Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 224 of 332
Found at i:74342196 original size:47 final size:47
Alignment explanation
Indices: 74342075--74342617 Score: 718
Period size: 47 Copynumber: 11.6 Consensus size: 47
74342065 CCCTTCGGGA
* * *
74342075 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
74342122 C-T-TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
74342167 CTTATCTCATATATGCA-TGTTCACATTCAT--CA-----CATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
74342207 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
74342254 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
74342301 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
74342348 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
74342395 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
74342444 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
74342491 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
74342540 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
74342589 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
74342618 TATTCAAATA
Statistics
Matches: 459, Mismatches: 22, Indels: 28
0.90 0.04 0.06
Matches are distributed among these distances:
40 34 0.07
42 2 0.00
45 43 0.09
46 3 0.01
47 217 0.47
49 159 0.35
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:74342473 original size:96 final size:96
Alignment explanation
Indices: 74342199--74342617 Score: 620
Period size: 96 Copynumber: 4.4 Consensus size: 96
74342189 ACATTCATCA
* *
74342199 CATTCGGCCTTATCAC--ACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
1 CATTCGGCCTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCA
74342261 CACATACACATGTTCACATTCATCACATTGGC
65 CACATACACATGTTCACATTCATCACATTGGC
* *
74342293 CATTCGGCCTTATCTC--ATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
1 CATTCGGCCTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCA
74342355 CACATACACATGTTCACATTCATCACATTGGC
65 CACATACACATGTTCACATTCATCACATTGGC
74342387 CATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
1 CATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
* * *
74342452 ATATATACACT-TTCACATTCATCACATCGGC
66 ACATACACA-TGTTCACATTCATCACATTGGC
* *
74342483 CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC
1 CATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
* *
74342548 ATATATATACACT-TTCACATTCATCACATTGGC
66 --ACATACACA-TGTTCACATTCATCACATTGGC
*
74342581 CATTAGGCCTTATCACATATATATACACTTTCACATT
1 CATTCGGCCTTATCACATATATATACACTTTCACATT
74342618 TATTCAAATA
Statistics
Matches: 307, Mismatches: 12, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
94 105 0.34
96 133 0.43
97 2 0.01
98 67 0.22
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (96 bp):
CATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
ACATACACATGTTCACATTCATCACATTGGC
Found at i:74344143 original size:56 final size:56
Alignment explanation
Indices: 74344076--74344195 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
74344066 TATTAGTTTA
74344076 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
74344132 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
74344188 TTGCCCAT
1 TTGCCCAT
74344196 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:74352457 original size:21 final size:20
Alignment explanation
Indices: 74352422--74352465 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
74352412 AATATTAACT
*
74352422 TATGTATTTATATTACTATAA
1 TATGTATTTATATTA-AATAA
74352443 TATGT-TTTATAATTAAATAA
1 TATGTATTTAT-ATTAAATAA
74352463 TAT
1 TAT
74352466 ATTTGATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (20 bp):
TATGTATTTATATTAAATAA
Found at i:74358234 original size:15 final size:16
Alignment explanation
Indices: 74358199--74358237 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
74358189 AACTAAAATA
*
74358199 AAAATAAACATTAAGT
1 AAAATAAACAATAAGT
*
74358215 AAAATAAATAATAA-T
1 AAAATAAACAATAAGT
74358230 AAAATAAA
1 AAAATAAA
74358238 AGCACTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAATAAACAATAAGT
Found at i:74360763 original size:15 final size:17
Alignment explanation
Indices: 74360743--74360774 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
74360733 ACATAAGATC
74360743 ACAAACA-AGTA-AAAA
1 ACAAACACAGTACAAAA
74360758 ACAAACACAGTACAAAA
1 ACAAACACAGTACAAAA
74360775 GTTGGTGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.69, C:0.19, G:0.06, T:0.06
Consensus pattern (17 bp):
ACAAACACAGTACAAAA
Found at i:74365592 original size:25 final size:25
Alignment explanation
Indices: 74365556--74365603 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
74365546 CCCATTATCC
74365556 ATTAGTCCTAATTTACCTTTTTACT
1 ATTAGTCCTAATTTACCTTTTTACT
*
74365581 ATTAGTCTTAATTTACCTTTTTA
1 ATTAGTCCTAATTTACCTTTTTA
74365604 AGTTCTCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.17, G:0.04, T:0.54
Consensus pattern (25 bp):
ATTAGTCCTAATTTACCTTTTTACT
Found at i:74365675 original size:35 final size:35
Alignment explanation
Indices: 74365630--74365700 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
74365620 TTTTATTCCT
74365630 TTTTAATCCTAATTACTAACATGTTTTCTATTTAC
1 TTTTAATCCTAATTACTAACATGTTTTCTATTTAC
74365665 TTTTAATCCTAATTACTAACATGTTTTCTATTTAC
1 TTTTAATCCTAATTACTAACATGTTTTCTATTTAC
74365700 T
1 T
74365701 CTACTTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.17, G:0.03, T:0.52
Consensus pattern (35 bp):
TTTTAATCCTAATTACTAACATGTTTTCTATTTAC
Found at i:74366387 original size:13 final size:13
Alignment explanation
Indices: 74366369--74366402 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
74366359 GGGGGTACAC
74366369 GGTCGTGTGACTA
1 GGTCGTGTGACTA
74366382 GGTCGTGTGACTA
1 GGTCGTGTGACTA
*
74366395 GGTTGTGT
1 GGTCGTGT
74366403 AACAGACTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.12, C:0.12, G:0.41, T:0.35
Consensus pattern (13 bp):
GGTCGTGTGACTA
Found at i:74372504 original size:2 final size:2
Alignment explanation
Indices: 74372491--74372536 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
74372481 GCTAAAATAG
* *
74372491 TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
74372533 TC TC
1 TC TC
74372537 GCTCACTTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:74378857 original size:6 final size:7
Alignment explanation
Indices: 74378818--74378884 Score: 68
Period size: 7 Copynumber: 9.6 Consensus size: 7
74378808 ATTTAATCCC
*
74378818 CAATTTC
1 CAATTTT
74378825 CAATTTT
1 CAATTTT
74378832 ACAA-TTT
1 -CAATTTT
74378839 CAATCTTT
1 CAAT-TTT
*
74378847 AAATTTT
1 CAATTTT
74378854 -AATTTT
1 CAATTTT
74378860 CAATTTT
1 CAATTTT
74378867 CAA-TTT
1 CAATTTT
74378873 CGAATTTT
1 C-AATTTT
74378881 CAAT
1 CAAT
74378885 CCTCAATCCT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
6 13 0.25
7 26 0.50
8 13 0.25
ACGTcount: A:0.33, C:0.15, G:0.01, T:0.51
Consensus pattern (7 bp):
CAATTTT
Found at i:74378938 original size:15 final size:15
Alignment explanation
Indices: 74378920--74378953 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
74378910 ATTCTTTTTT
*
74378920 TTTTGAAATTTATTC
1 TTTTCAAATTTATTC
*
74378935 TTTTCAATTTTATTC
1 TTTTCAAATTTATTC
74378950 TTTT
1 TTTT
74378954 TTTTTAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.09, G:0.03, T:0.68
Consensus pattern (15 bp):
TTTTCAAATTTATTC
Found at i:74388380 original size:3 final size:3
Alignment explanation
Indices: 74388372--74388410 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
74388362 TTTATTTTTC
74388372 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
74388411 AACAACAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:74391652 original size:40 final size:40
Alignment explanation
Indices: 74391500--74391645 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 40
74391490 TCGAATGATG
* * * *
74391500 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
74391540 TCTGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
74391580 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
74391621 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
74391646 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 79 0.89
41 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:74391652 original size:80 final size:80
Alignment explanation
Indices: 74391500--74391678 Score: 177
Period size: 80 Copynumber: 2.2 Consensus size: 80
74391490 TCGAATGATG
* * *
74391500 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCTGGACTAAGATCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTG
**
74391565 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
74391580 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* *
74391643 TTGAACGAGTAGCTATA
64 TGGAACGAGTAGCTAAA
* *
74391660 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
74391679 TACGTGATTC
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
79 17 0.21
80 58 0.71
81 7 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTG
GAACGAGTAGCTAAA
Found at i:74394194 original size:27 final size:27
Alignment explanation
Indices: 74394172--74394456 Score: 253
Period size: 27 Copynumber: 10.6 Consensus size: 27
74394162 TTAGTTTACC
74394172 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
74394199 ACATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
74394226 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
74394253 AAATTACCAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * **
74394280 AAATTACTAAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
*** **
74394307 AAATTATTGAAATA-CCCTCAACTTGTA
1 AAATTACCAAAATACCCCT-AGTTTGTA
* *
74394334 AAATTACCAAAGTACCCCT-GATTTATA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * *
74394361 AAATTACCTAAATA-TCCTCGATTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
