Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 182 of 343
Found at i:60564810 original size:21 final size:22
Alignment explanation
Indices: 60564773--60564815 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
60564763 CGGCTCGCCC
*
60564773 TTATTAATTTTTTATAT-TATA
1 TTATTAATTTTTAATATATATA
60564794 TTATT-ATTTTTAAATATATATA
1 TTATTAATTTTT-AATATATATA
60564816 GTACATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATTAATTTTTAATATATATA
Found at i:60565713 original size:16 final size:17
Alignment explanation
Indices: 60565689--60565722 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
60565679 TAAAATTTTA
60565689 AAATAATAAAATAATAT
1 AAATAATAAAATAATAT
*
60565706 AAAT-ATAATATAATAT
1 AAATAATAAAATAATAT
60565722 A
1 A
60565723 TTATAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATAATAAAATAATAT
Found at i:60570170 original size:18 final size:18
Alignment explanation
Indices: 60570135--60570192 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
60570125 TTTTTTACTT
60570135 AAATTTT-TTTTAAGTTTTA
1 AAATTTTATTTT-A-TTTTA
60570154 AAATATTTA-TTTATTTT-
1 AAAT-TTTATTTTATTTTA
60570171 AAATTTTATTTTTATTTTA
1 AAATTTTA-TTTTATTTTA
60570190 AAA
1 AAA
60570193 CCCAACCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
16 4 0.12
17 4 0.12
18 12 0.35
19 8 0.24
20 6 0.18
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
AAATTTTATTTTATTTTA
Found at i:60574066 original size:30 final size:30
Alignment explanation
Indices: 60574032--60574094 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
60574022 ACTTAACAAG
60574032 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
60574062 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
60574092 CAA
1 CAA
60574095 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:60578260 original size:93 final size:93
Alignment explanation
Indices: 60578147--60578317 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
60578137 GCCCATAAGT
* *
60578147 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
60578212 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
60578240 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
*
60578305 CGAGTTCGGATGC
66 CGAGCTCGGATGC
60578318 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:60578314 original size:46 final size:46
Alignment explanation
Indices: 60578139--60578314 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
60578129 TGTAACCCGC
* *
60578139 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
60578185 CCATAAGTAAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
60578231 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
60578278 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
60578315 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 31 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:60600731 original size:131 final size:131
Alignment explanation
Indices: 60600511--60600759 Score: 311
Period size: 131 Copynumber: 1.9 Consensus size: 131
60600501 AGGTGATATT
* * * * **
60600511 CGATACTTGGTAATTCGTGGAATCGTGCCTTAACGTGTTGGGTTGCAATTTATCGGTTGCTCAAA
1 CGATACTTGGCAATTCGCGGAATAGTGCCCTAACGTACTGGGTTGCAATTTATCGGTTGCTCAAA
* * * * * * *
60600576 GTAATCGAAGGTCCCTTTAGAATTTCACCCATGTCTTTTAAAAATCCCTTAAACGAAGGCAATGT
66 ATAATCAAAGATCCCTTCAAAATTTCACCCATATCTTCTAAAAATCCCTTAAACGAAGGCAATGT
60600641 G
131 G
* * *
60600642 CGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTACTGGGTTGCAATTTCTC-GTCTGCTTAA
1 CGATACTTGGCAATTCGCGGAATAGTGCCCTAACGTACTGGGTTGCAATTTATCGGT-TGCTCAA
