Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 284 of 325
Found at i:87841151 original size:191 final size:189
Alignment explanation
Indices: 87840829--87841196 Score: 485
Period size: 191 Copynumber: 1.9 Consensus size: 189
87840819 ACAAACCAGT
* * ** *
87840829 GGTATTTTGGTAATTTTACAAACTAGGGGTGTTTTAGTAATTCTATCCTATAGGGGTATTTCAGT
1 GGTATTTTAGTAATTTTACAAACTAGGGGTATTTTAGTAATTCTATCAAACAGGGGTATTTCAGT
* * * *
87840894 AATTTCACAATCGAGGGTAAAATGGTAATTTTGTAAATCAGGGGTAAAATACTAATTCTGTAAAT
66 AATTTCACAATCAAGGGTAAAATGGTAATTCTATAAATCAGGGGTAAAATACTAATTCTATAAAT
87840959 CGAGGGTAAAAC-AGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTCGAG
131 CGAGGGTAAAACTA-TAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTCGAG
* *
87841018 GGTATTTTAGTAATTTTACAAA-TCAGGGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTT
1 GGTATTTTAGTAATTTTACAAACT-A-GGGGTATTTTAGTAATTCTATCAAA-CAGGGGTATTTC
* * **
87841081 AGTAATTTTGTA-AATCAAGGGTAAAATGGTAATTCTATAAAT-TGAGGGTAAAATGGTAATTCT
63 AGTAA-TTT-CACAATCAAGGGTAAAATGGTAATTCTATAAATCAG-GGGTAAAATACTAATTCT
* *
87841144 ATAAATCGAGGGTAGAACTATAATTCTGTAAATCGAGGGTACTTTGGTAATTT
125 ATAAATCGAGGGTAAAACTATAATTCTATAAATCGAGGGTACTTTGGTAATTT
87841197 GGTAAACTAA
Statistics
Matches: 155, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
188 1 0.01
189 24 0.15
190 34 0.22
191 94 0.61
192 2 0.01
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (189 bp):
GGTATTTTAGTAATTTTACAAACTAGGGGTATTTTAGTAATTCTATCAAACAGGGGTATTTCAGT
AATTTCACAATCAAGGGTAAAATGGTAATTCTATAAATCAGGGGTAAAATACTAATTCTATAAAT
CGAGGGTAAAACTATAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTCGAG
Found at i:87845594 original size:3 final size:3
Alignment explanation
Indices: 87845588--87845667 Score: 80
Period size: 3 Copynumber: 28.0 Consensus size: 3
87845578 AAACAGATAT
* * *
87845588 TTA TTA TAA TTA TTA TTA -TA GTT- TTA -TA TTA -AA TTA TTA -AA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
*
87845629 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
87845668 AAATAAATTA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
2 8 0.13
3 54 0.86
4 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:87845921 original size:5 final size:5
Alignment explanation
Indices: 87845913--87845940 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
87845903 GAAAGGAAAG
87845913 AAGAA AAGAA AAGAA AAGAA AAGAA AAG
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAG
87845941 GGAGAAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:87846531 original size:34 final size:36
Alignment explanation
Indices: 87846490--87846557 Score: 106
Period size: 34 Copynumber: 1.9 Consensus size: 36
87846480 AAGTGGAAAA
87846490 GTGAATTTGAATTG-AA-TGAGAATTGA-ATTGAATT
1 GTGAATTTGAATTGAAAGTGA-AATTGACATTGAATT
87846524 GTGAATTTGAATTGAAAGTGAAATTGACATTGAA
1 GTGAATTTGAATTGAAAGTGAAATTGACATTGAA
87846558 AGTGATTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 14 0.45
35 8 0.26
36 9 0.29
ACGTcount: A:0.40, C:0.01, G:0.24, T:0.35
Consensus pattern (36 bp):
GTGAATTTGAATTGAAAGTGAAATTGACATTGAATT
Found at i:87846558 original size:18 final size:17
Alignment explanation
Indices: 87846487--87846562 Score: 84
Period size: 18 Copynumber: 4.4 Consensus size: 17
87846477 AGAAAGTGGA
*
87846487 AAAGTGAATTTGAATTG
1 AAAGTGAAATTGAATTG
87846504 -AA-TGAGAATTGAATTG
1 AAAGTGA-AATTGAATTG
* *
87846520 AATTGTGAATTTGAATTG
1 AA-AGTGAAATTGAATTG
87846538 AAAGTGAAATTGACATTG
1 AAAGTGAAATTGA-ATTG
87846556 AAAGTGA
1 AAAGTGA
87846563 TTTGAAATGT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
15 3 0.06
16 11 0.22
17 10 0.20
18 22 0.45
19 3 0.06
ACGTcount: A:0.42, C:0.01, G:0.24, T:0.33
Consensus pattern (17 bp):
AAAGTGAAATTGAATTG
Found at i:87846566 original size:34 final size:33
Alignment explanation
Indices: 87846487--87846568 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 33
87846477 AGAAAGTGGA
87846487 AAAGTGAATTTGAATTGAATGAGAATTGAATTG
1 AAAGTGAATTTGAATTGAATGAGAATTGAATTG
*
87846520 AATTGTGAATTTGAATTGAAAGTGA-AATTGACATTG
1 AA-AGTGAATTTGAATTG-AA-TGAGAATTGA-ATTG
87846556 AAAGTG-ATTTGAA
1 AAAGTGAATTTGAA
87846569 ATGTGAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
33 2 0.05
34 21 0.49
35 11 0.26
36 9 0.21
ACGTcount: A:0.41, C:0.01, G:0.23, T:0.34
Consensus pattern (33 bp):
AAAGTGAATTTGAATTGAATGAGAATTGAATTG
Found at i:87846575 original size:18 final size:18
Alignment explanation
Indices: 87846487--87846575 Score: 80
Period size: 17 Copynumber: 5.1 Consensus size: 18
87846477 AGAAAGTGGA
87846487 AAAGTGAATTTG-AATTG
1 AAAGTGAATTTGAAATTG
* *
87846504 AATGAGAA-TTG-AATTG
1 AAAGTGAATTTGAAATTG
*
87846520 AATTGTGAATTTG-AATTG
1 AA-AGTGAATTTGAAATTG
* *
87846538 AAAGTGAAATTGACATTG
1 AAAGTGAATTTGAAATTG
87846556 AAAGTG-ATTTGAAATGTG
1 AAAGTGAATTTGAAAT-TG
87846574 AA
1 AA
87846576 TTTGGAGACC
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
16 10 0.17
17 26 0.43
18 24 0.40
ACGTcount: A:0.42, C:0.01, G:0.24, T:0.34
Consensus pattern (18 bp):
AAAGTGAATTTGAAATTG
Found at i:87851037 original size:43 final size:44
Alignment explanation
Indices: 87850990--87851102 Score: 137
Period size: 41 Copynumber: 2.7 Consensus size: 44
87850980 ATCTCATATC
* *
87850990 GATGCCAATGTCCTAGACATGGTCTTACACAAAATCATA-TA-A
1 GATGCCAATGTCCCAGACATGGTCTTACACAAAATCACAGTACA
* **
87851032 TGATGCCAA--TCCCAAACATGGTCTTACACGTAATCACAGTACA
1 -GATGCCAATGTCCCAGACATGGTCTTACACAAAATCACAGTACA
87851075 -ATGCCAATGTCCCAGACATGGTCTTACA
1 GATGCCAATGTCCCAGACATGGTCTTACA
87851103 TGTAATCTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 31 0.52
42 2 0.03
43 27 0.45
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.25
Consensus pattern (44 bp):
GATGCCAATGTCCCAGACATGGTCTTACACAAAATCACAGTACA
Found at i:87851109 original size:43 final size:42
Alignment explanation
Indices: 87850943--87851102 Score: 141
Period size: 43 Copynumber: 3.8 Consensus size: 42
87850933 ACATAAAGCT
* * * * *
87850943 CATACAATGCC-ATAG-CCTAGATATGGTCTTACATATTATCT
1 CATACAATGCCAAT-GTCCCAGACATGGTCTTACACATAATCA
* * *
87850984 CATATCGATGCCAATGTCCTAGACATGGTCTTACACAAAATCA
1 CATA-CAATGCCAATGTCCCAGACATGGTCTTACACATAATCA
* * *
87851027 TATA-ATGATGCCAA--TCCCAAACATGGTCTTACACGTAATCA
1 CATACA--ATGCCAATGTCCCAGACATGGTCTTACACATAATCA
87851068 CAGTACAATGCCAATGTCCCAGACATGGTCTTACA
1 CA-TACAATGCCAATGTCCCAGACATGGTCTTACA
87851103 TGTAATCTTA
Statistics
Matches: 96, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
41 35 0.36
42 9 0.09
43 52 0.54
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (42 bp):
CATACAATGCCAATGTCCCAGACATGGTCTTACACATAATCA
Found at i:87860110 original size:27 final size:26
Alignment explanation
Indices: 87860080--87860142 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 26
87860070 TGGGGGAAGC
*
87860080 GTTCTGGTGGCTATGCCAGAAATATCT
1 GTTCTGGTGGCTATACCA-AAATATCT
*
87860107 GTTCTGGTGGCTCTACCAAAATATCT
1 GTTCTGGTGGCTATACCAAAATATCT
87860133 GTATCTGGTG
1 GT-TCTGGTG
87860143 ACTCTGTCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 10 0.30
27 23 0.70
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTATACCAAAATATCT
Found at i:87860158 original size:27 final size:26
Alignment explanation
Indices: 87860080--87860166 Score: 84
Period size: 27 Copynumber: 3.3 Consensus size: 26
87860070 TGGGGGAAGC
* * *
87860080 GTTCTGGTGGCTATGCCAGAAATATCT
1 GTTCTGGTGACTCTACCA-AAATATCT
*
87860107 GTTCTGGTGGCTCTACCAAAATATCT
1 GTTCTGGTGACTCTACCAAAATATCT
** * *
87860133 GTATCTGGTGACTCTGTCACATTATCT
1 GT-TCTGGTGACTCTACCAAAATATCT
87860160 GTTCTGG
1 GTTCTGG
87860167 CAGCTCTACT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 15 0.29
27 37 0.71
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGACTCTACCAAAATATCT
Found at i:87862551 original size:18 final size:20
Alignment explanation
Indices: 87862510--87862551 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
87862500 TATTTACCTG
*
87862510 TTATTATTATTCGTTTATCTA
1 TTATTATTATTCGTTTA-CGA
87862531 TTATTATTATT-GTTTA-GA
1 TTATTATTATTCGTTTACGA
87862549 TTA
1 TTA
87862552 CAGGCTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 4 0.20
20 5 0.25
21 11 0.55
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (20 bp):
TTATTATTATTCGTTTACGA
Found at i:87872178 original size:28 final size:27
Alignment explanation
Indices: 87872145--87872197 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
87872135 TTAGAATACT
*
87872145 TTAGTTTACTAAAATTACCGAAATACGC
1 TTAGTTT-CTAAAAATACCGAAATACGC
* *
87872173 TTAGTTTGTAAAAATACTGAAATAC
1 TTAGTTTCTAAAAATACCGAAATAC
87872198 CCTCGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACCGAAATACGC
Found at i:87872184 original size:27 final size:27
Alignment explanation
Indices: 87872154--87872252 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
87872144 TTTAGTTTAC
87872154 TAAAATTACCGAAATACGCTTAG-TTTG
1 TAAAATTACCGAAATAC-CTTAGATTTG
* * * *
87872181 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTAGATTTG
* * *
87872208 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCTTAGATTTG
87872235 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
87872253 CTCGATTTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 6 0.10
27 56 0.90
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTAGATTTG
Found at i:87872222 original size:54 final size:54
Alignment explanation
Indices: 87872154--87872260 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
87872144 TTTAGTTTAC
* *
87872154 TAAAATTACCGAAATACGCTTAG-TTTGTAAAAATACTGAAA-TACCCTCGATTTG
1 TAAAATTACCGAAATAC-CTTAGACTTGTAAAAATAC-CAAAGTACCCTCGATTTG
* * *
87872208 TAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCTCGATTT
1 TAAAATTACCGAAATACCTTAGACTTGTAAAAATACCAAAGTACCCTCGATTT
87872261 ACAGAATTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 7 0.15
54 39 0.85
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (54 bp):
TAAAATTACCGAAATACCTTAGACTTGTAAAAATACCAAAGTACCCTCGATTTG
Found at i:87872257 original size:27 final size:27
Alignment explanation
Indices: 87872178--87872257 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
87872168 TACGCTTAGT
* *
87872178 TTGTAAAAATACTGAAATACCCTCGAT
1 TTGTAAAATTACTGAAATACCCTCGAC
*
87872205 TTGTAAAATTACTGAAATACCTTCGAC
1 TTGTAAAATTACTGAAATACCCTCGAC
*
87872232 TTGTAAAATTAC-CAAAGTACCCTCGA
1 TTGTAAAATTACTGAAA-TACCCTCGA
87872258 TTTACAGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.06
27 44 0.94
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACTGAAATACCCTCGAC
Found at i:87872268 original size:27 final size:27
Alignment explanation
Indices: 87872249--87872485 Score: 251