*
74394388 AAATTACCAAAATA-CCCTCAGTTTGCA
1 AAATTACCAAAATACCCCT-AGTTTGTA
*
74394415 AAATTA-CAGAAATA-CCCTCGATTTGTA
1 AAATTACCA-AAATACCCCTAG-TTTGTA
*
74394442 AAATTACTAAAATAC
1 AAATTACCAAAATAC
74394457 TCCTGTAAGA
Statistics
Matches: 213, Mismatches: 34, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
26 11 0.05
27 196 0.92
28 6 0.03
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:74394237 original size:54 final size:54
Alignment explanation
Indices: 74394172--74394644 Score: 309
Period size: 54 Copynumber: 8.8 Consensus size: 54
74394162 TTAGTTTACC
* *
74394172 AAATTACCAAAATACCCCTAGTTTGTAACATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTC-GATTTGTA
* *
74394226 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTC-GATTTGTA
* * ** *** * *
74394280 AAATTACTAAAATA-CCCTCGACCTGTAAAATTATTGAAATACCCTCAACTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCTCGATTTGTA
* * * *
74394334 AAATTACCAAAGTACCCCT-GATTTATAAAATTACCTAAATATCCTCGATTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCTCGATTTGTA
*
74394388 AAATTACCAAAATA-CCCTCAGTTTGCAAAATTA-CAGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCA-AAATACCCTCGATTTGTA
* * ** * *** * *
74394442 AAATTACTAAAATACTCCT-GTAAGATAGAATTACCATTTTACCCTCAATTTATA
1 AAATTACCAAAATACCCCTAGTTTG-TAAAATTACCAAAATACCCTCGATTTGTA
* * **** * * * * *** **
74394496 GAATTATCGTTTTA-CACTCGATTTATAGAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCTCGATTTGTA
** * * ** *
74394550 AAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTC-GATTTGTA
** *
74394604 AAATTACCAAAATACCCCT-GATTTGTGGAATTACCGAAATA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATA
74394645 TAGGGTAGAA
Statistics
Matches: 324, Mismatches: 81, Indels: 28
0.75 0.19 0.06
Matches are distributed among these distances:
53 17 0.05
54 292 0.90
55 15 0.05
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCGATTTGTA
Found at i:74394307 original size:81 final size:81
Alignment explanation
Indices: 74394172--74394456 Score: 339
Period size: 81 Copynumber: 3.5 Consensus size: 81
74394162 TTAGTTTACC
* * *
74394172 AAATTACCAAAATACCCCT-AGTTTGTAACATTACCAAAATACCC-CTGGTTTGTAAAATTATCA
1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACTAAAATACCCTC-GATTTGTAAAATTATCA
74394235 AAATACCC-CTAGTTTGTA
64 AAATACCCTC-AGTTTGTA
* ** **
74394253 AAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCTCGACCTGTAAAATTATTGAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATCAAA
**
74394318 ATACCCTCAACTTGTA
66 ATACCCTCAGTTTGTA
* * * *
74394334 AAATTACCAAAGTACCCCTGATTTATAAAATTACCT-AAATATCCTCGATTTGTAAAATTACCAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTA-CTAAAATACCCTCGATTTGTAAAATTATCAA
*
74394398 AATACCCTCAGTTTGCA
65 AATACCCTCAGTTTGTA
74394415 AAATTA-CAGAAATA-CCCTCGATTTGTAAAATTACTAAAATAC
1 AAATTACCA-AAATACCCCT-GATTTGTAAAATTACTAAAATAC
74394457 TCCTGTAAGA
Statistics
Matches: 172, Mismatches: 25, Indels: 14
0.82 0.12 0.07
Matches are distributed among these distances:
80 8 0.05
81 159 0.92
82 5 0.03
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATCAAA
ATACCCTCAGTTTGTA
Found at i:74394496 original size:27 final size:27
Alignment explanation
Indices: 74394466--74394556 Score: 128
Period size: 27 Copynumber: 3.4 Consensus size: 27
74394456 CTCCTGTAAG
*
74394466 ATAGAATTACCATTTTACCCTCAATTT
1 ATAGAATTACCATTTTACCCTCGATTT
* * *
74394493 ATAGAATTATCGTTTTACACTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
74394520 ATAGAATTACCATTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
* *
74394547 ACAAAATTAC
1 ATAGAATTAC
74394557 TGAAATACCC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.40
Consensus pattern (27 bp):
ATAGAATTACCATTTTACCCTCGATTT
Found at i:74394565 original size:27 final size:27
Alignment explanation
Indices: 74394512--74394620 Score: 94
Period size: 27 Copynumber: 4.0 Consensus size: 27
74394502 TCGTTTTACA
* * ***
74394512 CTCGATTTATAGAATTACCATTTTACC
1 CTCGATTTACAAAATTACCAAAATACC
**
74394539 CTCGATTTACAAAATTACTGAAATACC
1 CTCGATTTACAAAATTACCAAAATACC
* *
74394566 CTTGGTTTACAAAATTACCAAAATACC
1 CTCGATTTACAAAATTACCAAAATACC
* **
74394593 C-CTGGTTTGTAAAATTACCAAAATACC
1 CTC-GATTTACAAAATTACCAAAATACC
74394620 C
1 C
74394621 CTGATTTGTG
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32
Consensus pattern (27 bp):
CTCGATTTACAAAATTACCAAAATACC
Found at i:74394620 original size:81 final size:81
Alignment explanation
Indices: 74394164--74394629 Score: 331
Period size: 81 Copynumber: 5.8 Consensus size: 81
74394154 AGAATACTTT
* * *
74394164 AGTTTACCAAATTACCAAAATACCCCT-AGTTTGTAACATTACCAAAATACCC-CTGGTTTGTAA
1 AGTTTACAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCTC-GATTTGTAA
74394227 AATTA-TCAAAATACCC-C
64 AATTACT-AAAATACCCTC
** * * **
74394244 TAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCTCGACCTGTAAA
1 -AGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGATTTGTAAA
* *
74394309 ATTATTGAAATACCCTC
65 ATTACTAAAATACCCTC
** ** * * * *
74394326 AACTTGTAAAATTACCAAAGTACCCCTGATTTATAAAATTACCTAAATATCCTCGATTTGTAAAA
1 AGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAA
*
74394391 TTACCAAAATACCCTC
66 TTACTAAAATACCCTC
* * **
74394407 AGTTTGCAAAATTA-CAGAAATA-CCCTCGATTTGTAAAATTACTAAAATACTCCT-G-TAAGAT
1 AGTTTACAAAATTACCA-AAATACCCCT-GATTTGTAAAATTACCAAAATAC-CCTCGATTTG-T
* * ***
74394468 AGAATTACCATTTTACCCTC
62 AAAATTACTAAAATACCCTC
* * * * **** * * * *** **
74394488 AATTTATAGAATTATCGTTTTA-CACTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAA
1 AGTTTACAAAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCTCGATTTGTAAA
* *
74394552 ATTACTGAAATACCCTT
65 ATTACTAAAATACCCTC
* *
74394569 GGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-CTGATTTGT
1 AGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTC-GATTTGT
74394630 GGAATTACCG
Statistics
Matches: 291, Mismatches: 81, Indels: 26
0.73 0.20 0.07
Matches are distributed among these distances:
80 12 0.04
81 267 0.92
82 12 0.04
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (81 bp):
AGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAA
TTACTAAAATACCCTC
Found at i:74394620 original size:135 final size:135
Alignment explanation
Indices: 74394377--74394620 Score: 285
Period size: 135 Copynumber: 1.8 Consensus size: 135
74394367 CCTAAATATC
* * **
74394377 CTCGATTTGTAAAATTACCAAAATACCCTCAGTTTGCAAAATTACAGAAATACCCTCGATTTGTA
1 CTCGATTTATAAAATTACCAAAATACCCTCAGTTTACAAAATTACAGAAATACCCTCGATTTACA
* * * ***
74394442 AAATTACTAAAATACTCCTGTAAGATAGAATTACCATTTTACCCTCAATTTATAGAATTATCGTT
66 AAATTACCAAAATACCCCTGTAAGATAAAATTACCAAAATACCCTCAATTTATAGAATTATCGTT
74394507 TTACA
131 TTACA
* *** * * *
74394512 CTCGATTTATAGAATTACCATTTTACCCTC-GATTTACAAAATTACTGAAATACCCTTGGTTTAC
1 CTCGATTTATAAAATTACCAAAATACCCTCAG-TTTACAAAATTACAGAAATACCCTCGATTTAC
**
74394576 AAAATTACCAAAATACCCCTGGTTTG-TAAAATTACCAAAATACCC
65 AAAATTACCAAAATACCCCT-GTAAGATAAAATTACCAAAATACCC
74394621 CTGATTTGTG
Statistics
Matches: 88, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
134 1 0.01
135 84 0.95
136 3 0.03
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (135 bp):
CTCGATTTATAAAATTACCAAAATACCCTCAGTTTACAAAATTACAGAAATACCCTCGATTTACA
AAATTACCAAAATACCCCTGTAAGATAAAATTACCAAAATACCCTCAATTTATAGAATTATCGTT
TTACA
Found at i:74394621 original size:27 final size:27
Alignment explanation
Indices: 74394549--74394644 Score: 111
Period size: 27 Copynumber: 3.6 Consensus size: 27
74394539 CTCGATTTAC
** * **
74394549 AAAATTACTGAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
74394576 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
74394603 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
** *
74394630 GGAATTACCGAAATA
1 AAAATTACCAAAATA
74394645 TAGGGTAGAA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:74394764 original size:26 final size:27
Alignment explanation
Indices: 74394645--74394766 Score: 174
Period size: 27 Copynumber: 4.6 Consensus size: 27
74394635 TACCGAAATA
*
74394645 TAGGGTAGAATTACCGAAATACCCATG
1 TAGGGTAGAATTACCGAAATACCCCTG
*
74394672 TAGGGTAGAATTACCGAAATACCCCTA
1 TAGGGTAGAATTACCGAAATACCCCTG
74394699 TAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* * *
74394726 TAGGGTAGAATTACTGAGATA-CCTTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* *
74394752 TGGGGTAAAATTACC
1 TAGGGTAGAATTACC
74394767 ATTTTGCCCT
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
26 16 0.19
27 70 0.81
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (27 bp):
TAGGGTAGAATTACCGAAATACCCCTG
Found at i:74395245 original size:22 final size:22
Alignment explanation
Indices: 74395193--74395257 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
74395183 TTAAAGCCTT
* *
74395193 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
74395215 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
74395237 TTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
74395258 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:74395446 original size:27 final size:27
Alignment explanation
Indices: 74395416--74395517 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
74395406 ATTCTGTTAA
*
74395416 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
* *
74395443 GTGGCTATGCCGCAAATATCTG-TTCTG
1 GTGGCTTTGCCAC-AATATCTGTTTCTG
* *
74395470 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
* *
74395497 GTGACTTTGTCACAATATCTG
1 GTGGCTTTGCCACAATATCTG
74395518 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.12
27 49 0.77
28 7 0.11
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
GTGGCTTTGCCACAATATCTGTTTCTG
Found at i:74395692 original size:6 final size:6
Alignment explanation
Indices: 74395677--74395798 Score: 83