* * *
60600706 AATAATCAAATATCCCTTCAAAATTTCACTCATATCTTCTAAAAATCCTTTAAA
65 AATAATCAAAGATCCCTTCAAAATTTCACCCATATCTTCTAAAAATCCCTTAAA
60600760 ACGAGGGAAA
Statistics
Matches: 98, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
130 2 0.02
131 96 0.98
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (131 bp):
CGATACTTGGCAATTCGCGGAATAGTGCCCTAACGTACTGGGTTGCAATTTATCGGTTGCTCAAA
ATAATCAAAGATCCCTTCAAAATTTCACCCATATCTTCTAAAAATCCCTTAAACGAAGGCAATGT
G
Found at i:60600795 original size:131 final size:130
Alignment explanation
Indices: 60600522--60600829 Score: 307
Period size: 131 Copynumber: 2.4 Consensus size: 130
60600512 GATACTTGGT
* * * * * * * *
60600522 AATTCGTGGAATCGTGCCTTAACGTGTTGGGTTGCAATTTATCGGTTGCTCAAAGTAATCGAAGG
1 AATTCGCGGAATAGTGCCCTAACGTGCTGGGTTGCAATTTCTC-GTTGCTCAAAATAATCAAAGA
* * * * * * **
60600587 TCCCTTTAGAATTTCACCCATGTCTTTTAAAAATCCCTTAAACGAAGGCAATGTGCGATATTTGG
65 TCCCTTCAAAATTTCACCCATATCTTCTAAAAATCCCTTAAACGAAGGAAATCTGCGATATTTAA
60600652 C
130 C
* * *
60600653 AATTCGCGGAATAGTGCCCTAACGTACTGGGTTGCAATTTCTCGTCTGCTTAAAATAATCAAATA
1 AATTCGCGGAATAGTGCCCTAACGTGCTGGGTTGCAATTTCTCGT-TGCTCAAAATAATCAAAGA
* * * * *
60600718 TCCCTTCAAAATTTCACTCATATCTTCTAAAAATCCTTTAAAACGAGGGAAATACT-CGGTGTTT
65 TCCCTTCAAAATTTCACCCATATCTTCTAAAAATCCCTT-AAACGAAGGAAAT-CTGCGATATTT
60600782 AAC
128 AAC
* **
60600785 AATTCG-GGAATCA-TGCCCTATCGTGCTGGGTTGTGATTTCTCGTT
1 AATTCGCGGAAT-AGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTT
60600830 TATTCAAAAC
Statistics
Matches: 145, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
130 3 0.02
131 116 0.80
132 25 0.17
133 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (130 bp):
AATTCGCGGAATAGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTGCTCAAAATAATCAAAGAT
CCCTTCAAAATTTCACCCATATCTTCTAAAAATCCCTTAAACGAAGGAAATCTGCGATATTTAAC
Found at i:60605648 original size:22 final size:22
Alignment explanation
Indices: 60605622--60605676 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
60605612 ACTTGTCGCG
*
60605622 TCGTCGGGATGACAGGTTCTTC
1 TCGTCGGGACGACAGGTTCTTC
60605644 TCGTCGGGACGACAGGTTCTTC
1 TCGTCGGGACGACAGGTTCTTC
60605666 TCGTCGGGACG
1 TCGTCGGGACG
60605677 TCGTGTGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.13, C:0.25, G:0.35, T:0.27
Consensus pattern (22 bp):
TCGTCGGGACGACAGGTTCTTC
Found at i:60607071 original size:24 final size:23
Alignment explanation
Indices: 60607026--60607078 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
60607016 TTATTAATAA
60607026 TAAATA-TTATTGAAAATATTAT
1 TAAATATTTATTGAAAATATTAT
60607048 TAAATATTTAATTG-AAATACTTAT
1 TAAATATTT-ATTGAAAATA-TTAT
60607072 TAAATAT
1 TAAATAT
60607079 AAAAAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.21
23 7 0.25
24 15 0.54
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (23 bp):
TAAATATTTATTGAAAATATTAT
Found at i:60609759 original size:13 final size:14
Alignment explanation
Indices: 60609741--60609769 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60609731 CTAAAAATTT
60609741 AAAAAT-ATTTTTA
1 AAAAATCATTTTTA
60609754 AAAAATCATTTTTA
1 AAAAATCATTTTTA
60609768 AA
1 AA
60609770 CTTGTATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAAATCATTTTTA
Found at i:60614467 original size:18 final size:18
Alignment explanation
Indices: 60614444--60614479 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
60614434 TAACATATAA
*
60614444 AAGTATATTATACATACC
1 AAGTATATAATACATACC
60614462 AAGTATATAATACATACC
1 AAGTATATAATACATACC