Period size: 27 Copynumber: 8.8 Consensus size: 27
87872239 ATTACCAAAG
87872249 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
87872276 TACCCCCAATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
87872303 TACCC-CGATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
87872329 TACCCCCGATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
87872356 TACCTTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
87872383 TACCCTCGATTTATAGAAGTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* ** **
87872410 TACCCTTGATTTGTAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * ***
87872437 TACCCTTGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
87872464 GACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
87872486 TAAAAACCCT
Statistics
Matches: 185, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 25 0.14
27 160 0.86
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:87872533 original size:27 final size:27
Alignment explanation
Indices: 87872478--87872737 Score: 176
Period size: 27 Copynumber: 9.6 Consensus size: 27
87872468 CTCGATTTAC
*
87872478 AAAATTACTAAAA-ACCC-TAGTCTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* *
87872503 AAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* * *
87872530 AAAATTACAAAAATACCCTCAATTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
* * *
87872557 AAAATTACCAAAATACCCCTAGCTTGT
1 AAAATTACTAAAATACCCTTAGTTTGT
*
87872584 AAAATTACTAAAATACCAC-TGGTTTGT
1 AAAATTACTAAAATACC-CTTAGTTTGT
* * *
87872611 GAAATTAC-AGAAATACCCTCAATTTGT
1 AAAATTACTA-AAATACCCTTAGTTTGT
* * * *
87872638 AAAATTTCCAAAATACCCCT-GATT-T
1 AAAATTACTAAAATACCCTTAGTTTGT
* *
87872663 ACAAAGTTAC-AGAAATACCCTTGACTTTCT
1 A-AAA-TTACTA-AAATACCCTT-AGTTTGT
* * **
87872693 AAAAATTA-TAGAAATACCATTGGTTTAC
1 -AAAATTACTA-AAATACCCTTAGTTTGT
*
87872721 AAAATTACTGAAATACC
1 AAAATTACTAAAATACC
87872738 TTTGGTTGGT
Statistics
Matches: 184, Mismatches: 36, Indels: 28
0.74 0.15 0.11
Matches are distributed among these distances:
25 14 0.08
26 12 0.07
27 131 0.71
28 6 0.03
29 16 0.09
30 4 0.02
31 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTAGTTTGT
Found at i:87872607 original size:81 final size:81
Alignment explanation
Indices: 87872478--87872657 Score: 269
Period size: 81 Copynumber: 2.2 Consensus size: 81
87872468 CTCGATTTAC
* *
87872478 AAAATTACTAAAA-A-CCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTTTGTAAAATTACAAA
1 AAAATTACCAAAATACCCCTAGTCTGTAAAATTACTAAAATACCCTTGGTTTGTAAAATTACAAA
87872541 AATACCCTCAATTTGT
66 AATACCCTCAATTTGT
*
87872557 AAAATTACCAAAATACCCCTAG-CTTGTAAAATTACTAAAATACCAC-TGGTTTGTGAAATTACA
1 AAAATTACCAAAATACCCCTAGTC-TGTAAAATTACTAAAATACC-CTTGGTTTGTAAAATTACA
*
87872620 GAAATACCCTCAATTTGT
64 AAAATACCCTCAATTTGT
*
87872638 AAAATTTCCAAAATACCCCT
1 AAAATTACCAAAATACCCCT
87872658 GATTTACAAA
Statistics
Matches: 92, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
79 12 0.13
80 2 0.02
81 77 0.84
82 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTAGTCTGTAAAATTACTAAAATACCCTTGGTTTGTAAAATTACAAA
AATACCCTCAATTTGT
Found at i:87872679 original size:81 final size:81
Alignment explanation
Indices: 87872478--87872685 Score: 268
Period size: 81 Copynumber: 2.6 Consensus size: 81
87872468 CTCGATTTAC
* *
87872478 AAAATTACTAAAA-A-CCCTAG-TCTGTAAAATTGCTAAAATACCCTTGGTTTGTAAAATTACAA
1 AAAATTACCAAAATACCCCTAGAT-TGTAAAATTACTAAAATACCCTTGGTTTGTAAAATTACAA
87872540 AAATACCCTCAATTTGT
65 AAATACCCTCAATTTGT
* * *
87872557 AAAATTACCAAAATACCCCTAGCTTGTAAAATTACTAAAATACCAC-TGGTTTGTGAAATTACAG
1 AAAATTACCAAAATACCCCTAGATTGTAAAATTACTAAAATACC-CTTGGTTTGTAAAATTACAA
87872621 AAATACCCTCAATTTGT
65 AAATACCCTCAATTTGT
*
87872638 AAAATTTCCAAAATACCCCT-GATT-TACAAAGTTAC-AGAAATACCCTTG
1 AAAATTACCAAAATACCCCTAGATTGTA-AAA-TTACTA-AAATACCCTTG
87872686 ACTTTCTAAA
Statistics
Matches: 115, Mismatches: 6, Indels: 14
0.85 0.04 0.10
Matches are distributed among these distances:
79 14 0.12
80 9 0.08
81 90 0.78
82 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTAGATTGTAAAATTACTAAAATACCCTTGGTTTGTAAAATTACAAA
AATACCCTCAATTTGT
Found at i:87872828 original size:27 final size:27
Alignment explanation
Indices: 87872798--87872890 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
87872788 TACCCCTATT
*
87872798 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* * *
87872825 AGGTAAAGTGATCGTGAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* *
87872852 GGGTAAAGTGACCGTAATA-CCCCTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
87872879 TGGTAAAATGAC
1 AGGTAAAATGAC
87872891 GAATATGCCC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.20
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:87874078 original size:25 final size:25
Alignment explanation
Indices: 87874049--87874096 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
87874039 TTATAACATG
* * *
87874049 AAAATAACCGTTTTGCCCCTAGGTA
1 AAAATAACCATTATACCCCTAGGTA
*
87874074 AAAATGACCATTATACCCCTAGG
1 AAAATAACCATTATACCCCTAGG
87874097 GTTTATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATAACCATTATACCCCTAGGTA
Found at i:87874163 original size:20 final size:20
Alignment explanation
Indices: 87874140--87874194 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
87874130 TAAACATGGT
87874140 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
87874160 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
*
87874180 ACGTATGATATGCAC
1 ATGTATGATATGCAC
87874195 TTGATGTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:87874305 original size:24 final size:23
Alignment explanation
Indices: 87874249--87874415 Score: 228
Period size: 24 Copynumber: 7.0 Consensus size: 23
87874239 GAGGAAGTGA
87874249 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
87874272 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
87874295 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
87874319 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
87874343 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
87874366 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
87874391 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
87874415 A
1 A
87874416 TGATAAAGCA
Statistics
Matches: 130, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
23 43 0.33
24 76 0.58
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:87874318 original size:47 final size:47
Alignment explanation
Indices: 87874249--87874415 Score: 230
Period size: 47 Copynumber: 3.5 Consensus size: 47
87874239 GAGGAAGTGA
*
87874249 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
87874295 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
87874343 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
87874391 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
87874416 TGATAAAGCA
Statistics
Matches: 108, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
47 65 0.60
48 31 0.29
49 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:87874365 original size:71 final size:71
Alignment explanation
Indices: 87874249--87874414 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
87874239 GAGGAAGTGA
* *
87874249 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
87874314 GTTATC
66 GTTATC
*
87874320 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
87874385 GTTATT
66 GTTATC
*
87874391 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
87874415 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 77 0.88
72 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:87874645 original size:31 final size:31
Alignment explanation
Indices: 87874607--87874670 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
87874597 CATTTACAGT
*
87874607 AAAGGCTTCGACCCAGTAATATGAAATTTGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
* **
87874638 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
87874669 AA
1 AA
87874671 TATAAAAGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:87877413 original size:28 final size:27
Alignment explanation
Indices: 87877380--87877432 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
87877370 TTAGAATACT
*
87877380 TTAGTTTACTAAAATTACCGAAATACGC
1 TTAGTTT-CTAAAAATACCGAAATACGC
* *
87877408 TTAGTTTGTAAAAATACTGAAATAC
1 TTAGTTTCTAAAAATACCGAAATAC
87877433 CCTCGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACCGAAATACGC
Found at i:87877419 original size:27 final size:27
Alignment explanation
Indices: 87877389--87877487 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
87877379 TTTAGTTTAC
87877389 TAAAATTACCGAAATACGCTTAG-TTTG
1 TAAAATTACCGAAATAC-CTTAGATTTG
* * * *
87877416 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTAGATTTG
* * *
87877443 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCTTAGATTTG
87877470 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
87877488 CTCGATTTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 6 0.10
27 56 0.90
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTAGATTTG
Found at i:87877457 original size:54 final size:54
Alignment explanation
Indices: 87877389--87877495 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
87877379 TTTAGTTTAC
* *
87877389 TAAAATTACCGAAATACGCTTAG-TTTGTAAAAATACTGAAA-TACCCTCGATTTG
1 TAAAATTACCGAAATAC-CTTAGACTTGTAAAAATAC-CAAAGTACCCTCGATTTG
* * *
87877443 TAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCTCGATTT
1 TAAAATTACCGAAATACCTTAGACTTGTAAAAATACCAAAGTACCCTCGATTT
87877496 ACAGAATTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 7 0.15
54 39 0.85
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (54 bp):
TAAAATTACCGAAATACCTTAGACTTGTAAAAATACCAAAGTACCCTCGATTTG
Found at i:87877492 original size:27 final size:27
Alignment explanation
Indices: 87877413--87877492 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
87877403 TACGCTTAGT
* *
87877413 TTGTAAAAATACTGAAATACCCTCGAT
1 TTGTAAAATTACTGAAATACCCTCGAC
*
87877440 TTGTAAAATTACTGAAATACCTTCGAC
1 TTGTAAAATTACTGAAATACCCTCGAC
*
87877467 TTGTAAAATTAC-CAAAGTACCCTCGA
1 TTGTAAAATTACTGAAA-TACCCTCGA
87877493 TTTACAGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.06
27 44 0.94
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACTGAAATACCCTCGAC
Found at i:87877503 original size:27 final size:27
Alignment explanation
Indices: 87877484--87877694 Score: 208
Period size: 27 Copynumber: 7.8 Consensus size: 27
87877474 ATTACCAAAG
87877484 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
87877511 TACCC-CTGATTTACATAATTACCATTT
1 TACCCTC-GATTTACAGAATTACCATTT
* *