Period size: 6 Copynumber: 19.8 Consensus size: 6
74395667 AGTCTGTTAC
* *
74395677 CTGATA CTGATT CTGATT CTG-TT ACCTGATAT -TGATT CTGATT TTGATT
1 CTGATT CTGATT CTGATT CTGATT --CTGAT-T CTGATT CTGATT CTGATT
* * *
74395726 CTG-TT ACCTGATA CTGATT CTAATT CTGATT CTG-TCAC CTGATT CTGATT
1 CTGATT --CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT
*
74395776 CTGATT CTAATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGA-TT CTGAT
74395799 AATGTTTCTT
Statistics
Matches: 93, Mismatches: 10, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
5 7 0.08
6 72 0.77
7 10 0.11
8 3 0.03
9 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:74395725 original size:31 final size:31
Alignment explanation
Indices: 74395678--74395814 Score: 154
Period size: 31 Copynumber: 4.5 Consensus size: 31
74395668 GTCTGTTACC
*
74395678 TGATACTGATTCTGATTCTGTTACCTGATAT
1 TGATTCTGATTCTGATTCTGTTACCTGATAT
* *
74395709 TGATTCTGATTTTGATTCTGTTACCTGATAC
1 TGATTCTGATTCTGATTCTGTTACCTGATAT
* *
74395740 TGATTCTAATTCTGATTCTGTCACCTGAT-T
1 TGATTCTGATTCTGATTCTGTTACCTGATAT
* *
74395770 CTGATTCTGATTCTAATTCTAGTT--CTGATAA
1 -TGATTCTGATTCTGATTCT-GTTACCTGATAT
* *
74395801 TGTTTCTTATTCTG
1 TGATTCTGATTCTG
74395815 TAATGGGTTA
Statistics
Matches: 89, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
30 16 0.18
31 71 0.80
32 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (31 bp):
TGATTCTGATTCTGATTCTGTTACCTGATAT
Found at i:74403106 original size:23 final size:23
Alignment explanation
Indices: 74403080--74403124 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
74403070 CATTTCTACG
74403080 CCTTAAACATCGAGGCAGGTTCA
1 CCTTAAACATCGAGGCAGGTTCA
* * *
74403103 CCTTAATCGTCGAGGTAGGTTC
1 CCTTAAACATCGAGGCAGGTTC
74403125 GTATGATTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (23 bp):
CCTTAAACATCGAGGCAGGTTCA
Found at i:74405955 original size:18 final size:19
Alignment explanation
Indices: 74405934--74405980 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
74405924 TTTGTTTTAA
*
74405934 TTATTTAATTGTTCA-ATT
1 TTATTTAATTGTTAATATT
*
74405952 TTA-TGAATTGTTAATATT
1 TTATTTAATTGTTAATATT
74405970 TTATTCTAATT
1 TTATT-TAATT
74405981 AAATTTCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 9 0.39
18 9 0.39
19 1 0.04
20 4 0.17
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (19 bp):
TTATTTAATTGTTAATATT
Found at i:74421785 original size:40 final size:40
Alignment explanation
Indices: 74421714--74421927 Score: 317
Period size: 40 Copynumber: 5.4 Consensus size: 40
74421704 AAACCAAGTA
* *
74421714 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
74421753 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
74421793 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
74421833 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
74421873 CCTTCGGGACTTAGCCTGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
74421913 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
74421928 TCGGTTACCA
Statistics
Matches: 162, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 15 0.09
40 147 0.91
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:74439110 original size:40 final size:40
Alignment explanation
Indices: 74439039--74439253 Score: 328
Period size: 40 Copynumber: 5.4 Consensus size: 40
74439029 AAACCAAGTA
* *
74439039 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
74439078 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
74439118 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
74439158 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
74439198 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
74439238 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
74439254 GGTTACCATC
Statistics
Matches: 164, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 15 0.09
40 149 0.91
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:74442622 original size:33 final size:34
Alignment explanation
Indices: 74442550--74442622 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
74442540 TCAGTGGCAC
74442550 TATCAGTGTGGACCTTAGCCCATTACAGTAACAA
1 TATCAGTGTGGACCTTAGCCCATTACAGTAACAA
*
74442584 TATCAGTGTGGGCCTTAGCCCAATT-CAGT-ACAA
1 TATCAGTGTGGACCTTAGCCC-ATTACAGTAACAA
74442617 TATCAG
1 TATCAG
74442623 ATATGCAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
33 10 0.27
34 24 0.65
35 3 0.08
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (34 bp):
TATCAGTGTGGACCTTAGCCCATTACAGTAACAA
Found at i:74451822 original size:34 final size:33
Alignment explanation
Indices: 74451750--74451822 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 33
74451740 GTTTGCATCT
*
74451750 CTGATACTGTACTGAATTGGGCTAAGGCCCACA
1 CTGATAATGTACTGAATTGGGCTAAGGCCCACA
* * * *
74451783 TTGATAATGTTACTGTAA-TGGGCTGAGGTCTACA
1 CTGATAATG-TACTG-AATTGGGCTAAGGCCCACA
74451817 CTGATA
1 CTGATA
74451823 TTGCCACTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
33 7 0.22
34 23 0.72
35 2 0.06
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (33 bp):
CTGATAATGTACTGAATTGGGCTAAGGCCCACA
Found at i:74454957 original size:47 final size:45
Alignment explanation
Indices: 74454748--74454971 Score: 193
Period size: 47 Copynumber: 4.8 Consensus size: 45
74454738 TGGGATATAT
* * *
74454748 TGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTCTCATATATGCA
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATCATCTCT--A
* * * *
74454798 TGCTGATGCATGTCCCATACATGTCTTACACTAGCA-CAACTCT-
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTCTA
** * * *
74454841 TAGCCGATGTGTGTCCCAGACACGTCTTACACTAGCTATC-TCTGCCGA
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGC-ATCATCT--CTA
*
74454889 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCTCTA
*
74454935 TGCCGATGCCATGTCCCAGACATGGTCTTCCACTGGC
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC
74454972 TCTAATAATG
Statistics
Matches: 142, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 29 0.20
45 3 0.02
46 15 0.11
47 47 0.33
48 27 0.19
49 13 0.09
50 7 0.05
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.27
Consensus pattern (45 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCATCATCTCTA
Found at i:74454996 original size:94 final size:90
Alignment explanation
Indices: 74454747--74455017 Score: 260
Period size: 94 Copynumber: 2.9 Consensus size: 90
74454737 ATGGGATATA
*
74454747 TTGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTCTCATATATGCATGCT-GATGCATGT
1 TTGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTCT-ATA-ATG--TGGTCGATGCATGT
* *
74454811 CCCATACATGTCTTACACTAGCACAACTC
62 CCCACACATGTCTTACACTGGCACAACTC
** * * *** * *
74454840 TTAGCCGATG-TGTGTCCCAGACA-CGTCTTACACTAGCTATCTCTGCCGAGGCCGATGCATGTC
1 TT-GCCGATGCCATGTCCCAGACATCGTCTTACACTGGC--TCTATAATGTGGTCGATGCATGTC
* *
74454903 CCAGACATGTCTTACACTGGCACTCATCTC
63 CCACACATGTCTTACACTGGCA--CAACTC
* * *
74454933 TATGCCGATGCCATGTCCCAGACATGGTCTTCCACTGGCTCTAATAATGTGGTCGAAGCATGTCC
1 T-TGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTCT-ATAATGTGGTCGATGCATGTCC
*
74454998 TACACATGTCTTACACTGGC
64 CACACATGTCTTACACTGGC
74455018 GCATGAATCA
Statistics
Matches: 141, Mismatches: 27, Indels: 19
0.75 0.14 0.10
Matches are distributed among these distances:
90 1 0.01
91 30 0.21
92 14 0.10
93 30 0.21
94 55 0.39
95 11 0.08
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (90 bp):
TTGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTCTATAATGTGGTCGATGCATGTCCCA
CACATGTCTTACACTGGCACAACTC
Found at i:74459161 original size:80 final size:80
Alignment explanation
Indices: 74459028--74459187 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
74459018 TTGCCTCAAA
*
74459028 TTCAACTCTTTCTGAGTCATTAGATACCTTAAACTCTTGTGATCGGTAAATACTCGACATCTCTC
1 TTCAACTCTTTCTGAGTCATTAGATACCTTAAACTCTTATGATCGGTAAATACTCGACATCTCTC
74459093 ACCATATAAATGATG
66 ACCATATAAATGATG
*
74459108 TTCAACTCTTTCTGAGTCATTAGATACCTTAAACTCTTATGATCGGTAAATACTCGGCATCTCTC
1 TTCAACTCTTTCTGAGTCATTAGATACCTTAAACTCTTATGATCGGTAAATACTCGACATCTCTC
74459173 ACCATATAAATGATG
66 ACCATATAAATGATG
74459188 CCACCAAATC
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (80 bp):
TTCAACTCTTTCTGAGTCATTAGATACCTTAAACTCTTATGATCGGTAAATACTCGACATCTCTC
ACCATATAAATGATG
Found at i:74465652 original size:30 final size:30
Alignment explanation
Indices: 74465617--74465677 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
74465607 TCCTTAACTC
74465617 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
74465647 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
74465677 A
1 A
74465678 GGCTTAGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:74471704 original size:3 final size:3
Alignment explanation
Indices: 74471698--74471751 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
74471688 TAGGTAAAAA
* * **
74471698 AAT AAT -AT AAT AAT AAT -AT AAT AGT AAT AAT AAC AAT GGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
74471744 AAT AAT AA
1 AAT AAT AA
74471752 ATAGTGATAG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 4 0.10
3 37 0.90
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:74471889 original size:3 final size:3
Alignment explanation
Indices: 74471881--74472007 Score: 118
Period size: 3 Copynumber: 43.0 Consensus size: 3
74471871 TAAATAGTAA
* * *
74471881 AAT AAT AAT AAT AAT AAT AAT AGT AAT -TT AAA AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
74471928 AAT AAT AAT AAT AAT AAT AAT AGT AAT AGT GAAT -AT AAAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT AAT AAT
** * *
74471974 CGT AA- AA- AAT AAT AAT AAT AGT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
74472008 GATGGTGAAT
Statistics
Matches: 101, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
2 7 0.07
3 90 0.89
4 4 0.04