60614480 TGACCAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.31
Consensus pattern (18 bp):
AAGTATATAATACATACC
Found at i:60614654 original size:40 final size:39
Alignment explanation
Indices: 60614604--60614732 Score: 197
Period size: 39 Copynumber: 3.3 Consensus size: 39
60614594 TCACCACCAG
*
60614604 AAAGCATGCGGGACTTTAAGCCCGGATATAATACCAGCAT
1 AAAGCCTGCGGGACTTT-AGCCCGGATATAATACCAGCAT
* *
60614644 AAAGCCTGCGGGACTTTAGCCCGGATATAACACCAGCAC
1 AAAGCCTGCGGGACTTTAGCCCGGATATAATACCAGCAT
*
60614683 AAATGCCTTCGGGAC-TTAGCCCGGATATAATACCAGCAT
1 AAA-GCCTGCGGGACTTTAGCCCGGATATAATACCAGCAT
60614722 AAAGCCTGCGG
1 AAAGCCTGCGG
60614733 ACCTCATGTC
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
38 7 0.09
39 48 0.59
40 26 0.32
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (39 bp):
AAAGCCTGCGGGACTTTAGCCCGGATATAATACCAGCAT
Found at i:60614746 original size:39 final size:39
Alignment explanation
Indices: 60614604--60614750 Score: 181
Period size: 39 Copynumber: 3.7 Consensus size: 39
60614594 TCACCACCAG
* *
60614604 AAAGCATGCGGGACTTTAAGCCCGGATATAATACCAGCAT
1 AAAGCCTGCGGGACCTT-AGCCCGGATATAATACCAGCAT
* * *
60614644 AAAGCCTGCGGGACTTTAGCCCGGATATAACACCAGCAC
1 AAAGCCTGCGGGACCTTAGCCCGGATATAATACCAGCAT
*
60614683 AAATGCCTTCGGGA-CTTAGCCCGGATATAATACCAGCAT
1 AAA-GCCTGCGGGACCTTAGCCCGGATATAATACCAGCAT
* *
60614722 AAAGCCTGC-GGACCTCATGTCCGGATATA
1 AAAGCCTGCGGGACCTTA-GCCCGGATATA
60614751 TTTCTAGTCT
Statistics
Matches: 94, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
37 3 0.03
38 8 0.09
39 58 0.62
40 25 0.27
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (39 bp):
AAAGCCTGCGGGACCTTAGCCCGGATATAATACCAGCAT
Found at i:60618405 original size:17 final size:17
Alignment explanation
Indices: 60618383--60618419 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
60618373 GTATCAAATG
60618383 TACCAATATAGTTAACT
1 TACCAATATAGTTAACT
60618400 TACCAATATAGTTAACT
1 TACCAATATAGTTAACT
60618417 TAC
1 TAC
60618420 ATAACATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.35
Consensus pattern (17 bp):
TACCAATATAGTTAACT
Found at i:60626689 original size:22 final size:20
Alignment explanation
Indices: 60626638--60626678 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
60626628 TGTTCTTAGG
*
60626638 TCACACGGGCGTGTGCCTCC
1 TCACACGGGCATGTGCCTCC
60626658 TCACACGGGCATGTGCCTCC
1 TCACACGGGCATGTGCCTCC
60626678 T
1 T
60626679 TTCACATGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.39, G:0.27, T:0.22
Consensus pattern (20 bp):
TCACACGGGCATGTGCCTCC
Found at i:60630325 original size:7 final size:8
Alignment explanation
Indices: 60630300--60630338 Score: 71
Period size: 8 Copynumber: 5.0 Consensus size: 8
60630290 ATGATAAGAG
60630300 AAATATAA
1 AAATATAA
60630308 AAATATAA
1 AAATATAA
60630316 AAATATAA
1 AAATATAA
60630324 AAATAT-A
1 AAATATAA
60630331 AAATATAA
1 AAATATAA
60630339 GATAATTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 7 0.23
8 23 0.77
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAATATAA
Found at i:60633287 original size:27 final size:26
Alignment explanation
Indices: 60633259--60633527 Score: 168
Period size: 27 Copynumber: 10.0 Consensus size: 26
60633249 ATTTTACCCT
*
60633259 ACAGGGGTATTTCAGTAATTTTACACT
1 ACAGGGGTATTTCAGTAATTTTACA-A
* * * *
60633286 ACAAGGGTAATCCGGTAATTTTACAA
1 ACAGGGGTATTTCAGTAATTTTACAA
* *
60633312 ACTGGGGGTATTTC-GATAATTTTATAGA
1 AC-AGGGGTATTTCAG-TAATTTTACA-A
*** * * *
60633340 TTGGGGGTATTTTTA-TAATTTCAAAA
1 ACAGGGGTA-TTTCAGTAATTTTACAA