87877538 TACCCCCGATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
87877565 TACCTTCGACTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
87877592 TACCCTCGATTTATAGAAGTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* ** **
87877619 TACCCTTGATTTGTAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * ***
87877646 TACCCTTGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
87877673 GACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
87877695 TAAAAAACCC
Statistics
Matches: 159, Mismatches: 23, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 157 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:87877704 original size:27 final size:27
Alignment explanation
Indices: 87877674--87877865 Score: 131
Period size: 27 Copynumber: 7.1 Consensus size: 27
87877664 TTATTGTTTG
**
87877674 ACCCTCGATTTACAAAATTACTAAAAA
1 ACCCTCGATTTGTAAAATTACTAAAAA
* * * *
87877701 ACCCTAG-TCTGTAAAATTGCTAAAAT
1 ACCCTCGATTTGTAAAATTACTAAAAA
* *
87877727 ACCCTTGGTTTGTAAAATTAC-AAAAA
1 ACCCTCGATTTGTAAAATTACTAAAAA
* * *
87877753 TACCCTCAATTTGTAAAATTACCAAAAT
1 -ACCCTCGATTTGTAAAATTACTAAAAA
* * *
87877781 ACCC-CTAGCTTGTAAAATTACTAAAAT
1 ACCCTCGA-TTTGTAAAATTACTAAAAA
* * ** *
87877808 ACCACT-GGTTTGTGAAATTACCGAAAT
1 ACC-CTCGATTTGTAAAATTACTAAAAA
* * *
87877835 ACCCTCAATTTGTAAAATTACCAAAAT
1 ACCCTCGATTTGTAAAATTACTAAAAA
87877862 ACCC
1 ACCC
87877866 CTGATTTACA
Statistics
Matches: 131, Mismatches: 27, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
26 28 0.21
27 98 0.75
28 5 0.04
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
ACCCTCGATTTGTAAAATTACTAAAAA
Found at i:87877784 original size:54 final size:53
Alignment explanation
Indices: 87877687--87877865 Score: 198
Period size: 54 Copynumber: 3.3 Consensus size: 53
87877677 CTCGATTTAC
* * * *
87877687 AAAATTACTAAAAA-ACCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTAC-AAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
* * *
87877740 AAAATTACAAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGCTTGT
1 AAAATTACAAAAATACCCT-AGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
* * * * * *
87877794 AAAATTACTAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACAAAAATACC-CTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
*
87877848 AAAATTACCAAAATACCC
1 AAAATTACAAAAATACCC
87877866 CTGATTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
52 5 0.05
53 14 0.13
54 85 0.80
55 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.29
Consensus pattern (53 bp):
AAAATTACAAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
Found at i:87877817 original size:81 final size:81
Alignment explanation
Indices: 87877687--87877867 Score: 269
Period size: 81 Copynumber: 2.2 Consensus size: 81
87877677 CTCGATTTAC
* * *
87877687 AAAATTACTAAAA-AACCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTTTGTAAAATTACAAA
1 AAAATTACCAAAATACCCCTAGTCTGTAAAATTACTAAAATACCCTTGGTTTGTAAAATTACAAA
87877751 AATACCCTCAATTTGT
66 AATACCCTCAATTTGT
* *
87877767 AAAATTACCAAAATACCCCTAG-CTTGTAAAATTACTAAAATACCAC-TGGTTTGTGAAATTACC
1 AAAATTACCAAAATACCCCTAGTC-TGTAAAATTACTAAAATACC-CTTGGTTTGTAAAATTACA
*
87877830 GAAATACCCTCAATTTGT
64 AAAATACCCTCAATTTGT
87877848 AAAATTACCAAAATACCCCT
1 AAAATTACCAAAATACCCCT
87877868 GATTTACAAA
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
80 13 0.14
81 78 0.85
82 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTAGTCTGTAAAATTACTAAAATACCCTTGGTTTGTAAAATTACAAA
AATACCCTCAATTTGT
Found at i:87877872 original size:27 final size:27
Alignment explanation
Indices: 87877710--87877872 Score: 161
Period size: 27 Copynumber: 6.0 Consensus size: 27
87877700 AACCCTAGTC
* * * *
87877710 TGTAAAATTGCTAAAATACCCTTGGTT
1 TGTAAAATTACCAAAATACCCCTGATT
* *
87877737 TGTAAAATTACAAAAATA-CCCTCAATT
1 TGTAAAATTACCAAAATACCCCT-GATT
*
87877764 TGTAAAATTACCAAAATACCCCT-AGCT
1 TGTAAAATTACCAAAATACCCCTGA-TT
* * *
87877791 TGTAAAATTACTAAAATACCACTGGTT
1 TGTAAAATTACCAAAATACCCCTGATT
* * *
87877818 TGTGAAATTACCGAAATA-CCCTCAATT
1 TGTAAAATTACCAAAATACCCCT-GATT
87877845 TGTAAAATTACCAAAATACCCCTGATT
1 TGTAAAATTACCAAAATACCCCTGATT
87877872 T
1 T
87877873 ACAAAGTTAC
Statistics
Matches: 110, Mismatches: 20, Indels: 12
0.77 0.14 0.08
Matches are distributed among these distances:
26 7 0.06
27 95 0.86
28 8 0.07
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCCTGATT
Found at i:87877888 original size:54 final size:54
Alignment explanation
Indices: 87877735--87877893 Score: 148
Period size: 54 Copynumber: 2.9 Consensus size: 54
87877725 ATACCCTTGG
* * *
87877735 TTTGTAAAATTACAAAAATACC-CTCAATTTGTA-AAATTACCA-AAATACCC-CTAG
1 TTTGTAAAATTACCAAAATACCACT-GATTTG-ACAAATTA-CAGAAATACCCTC-AA
* * * ** *
87877789 CTTGTAAAATTACTAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTGATTTGACAAATTACAGAAATACCCTCAA
*
87877843 TTTGTAAAATTACCAAAATACCCCTGATTT-ACAAAGTTACAGAAATACCCT
1 TTTGTAAAATTACCAAAATACCACTGATTTGACAAA-TTACAGAAATACCCT
87877894 TGACTTTCTA
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
53 4 0.05
54 79 0.92
55 3 0.03
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTGATTTGACAAATTACAGAAATACCCTCAA
Found at i:87877889 original size:81 final size:81
Alignment explanation
Indices: 87877687--87877895 Score: 268
Period size: 81 Copynumber: 2.6 Consensus size: 81
87877677 CTCGATTTAC
* * *
87877687 AAAATTACTAAAA-AACCCTAG-TCTGTAAAATTGCTAAAATACCCTTGGTTTGTAAAATTACAA
1 AAAATTACCAAAATACCCCTAGAT-TGTAAAATTACTAAAATACCCTTGGTTTGTAAAATTACAA
87877750 AAATACCCTCAATTTGT
65 AAATACCCTCAATTTGT
* * **
87877767 AAAATTACCAAAATACCCCTAGCTTGTAAAATTACTAAAATACCAC-TGGTTTGTGAAATTACCG
1 AAAATTACCAAAATACCCCTAGATTGTAAAATTACTAAAATACC-CTTGGTTTGTAAAATTACAA
87877831 AAATACCCTCAATTTGT
65 AAATACCCTCAATTTGT
87877848 AAAATTACCAAAATACCCCT-GATT-TACAAAGTTAC-AGAAATACCCTTG
1 AAAATTACCAAAATACCCCTAGATTGTA-AAA-TTACTA-AAATACCCTTG
87877896 ACTTTCTAAA
Statistics
Matches: 115, Mismatches: 7, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
79 2 0.02
80 20 0.17
81 91 0.79
82 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTAGATTGTAAAATTACTAAAATACCCTTGGTTTGTAAAATTACAAA
AATACCCTCAATTTGT
Found at i:87878038 original size:27 final size:27
Alignment explanation
Indices: 87878008--87878099 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
87877998 ACCCCTATTA
*
87878008 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
87878035 GGTAAAGTGATCGTAAAGCCCTTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
87878062 GGTAAAGTGACCGCAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
87878089 GGTAAAATGAC
1 GGTAAAATGAC
87878100 GAATATGCCC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:87879287 original size:25 final size:25
Alignment explanation
Indices: 87879259--87879306 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
87879249 TTATAACATG
* * *
87879259 AAAATAACCGTTTTGCCCCTAGGTA
1 AAAATAACCATTATACCCCTAGGTA
*
87879284 AAAATGACCATTATACCCCTAGG
1 AAAATAACCATTATACCCCTAGG
87879307 GTTTATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATAACCATTATACCCCTAGGTA
Found at i:87879373 original size:20 final size:20
Alignment explanation
Indices: 87879350--87879404 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
87879340 TAAACATGGT
87879350 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
87879370 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
*
87879390 ACGTATGATATGCAC
1 ATGTATGATATGCAC
87879405 TTGATGTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:87879515 original size:24 final size:23
Alignment explanation
Indices: 87879459--87879625 Score: 219
Period size: 24 Copynumber: 7.0 Consensus size: 23
87879449 GAGGAAGTGA
87879459 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
87879482 TAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
87879505 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
87879529 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
87879553 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
87879576 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
87879601 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
87879625 A
1 A
87879626 TGATAAATCA
Statistics
Matches: 128, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
23 42 0.33
24 75 0.59
25 11 0.09
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:87879528 original size:47 final size:47
Alignment explanation
Indices: 87879459--87879625 Score: 221
Period size: 47 Copynumber: 3.5 Consensus size: 47
87879449 GAGGAAGTGA
* *
87879459 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
87879505 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
87879553 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
87879601 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
87879626 TGATAAATCA
Statistics
Matches: 107, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
47 65 0.61
48 30 0.28
49 12 0.11
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:87879575 original size:71 final size:71
Alignment explanation
Indices: 87879459--87879624 Score: 253
Period size: 71 Copynumber: 2.3 Consensus size: 71
87879449 GAGGAAGTGA
* * *
87879459 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
87879524 GTTATC
66 GTTATC
*
87879530 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
87879595 GTTATT
66 GTTATC
*
87879601 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
87879625 ATGATAAATC
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
71 76 0.87
72 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:87879853 original size:31 final size:31
Alignment explanation
Indices: 87879818--87879881 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
87879808 CGTTTACAGT
*
87879818 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
87879849 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
87879880 AA
1 AA
87879882 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:87899976 original size:40 final size:40
Alignment explanation
Indices: 87899917--87900124 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
87899907 CAATTGAATG
* * * *
87899917 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
87899957 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
87899997 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
87900037 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
87900077 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
87900117 ATATCCGG
1 ATATCCGG
87900125 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:87900055 original size:80 final size:80