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:74475007 original size:40 final size:40
Alignment explanation
Indices: 74474970--74475194 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
74474960 GCTACTCGTT
* *
74474970 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
74475010 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
74475050 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
74475089 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * * *
74475129 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
74475170 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
74475195 CATCATTCGA
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 38 0.24
40 110 0.68
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:74475081 original size:79 final size:79
Alignment explanation
Indices: 74474970--74475194 Score: 301
Period size: 79 Copynumber: 2.8 Consensus size: 79
74474960 GCTACTCGTT
* *
74474970 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
74475035 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* *
74475050 CCAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
74475114 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* * * * * * *
74475129 CAAATGCCTTCGGATCTTAGTCTGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCG
74475193 GA
64 GA
74475195 CATCATTCGA
Statistics
Matches: 128, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
78 1 0.01
79 72 0.56
80 46 0.36
81 9 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TTTAGTAACTCGCA
Found at i:74475178 original size:119 final size:120
Alignment explanation
Indices: 74474970--74475194 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 120
74474960 GCTACTCGTT
*
74474970 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
74475035 ATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* ** *
74475089 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCT
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
74475152 GGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAAC-TAGCACCAAAGCCTTCGGGACTTAGCCCGGA
74475195 CATCATTCGA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
118 3 0.03
119 72 0.78
120 17 0.18
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:74480515 original size:23 final size:22
Alignment explanation
Indices: 74480483--74480525 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
74480473 GAATGACGAT
*
74480483 TTATCGCATTTTTACTGGCATC
1 TTATCGCATTCTTACTGGCATC
*
74480505 TTATCTGCATTCTTATTGGCA
1 TTATC-GCATTCTTACTGGCA
74480526 AAATTTTCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.47
Consensus pattern (22 bp):
TTATCGCATTCTTACTGGCATC
Found at i:74481696 original size:23 final size:23
Alignment explanation
Indices: 74481653--74481697 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
74481643 GAAAAGAGCT
* *
74481653 GAAAAGAAATCTAAAGTCTAAAA
1 GAAAAGAAAACTAAAGACTAAAA
74481676 GAAAAGAAAACTGAAA-ACTAAA
1 GAAAAGAAAACT-AAAGACTAAA
74481698 TTACAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.64, C:0.09, G:0.13, T:0.13
Consensus pattern (23 bp):
GAAAAGAAAACTAAAGACTAAAA
Found at i:74484158 original size:16 final size:15
Alignment explanation
Indices: 74484137--74484170 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
74484127 CATACTTTTC
*
74484137 TCATACATTCATTCAT
1 TCATACAATCA-TCAT
74484153 TCATACAATCATCAT
1 TCATACAATCATCAT
74484168 TCA
1 TCA
74484171 AATTCAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (15 bp):
TCATACAATCATCAT
Found at i:74503928 original size:26 final size:27
Alignment explanation
Indices: 74503879--74503942 Score: 103
Period size: 26 Copynumber: 2.4 Consensus size: 27
74503869 ATTTACTAAA
* *
74503879 ATACCCCTAAGTATGAAAATTACCATT
1 ATACCCCTAGGTATCAAAATTACCATT
74503906 ATACCCCTAGGTA-CAAAATTACCATT
1 ATACCCCTAGGTATCAAAATTACCATT
74503932 ATACCCCTAGG
1 ATACCCCTAGG
74503943 GTTAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 23 0.66
27 12 0.34
ACGTcount: A:0.38, C:0.27, G:0.09, T:0.27
Consensus pattern (27 bp):
ATACCCCTAGGTATCAAAATTACCATT
Found at i:74504095 original size:27 final size:28
Alignment explanation
Indices: 74504057--74504169 Score: 153
Period size: 27 Copynumber: 4.2 Consensus size: 28
74504047 GAGGAAGCGT
74504057 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
74504084 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
74504112 TCTAGTGGCTCTACCAC-AATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
74504139 TCTGGTGACTCTGTCACAAA-ATCTGT-
1 TCTGGTGGCTCTGCCACAAATATCTGTA
74504165 TCTGG
1 TCTGG
74504170 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.07
27 54 0.71
28 17 0.22
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:74504145 original size:55 final size:54
Alignment explanation
Indices: 74504056--74504165 Score: 159
Period size: 55 Copynumber: 2.0 Consensus size: 54
74504046 GGAGGAAGCG
* * *
74504056 TTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTAGTGGCTCTACCACAAATATCTGATCTGGTGACTCTGCCACAAA-ATCTGT
*
74504111 TTCTAGTGGCTCTACCAC-AATATCTGTATCTGGTGACTCTGTCACAAAATCTGT
1 TTCTAGTGGCTCTACCACAAATATCTG-ATCTGGTGACTCTGCCACAAAATCTGT
74504165 T
1 T
74504166 CTGGCAGCCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 15 0.30
55 35 0.70
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.35
Consensus pattern (54 bp):
TTCTAGTGGCTCTACCACAAATATCTGATCTGGTGACTCTGCCACAAAATCTGT
Found at i:74507600 original size:22 final size:23
Alignment explanation
Indices: 74507544--74507600 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 23
74507534 ATCTTCCTGG
*
74507544 CCTTAGCACATTCAAACTGCATA
1 CCTTAGCACATTCAAACTGCACA
* * *
74507567 ACATCGCA-ATTCAAACTGC-CA
1 CCTTAGCACATTCAAACTGCACA
*
74507588 CCTTGGCACATTC
1 CCTTAGCACATTC
74507601 CTAGCATGGT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
21 6 0.23
22 15 0.58
23 5 0.19
ACGTcount: A:0.32, C:0.33, G:0.11, T:0.25
Consensus pattern (23 bp):
CCTTAGCACATTCAAACTGCACA
Found at i:74508460 original size:30 final size:31
Alignment explanation
Indices: 74508424--74508484 Score: 115
Period size: 30 Copynumber: 2.0 Consensus size: 31
74508414 CTTGGTCCGG
74508424 ATGAGTATAGTAGAGTTTCGTC-TGTTCAAA
1 ATGAGTATAGTAGAGTTTCGTCTTGTTCAAA
74508454 ATGAGTATAGTAGAGTTTCGTCTTGTTCAAA
1 ATGAGTATAGTAGAGTTTCGTCTTGTTCAAA
74508485 TGCCAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38
Consensus pattern (31 bp):
ATGAGTATAGTAGAGTTTCGTCTTGTTCAAA
Found at i:74511298 original size:17 final size:18
Alignment explanation
Indices: 74511276--74511309 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
74511266 CTTCATTCCC
74511276 TCATTCATCA-TCCCTCA
1 TCATTCATCATTCCCTCA
74511293 TCATTCATCATTCCCTC
1 TCATTCATCATTCCCTC
74511310 TTCTCTCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.21, C:0.41, G:0.00, T:0.38
Consensus pattern (18 bp):
TCATTCATCATTCCCTCA
Found at i:74512824 original size:22 final size:22
Alignment explanation
Indices: 74512799--74512843 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
74512789 ATTGAATGTA
74512799 CTTAATTTGATAATATATAGAT
1 CTTAATTTGATAATATATAGAT
74512821 CTTAATTTGATAATATATAGAT
1 CTTAATTTGATAATATATAGAT
74512843 C
1 C
74512844 AAGATAAGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (22 bp):
CTTAATTTGATAATATATAGAT
Found at i:74513182 original size:24 final size:24
Alignment explanation
Indices: 74513155--74513244 Score: 96
Period size: 23 Copynumber: 3.8 Consensus size: 24
74513145 CAGCTCTTAA
*
74513155 GAGCTTACTGTTTTTAGCTCGTTG
1 GAGCTTACTGTTTTCAGCTCGTTG
* *
74513179 GAGCTTATTGTTCTCAGCTCGTAT-
1 GAGCTTACTGTTTTCAGCTCGT-TG
* *
74513203 GAGTTTACTG-TTTCAGCTCGTAG
1 GAGCTTACTGTTTTCAGCTCGTTG
*
74513226 GAGCTTACT-ATTTCAGCTC
1 GAGCTTACTGTTTTCAGCTC
74513245 AATAGAGCTT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
23 27 0.49
24 27 0.49
25 1 0.02
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.41
Consensus pattern (24 bp):
GAGCTTACTGTTTTCAGCTCGTTG
Found at i:74513222 original size:23 final size:23
Alignment explanation
Indices: 74513145--74513244 Score: 103
Period size: 24 Copynumber: 4.3 Consensus size: 23
74513135 GGACTCACCA
* *
74513145 CAGCTCTTAAGAGCTTACTGTTTT
1 CAGCTCGTATGAGCTTACTG-TTT
* *
74513169 TAGCTCGT-TGGAGCTTATTGTTCT
1 CAGCTCGTAT-GAGCTTACTGTT-T
*
74513193 CAGCTCGTATGAGTTTACTGTTT
1 CAGCTCGTATGAGCTTACTGTTT
* *
74513216 CAGCTCGTAGGAGCTTACTATTT
1 CAGCTCGTATGAGCTTACTGTTT
74513239 CAGCTC
1 CAGCTC
74513245 AATAGAGCTT
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
23 29 0.46
24 33 0.52
25 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACTGTTT
Found at i:74513252 original size:23 final size:23
Alignment explanation
Indices: 74513145--74513255 Score: 71
Period size: 23 Copynumber: 4.7 Consensus size: 23
74513135 GGACTCACCA
* * *
74513145 CAGCTCTTAAGAGCTTACTGTTTT
1 CAGCTCATAGGAGCTTACT-ATTT
* * * * *
74513169 TAGCTCGTTGGAGCTTATTGTTCT
1 CAGCTCATAGGAGCTTACTATT-T
* * * *
74513193 CAGCTCGTATGAGTTTACTGTTT
1 CAGCTCATAGGAGCTTACTATTT
*
74513216 CAGCTCGTAGGAGCTTACTATTT
1 CAGCTCATAGGAGCTTACTATTT
74513239 CAGCTCAATA-GAGCTTA
1 CAGCTC-ATAGGAGCTTA
74513256 TTGTCCATCA
Statistics
Matches: 70, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
23 36 0.51
24 34 0.49
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (23 bp):
CAGCTCATAGGAGCTTACTATTT
Found at i:74514995 original size:20 final size:21
Alignment explanation
Indices: 74514957--74514996 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
74514947 AGTTTATTTA
74514957 TGTTATAATTGTTGCAAAATG
1 TGTTATAATTGTTGCAAAATG
74514978 TGTT-TAATT-TTGCTAAAAT
1 TGTTATAATTGTTGC-AAAAT
74514997 CTATTTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (21 bp):
TGTTATAATTGTTGCAAAATG
