCAAACTTTTTTTTT
31255680 ACGCACCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.74
Consensus pattern (27 bp):
AATTTTTTTTTTCAAACTTTTTTTTTC
Found at i:31257001 original size:10 final size:10
Alignment explanation
Indices: 31256988--31257025 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
31256978 TTGTAGCTAA
31256988 ATTGAGCTCG
1 ATTGAGCTCG
31256998 ATTGAGCT-G
1 ATTGAGCTCG
31257007 ACTTGAGCTCG
1 A-TTGAGCTCG
*
31257018 AGTGAGCT
1 ATTGAGCT
31257026 GGAAACGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (10 bp):
ATTGAGCTCG
Found at i:31257005 original size:20 final size:20
Alignment explanation
Indices: 31256965--31257025 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
31256955 ACCAATAAAA
31256965 TAAA-TGAGCT-GAATTGTAGC
1 TAAATTGAGCTCG-ATTG-AGC
31256985 TAAATTGAGCTCGATTGAGC
1 TAAATTGAGCTCGATTGAGC
* * *
31257005 TGACTTGAGCTCGAGTGAGC
1 TAAATTGAGCTCGATTGAGC
31257025 T
1 T
31257026 GGAAACGAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 25 0.69
21 10 0.28
22 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (20 bp):
TAAATTGAGCTCGATTGAGC
Found at i:31257026 original size:20 final size:20
Alignment explanation
Indices: 31256989--31257026 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
31256979 TGTAGCTAAA
*
31256989 TTGAGCTCGATTGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
31257009 TTGAGCTCGAGTGAGCTG
1 TTGAGCTCGAGTGAGCTG
31257027 GAAACGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (20 bp):
TTGAGCTCGAGTGAGCTGAC
Found at i:31258139 original size:12 final size:12
Alignment explanation
Indices: 31258124--31258154 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
31258114 TTCTTTTTGC
31258124 TTTTCAAAGGCT
1 TTTTCAAAGGCT
31258136 TTTTCAAAGGCT
1 TTTTCAAAGGCT
31258148 TTTTCAA
1 TTTTCAA
31258155 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:31258231 original size:6 final size:6
Alignment explanation
Indices: 31258215--31258264 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
31258205 TTTCTTTTTA
*
31258215 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
31258264 T
1 T
31258265 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:31258247 original size:37 final size:37
Alignment explanation
Indices: 31258204--31258274 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
31258194 CTTGCCTCTC
31258204 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
31258241 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
31258275 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:31258275 original size:16 final size:16
Alignment explanation
Indices: 31258200--31258260 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
31258190 GCCTCTTGCC
*
31258200 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
31258216 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
31258232 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
31258248 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
31258261 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:31260730 original size:12 final size:13
Alignment explanation
Indices: 31260715--31260753 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
31260705 TTTTTTTTCC
31260715 TTTTTTTCG-ATT
1 TTTTTTTCGAATT
31260727 TTTTTTT-GAATT
1 TTTTTTTCGAATT
31260739 TTTTTTTCTGAATT
1 TTTTTTTC-GAATT
31260753 T
1 T
31260754 CTTCTCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.04
12 17 0.71
14 6 0.25
ACGTcount: A:0.13, C:0.05, G:0.08, T:0.74
Consensus pattern (13 bp):
TTTTTTTCGAATT
Found at i:31260742 original size:14 final size:14
Alignment explanation
Indices: 31260725--31260753 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
31260715 TTTTTTTCGA
31260725 TTTTTTTT-TGAAT
1 TTTTTTTTCTGAAT
31260738 TTTTTTTTCTGAAT
1 TTTTTTTTCTGAAT
31260752 TT
1 TT
31260754 CTTCTCCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.14, C:0.03, G:0.07, T:0.76
Consensus pattern (14 bp):
TTTTTTTTCTGAAT
Found at i:31262503 original size:30 final size:30
Alignment explanation
Indices: 31262469--31262565 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
31262459 TAAACTAAAA
*
31262469 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
31262499 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
31262529 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
31262558 ATGAGCTA
1 -TGAGCTA
31262566 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Done.