Alignment explanation
Indices: 87899918--87900124 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
87899908 AATTGAATGA
* * ** * * *
87899918 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
87899983 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
87899996 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
87900061 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
87900078 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
87900125 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:87903279 original size:23 final size:23
Alignment explanation
Indices: 87903253--87903300 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
87903243 ACTATCAAAG
* *
87903253 ATGC-ATTTTCATGCCATATATAA
1 ATGCAATTATCATG-CATACATAA
87903276 ATGCAATTATCATGCATACATAA
1 ATGCAATTATCATGCATACATAA
87903299 AT
1 AT
87903301 CATGCAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (23 bp):
ATGCAATTATCATGCATACATAA
Found at i:87909204 original size:22 final size:21
Alignment explanation
Indices: 87909161--87909202 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
87909151 ATCTAGCCTA
87909161 AGAATAAAGAGGTTTTTGTTT
1 AGAATAAAGAGGTTTTTGTTT
87909182 AGAATAAAGAGGTTTTTGTTT
1 AGAATAAAGAGGTTTTTGTTT
87909203 TAACTAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (21 bp):
AGAATAAAGAGGTTTTTGTTT
Found at i:87911030 original size:18 final size:18
Alignment explanation
Indices: 87911007--87911041 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
87910997 GTTAAAATTT
87911007 CTTAACCAAATTTTAATA
1 CTTAACCAAATTTTAATA
87911025 CTTAACCAAATTTTAAT
1 CTTAACCAAATTTTAAT
87911042 CGACCTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (18 bp):
CTTAACCAAATTTTAATA
Found at i:87915732 original size:17 final size:17
Alignment explanation
Indices: 87915696--87915732 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
87915686 TCTATAACTA
**
87915696 TTTATTTTATTTTTGGT
1 TTTATTTTATTTTTAAT
87915713 TTTATTTTATTTTTAAT
1 TTTATTTTATTTTTAAT
87915730 TTT
1 TTT
87915733 TGGTCTGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.78
Consensus pattern (17 bp):
TTTATTTTATTTTTAAT
Found at i:87918281 original size:44 final size:45
Alignment explanation
Indices: 87918227--87918312 Score: 156
Period size: 44 Copynumber: 1.9 Consensus size: 45
87918217 AGAATGTCAC
87918227 ATGCATCGCATCTATAATGAACTCAGACCAACTCAACGAGCTCGA
1 ATGCATCGCATCTATAATGAACTCAGACCAACTCAACGAGCTCGA
*
87918272 ATGC-TCGCATCTATAATGAACTCGGACCAACTCAACGAGCT
1 ATGCATCGCATCTATAATGAACTCAGACCAACTCAACGAGCT
87918313 TGGATGCTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 36 0.90
45 4 0.10
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (45 bp):
ATGCATCGCATCTATAATGAACTCAGACCAACTCAACGAGCTCGA
Found at i:87929218 original size:20 final size:20
Alignment explanation
Indices: 87929193--87929232 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
87929183 GACCACTACT
87929193 TTTTGACGAAGAAATCGATC
1 TTTTGACGAAGAAATCGATC
*
87929213 TTTTGATGAAGAAATCGATC
1 TTTTGACGAAGAAATCGATC
87929233 GCACAGTCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
TTTTGACGAAGAAATCGATC
Found at i:87940749 original size:2 final size:2
Alignment explanation
Indices: 87940742--87940793 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
87940732 TCGTAAACAG
* *
87940742 GT GT GT GT GT GT GT GT GT GT GT GT GT AT GT TT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
87940784 GT GT GT GT GT
1 GT GT GT GT GT
87940794 AAAATTGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.02, C:0.00, G:0.46, T:0.52
Consensus pattern (2 bp):
GT
Found at i:87942484 original size:45 final size:44
Alignment explanation
Indices: 87942318--87942480 Score: 175
Period size: 45 Copynumber: 3.7 Consensus size: 44
87942308 CATCCATAAT
** * *
87942318 GAACTCAGACCAACTCAACGAGCTTGGATGCTCACATCCATAAT
1 GAACTCAGACCAACTCAACGAGCTTGGATGCTCACATATATCAC
** *
87942362 GAACTTGGACCAACTCAACGAGCTCGGATGCTTCACATATATCAC
1 GAACTCAGACCAACTCAACGAGCTTGGATGC-TCACATATATCAC
** * * *
87942407 GAACTTGGACCAACTCAACAAG-TTCGGATTTCTCGCATATATCAC
1 GAACTCAGACCAACTCAACGAGCTT-GGA-TGCTCACATATATCAC
*
87942452 GAACTCAGACCAACTTAACGAGCTTGGAT
1 GAACTCAGACCAACTCAACGAGCTTGGAT
87942481 TTCTAAATTC
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
44 30 0.30
45 66 0.66
46 4 0.04
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (44 bp):
GAACTCAGACCAACTCAACGAGCTTGGATGCTCACATATATCAC
Found at i:87949044 original size:504 final size:501
Alignment explanation
Indices: 87947878--87949396 Score: 2347
Period size: 506 Copynumber: 3.0 Consensus size: 501
87947868 TAAATGTTTT
* * * *
87947878 TGGTTGTACGTAATGCTTTGTAACCTTATTTTGACGACGGACACGGGTTAGGGGTGTTACATTTA
1 TGGTTGTAAGTAATGCTTTGTAACCCTAATTTGACGACGGACACGGGTTAGGAGTGTTACATTTA
*
87947943 GTGGTATTGAAGTTACGATTTAGTCGATTCTTGGACTAAACATAGCATGTATGGAGTCTAGAAAT
66 GTGGTATTAAAGTTACGATTTAGTCG-TTCTTGGACTAAACATAGCATGTATGGAGTCTAGAAAT
87948008 ACATGTCGTTATATAACCTGTGATAGTGTGATAATTCCTGACACAAATTGAACTATATTTTCATA
130 ACATGTCGTTATATAACCTGTGATAGTGTGATAATTCCTGACACAAATTGAACTATATTTTCATA
* * *
87948073 TAGATATGATGTCATCCAACCGAGGTGATTCCGATGAAGTTGGAAGTAACGCGCAAGCCTCCATT
195 TAGATATGATGTCATCCAACCAAGGTGATTTCGATGAAGTTGGAAGTAACGCGCAAGCCTCCGTT
* *
87948138 CACGGAGTAGGTTTTAATAGTAGTGGGCTCGTAGCTGAGGACGACAGAGGTTAGGCTAAAGAAGC
260 CACGGAGCAGGTTTTAATAGTAGTGGGC-CGTAGCTGAGGGCGACAGAGGTTAGGCTAAAGAAGC
* * *
87948203 GTTCTCCTAGATGATGTCTAAATTGTTTACATAGTTTGTAAGAATGAACCCGTTGGCTCAACGAC
324 CTTCTCCTAGATGATGTCTAAATTGTTTACATAGTTCGTGAGAAT-AA-CCGTTGGCTCAACGAC
* *
87948268 CTCCACTCCTACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGATCCAATATGTACA
387 CTCCACTCCCACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGAACCAATATGTACA
* *
87948333 AGTAATTCTTCAATTGATAAAATCTGAAAATATGGGGCTGAAGAGTTCCA
452 AGTAATTATTCAATTGATAAAATCTGAAAATATGGGGCTGAAGAGTTCCG
* *
87948383 TGGTTGTACAGTAGTGCTTTGTAACCCTAATTTGACGACGGACACGGGTTA-AAGGTGTTACATT
1 TGGTTGTA-AGTAATGCTTTGTAACCCTAATTTGACGACGGACACGGGTTAGGA-GTGTTACATT
* *
87948447 TAGTGGTATTAAAGTTACTATTTAGTCGGTTCTTGGACTAAACATAGCATGTATAGAGTCTAGAA
64 TAGTGGTATTAAAGTTACGATTTAGTC-GTTCTTGGACTAAACATAGCATGTATGGAGTCTAGAA
* * * *
87948512 ATACATGTCGCTATATAAACTATGATAGTGTGATAATTCCTGACGCAAATTGAACTATATTTTCA
128 ATACATGTCGTTATATAACCTGTGATAGTGTGATAATTCCTGACACAAATTGAACTATATTTTCA
*
87948577 TATAGATATGATGTCATCCAACCAAGGTGATTTTGATGAAGTTGGAAGTAACGCGCAAGCCTCCG
193 TATAGATATGATGTCATCCAACCAAGGTGATTTCGATGAAGTTGGAAGTAACGCGCAAGCCTCCG
* *
87948642 CTCACGGAGCAAGTTTTAATAGTAGTGGGCCGGTAGCTGAGGGCGACAGAGGTTAGGCTAAAGAA
258 TTCACGGAGCAGGTTTTAATAGTAGTGGGCC-GTAGCTGAGGGCGACAGAGGTTAGGCTAAAGAA
* * ** *
87948707 GCCTTCTCCTAGATGATGTCTAAATTGTTCACATAGTTCGTGAGAATAACCGTTAGCTCAATAAG
322 GCCTTCTCCTAGATGATGTCTAAATTGTTTACATAGTTCGTGAGAATAACCGTTGGCTCAACGAC
87948772 CTCCACTCCCACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGAACCAATATGTACA
387 CTCCACTCCCACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGAACCAATATGTACA
*
87948837 AGTAATTATTCAATTGATAAAATCTAAAAATATGGGGCTGAAGAGTTCCG
452 AGTAATTATTCAATTGATAAAATCTGAAAATATGGGGCTGAAGAGTTCCG
* * * **
87948887 TGGTTGTATAGTAATGCTTTATAACCCTAATTTAACGACAGACACAAGTTAGGAGTGTTACATTT
1 TGGTTGTA-AGTAATGCTTTGTAACCCTAATTTGACGACGGACACGGGTTAGGAGTGTTACATTT
* * * *
87948952 AGTGGTATTAAAGTTACGGTTTTGTCTGTTCTTGGACTAAACGTAGCATGTATGGAGCCTAGAAA
65 AGTGGTATTAAAGTTACGATTTAGTC-GTTCTTGGACTAAACATAGCATGTATGGAGTCTAGAAA
* * *
87949017 TACATGTCATTATATAGCCTGTGATAGTGTGATAATTCCTAACACAAATTGAACTATATTTTCAT
129 TACATGTCGTTATATAACCTGTGATAGTGTGATAATTCCTGACACAAATTGAACTATATTTTCAT
87949082 ATAGATATGATGTCATCCAACCAAGGTGATTTCGATGAAGTTGGAAGTAACGCGCAAGCCTCCGT
194 ATAGATATGATGTCATCCAACCAAGGTGATTTCGATGAAGTTGGAAGTAACGCGCAAGCCTCCGT
* * ** ** ** *
87949147 TTACAGAGCAGGTTTTAATAGTAACGACCCCGTAGCTGAGGGCGGTAGAGGTCAGGCTAAAGAAG
259 TCACGGAGCAGGTTTTAATAGTAGTG-GGCCGTAGCTGAGGGCGACAGAGGTTAGGCTAAAGAAG
* * *
87949212 CTTTCTCCTAGATGATGTCTAAATTGTTTACATAGTTCATGAGAACGAACCTGTTGGCTCAACGA
323 CCTTCTCCTAGATGATGTCTAAATTGTTTACATAGTTCGTGAGAA-TAACC-GTTGGCTCAACGA
* * *
87949277 CCTCCACTCCCACCCGTACCCCAACCTGTTACTATTAATCCTTAAGGTTTGGAACCAATATGTAC
386 CCTCCACTCCCACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGAACCAATATGTAC
* *
87949342 AAGTAATTTTTCAATTGATAAAATCTGAAAATATGGGGCTGAAGAGTTTCG
451 AAGTAATTATTCAATTGATAAAATCTGAAAATATGGGGCTGAAGAGTTCCG
87949393 TGGT
1 TGGT
87949397 ACGACCGATG
Statistics
Matches: 924, Mismatches: 82, Indels: 15
0.90 0.08 0.01
Matches are distributed among these distances:
504 450 0.49
505 18 0.02
506 455 0.49
507 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (501 bp):
TGGTTGTAAGTAATGCTTTGTAACCCTAATTTGACGACGGACACGGGTTAGGAGTGTTACATTTA
GTGGTATTAAAGTTACGATTTAGTCGTTCTTGGACTAAACATAGCATGTATGGAGTCTAGAAATA
CATGTCGTTATATAACCTGTGATAGTGTGATAATTCCTGACACAAATTGAACTATATTTTCATAT
AGATATGATGTCATCCAACCAAGGTGATTTCGATGAAGTTGGAAGTAACGCGCAAGCCTCCGTTC
ACGGAGCAGGTTTTAATAGTAGTGGGCCGTAGCTGAGGGCGACAGAGGTTAGGCTAAAGAAGCCT
TCTCCTAGATGATGTCTAAATTGTTTACATAGTTCGTGAGAATAACCGTTGGCTCAACGACCTCC
ACTCCCACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGAACCAATATGTACAAGTA
ATTATTCAATTGATAAAATCTGAAAATATGGGGCTGAAGAGTTCCG
Found at i:87955079 original size:26 final size:26
Alignment explanation
Indices: 87955048--87955107 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
87955038 CGACTTACAA
87955048 CTCATGTGAGCAGGTCCATTTCACAG
1 CTCATGTGAGCAGGTCCATTTCACAG
* *
87955074 CTCATGTGAGCAGGTCTATTTCATAG
1 CTCATGTGAGCAGGTCCATTTCACAG
*
87955100 CTTATGTG
1 CTCATGTG
87955108 TGCAATGACG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (26 bp):
CTCATGTGAGCAGGTCCATTTCACAG
Found at i:87972948 original size:15 final size:15
Alignment explanation
Indices: 87972928--87972957 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
87972918 GTGAAGAGAA
87972928 ATATGTGAAATAATG
1 ATATGTGAAATAATG
87972943 ATATGTGAAATAATG
1 ATATGTGAAATAATG
87972958 TACAGATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (15 bp):
ATATGTGAAATAATG
Found at i:87973732 original size:26 final size:26
Alignment explanation
Indices: 87973703--87973806 Score: 145
Period size: 26 Copynumber: 4.0 Consensus size: 26
87973693 TGGTACAAAT
* * *
87973703 TGATAATGGGTTAGATAAGTATTCAA
1 TGATAATGGGTTAGGTAAATATTCCA
*
87973729 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
87973755 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
87973781 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
87973807 GGATGGGCAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:87975448 original size:27 final size:26
Alignment explanation
Indices: 87975407--87975546 Score: 140