Found at i:74517014 original size:42 final size:43
Alignment explanation
Indices: 74516966--74517059 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 43
74516956 AGATTTACGA
* * * * * *
74516966 GTAAGACCATGTTTGGGACATAGGCATCGTATCT-AATTTCAT
1 GTAAGACCATGTCTAGGACAGAGGCATCGAAACTGAATTACAT
*
74517008 GTAAGACCCTGTCTAGGACAGAGGCATCGAAACTGAATTACAT
1 GTAAGACCATGTCTAGGACAGAGGCATCGAAACTGAATTACAT
74517051 GTAAGACCA
1 GTAAGACCA
74517060 CGTCCAAGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 28 0.65
43 15 0.35
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (43 bp):
GTAAGACCATGTCTAGGACAGAGGCATCGAAACTGAATTACAT
Found at i:74517705 original size:5 final size:5
Alignment explanation
Indices: 74517695--74517723 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
74517685 AACATTATTC
74517695 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
74517724 GAACACACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:74517889 original size:241 final size:241
Alignment explanation
Indices: 74517458--74517950 Score: 963
Period size: 241 Copynumber: 2.1 Consensus size: 241
74517448 TTGTAAAAAT
74517458 AAAT-AAAT-AAATAAAATAAAATAAAGAACACACAAATTTTACGTCGAAACCCTTTCGAAAAAA
1 AAATAAAATAAAATAAAATAAAATAAAGAACACACAAATTTTACGTCGAAACCCTTTCGAAAAAA
74517521 ACCACGGGCAGAGGAGAAGAAAATTCACTATGTCGAAAAATTTGAATTTAATACAAGAGGAATAG
66 ACCACGGGCAGAGGAGAAGAAAATTCACTATGTCGAAAAATTTGAATTTAATACAAGAGGAATAG
74517586 ACTATGTCTATTTATAGGCTTGAAAAGCCATATTCTAGTAGGATTGAAATACCTTATCCTAATTA
131 ACTATGTCTATTTATAGGCTTGAAAAGCCATATTCTAGTAGGATTGAAATACCTTATCCTAATTA
74517651 ATATAAATTAGATGAAGTTTAATAAGGTTTAAAAAACATTATTCTA
196 ATATAAATTAGATGAAGTTTAATAAGGTTTAAAAAACATTATTCTA
74517697 AAATAAAATAAAATAAAATAAAATAAAGAACACACAAATTTTACGTCGAAACCCTTTCGAAAAAA
1 AAATAAAATAAAATAAAATAAAATAAAGAACACACAAATTTTACGTCGAAACCCTTTCGAAAAAA
74517762 ACCACGGGCAGAGGAGAAGAAAATTCACTATGTCGAAAAATTTGAATTTAATACAAGAGGAATAG
66 ACCACGGGCAGAGGAGAAGAAAATTCACTATGTCGAAAAATTTGAATTTAATACAAGAGGAATAG
74517827 ACTATGTCTATTTATAGGCTTGAAAAGCCATATTCTAGTAGGATTGAAATACCTTATCCTAATTA
131 ACTATGTCTATTTATAGGCTTGAAAAGCCATATTCTAGTAGGATTGAAATACCTTATCCTAATTA
*
74517892 ATATAAATTAGATGAAGTTTAATAAGGTTTAAAAAACCTTATTCTA
196 ATATAAATTAGATGAAGTTTAATAAGGTTTAAAAAACATTATTCTA
74517938 AAATAAAATAAAA
1 AAATAAAATAAAA
74517951 AAAGTCTGGT
Statistics
Matches: 251, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
239 4 0.02
240 4 0.02
241 243 0.97
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.28
Consensus pattern (241 bp):
AAATAAAATAAAATAAAATAAAATAAAGAACACACAAATTTTACGTCGAAACCCTTTCGAAAAAA
ACCACGGGCAGAGGAGAAGAAAATTCACTATGTCGAAAAATTTGAATTTAATACAAGAGGAATAG
ACTATGTCTATTTATAGGCTTGAAAAGCCATATTCTAGTAGGATTGAAATACCTTATCCTAATTA
ATATAAATTAGATGAAGTTTAATAAGGTTTAAAAAACATTATTCTA
Found at i:74518382 original size:17 final size:18
Alignment explanation
Indices: 74518360--74518404 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
74518350 ACTACTGCAG
74518360 CTAACTCTAAATC-GTGC
1 CTAACTCTAAATCAGTGC
*
74518377 CTAA--CTAATTCATGTGC
1 CTAACTCTAAATCA-GTGC
74518394 CTAACTCTAAA
1 CTAACTCTAAA
74518405 CCCCCATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
15 6 0.27
17 12 0.55
19 4 0.18
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.31
Consensus pattern (18 bp):
CTAACTCTAAATCAGTGC
Found at i:74518502 original size:20 final size:18
Alignment explanation
Indices: 74518477--74518520 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
74518467 TTATTTAAAA
74518477 TTTTATTTTTCTAAAAATAT
1 TTTTATTTTTC--AAAATAT
74518497 TTTTATTTTTCAAAATAT
1 TTTTATTTTTCAAAATAT
74518515 TATTTA
1 T-TTTA
74518521 CCTATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.35
19 4 0.17
20 11 0.48
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTATTTTTCAAAATAT
Found at i:74518505 original size:19 final size:19
Alignment explanation
Indices: 74518477--74518520 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
74518467 TTATTTAAAA
74518477 TTTTATTTTTCTAAAAATAT
1 TTTTATTTTT-TAAAAATAT
*
74518497 TTTTA-TTTTTCAAAATAT
1 TTTTATTTTTTAAAAATAT
74518515 TATTTA
1 T-TTTA
74518521 CCTATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 9 0.41
19 8 0.36
20 5 0.23
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTATTTTTTAAAAATAT
Found at i:74522643 original size:47 final size:47
Alignment explanation
Indices: 74522565--74522897 Score: 567
Period size: 47 Copynumber: 7.1 Consensus size: 47
74522555 CCCTTCGGGA
* * * * * * *
74522565 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
74522612 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74522659 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
74522706 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74522753 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74522800 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74522847 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74522894 CTTA
1 CTTA
74522898 CTATCATTTC
Statistics
Matches: 271, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 271 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:74526365 original size:40 final size:40
Alignment explanation
Indices: 74526308--74526490 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
74526298 CCAGCATGAT
* *
74526308 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
74526348 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
74526388 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
74526429 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
74526469 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
74526491 CATCATTCGA
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 96 0.81
41 20 0.17
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:74526835 original size:29 final size:29
Alignment explanation
Indices: 74526796--74526874 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
74526786 CTTAATAATC
*
74526796 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
74526826 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
74526855 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
74526875 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:74526917 original size:43 final size:43
Alignment explanation
Indices: 74526856--74526958 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
74526846 TGCATTTCAA
74526856 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
74526899 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
74526942 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
74526959 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:74529087 original size:47 final size:47
Alignment explanation
Indices: 74528970--74529395 Score: 764
Period size: 47 Copynumber: 9.1 Consensus size: 47
74528960 CCCTTCGGGA
* * * * * * *
74528970 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
74529017 C-CGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74529063 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74529110 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74529157 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74529204 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74529251 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74529298 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74529345 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74529392 CTTA
1 CTTA
74529396 CTATCATTTC
Statistics
Matches: 367, Mismatches: 11, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
46 37 0.10
47 330 0.90
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:74532282 original size:35 final size:34
Alignment explanation
Indices: 74532225--74532319 Score: 97
Period size: 35 Copynumber: 2.8 Consensus size: 34
74532215 TGGACATGAA
* *
74532225 ATTA-AACATACAAACAATCACATTT-GGACAAT-
1 ATTATAACATAAAAACAACCACATTTGGGAC-ATC
74532257 ATTATAACATGTAAAAACAACCACATTTGGGACATC
1 ATTATAACA--TAAAAACAACCACATTTGGGACATC
* *
74532293 TTTATAACATACAAACAAACCACATTT
1 ATTATAACATAAAAAC-AACCACATTT
74532320 AATTATTCCA
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
32 4 0.08
33 4 0.08
34 6 0.11
35 27 0.51
36 12 0.23
ACGTcount: A:0.47, C:0.20, G:0.06, T:0.26
Consensus pattern (34 bp):
ATTATAACATAAAAACAACCACATTTGGGACATC
Found at i:74541111 original size:13 final size:13
Alignment explanation
Indices: 74541093--74541123 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
74541083 TTAGCTTGGG
74541093 TAAATTTTGTTTC
1 TAAATTTTGTTTC
*
74541106 TAAATTTTGTTTT
1 TAAATTTTGTTTC
74541119 TAAAT
1 TAAAT
74541124 GAATAAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.61
Consensus pattern (13 bp):
TAAATTTTGTTTC
Found at i:74543404 original size:18 final size:18
Alignment explanation
Indices: 74543381--74543418 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
74543371 ATAAGTGACG
**
74543381 TTTTGAAAGTTAATAACT
1 TTTTGAAAGAGAATAACT
74543399 TTTTGAAAGAGAATAACT
1 TTTTGAAAGAGAATAACT
74543417 TT
1 TT
74543419 GTGATAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.42
Consensus pattern (18 bp):
TTTTGAAAGAGAATAACT
Found at i:74549945 original size:40 final size:40
Alignment explanation
Indices: 74549875--74550092 Score: 368
Period size: 40 Copynumber: 5.5 Consensus size: 40
74549865 AAACCAAGTA
* * *
74549875 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
74549914 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
74549954 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
74549994 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
74550034 CCTTCGGGACTTAGCCCGGATATAGTAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
74550074 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
74550093 TTATCATCCG
Statistics
Matches: 171, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 14 0.08
40 157 0.92
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:74554219 original size:18 final size:18
Alignment explanation
Indices: 74554187--74554221 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
74554177 ATAAGTGACC
**
74554187 TTTTGAAAGTTAATAACA
1 TTTTGAAAGAGAATAACA
74554205 TTTTGAAAGAGAATAAC
1 TTTTGAAAGAGAATAAC
74554222 TTTGTGATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (18 bp):
TTTTGAAAGAGAATAACA
Found at i:74560200 original size:12 final size:12
Alignment explanation
Indices: 74560183--74560209 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
74560173 ATTCCGAAGT
74560183 ATATATATATAC
1 ATATATATATAC
74560195 ATATATATATAC
1 ATATATATATAC
74560207 ATA
1 ATA
74560210 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:74560768 original size:27 final size:28
Alignment explanation
Indices: 74560656--74560781 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
74560646 CATGAGATTG
* * * *
74560656 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
74560685 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
74560713 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
74560741 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
74560768 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
74560782 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.26
28 50 0.54
29 18 0.20
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:74560778 original size:55 final size:57
Alignment explanation
Indices: 74560656--74560781 Score: 193
Period size: 55 Copynumber: 2.2 Consensus size: 57
74560646 CATGAGATTG
* *
74560656 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
* *
74560713 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
*
74560768 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
74560782 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 24 0.38
56 22 0.34
57 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
Found at i:74560792 original size:27 final size:27
Alignment explanation
Indices: 74560684--74560794 Score: 143
Period size: 28 Copynumber: 4.0 Consensus size: 27
74560674 TAAATTGTAC
*
74560684 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
74560712 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
74560740 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
74560767 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGATTATAT
74560794 A
1 A
74560795 CTTTTGAATC
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
27 30 0.38
28 48 0.62
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:74573985 original size:22 final size:22
Alignment explanation
Indices: 74573960--74574013 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
74573950 TTTAATAAAA
74573960 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
74573982 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
*
74574004 ACAATATCTA
1 AAAATATCTA
74574014 TAAATTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:74586931 original size:41 final size:41
Alignment explanation
Indices: 74586886--74586964 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
74586876 AAATAATTTA
* *
74586886 GAATCAATTTAAACAAGAAAAAATTGATTCAAAATAGCAAT
1 GAATCAATTTAAACAACAAAAAATCGATTCAAAATAGCAAT
* * * *
74586927 GAATCGATTTAAACATCAAACAATCGATTCAAAGTAGC
1 GAATCAATTTAAACAACAAAAAATCGATTCAAAATAGC
74586965 TACAACACTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (41 bp):
GAATCAATTTAAACAACAAAAAATCGATTCAAAATAGCAAT
Found at i:74588066 original size:21 final size:20
Alignment explanation
Indices: 74588042--74588080 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
74588032 GGACTAAATT
74588042 GAAATAAATTAAAAATTTTAG
1 GAAA-AAATTAAAAATTTTAG
* *
74588063 GAAAAAGTTGAAAATTTT
1 GAAAAAATTAAAAATTTT
74588081 GAAAACAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (20 bp):
GAAAAAATTAAAAATTTTAG
Found at i:74590411 original size:12 final size:12
Alignment explanation
Indices: 74590366--74590410 Score: 81
Period size: 12 Copynumber: 3.8 Consensus size: 12
74590356 TTCCCTGTAA
74590366 AATAGTAAAAAT
1 AATAGTAAAAAT
74590378 AATAGTAAAAAT
1 AATAGTAAAAAT
*
74590390 AATAGTAAAGAT
1 AATAGTAAAAAT
74590402 AATAGTAAA
1 AATAGTAAA
74590411 GGGGAAGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:74590589 original size:17 final size:18
Alignment explanation
Indices: 74590569--74590603 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
74590559 AAGTGAATTG
74590569 AAATTGC-GAAATTAAAA
1 AAATTGCAGAAATTAAAA
74590586 AAATTGCAGAAATTAAAA
1 AAATTGCAGAAATTAAAA
74590604 TGAGGAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAA
Found at i:74591384 original size:27 final size:26
Alignment explanation
Indices: 74591354--74591416 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
74591344 AGAAAATTAA
74591354 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
74591381 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
74591408 AATATAAAT
1 AATA-AAAT
74591417 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:74591403 original size:15 final size:15
Alignment explanation
Indices: 74591383--74591412 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
74591373 ATAATCCTAA
*
74591383 TAATTATCTTAATAT
1 TAATTATCCTAATAT
74591398 TAATTATCCTAATAT
1 TAATTATCCTAATAT
74591413 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:74595040 original size:20 final size:20
Alignment explanation
Indices: 74594990--74595028 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
74594980 TAGAGTAGAA
*
74594990 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
74595010 ATATCGATACCTTAAGAAA
1 ATATCGATACCTTAAGAAA
74595029 AGTATCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:74596834 original size:31 final size:31
Alignment explanation
Indices: 74596798--74596862 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
74596788 TTCTCTTTTG
74596798 ATTAATTTATCTTTTCATCTTATAAAAAGTA
1 ATTAATTTATCTTTTCATCTTATAAAAAGTA
74596829 ATTAATTTATCTTTTCATCTTATAAAAAGTA
1 ATTAATTTATCTTTTCATCTTATAAAAAGTA
74596860 ATT
1 ATT
74596863 CTAAAAGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.49
Consensus pattern (31 bp):
ATTAATTTATCTTTTCATCTTATAAAAAGTA
Found at i:74601098 original size:19 final size:20
Alignment explanation
Indices: 74601055--74601098 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
74601045 ATGGTTGTGA
74601055 TTTTATAATTTTTTTACAAT
1 TTTTATAATTTTTTTACAAT
*
74601075 GTTTAT-ATTTTTTT-CTAAT
1 TTTTATAATTTTTTTAC-AAT
74601094 TTTTA
1 TTTTA
74601099 ATAAGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.71
20 5 0.24
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTATAATTTTTTTACAAT
Found at i:74601279 original size:4 final size:4
Alignment explanation
Indices: 74601270--74601365 Score: 70
Period size: 4 Copynumber: 24.5 Consensus size: 4
74601260 ATCAAAGGGG
* * * *
74601270 GAGA GAGA GAGG GAGA GAGA GGGA GAGG GAGA GAGA GAG- GA-A GGGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * * *
74601316 GGGA GGGA GGGA GGGA GGGA GAGA GAGA GAGT GAGG GGGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
74601364 GA
1 GA
74601366 AGGGACTTAA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
3 3 0.04
4 74 0.96
ACGTcount: A:0.38, C:0.00, G:0.61, T:0.01
Consensus pattern (4 bp):
GAGA
Found at i:74601285 original size:12 final size:12
Alignment explanation
Indices: 74601268--74601364 Score: 81
Period size: 12 Copynumber: 8.1 Consensus size: 12
74601258 CAATCAAAGG
74601268 GGGAGAGAGAGA
1 GGGAGAGAGAGA
74601280 -GG-GAGAGAGA
1 GGGAGAGAGAGA
*
74601290 GGGAGAGGGAGA
1 GGGAGAGAGAGA
* *
74601302 GAGAGAGGAAGGGA
1 GGGAGA-G-AGAGA
* *
74601316 GGGAGGGAGGGA
1 GGGAGAGAGAGA
*
74601328 GGGAGGGAGAGA
1 GGGAGAGAGAGA
* * *
74601340 GAGAGAGTGAGG
1 GGGAGAGAGAGA
74601352 GGGAGAGAGAGA
1 GGGAGAGAGAGA
74601364 G
1 G
74601365 AAGGGACTTA
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
10 8 0.12
11 4 0.06
12 46 0.69
13 2 0.03
14 7 0.10
ACGTcount: A:0.36, C:0.00, G:0.63, T:0.01
Consensus pattern (12 bp):
GGGAGAGAGAGA
Found at i:74601295 original size:16 final size:16
Alignment explanation
Indices: 74601270--74601362 Score: 87
Period size: 16 Copynumber: 6.3 Consensus size: 16
74601260 ATCAAAGGGG
*
74601270 GAGAGAGAGAGGGAGA
1 GAGAGGGAGAGGGAGA
74601286 GAGAGGGAGAGGGAGA
1 GAGAGGGAGAGGGAGA
74601302 GAGAGAGGA-AGGGAG-
1 GAGAG-GGAGAGGGAGA
74601317 G-GA-GG-GAGGGAG-
1 GAGAGGGAGAGGGAGA
74601329 G-GAGGGAGA--GAGA
1 GAGAGGGAGAGGGAGA
* *
74601342 GAGAGTGAGGGGGAGA
1 GAGAGGGAGAGGGAGA
74601358 GAGAG
1 GAGAG
74601363 AGAAGGGACT
Statistics
Matches: 66, Mismatches: 3, Indels: 16
0.78 0.04 0.19
Matches are distributed among these distances:
12 14 0.21
13 3 0.05
14 10 0.15
15 1 0.02
16 35 0.53
17 3 0.05
ACGTcount: A:0.37, C:0.00, G:0.62, T:0.01
Consensus pattern (16 bp):
GAGAGGGAGAGGGAGA
Found at i:74603530 original size:9 final size:9
Alignment explanation
Indices: 74603516--74603544 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
74603506 TGTGAGTTTT
74603516 TAATTGTAA
1 TAATTGTAA
74603525 TAATTGTAA
1 TAATTGTAA
74603534 TAATTGTAA
1 TAATTGTAA
74603543 TA
1 TA
74603545 TATTTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (9 bp):
TAATTGTAA
Found at i:74605884 original size:24 final size:22
Alignment explanation
Indices: 74605849--74605892 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 22
74605839 TTGAGGGTTA
74605849 GGGGAGTAAAATTTGGGGGGAAGG
1 GGGGAGTAAAA--TGGGGGGAAGG
74605873 GGGGAAGT-AAATGGGGGGAA
1 GGGG-AGTAAAATGGGGGGAA
74605893 AATATATTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 9 0.47
24 7 0.37
25 3 0.16
ACGTcount: A:0.32, C:0.00, G:0.55, T:0.14
Consensus pattern (22 bp):