Period size: 27 Copynumber: 5.2 Consensus size: 26
87975397 GTAAGCGTCC
*
87975407 TGGTGGCTATGCCACAATTATCTGATT
1 TGGTGGCTCTGCCAC-ATTATCTGATT
*
87975434 TGGTGGCTCTACCACATATATCT-ATT
1 TGGTGGCTCTGCCACAT-TATCTGATT
* *
87975460 CTGGTGGCTATGCCACGATTATCTGATC
1 -TGGTGGCTCTGCCAC-ATTATCTGATT
87975488 TGGTGGCTCTGCCACATGTATCTG-TT
1 TGGTGGCTCTGCCACAT-TATCTGATT
* * *
87975514 CTAGTGGCTCTGCCACAATATCTGTATC
1 -TGGTGGCTCTGCCACATTATCTG-ATT
87975542 TGGTG
1 TGGTG
87975547 ACTTCGTCAT
Statistics
Matches: 94, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
26 14 0.15
27 75 0.80
28 5 0.05
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGATT
Found at i:87975492 original size:54 final size:53
Alignment explanation
Indices: 87975406--87975546 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 53
87975396 AGTAAGCGTC
*
87975406 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTACCACATATATCTATT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTATT
* * *
87975460 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATGTATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTATT
* * *
87975514 CTAGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
87975547 ACTTCGTCAT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 7 0.09
54 71 0.91
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTACCACATATATCTATT
Found at i:87985540 original size:42 final size:42
Alignment explanation
Indices: 87985492--87985601 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
87985482 CACGGCAGAG
* * *
87985492 ACACGGGCTTGTGTCTCATCCATGTGTACTACACGGCCTAGA
1 ACACGGGCATGTGTCTCAGCCATGTGTACTACACCGCCTAGA
* * *
87985534 ACACGGGCATGTGTCTTAGCCGTGTGTGCTACACCGCCTAGA
1 ACACGGGCATGTGTCTCAGCCATGTGTACTACACCGCCTAGA
* * *
87985576 ACACGGGCATATGTCTTAGCCGTGTG
1 ACACGGGCATGTGTCTCAGCCATGTG
87985602 AAGCTTGCAC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.25
Consensus pattern (42 bp):
ACACGGGCATGTGTCTCAGCCATGTGTACTACACCGCCTAGA
Found at i:87993007 original size:2 final size:2
Alignment explanation
Indices: 87993000--87993029 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
87992990 AGTCACCTAT
87993000 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
87993030 CTGAGCTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:87993253 original size:47 final size:48
Alignment explanation
Indices: 87993183--87993450 Score: 270
Period size: 47 Copynumber: 5.7 Consensus size: 48
87993173 TAAGATGTCA
* * *
87993183 ATGCCATGTCCCAGACATAGTCTTATACTGGCTCAT-ATCTC-AAGTCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGCTCATCATCTCGAAGCCG
* *
87993230 ATGCCATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCGTAGCCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGCTCATCATCTCGAAGCCG
* * * * *
87993278 ATG-CATGTCCCAGACATGTTTTACACTAGCTTAT-GTCTCGAGGCCA
1 ATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAAGCCG
*
87993324 ATG-CATGTCCCAGACATGTCTTACACTAGCTC-TCGTCTC-AATGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAA-GCCG
* * * **
87993370 ATGCCATGTCCCAGACATAGTCTTACATTGGCTC-TCATAAT-GTGGCCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGCTCATCAT-CTCGAAGCCG
87993418 ATG-CATGTCCCAGACATGTCTTACACTAGCTCA
1 ATGCCATGTCCCAGACATGTCTTACACTAGCTCA
87993451 CAAACAAATG
Statistics
Matches: 187, Mismatches: 24, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
45 2 0.01
46 76 0.41
47 78 0.42
48 30 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAAGCCG
Found at i:87993442 original size:140 final size:141
Alignment explanation
Indices: 87993181--87993448 Score: 373
Period size: 140 Copynumber: 1.9 Consensus size: 141
87993171 GGTAAGATGT
* * *
87993181 CAATGCCATGTCCCAGACATAGTCTTATACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGAC
1 CAATGCCATGTCCCAGACATAGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAGAC
* * *
87993246 ATGGTCTTACACTAACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTTTTACACTAGCTTA
66 ATAGTCTTACACTAACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTA
87993311 TGTCTCGAGGC
131 TGTCTCGAGGC
*
87993322 CAATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGCCGATGCCATGTCCCAG
1 CAATGCCATGTCCCAGACATAGTCTTACACTAGCTCAT-ATCTCAA-GCCGATGCCATGTCCCAG
* ** * *
87993384 ACATAGTCTTACATTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACTAGC
64 ACATAGTCTTACACTAACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGC
87993448 T
128 T
87993449 CACAAACAAA
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
138 1 0.01
139 19 0.17
140 86 0.77
141 6 0.05
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (141 bp):
CAATGCCATGTCCCAGACATAGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAGAC
ATAGTCTTACACTAACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTA
TGTCTCGAGGC
Found at i:87998924 original size:620 final size:620
Alignment explanation
Indices: 87997738--87998969 Score: 2331
Period size: 620 Copynumber: 2.0 Consensus size: 620
87997728 TGAGAAATCA
* * *
87997738 ACCAGTCCATCTCAAGGATTACATCAAACTCATTAAATGGCAATAACATCAAGTTAGTCGGAAAA
1 ACCAGTCCATCCCAAGGATTACATCAAACTCATTAAACGGAAATAACATCAAGTTAGTCGGAAAA
87997803 CAATGACCTTTAATTGTCAAGGGCAATTCCTACATACTTGGTCCACTAGTACATGTCTGCCTAAA
66 CAATGACCTTTAATTGTCAAGGGCAATTCCTACATACTTGGTCCACTAGTACATGTCTGCCTAAA
87997868 GGATTGGACATTTTTACTACAAACTTAGTGGACTCTACTAGCATACTCATACGAGGTATCAATTC
131 GGATTGGACATTTTTACTACAAACTTAGTGGACTCTACTAGCATACTCATACGAGGTATCAATTC
87997933 ATACAAATATAAGAGTAGGTAGATCCCGGGTCAATTAAAGCAACAACAGATATTTCATGGTTAGA
196 ATACAAATATAAGAGTAGGTAGATCCCGGGTCAATTAAAGCAACAACAGATATTTCATGGTTAGA
87997998 AAAGGTACCCGTGATCACGTCGGGAGACTCTACCTCTTCCCAAGCTCGTATAGCATAAGTCCTTG
261 AAAGGTACCCGTGATCACGTCGGGAGACTCTACCTCTTCCCAAGCTCGTATAGCATAAGTCCTTG
87998063 CAGGCGCTCTACCCTCGGACCTCACCACAGCATCTCTTGTCATGCTTTTACTACTAGCTCCATTT
326 CAGGCGCTCTACCCTCGGACCTCACCACAGCATCTCTTGTCATGCTTTTACTACTAGCTCCATTT
* *
87998128 CTGGGGTTCTTCTGTGGCCTACCCCTCAAAGGGGCACTGCTCGCTTTCATATATTATTTTCTCTC
391 CTGGGGTTCTTCTGTGACCTACCCCTCAAAGGGGCACTGCTCGCTTTCACATATTATTTTCTCTC
*
87998193 TCTCTCTTCTAATTCAGGACTATCACGGATGAAGTGTAATGATCCGCACTTGAAACAGCCGCTTT
456 TCTCTCTTCTAATTCAGGACTATCACGGATGAAGTGTAATGATCCGCACTTGAAACAGCCACTTT
87998258 CATTCCCTTGGCACTCGCTAAAATGACGTCTACCACATTACGAGCATTCTGGCCTATTTGGCCGA
521 CATTCCCTTGGCACTCGCTAAAATGACGTCTACCACATTACGAGCATTCTGGCCTATTTGGCCGA
87998323 GTGCTACCAACACTTGTGACCGAAGTGCTACCAAC
586 GTGCTACCAACACTTGTGACCGAAGTGCTACCAAC
87998358 ACCAGTCCATCCCAAGGATTACATCAAACTCATTAAACGGAAATAACATCAAGTTAG-CTGGAAA
1 ACCAGTCCATCCCAAGGATTACATCAAACTCATTAAACGGAAATAACATCAAGTTAGTC-GGAAA
87998422 ACAATGACCTTTAATTGTCAAGGGCAATTCCTACATACTTGGTCCACTAGTACATGTCTGCCTAA
65 ACAATGACCTTTAATTGTCAAGGGCAATTCCTACATACTTGGTCCACTAGTACATGTCTGCCTAA
87998487 AGGATTGGACATTTTTACTACAAACTTAGTGGACTCTACTAGCATACTCATACGAGGTATCAATT
130 AGGATTGGACATTTTTACTACAAACTTAGTGGACTCTACTAGCATACTCATACGAGGTATCAATT
*
87998552 CATACAAATATAAGAGTGGGTAGATCCCGGGTCAATTAAAGCAACAACAGATATTTCATGGTTAG
195 CATACAAATATAAGAGTAGGTAGATCCCGGGTCAATTAAAGCAACAACAGATATTTCATGGTTAG
* *
87998617 AAAAGGTATCCGTGATCACGTCGGGAGACTCTATCTCTTCCCAAGCTCGTATAGCATAAGTCCTT
260 AAAAGGTACCCGTGATCACGTCGGGAGACTCTACCTCTTCCCAAGCTCGTATAGCATAAGTCCTT
* *
87998682 GTAGGCGCTCTACCCTCGGACCTTACCACAGCATCTCTTGTCATGCTTTTACTACTAGCTCCATT
325 GCAGGCGCTCTACCCTCGGACCTCACCACAGCATCTCTTGTCATGCTTTTACTACTAGCTCCATT
*
87998747 TCTGGGGTTCTTCTGTGACCTACCCCTCAAAGGGGCACTGCTCGCTTTCACATATTGTTTTCTCT
390 TCTGGGGTTCTTCTGTGACCTACCCCTCAAAGGGGCACTGCTCGCTTTCACATATTATTTTCTCT
87998812 CTCTCTCTTCTAATTCAGGACTATCACGGATGAAGTGTAATGATCCGCACTTGAAACAGCCACTT
455 CTCTCTCTTCTAATTCAGGACTATCACGGATGAAGTGTAATGATCCGCACTTGAAACAGCCACTT
*
87998877 TCATTCCCTTGGCACTCGCTAAAATGACGTCTACCACATTGCGAGCATTCTGGCCTATTTGGCCG
520 TCATTCCCTTGGCACTCGCTAAAATGACGTCTACCACATTACGAGCATTCTGGCCTATTTGGCCG
87998942 AGTGCTACCAACACTTGTGACCGAAGTG
585 AGTGCTACCAACACTTGTGACCGAAGTG
87998970 GTCTAGGCTT
Statistics
Matches: 598, Mismatches: 13, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
619 1 0.00
620 597 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (620 bp):
ACCAGTCCATCCCAAGGATTACATCAAACTCATTAAACGGAAATAACATCAAGTTAGTCGGAAAA
CAATGACCTTTAATTGTCAAGGGCAATTCCTACATACTTGGTCCACTAGTACATGTCTGCCTAAA
GGATTGGACATTTTTACTACAAACTTAGTGGACTCTACTAGCATACTCATACGAGGTATCAATTC
ATACAAATATAAGAGTAGGTAGATCCCGGGTCAATTAAAGCAACAACAGATATTTCATGGTTAGA
AAAGGTACCCGTGATCACGTCGGGAGACTCTACCTCTTCCCAAGCTCGTATAGCATAAGTCCTTG
CAGGCGCTCTACCCTCGGACCTCACCACAGCATCTCTTGTCATGCTTTTACTACTAGCTCCATTT
CTGGGGTTCTTCTGTGACCTACCCCTCAAAGGGGCACTGCTCGCTTTCACATATTATTTTCTCTC
TCTCTCTTCTAATTCAGGACTATCACGGATGAAGTGTAATGATCCGCACTTGAAACAGCCACTTT
CATTCCCTTGGCACTCGCTAAAATGACGTCTACCACATTACGAGCATTCTGGCCTATTTGGCCGA
GTGCTACCAACACTTGTGACCGAAGTGCTACCAAC
Found at i:88001850 original size:40 final size:40
Alignment explanation
Indices: 88001611--88001836 Score: 282
Period size: 40 Copynumber: 5.7 Consensus size: 40
88001601 TCGAATGATG
* * * *
88001611 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
88001651 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
88001691 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
88001731 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
**
88001771 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
88001812 -CCGGGCTAAG-TCCCGAAGGCATTTG
1 TCCGGACTAAGAT-CCGAAGGCATTTG
88001837 AACGAGTAGC
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 161 0.94
41 9 0.05
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:88009704 original size:25 final size:25
Alignment explanation
Indices: 88009672--88009719 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
88009662 CTATAACATG
* * *
88009672 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
88009697 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
88009720 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:88009803 original size:11 final size:11
Alignment explanation
Indices: 88009767--88009822 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
88009757 CATGGTATGT
88009767 ATGATATGCAC
1 ATGATATGCAC
* *
88009778 ATGACATG--T
1 ATGATATGCAC
88009787 ATGATATGCAC
1 ATGATATGCAC
*
88009798 ATGATATG--T
1 ATGATATGCAC
88009807 ATGATATGCAC
1 ATGATATGCAC
88009818 ATGAT
1 ATGAT
88009823 GTAACATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:88009822 original size:20 final size:20
Alignment explanation
Indices: 88009756--88009822 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
88009746 ATTTTGATAA
*
88009756 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
88009776 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