GGGGAGTAAAATGGGGGGAAGG
Found at i:74605937 original size:41 final size:41
Alignment explanation
Indices: 74605891--74605974 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
74605881 AAATGGGGGG
74605891 AAAATATATTGGGGTGAAGTAAATGTAAAATATTATAGTTT
1 AAAATATATTGGGGTGAAGTAAATGTAAAATATTATAGTTT
74605932 AAAATATATTGGGGTGAAGTAAATGTAAAATATTATAGTTT
1 AAAATATATTGGGGTGAAGTAAATGTAAAATATTATAGTTT
74605973 AA
1 AA
74605975 TATTCAGTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (41 bp):
AAAATATATTGGGGTGAAGTAAATGTAAAATATTATAGTTT
Found at i:74612302 original size:39 final size:37
Alignment explanation
Indices: 74612231--74612328 Score: 108
Period size: 37 Copynumber: 2.6 Consensus size: 37
74612221 CAAGATTGCT
* * *
74612231 AATATTATTATAAAAATTGTAAACAAATTAATAATATAAA
1 AATATT-TTATAAAATTTATAAACAAAATAAT-AT-TAAA
74612271 AATATTTTATAAAATTTATAATA-AAAATAATATTAAA
1 AATATTTTATAAAATTTATAA-ACAAAATAATATTAAA
**
74612308 AATATTTTATATTATTTATAA
1 AATATTTTATAAAATTTATAA
74612329 GTTTTAGTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
37 23 0.44
38 2 0.04
39 20 0.38
40 7 0.13
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (37 bp):
AATATTTTATAAAATTTATAAACAAAATAATATTAAA
Found at i:74612372 original size:29 final size:29
Alignment explanation
Indices: 74612340--74612399 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
74612330 TTTTAGTAAA
*
74612340 TTTTAAAAA-AATTACACTATTTTCATAAT
1 TTTTAAAAACAATTA-AATATTTTCATAAT
* *
74612369 TTTTAAAAACTATTAAATATTTTTATAAT
1 TTTTAAAAACAATTAAATATTTTCATAAT
74612398 TT
1 TT
74612400 AATAAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (29 bp):
TTTTAAAAACAATTAAATATTTTCATAAT
Found at i:74614005 original size:17 final size:17
Alignment explanation
Indices: 74613983--74614015 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
74613973 TGTTTTGATT
74613983 AATAAA-ATTTTCAATTC
1 AATAAATATTTT-AATTC
74614000 AATAAATATTTTAATT
1 AATAAATATTTTAATT
74614016 TGTTAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (17 bp):
AATAAATATTTTAATTC
Found at i:74618362 original size:22 final size:22
Alignment explanation
Indices: 74618337--74618388 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
74618327 AGTCATTTGT
*
74618337 AAAGGGAAGAAGAAAAAAAAAG
1 AAAGAGAAGAAGAAAAAAAAAG
* * *
74618359 AAAGAGAGGAAGAGAGAAAAAG
1 AAAGAGAAGAAGAAAAAAAAAG
74618381 --AGAGAAGA
1 AAAGAGAAGA
74618389 GGGAGAGGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 7 0.28
22 18 0.72
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (22 bp):
AAAGAGAAGAAGAAAAAAAAAG
Found at i:74618389 original size:23 final size:22
Alignment explanation
Indices: 74618353--74618395 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
74618343 AAGAAGAAAA
74618353 AAAAAGAAAGAGAGGAAGAGAG
1 AAAAAGAAAGAGAGGAAGAGAG
* *
74618375 AAAAAGAGAGAAGAGGGAGAG
1 AAAAAGAAAG-AGAGGAAGAG
74618396 GGGAAGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAGAGAGGAAGAGAG
Found at i:74619831 original size:14 final size:14
Alignment explanation
Indices: 74619798--74619831 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
74619788 GAGTTGATTT
74619798 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
74619812 TT-AAAAACAGAAA
1 TTGAAAAACAGAAA
74619825 TTGAAAA
1 TTGAAAA
74619832 TACCTTGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:74619861 original size:88 final size:88
Alignment explanation
Indices: 74619676--74619920 Score: 334
Period size: 88 Copynumber: 2.8 Consensus size: 88
74619666 CAGAAATTAA
*
74619676 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACATG-AATT-AAAACAGAAAT
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACA-GAAATTAAAAACAGAAAT
* * *
74619738 CGGAAATACCTCAGCATGTGAGCC
65 TGAAAATACCTCAGCATGCGAGCC
*
74619762 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAACAGAAATT
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAACAGAAATT
**
74619827 GAAAATACCTTGGCATGCGAGCC
66 GAAAATACCTCAGCATGCGAGCC
* ** * **
74619850 AAGGCTCAACTCACTTCTTGCAATATGAGTTGAGTTTTTGAAAAGTAAAAATTAAAAACAGAGTT
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAACAGAAAT
74619915 TGAAAA
65 TGAAAA
74619921 ACAGAATTTG
Statistics
Matches: 141, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
86 38 0.27
87 10 0.07
88 61 0.43
89 32 0.23
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (88 bp):
AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAACAGAAATT
GAAAATACCTCAGCATGCGAGCC
Found at i:74619920 original size:14 final size:14
Alignment explanation
Indices: 74619903--74619934 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
74619893 AGTAAAAATT
*
74619903 AAAAACAGAGTTTG
1 AAAAACAGAATTTG
74619917 AAAAACAGAATTTG
1 AAAAACAGAATTTG
74619931 AAAA
1 AAAA
74619935 TACCTCAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.16, T:0.19
Consensus pattern (14 bp):
AAAAACAGAATTTG
Found at i:74620008 original size:14 final size:14
Alignment explanation
Indices: 74619989--74620019 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
74619979 GAGTTGATTT
74619989 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
74620003 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
74620017 TTG
1 TTG
74620020 GGATTACCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:74620062 original size:87 final size:87
Alignment explanation
Indices: 74619914--74620446 Score: 489
Period size: 89 Copynumber: 6.1 Consensus size: 87
74619904 AAAACAGAGT
* * * *
74619914 TTGAAAAACAGAATTTGAAAATACCTCAGCATGTGACCTGAGGCTTAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
74619979 GAGTTGATTTTTGAAAAGCAGAAA
64 GAGTTGATTTTTGAAAAGCAGAAA
* ** *
74620003 TTGAAAAGCAGAAATTGGGATTACCTCAGCGTG-CCACGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCC-CGAGGCTCAACTCACCTCTCGCAATATG
** * *
74620067 AGTTGATTTTTGAAAAATATAGA
65 AGTTGATTTTTGAAAAGCAGAAA
* * *
74620090 TTAAAAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATAT
1 TT--GAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
74620155 GA---G----TTGAAAA-CAGACA
64 GAGTTGATTTTTGAAAAGCAGAAA
* * * ** *
74620171 TT-AAAAAC-GAAAATTGAAAGTAGCTCAACACGTGAGCCAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAG-AAATTGAAAATACCTC-A-GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
*
74620234 TGAGTTGATTTTTTTTTTGAAAAGTAGAAA
63 TGAGTTGA-----TTTTTGAAAAGCAGAAA
* * * * *
74620264 TT--AAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACATTTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
** *
74620327 GAGTTGATTTTTGAAAAATATAAA
64 GAGTTGATTTTTGAAAAGCAGAAA
* * * * * *
74620351 CTGAAAAACGGAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTTGTAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
74620416 GTTGATTTTTTTGAAAAGCAGAAA
66 GTTGA--TTTTTGAAAAGCAGAAA
74620440 TTGAAAA
1 TTGAAAA
74620447 TACCTCAGCA
Statistics
Matches: 360, Mismatches: 57, Indels: 54
0.76 0.12 0.11
Matches are distributed among these distances:
77 1 0.00
78 20 0.06
79 1 0.00
80 31 0.09
81 5 0.01
82 7 0.02
83 1 0.00
86 3 0.01
87 100 0.28
89 120 0.33
90 3 0.01
92 61 0.17
93 7 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (87 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAGCAGAAA
Found at i:74620322 original size:92 final size:92
Alignment explanation
Indices: 74620210--74620427 Score: 254
Period size: 87 Copynumber: 2.4 Consensus size: 92
74620200 ACGTGAGCCA
* * *
74620210 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAGTAGAAA-T-TAAAACAG
1 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTTTGAAAAATAGAAACTGAAAAACAG
* *
74620273 AATTTGAAAATACCTCGGCATGTGACCCG
66 AAATTGAAAATACCTCAG--TGTGACCCG
* * *
74620302 AGGCTCAACTCACATTTCGCAATATGAGTTGA-----TTTTTGAAAAATATAAACTGAAAAACGG
1 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTTTGAAAAATAGAAACTGAAAAACAG
* *
74620362 AAATTGAAAATACCTCAGTGTGTCCTG
66 AAATTGAAAATACCTCAGTGTGACCCG
*
74620389 AGGCTCAACTCACCTCTT-GTAATATGAGTTGATTTTTTT
1 AGGCTCAACTCACCT-TTCGCAATATGAGTTGATTTTTTT
74620428 GAAAAGCAGA
Statistics
Matches: 106, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
87 49 0.46
88 3 0.03
89 22 0.21
92 32 0.30
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (92 bp):
AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTTTGAAAAATAGAAACTGAAAAACAG
AAATTGAAAATACCTCAGTGTGACCCG
Found at i:74620336 original size:348 final size:354
Alignment explanation
Indices: 74619677--74620425 Score: 853
Period size: 348 Copynumber: 2.1 Consensus size: 354
74619667 AGAAATTAAA
*
74619677 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAACAGAAATCGGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAACAGAAATCGAA
* *
74619742 AATACCTCAGCATGTGAGCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAC
66 AATACCTCAGCA-GTGAGCCGAAGCTCAACTCACCTCTCGCAATATGA--TG---TTTGAAAAAC
*** * * *
74619807 AGAAATTAAAAACAGAAATTGAAAATACCTTGGCATGCGAGCCAAGGCTCAACTCACTTCTTGCA
125 AGAAATTAAAAACAGAAATTGAAAATACCTCAACACGCGAGCCAAGGCTCAACTCACCTCTCGCA
*
74619872 ATATGAGTTGAGTTTTTGAAAAGTAAAAATTAAAAACAGAGTTTGAAAAACAGAATTTGAAAATA
190 ATATGAGTTGAGTTTTT-AAAAGTAAAAAGT-AAAACAGAG-TT-AAAAACAGAATTTGAAAATA
* * * *
74619937 CCTCAGCATGTGACCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAA
251 CCTCAGCATGTGACCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAA
* * ** *
74620002 ATTGAAAAGCAGAAATTGGGATTACCTCAGCGTG-CCACG
316 ACTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCC-CG
*
74620041 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ATATAGATTAAAAAAAACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAT-GA-ATT----AAAACAGAA
* *
74620105 ATTGAAAATACCTCAGC-GTG-TCCTGAAGCTCAACTCACCTCTCGCAATATGA-G-TTG-AAAA
60 ATCGAAAATACCTCAGCAGTGAGCC-GAAGCTCAACTCACCTCTCGCAATATGATGTTTGAAAAA
* * * *
74620165 CAGACATTAAAAAC-GAAAATTGAAAGTAGCTCAACACGTGAGCCAAGGCTCAACTCACCTCTCG
124 CAGAAATTAAAAACAG-AAATTGAAAATACCTCAACACGCGAGCCAAGGCTCAACTCACCTCTCG
**** * *
74620229 CAATATGAGTTGA-TTTTT-TTTTTGAAAAGT-AGA-A-A-TT-AAAACAGAATTTGAAAATACC
188 CAATATGAGTTGAGTTTTTAAAAGTAAAAAGTAAAACAGAGTTAAAAACAGAATTTGAAAATACC
* * * *
74620287 TCGGCATGTGACCCGAGGCTCAACTCACATTTCGCAATATGAGTTGATTTTTGAAAAATATAAAC
253 TCAGCATGTGACCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAC
* * *
74620352 TGAAAAACGGAAATTGAAAATACCTCAGTGTGTCCTG
318 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCG
* *
74620389 AGGCTCAACTCACCTCTTGTAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
74620426 TTGAAAAGCA
Statistics
Matches: 335, Mismatches: 41, Indels: 34
0.82 0.10 0.08
Matches are distributed among these distances:
348 139 0.41
349 2 0.01
350 2 0.01
352 1 0.00
353 1 0.00
354 2 0.01
356 6 0.02
358 6 0.02
359 69 0.21
360 3 0.01
363 2 0.01
364 44 0.13
365 3 0.01
366 2 0.01
367 29 0.09
369 24 0.07
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (354 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAACAGAAATCGAA
AATACCTCAGCAGTGAGCCGAAGCTCAACTCACCTCTCGCAATATGATGTTTGAAAAACAGAAAT
TAAAAACAGAAATTGAAAATACCTCAACACGCGAGCCAAGGCTCAACTCACCTCTCGCAATATGA
GTTGAGTTTTTAAAAGTAAAAAGTAAAACAGAGTTAAAAACAGAATTTGAAAATACCTCAGCATG
TGACCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAACTGAAAAAC
AGAAATTGAAAATACCTCAGCGTGTCCCG
Found at i:74620475 original size:75 final size:74
Alignment explanation
Indices: 74620352--74620507 Score: 213
Period size: 75 Copynumber: 2.1 Consensus size: 74
74620342 AAATATAAAC
* ** ** * * *
74620352 TGAAAAACGGAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTTGTAATATGAG
1 TGAAAAACAGAAATTGAAAATACCTCAGCATACCCTGAGGCTCAACTCACCTCTCGCAATATGAA
74620417 TTGATTTTTT
66 TTGA-TTTTT
* *
74620427 TGAAAAGCAGAAATTGAAAATACCTCAGCATACCCTGAGGCTCAACTCACTTCTCGCAATATGAA
1 TGAAAAACAGAAATTGAAAATACCTCAGCATACCCTGAGGCTCAACTCACCTCTCGCAATATGAA
74620492 TTGATTTTT
66 TTGATTTTT
74620501 TGAAAAA
1 TGAAAAA
74620508 TATAAACTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
74 11 0.16
75 59 0.84
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (74 bp):
TGAAAAACAGAAATTGAAAATACCTCAGCATACCCTGAGGCTCAACTCACCTCTCGCAATATGAA
TTGATTTTT
Found at i:74632638 original size:14 final size:16
Alignment explanation
Indices: 74632608--74632644 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
74632598 AAAGTGATAC
74632608 TATGTGCAAATATATA
1 TATGTGCAAATATATA
74632624 TATGTGCAAATATATA
1 TATGTGCAAATATATA
74632640 TATGT
1 TATGT
74632645 ATACATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (16 bp):
TATGTGCAAATATATA
Found at i:74632652 original size:16 final size:16
Alignment explanation
Indices: 74632608--74632655 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
74632598 AAAGTGATAC
*
74632608 TATGTGCAAATATATA
1 TATGTACAAATATATA
*
74632624 TATGTGCAAATATATA
1 TATGTACAAATATATA
* *
74632640 TATGTATACATATATA
1 TATGTACAAATATATA
74632656 ATTAATGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (16 bp):
TATGTACAAATATATA
Found at i:74635318 original size:22 final size:20
Alignment explanation
Indices: 74635283--74635329 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
74635273 GGAAGAGAAT
74635283 GGAAAATAAAGAACAAAAAA
1 GGAAAATAAAGAACAAAAAA
*
74635303 GGAAAATTAAAAGAACATAAAA
1 GGAAAA-T-AAAGAACAAAAAA
74635325 -GAAAA
1 GGAAAA
74635330 AGATTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 6 0.25
22 12 0.50
ACGTcount: A:0.72, C:0.04, G:0.15, T:0.09
Consensus pattern (20 bp):
GGAAAATAAAGAACAAAAAA
Found at i:74638996 original size:29 final size:29
Alignment explanation
Indices: 74638954--74639014 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
74638944 CTCGACTGTG
*
74638954 GTTATTTGCACTGTTTTGGTGCAGTTGAA
1 GTTATTTGCACTGTTTTGGTGCAGGTGAA
74638983 GTTATTTGCACTGTTTTGGTGCAGGTGAA
1 GTTATTTGCACTGTTTTGGTGCAGGTGAA
74639012 GTT
1 GTT
74639015 GGTCATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.16, C:0.10, G:0.30, T:0.44
Consensus pattern (29 bp):
GTTATTTGCACTGTTTTGGTGCAGGTGAA
Found at i:74645702 original size:40 final size:38
Alignment explanation
Indices: 74645655--74645761 Score: 151
Period size: 40 Copynumber: 2.7 Consensus size: 38
74645645 CACTAGCTCA
* *
74645655 AAGCCTGCGGAACTTTAAGCCCGGATATAGTACCAGCACT
1 AAGCCTGCGGGA-TTTAA-CCCGGATATAGTACCAGCACG
*
74645695 AAGCCTGCGGGATTTAACCCGGATAAATATTACCAGCACG
1 AAGCCTGCGGGATTTAACCCGGAT--ATAGTACCAGCACG
74645735 AAGCCTGCGGGATTTAACCCGGATATA
1 AAGCCTGCGGGATTTAACCCGGATATA
74645762 TAATATATCA
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
38 10 0.16
39 5 0.08
40 47 0.76
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (38 bp):
AAGCCTGCGGGATTTAACCCGGATATAGTACCAGCACG
Found at i:74646819 original size:17 final size:18
Alignment explanation
Indices: 74646797--74646830 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
74646787 AGTCGAATTG
74646797 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
74646814 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
74646831 ATGGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:74647571 original size:10 final size:10
Alignment explanation
Indices: 74647552--74647591 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
74647542 TTAAATTCTA
74647552 AAAGATAAAT
1 AAAGATAAAT
74647562 ACAA-ATAAAT
1 A-AAGATAAAT
74647572 AAAGATAAAT
1 AAAGATAAAT
*
74647582 GAAGATAAAT
1 AAAGATAAAT
74647592 GAAAAAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 2 0.07
10 23 0.85
11 2 0.07
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:74648423 original size:96 final size:97
Alignment explanation
Indices: 74648257--74648440 Score: 289
Period size: 96 Copynumber: 1.9 Consensus size: 97
74648247 TTTTAATTTA
* * **
74648257 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATAACAGCCAAACACCCCA
1 TTTATTTTTACTTAAGAACATAACGAACCTTTTGACGCGAAGAGAGATAACAGCCAAACACCCCA
74648322 ACCCGGTTACTCAGCCCAACACACTCCTAATT
66 ACCCGGTTACTCAGCCCAACACACTCCTAATT
* * *
74648354 TTTATTTTT-CTTAAGAACATAACGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCTCA
1 TTTATTTTTACTTAAGAACATAACGAACCTTTTGACGCGAAGAGAGATAACAGCCAAACACCCCA
*
74648418 CCCCGGTTACTCAGCCCAACACA
66 ACCCGGTTACTCAGCCCAACACA
74648441 TTCTTAAAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 70 0.89
97 9 0.11
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATAACGAACCTTTTGACGCGAAGAGAGATAACAGCCAAACACCCCA
ACCCGGTTACTCAGCCCAACACACTCCTAATT
Found at i:74649201 original size:5 final size:5
Alignment explanation
Indices: 74649191--74649274 Score: 102
Period size: 5 Copynumber: 16.8 Consensus size: 5
74649181 AACATCCAAA
*
74649191 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA- ATAAT AAATAGT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-A-T AAAAT
*
74649242 -AAAT AAAAT AAAAT AAAAT -TAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
74649275 AAATTGGGTT
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
4 10 0.14
5 50 0.72
6 5 0.07
7 4 0.06
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:74657786 original size:16 final size:17
Alignment explanation
Indices: 74657755--74657787 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
74657745 TTCATAAGTA
74657755 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
74657772 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
74657788 GCTCCACCAT
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:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:74658137 original size:46 final size:46
Alignment explanation
Indices: 74658084--74658341 Score: 349
Period size: 46 Copynumber: 5.6 Consensus size: 46
74658074 TGTCATAGTG
* *
74658084 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCGTGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATGGTA
* * * *
74658130 CCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCTTGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* * *
74658176 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGCTGCCATGGCA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* **
74658222 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* * *
74658268 TCTTTCAACCATGGTCGTACACATTTCATAT-ATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
*
74658313 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACTCATTTCAT
74658342 TTTAGAAAGC
Statistics
Matches: 190, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
45 46 0.24
46 144 0.76
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
Found at i:74660975 original size:19 final size:19
Alignment explanation
Indices: 74660950--74660992 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
74660940 CTTATCTTTG
74660950 GAACTCACTAAGTACATTT
1 GAACTCACTAAGTACATTT
*
74660969 TAACTCACTAAGTACATTT
1 GAACTCACTAAGTACATTT
74660988 GAACT
1 GAACT
74660993 TACTCTGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (19 bp):
GAACTCACTAAGTACATTT
Found at i:74663221 original size:19 final size:19
Alignment explanation
Indices: 74663197--74663233 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
74663187 GCAAAACATC
74663197 AAAGACATACAAATAGTTA
1 AAAGACATACAAATAGTTA
74663216 AAAGACATACAAATAGTT
1 AAAGACATACAAATAGTT
74663234 CAATCCTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.22
Consensus pattern (19 bp):
AAAGACATACAAATAGTTA
Found at i:74668326 original size:10 final size:10
Alignment explanation
Indices: 74668313--74668346 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
74668303 AAAAATACAT
74668313 AAATATTTTA
1 AAATATTTTA
74668323 AAATATTTTA
1 AAATATTTTA
*
74668333 AATATATATTA
1 AA-ATATTTTA
74668344 AAA
1 AAA
74668347 GTTTTTACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AAATATTTTA
Done.