88009796 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
88009816 ACATGAT
1 ACATGAT
88009823 GTAACATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:88009836 original size:40 final size:39
Alignment explanation
Indices: 88009756--88009830 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 39
88009746 ATTTTGATAA
* **
88009756 ACATGGTATGTATGATATGCACATGACATGTATGATATGC
1 ACATGATATGTATGATATGCACATGA-ATGTAACATATGC
88009796 ACATGATATGTATGATATGCACATG-ATGTAACATA
1 ACATGATATGTATGATATGCACATGAATGTAACATA
88009831 AATGCATTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 8 0.25
40 24 0.75
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (39 bp):
ACATGATATGTATGATATGCACATGAATGTAACATATGC
Found at i:88009926 original size:24 final size:24
Alignment explanation
Indices: 88009870--88009998 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
88009860 GAGGAAGTGA
88009870 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
88009893 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
88009917 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
88009941 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* *
88009965 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
88009989 AAAAGAGGCT
1 AAAAG-GGCT
88009999 AGGCCTCCAG
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
23 22 0.22
24 74 0.74
25 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:88017727 original size:25 final size:25
Alignment explanation
Indices: 88017698--88017745 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
88017688 CTATAACATG
* * *
88017698 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
88017723 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
88017746 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:88017829 original size:11 final size:11
Alignment explanation
Indices: 88017793--88017848 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
88017783 CATGGTATGT
88017793 ATGATATGCAC
1 ATGATATGCAC
* *
88017804 ATGACATG--T
1 ATGATATGCAC
88017813 ATGATATGCAC
1 ATGATATGCAC
*
88017824 ATGATATG--T
1 ATGATATGCAC
88017833 ATGATATGCAC
1 ATGATATGCAC
88017844 ATGAT
1 ATGAT
88017849 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:88017848 original size:20 final size:20
Alignment explanation
Indices: 88017782--88017848 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
88017772 ATTTTGATAA
*
88017782 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
88017802 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
88017822 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
88017842 ACATGAT
1 ACATGAT
88017849 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:88017953 original size:24 final size:23
Alignment explanation
Indices: 88017897--88018048 Score: 232
Period size: 24 Copynumber: 6.4 Consensus size: 23
88017887 GAGGAAGTGA
88017897 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
88017920 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
88017943 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
88017967 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
88017991 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
88018015 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
88018039 AAAAGAGGCT
1 AAAAG-GGCT
88018049 AGGCCTCCAG
Statistics
Matches: 121, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
23 43 0.36
24 74 0.61
25 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:88017966 original size:47 final size:46
Alignment explanation
Indices: 88017897--88018048 Score: 232
Period size: 47 Copynumber: 3.2 Consensus size: 46
88017887 GAGGAAGTGA
88017897 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
88017943 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* *
88017991 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTA-T
88018039 AAAAGAGGCT
1 AAAAG-GGCT
88018049 AGGCCTCCAG
Statistics
Matches: 96, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
47 65 0.68
48 27 0.28
49 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:88018013 original size:71 final size:71
Alignment explanation
Indices: 88017897--88018048 Score: 268
Period size: 71 Copynumber: 2.1 Consensus size: 71
88017887 GAGGAAGTGA
88017897 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
88017962 GTTATC
66 GTTATC
* *
88017968 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
88018033 GTTATT
66 GTTATC
88018039 AAAAGAGGCT
1 AAAAG-GGCT
88018049 AGGCCTCCAG
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 73 0.95
72 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:88025803 original size:25 final size:25
Alignment explanation
Indices: 88025774--88025821 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
88025764 CTATAACATG
* * *
88025774 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
88025799 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
88025822 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:88025905 original size:11 final size:11
Alignment explanation
Indices: 88025869--88025924 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
88025859 CATGGTATGT
88025869 ATGATATGCAC
1 ATGATATGCAC
* *
88025880 ATGACATG--T
1 ATGATATGCAC
88025889 ATGATATGCAC
1 ATGATATGCAC
*
88025900 ATGATATG--T
1 ATGATATGCAC
88025909 ATGATATGCAC
1 ATGATATGCAC
88025920 ATGAT
1 ATGAT
88025925 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:88025924 original size:20 final size:20
Alignment explanation
Indices: 88025858--88025924 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
88025848 ATTTTGATAA
*
88025858 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
88025878 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
88025898 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
88025918 ACATGAT
1 ACATGAT
88025925 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:88026028 original size:24 final size:23
Alignment explanation
Indices: 88025972--88026123 Score: 232
Period size: 24 Copynumber: 6.4 Consensus size: 23
88025962 GGAGAAGTGA
88025972 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
88025995 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
88026018 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
88026042 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
88026066 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
88026090 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
88026114 AAAAGAGGCT
1 AAAAG-GGCT
88026124 AGGCCTCCAG
Statistics
Matches: 121, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
23 43 0.36
24 74 0.61
25 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:88026041 original size:47 final size:46
Alignment explanation
Indices: 88025972--88026123 Score: 232
Period size: 47 Copynumber: 3.2 Consensus size: 46
88025962 GGAGAAGTGA
88025972 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
88026018 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* *
88026066 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTA-T
88026114 AAAAGAGGCT
1 AAAAG-GGCT
88026124 AGGCCTCCAG
Statistics
Matches: 96, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
47 65 0.68
48 27 0.28
49 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:88026088 original size:71 final size:71
Alignment explanation
Indices: 88025972--88026123 Score: 268
Period size: 71 Copynumber: 2.1 Consensus size: 71
88025962 GGAGAAGTGA
88025972 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
88026037 GTTATC
66 GTTATC
* *
88026043 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
88026108 GTTATT
66 GTTATC
88026114 AAAAGAGGCT
1 AAAAG-GGCT
88026124 AGGCCTCCAG
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 73 0.95
72 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:88029130 original size:120 final size:120
Alignment explanation
Indices: 88028913--88029136 Score: 305
Period size: 120 Copynumber: 1.9 Consensus size: 120
88028903 TCGAATGATG
* *
88028913 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTC
1 TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
88028978 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTCATGCGAGTTACTAAA
66 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTCATGCGAGTTACTAAA
* **
88029033 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGACTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
* *
88029095 TTTGTGCGAGTTACTATAA-CCGGGCTAAG-TCCCGAAGGCATT
63 TTCGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATT
88029137 TGAACGAGTA
Statistics
Matches: 92, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
119 2 0.02
120 80 0.87
121 10 0.11
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (120 bp):
TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTCATGCGAGTTACTAAA
Found at i:88029145 original size:40 final size:40
Alignment explanation
Indices: 88028913--88029138 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
88028903 TCGAATGATG
* * * *
88028913 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
88028953 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
**
88028993 TCCGGACTAAGATCCGAAGGCATTCATGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
88029033 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
**
88029073 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
88029114 -CCGGGCTAAG-TCCCGAAGGCATTTG
1 TCCGGACTAAGAT-CCGAAGGCATTTG
88029139 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 159 0.94
41 9 0.05
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:88032197 original size:46 final size:46
Alignment explanation
Indices: 88032119--88032341 Score: 220
Period size: 46 Copynumber: 4.8 Consensus size: 46
88032109 TGGGTAAGGT
* *
88032119 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCATCTCATA
* * *
88032167 GCCGATGCATGTCCCAGGCATGTCTTACACTAGCTTAT-GTCTCGA-G
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TATCATCTC-ATA
* * * *
88032213 GCCGATGCATATCCCAGACATGTCTTACACTAGCTCTCGTCTTAATA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTATCATC-TCATA
* * * * *
88032260 -CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTTATAAT-ATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCAT-CTCATA
88032307 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
88032342 CACAAACAAA
Statistics
Matches: 149, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
45 2 0.01
46 71 0.48
47 46 0.31
48 30 0.20
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTATCATCTCATA
Found at i:88032310 original size:94 final size:90
Alignment explanation
Indices: 88032119--88032342 Score: 254
Period size: 94 Copynumber: 2.4 Consensus size: 90
88032109 TGGGTAAGGT
* * **
88032119 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCGTAGCCGATGCATGTCCCAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTAATAGCCGATGCATGTCCCAG
* * *
88032184 GCATGTCTTACACTAGCTTATGTCTCGAG
64 ACATGTCTTACACTAGCTTATATAT--AG
* *
88032213 GCCGATGCATATCCCAGACATGTCTTACACTAGCTCTCGTCTTAATA-CCGATGCCATGTCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATC-TAATAGCCGATG-CATGTCCCAG
*
88032277 ACATAGTCTTACACTGGCTCT-TATAATATG
64 ACAT-GTCTTACACTAGCT-TATAT-ATA-G
88032307 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
88032343 ACAAACAAAT
Statistics
Matches: 113, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
92 23 0.20
93 30 0.27
94 58 0.51
95 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (90 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTAATAGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTTATATATAG
Found at i:88045620 original size:41 final size:40
Alignment explanation
Indices: 88045573--88045710 Score: 138
Period size: 41 Copynumber: 3.4 Consensus size: 40
88045563 TCGGGCTTTA
*
88045573 TGCCTAGCAAACTTTGTGCCGGTGTATAATATCAGGCCTAT
1 TGCCTAGCAAACTTT-TGCCGGTGTATTATATCAGGCCTAT
* * * *
88045614 TGCCTAGCAAGCTTTATGCCGGTGTATTATATTATGCTTAT
1 TGCCTAGCAAACTTT-TGCCGGTGTATTATATCAGGCCTAT
** *
88045655 TGCCTAGCAGGCTCTTTGCCGGTGTATTATA-CTAGG-CTTT
1 TGCCTAGCAAACT-TTTGCCGGTGTATTATATC-AGGCCTAT
88045695 ATGCCTAGCAAA-TTTT
1 -TGCCTAGCAAACTTTT
88045711 ATGTGAGCAA
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
39 3 0.04
40 3 0.04
41 73 0.90
42 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (40 bp):
TGCCTAGCAAACTTTTGCCGGTGTATTATATCAGGCCTAT
Found at i:88050381 original size:27 final size:27
Alignment explanation
Indices: 88050350--88050444 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 27
88050340 TTAGTTTACC
*
88050350 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * *
88050377 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
*
88050404 AAATTACCT-AAATATCCTCGATTTGTA
1 AAATTA-CTAAAATACCCTCGATTTGTA
*
88050431 AAATTACTGAAATA
1 AAATTACTAAAATA
88050445 AGATAGAATT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.04
27 53 0.95
28 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:88050479 original size:27 final size:27
Alignment explanation
Indices: 88050449--88050510 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
88050439 GAAATAAGAT
88050449 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
88050476 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
88050503 AAAATTAC
1 AGAATTAC
88050511 TGAAATACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:88050519 original size:27 final size:27
Alignment explanation
Indices: 88050462--88050575 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 27
88050452 ATTACCATTT
* * ***
88050462 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
**
88050489 TACCCTCGATTTATAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * *
88050516 TACCCTTGGTTTACAAAATTACCCAAA
1 TACCCTCGATTTATAAAATTACCAAAA
**
88050543 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
88050570 TACCCT
1 TACCCT
88050576 TGTAGGATAG
Statistics
Matches: 69, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:88050536 original size:54 final size:54
Alignment explanation
Indices: 88050462--88050577 Score: 135
Period size: 54 Copynumber: 2.1 Consensus size: 54
88050452 ATTACCATTT
* * ** ** **
88050462 TACCCTCGATTTACAGAATTA-CCATTTTACCCTCGATTTATAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCCA-AATACCCTCGATCAATAAAATTACCAAAA
*
88050516 TACCCTTGGTTTACAAAATTACCCAAATACCCTCGATCAATAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCCAAATACCCTCGATCAATAAAATTACCAAAA
88050570 TACCCTTG
1 TACCCTTG
88050578 TAGGATAGAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 49 0.94
55 3 0.06
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (54 bp):
TACCCTTGATTTACAAAATTACCCAAATACCCTCGATCAATAAAATTACCAAAA
Found at i:88050589 original size:27 final size:27
Alignment explanation
Indices: 88050559--88050807 Score: 277
Period size: 27 Copynumber: 9.3 Consensus size: 27
88050549 CGATCAATAA
* *
88050559 AATTACCAAAATACCCTTGTAGGATAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
88050586 AATTATCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
** *
88050613 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
88050640 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAG
***
88050667 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* **
88050694 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
88050721 AATTACCGAAATA-TCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
88050747 AATTACTAAAATACCCTTGTAGGGTGG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * * *
88050774 AATTACCAAGATA-CCTTGTGGGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAG
88050800 AATTACCA
1 AATTACCA
88050808 TTTTTCCCCT
Statistics
Matches: 193, Mismatches: 28, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
26 41 0.21
27 152 0.79
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:88050617 original size:81 final size:79
Alignment explanation
Indices: 88050532--88050788 Score: 263
Period size: 81 Copynumber: 3.2 Consensus size: 79
88050522 TGGTTTACAA
* * * *
88050532 AATTACCCAAATACCCTCGATCA-ATAAAATTACCAAAATACCCTTGTAGGATAGAATTATCAAA
1 AATTACCCAAATACCCTCG-T-AGGTAGAATTACCGAAATACCC-TGTAGGGTAGAATTATCAAA
88050596 ATACCCCTGTAGGGTAG
63 ATACCCCTGTAGGGTAG
** * * **
88050613 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAAAATTATTGAAA
1 AATTACCCAAATACCCTCGTA-GGTAGAATTACCGAAATA-CCCTGTAGGGTAGAATTATCAAAA
88050678 TACCCCTGTAGGGTAG
64 TACCCCTGTAGGGTAG
* *
88050694 AATTATCGC-AATACCC-CTGTAGGGTAGAATTACCGAAATATCCTGTAGGGTAGAATTA-CTAA
1 AATTA-CCCAAATACCCTC-GTA-GGTAGAATTACCGAAATACCCTGTAGGGTAGAATTATC-AA
* *
88050756 AATACCCTTGTAGGGTGG
62 AATACCCCTGTAGGGTAG
88050774 AATTA-CCAAGATACC
1 AATTACCCAA-ATACC
88050789 TTGTGGGGTA
Statistics
Matches: 148, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
78 1 0.01
79 2 0.01
80 44 0.30
81 97 0.66
82 4 0.03
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (79 bp):
AATTACCCAAATACCCTCGTAGGTAGAATTACCGAAATACCCTGTAGGGTAGAATTATCAAAATA
CCCCTGTAGGGTAG
Found at i:88051491 original size:26 final size:27
Alignment explanation
Indices: 88051462--88051527 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
88051452 TAAGTGGCTT
*
88051462 TGCCACATTATCTGT-TCTGGTGGA-TC
1 TGCCACAATATCTGTATCTGGT-GACTC
88051488 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGACTC
*
88051515 TGTCACAATATCT
1 TGCCACAATATCT
88051528 AATAACTGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 16 0.44
27 20 0.56
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:88051703 original size:6 final size:6
Alignment explanation
Indices: 88051665--88051753 Score: 76
Period size: 6 Copynumber: 14.3 Consensus size: 6
88051655 TTGCATTCAC
* *
88051665 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
88051715 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
88051754 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
5 4 0.06
6 50 0.74
7 12 0.18
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:88051714 original size:31 final size:31
Alignment explanation
Indices: 88051665--88051769 Score: 124
Period size: 31 Copynumber: 3.4 Consensus size: 31
88051655 TTGCATTCAC
*
88051665 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
* *
88051697 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
88051728 ATTCTGATTCTGATTCTAGTT--CTGATAATG
1 ATTCTGATTCTGATTCT-GTTACCTGATACTG
* *
88051758 TTTCTTATTCTG
1 ATTCTGATTCTG
88051770 TAATGGGTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
30 17 0.27
31 38 0.59
32 9 0.14
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:88052098 original size:7 final size:7
Alignment explanation
Indices: 88052086--88052110 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
88052076 AATTTTCTGG
88052086 ATTTGAA
1 ATTTGAA
88052093 ATTTGAA
1 ATTTGAA
88052100 ATTTGAA
1 ATTTGAA
88052107 ATTT
1 ATTT
88052111 TACTTATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (7 bp):
ATTTGAA
Found at i:88054336 original size:31 final size:32
Alignment explanation
Indices: 88054298--88054364 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
88054288 TGGGCATACG
* *
88054298 GGCAAGGCAAAT-TGGCTGTCTGGGCCACACA
1 GGCAAGGCAAATCTAGCCGTCTGGGCCACACA
* *
88054329 GGCAAGGCCAATCTAGCCGTGTGGGCCACACA
1 GGCAAGGCAAATCTAGCCGTCTGGGCCACACA
88054361 GGCA
1 GGCA
88054365 TGTAAGCCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 11 0.35
32 20 0.65
ACGTcount: A:0.25, C:0.28, G:0.33, T:0.13
Consensus pattern (32 bp):
GGCAAGGCAAATCTAGCCGTCTGGGCCACACA
Found at i:88061035 original size:30 final size:30
Alignment explanation
Indices: 88060999--88061061 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
88060989 TTATTATATG
88060999 TGAAAGTGCATGTGTGAAAATTTCATGCTT
1 TGAAAGTGCATGTGTGAAAATTTCATGCTT
88061029 TGAAAGTGCATGTGTGAAAATTTCATGCTT
1 TGAAAGTGCATGTGTGAAAATTTCATGCTT
88061059 TGA
1 TGA
88061062 TTTTGTCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.37
Consensus pattern (30 bp):
TGAAAGTGCATGTGTGAAAATTTCATGCTT
Found at i:88061040 original size:15 final size:14
Alignment explanation
Indices: 88060997--88061047 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
88060987 GCTTATTATA
88060997 TGTGAAAGTGCATG
1 TGTGAAAGTGCATG
* *
88061011 TGTGAAAATTTCATG
1 TGTG-AAAGTGCATG
*
88061026 CTTTGAAAGTGCATG
1 -TGTGAAAGTGCATG
88061041 TGTGAAA
1 TGTGAAA
88061048 ATTTCATGCT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 10 0.34
15 16 0.55
16 3 0.10
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.33
Consensus pattern (14 bp):
TGTGAAAGTGCATG
Found at i:88061055 original size:15 final size:15
Alignment explanation
Indices: 88061007--88061055 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
88060997 TGTGAAAGTG
88061007 CATGTGTGAAAATTT
1 CATGTGTGAAAATTT
* * *
88061022 CATGCTTTG-AAAGTG
1 CATG-TGTGAAAATTT
88061037 CATGTGTGAAAATTT
1 CATGTGTGAAAATTT
88061052 CATG
1 CATG
88061056 CTTTGATTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
14 3 0.12
15 20 0.77
16 3 0.12
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (15 bp):
CATGTGTGAAAATTT
Found at i:88062664 original size:43 final size:43
Alignment explanation
Indices: 88062616--88062731 Score: 198
Period size: 43 Copynumber: 2.7 Consensus size: 43
88062606 TTATTCGGGC
*
88062616 CTTCGAACCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGG
1 CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGG
88062659 CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGG
1 CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGG
* *
88062702 CTTCGAGCCTAGCAGGC-GTAATGCCAGTGA
1 CTTCGAGCCTAGCAGGCTATAATGCCGGTGA
88062732 ATGAGTTCAG
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
42 11 0.16
43 59 0.84
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (43 bp):
CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGG
Found at i:88070010 original size:43 final size:43
Alignment explanation
Indices: 88069945--88070053 Score: 166
Period size: 43 Copynumber: 2.5 Consensus size: 43
88069935 ACAGTACTAT
88069945 TCAGGCTTTCGAGCCTAGCAGGCTATAATGCTAG-TGAGTTAATA
1 TCAGGC-TTCGAGCCTAGCAGGCTATAATGC-AGATGAGTTAATA
* * *
88069989 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGATGGGTTAATA
1 TCAGGCTTCGAGCCTAGCAGGCTATAATGCAGATGAGTTAATA
88070032 TCAGGCTTCGAGCCTAGCAGGC
1 TCAGGCTTCGAGCCTAGCAGGC
88070054 GTCATGCCGG
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
42 1 0.02
43 54 0.90
44 5 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (43 bp):
TCAGGCTTCGAGCCTAGCAGGCTATAATGCAGATGAGTTAATA
Found at i:88075531 original size:46 final size:46
Alignment explanation
Indices: 88075464--88075970 Score: 703
Period size: 46 Copynumber: 11.0 Consensus size: 46
88075454 GCTTTCTGAA
*
88075464 ATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
88075510 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
88075556 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
88075602 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
88075648 ATAAAATGTGTAAGACCATGGTTGAAAGAAACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
88075694 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAATAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
88075740 ATAAAATGTGTTGAAAGA-CACTGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTG-T--AAGACCA-TGGTTGAAAGATACCATGGCAACATGAT
* * *
88075789 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGAAACAAGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* ** * *
88075835 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * *
88075881 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
88075927 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
88075971 TCAAAGATAA
Statistics
Matches: 412, Mismatches: 43, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
45 1 0.00
46 367 0.89
47 3 0.01
48 3 0.01
49 38 0.09
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:88076272 original size:16 final size:17
Alignment explanation
Indices: 88076251--88076283 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
88076241 ATGATGGAGC
88076251 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
88076267 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
88076284 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:88091942 original size:17 final size:18
Alignment explanation
Indices: 88091906--88091944 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
88091896 TCTTTAGAAT
* *
88091906 TTTTTTAAAAATTTATAA
1 TTTTTAAAAAATATATAA
88091924 TTTTTAAAAAATATA-AA
1 TTTTTAAAAAATATATAA
88091941 TTTT
1 TTTT
88091945 AGAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTAAAAAATATATAA
Found at i:88091958 original size:18 final size:19
Alignment explanation
Indices: 88091935--88091971 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
88091925 TTTTAAAAAA
88091935 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
88091953 TATAAATATTTTGAATTTT
1 TATAAATATTTAGAATTTT
88091972 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:88095110 original size:2 final size:2
Alignment explanation
Indices: 88095103--88095132 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
88095093 CCAAACACTA
88095103 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
88095133 TAATTTAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88098943 original size:10 final size:9
Alignment explanation
Indices: 88098930--88099071 Score: 76
Period size: 9 Copynumber: 15.0 Consensus size: 9
88098920 TAAAATTAGA
88098930 AAAAATATAT
1 AAAAAT-TAT
**
88098940 AAAAATCGT
1 AAAAATTAT
88098949 AAAAATTAT
1 AAAAATTAT
88098958 -AAAATATAT
1 AAAAAT-TAT
* *
88098967 AGAAATATAA
1 AAAAAT-TAT
88098977 AAAAATTAT
1 AAAAATTAT
*
88098986 AAAATTTTAT
1 AAAA-ATTAT
*
88098996 AAAATAGTA-
1 AAAA-ATTAT
88099005 AGAAAATTAT
1 A-AAAATTAT
88099015 ACAAAATGTA-
1 A-AAAAT-TAT
88099025 AAGAAA-TAT
1 AA-AAATTAT
** *
88099034 AAATTTTGTAA
1 AAA-AAT-TAT
88099045 AAAAATTAT
1 AAAAATTAT
88099054 AAAAATTAT
1 AAAAATTAT
88099063 AAAAATTAT
1 AAAAATTAT
88099072 CATATCAAAA
Statistics
Matches: 102, Mismatches: 19, Indels: 23
0.71 0.13 0.16
Matches are distributed among these distances:
8 8 0.08
9 44 0.43
10 43 0.42
11 7 0.07
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:88098944 original size:20 final size:20
Alignment explanation
Indices: 88098916--88098971 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 20
88098906 GAAAAATTAA
*
88098916 ATATTAAAATTAGAAAAAAT
1 ATATAAAAATTAGAAAAAAT
* *
88098936 ATATAAAAA-TCGTAAAAAT
1 ATATAAAAATTAGAAAAAAT
88098955 -TATAAAATATATAGAAA
1 ATATAAAA-AT-TAGAAA
88098972 TATAAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.25
19 9 0.32
20 8 0.29
21 4 0.14
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (20 bp):
ATATAAAAATTAGAAAAAAT
Found at i:88098966 original size:29 final size:28
Alignment explanation
Indices: 88098921--88099015 Score: 84
Period size: 29 Copynumber: 3.3 Consensus size: 28
88098911 ATTAAATATT
* * **
88098921 AAAATTAGAAAAAATATATAAAAATCGTA
1 AAAATTATAAAATATATATAAAAAT-AAA
* *
88098950 AAAATTATAAAATATATAGAAATATAAA
1 AAAATTATAAAATATATATAAAAATAAA
* *
88098978 AAAATTATAAAAT-TTTATAAAATAGTAAG
1 AAAATTATAAAATATATATAAAA-A-TAAA
88099007 AAAATTATA
1 AAAATTATA
88099016 CAAAATGTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
27 6 0.11
28 15 0.28
29 33 0.61
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.29
Consensus pattern (28 bp):
AAAATTATAAAATATATATAAAAATAAA
Found at i:88098972 original size:27 final size:27
Alignment explanation
Indices: 88098931--88099015 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 27
88098921 AAAATTAGAA
*
88098931 AAAATATATAAAAATCGT-AAAAATTAT
1 AAAATATATAAAAAT-ATAAAAAATTAT
*
88098958 AAAATATATAGAAATATAAAAAAATTAT
1 AAAATATATAAAAATAT-AAAAAATTAT
*
88098986 AAAAT-TTTATAAAATAGTAAGAAAATTAT
1 AAAATATATA-AAAATA-TAA-AAAATTAT
88099015 A
1 A
88099016 CAAAATGTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
26 1 0.02
27 17 0.35
28 21 0.43
29 10 0.20
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.31
Consensus pattern (27 bp):
AAAATATATAAAAATATAAAAAATTAT
Found at i:88099010 original size:21 final size:21
Alignment explanation
Indices: 88098986--88099030 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
88098976 AAAAAATTAT
* *
88098986 AAAATTTTATAAAATAGT-AAG
1 AAAATTATACAAAAT-GTAAAG
88099007 AAAATTATACAAAATGTAAAG
1 AAAATTATACAAAATGTAAAG
88099028 AAA
1 AAA
88099031 TATAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAATTATACAAAATGTAAAG
Found at i:88099356 original size:26 final size:26
Alignment explanation
Indices: 88099255--88099402 Score: 115
Period size: 25 Copynumber: 5.4 Consensus size: 26
88099245 TTTTATGCAT
88099255 TTTATATTTTTTATGATTTTT-ATAAAA
1 TTTA-ATTTTTTAT-ATTTTTAATAAAA
*
88099282 TTTTACAATTTTCTTTAATGATTTTTATAAAAAA
1 -TTT--AA-TTT-TTT-AT-ATTTTTA-ATAAAA
* *
88099316 TATAA-TTTCTA-ATTTTTAATAAAA
1 TTTAATTTTTTATATTTTTAATAAAA
*
88099340 TTTAATTTTTTATATTTTTATTAAAA
1 TTTAATTTTTTATATTTTTAATAAAA
* *
88099366 TTTAA-TATTTATATTTTTATTAAAA
1 TTTAATTTTTTATATTTTTAATAAAA
88099391 TTTAATATTTTT
1 TTTAAT-TTTTT
88099403 TCTAAAATTT
Statistics
Matches: 100, Mismatches: 9, Indels: 23
0.76 0.07 0.17
Matches are distributed among these distances:
24 9 0.09
25 36 0.36
26 17 0.17
27 5 0.05
28 5 0.05
29 3 0.03
30 4 0.04
31 5 0.05
32 9 0.09
33 2 0.02
34 5 0.05
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.59
Consensus pattern (26 bp):
TTTAATTTTTTATATTTTTAATAAAA
Found at i:88099360 original size:51 final size:52
Alignment explanation
Indices: 88099302--88099402 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 52
88099292 TTCTTTAATG
88099302 ATTTTTATAAAAAATATAAT-TTCTA-ATTTTTAATAAAATTTAAT-TTTTTAT
1 ATTTTTAT-AAAAATATAATATT-TATATTTTTAATAAAATTTAATATTTTTAT
* * *
88099353 ATTTTTATTAAAATTTAATATTTATATTTTTATTAAAATTTAATATTTTT
1 ATTTTTATAAAAATATAATATTTATATTTTTAATAAAATTTAATATTTTT
88099403 TCTAAAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
50 11 0.25
51 28 0.64
52 5 0.11
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (52 bp):
ATTTTTATAAAAATATAATATTTATATTTTTAATAAAATTTAATATTTTTAT
Found at i:88099369 original size:18 final size:17
Alignment explanation
Indices: 88099366--88099430 Score: 76
Period size: 19 Copynumber: 3.6 Consensus size: 17
88099356 TTTATTAAAA
*
88099366 TTTAATATTTATATTTT
1 TTTAAAATTTATATTTT
88099383 TATTAAAATTTAATATTTT
1 T-TTAAAATTT-ATATTTT
88099402 TTCTAAAATTTATCATTTT
1 TT-TAAAATTTAT-ATTTT
*
88099421 TTTATAATTT
1 TTTAAAATTT
88099431 TTTATAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
17 1 0.02
18 18 0.43
19 23 0.55
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTAAAATTTATATTTT
Found at i:88099397 original size:25 final size:25
Alignment explanation
Indices: 88099302--88099400 Score: 121
Period size: 25 Copynumber: 3.9 Consensus size: 25
88099292 TTCTTTAATG
* *
88099302 ATTTTTATAAAAAATATAAT-TTCTA-
1 ATTTTTAT-TAAAATTTAATATT-TAT
* *
88099327 ATTTTTAATAAAATTTAATTTTTTAT
1 ATTTTTATTAAAATTTAA-TATTTAT
88099353 ATTTTTATTAAAATTTAATATTTAT
1 ATTTTTATTAAAATTTAATATTTAT
88099378 ATTTTTATTAAAATTTAATATTT
1 ATTTTTATTAAAATTTAATATTT
88099401 TTTCTAAAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
24 8 0.12
25 39 0.59
26 19 0.29
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTTATTAAAATTTAATATTTAT
Found at i:88099430 original size:11 final size:11
Alignment explanation
Indices: 88099410--88099442 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
88099400 TTTTCTAAAA
*
88099410 TTTATCATTTT
1 TTTATAATTTT
88099421 TTTATAA-TTT
1 TTTATAATTTT
88099431 TTTATAATTTT
1 TTTATAATTTT
88099442 T
1 T
88099443 AATAAGAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTATAATTTT
Done.