** *
60633366 ATTGAGGGTATTTTAGTAATTTTACAA
1 ACAG-GGGTATTTCAGTAATTTTACAA
* *
60633393 ATCGGGGGTATTTCAGAAATTTTACAA
1 A-CAGGGGTATTTCAGTAATTTTACAA
* *
60633420 ATCGGGGGTATTTCAATAATTTTACAA
1 A-CAGGGGTATTTCAGTAATTTTACAA
**
60633447 ATTGAGGGTATTTCAGTAATTTTACAAA
1 ACAG-GGGTATTTCAGTAATTTTAC-AA
* *
60633475 ATAGGGGTATTTC-GATAATCTTACAA
1 ACAGGGGTATTTCAG-TAATTTTACAA
* *
60633501 ATTA-GGGTATTTCAGTAATTTTTCAA
1 A-CAGGGGTATTTCAGTAATTTTACAA
60633527 A
1 A
60633528 TCGGGGGTCT
Statistics
Matches: 197, Mismatches: 32, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
26 35 0.18
27 152 0.77
28 10 0.05
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.38
Consensus pattern (26 bp):
ACAGGGGTATTTCAGTAATTTTACAA
Found at i:60633348 original size:54 final size:53
Alignment explanation
Indices: 60633300--60633535 Score: 253
Period size: 54 Copynumber: 4.4 Consensus size: 53
60633290 GGGTAATCCG
* * *
60633300 GTAATTTTACAAACTGGGGGTATTTCGATAATTTTATAGATTGGGGGTATTTTTA
1 GTAATTTTACAAA-TGGGGGTATTTCGATAATTTTACAAATTGGGGGTA-TTTCA
* * * * *
60633355 -TAATTTCAAAAATTGAGGGTATTT-TAGTAATTTTACAAATCGGGGGTATTTCA
1 GTAATTTTACAAA-TGGGGGTATTTCGA-TAATTTTACAAATTGGGGGTATTTCA
* * *
60633408 GAAATTTTACAAATCGGGGGTATTTCAATAATTTTACAAATTGAGGGTATTTCA
1 GTAATTTTACAAAT-GGGGGTATTTCGATAATTTTACAAATTGGGGGTATTTCA
* * *
60633462 GTAATTTTACAAAATAGGGGTATTTCGATAATCTTACAAATT-AGGGTATTTCA
1 GTAATTTTAC-AAATGGGGGTATTTCGATAATTTTACAAATTGGGGGTATTTCA
*
60633515 GTAATTTTTCAAATCGGGGGT
1 GTAATTTTACAAAT-GGGGGT
60633536 CTTAACGACC
Statistics
Matches: 153, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
52 4 0.03
53 31 0.20
54 113 0.74
55 5 0.03
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (53 bp):
GTAATTTTACAAATGGGGGTATTTCGATAATTTTACAAATTGGGGGTATTTCA
Found at i:60633385 original size:81 final size:80
Alignment explanation
Indices: 60633300--60633521 Score: 277
Period size: 81 Copynumber: 2.8 Consensus size: 80
60633290 GGGTAATCCG
* * * **
60633300 GTAATTTTACAAACTGGGGGTATTTCGATAATTTTATAGATTGGGGGTATTTTTATAATTTCAAA
1 GTAATTTTACAAA-TGGGGGTATTTCGATAATTTTACAAATCGGGGGTATTTCAATAATTTCAAA
*
60633365 AATTGAGGGTATTTTA
65 AATTGAGGGTATTTCA
* *
60633381 GTAATTTTACAAATCGGGGGTATTTCAGA-AATTTTACAAATCGGGGGTATTTCAATAATTTTAC
1 GTAATTTTACAAAT-GGGGGTATTTC-GATAATTTTACAAATCGGGGGTATTTCAATAATTTCAA
60633445 AAATTGAGGGTATTTCA
64 AAATTGAGGGTATTTCA
* * ** *
60633462 GTAATTTTACAAAATAGGGGTATTTCGATAATCTTACAAAT-TAGGGTATTTCAGTAATTT
1 GTAATTTTAC-AAATGGGGGTATTTCGATAATTTTACAAATCGGGGGTATTTCAATAATTT
60633522 TTCAAATCGG
Statistics
Matches: 124, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
80 19 0.15
81 99 0.80
82 6 0.05
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (80 bp):
GTAATTTTACAAATGGGGGTATTTCGATAATTTTACAAATCGGGGGTATTTCAATAATTTCAAAA
ATTGAGGGTATTTCA
Found at i:60643321 original size:137 final size:137
Alignment explanation
Indices: 60643062--60643334 Score: 325
Period size: 137 Copynumber: 2.0 Consensus size: 137
60643052 TGTCATTAGT
* * * * ** * *
60643062 GTTACCATGTTTTGGGTCCTGGTCCTGAATGTCCTAATGATGGATGAGTTCTGGCATTTGTTGCG
1 GTTACCATATTTCGGGTCCTGGTCCTGAATGTCCTAACGATGGATGAGGTCCAGCATTAGTTGCA
* * ** * * *
60643127 GACACTCGTCAGCTTGTGTGAGAGGCATCATGTAGCTATATTTTGGCTGTCAACTTGTGTGAGTA
66 GACACTCATCAGCTTGTGTGAGAGGCATCATGTAGCTACATTCCGACCGTCAACTTGTGTGAGCA
60643192 GACCCAG
131 GACCCAG
* * *
60643199 GTTACCATATTTCGGGTGCTGGTCCTGAATGTCCTACCGATGGTTGAGGTCCAGCATTAGTTGCA
1 GTTACCATATTTCGGGTCCTGGTCCTGAATGTCCTAACGATGGATGAGGTCCAGCATTAGTTGCA
* * *
60643264 GATACTCATCAGCTTGTGTGAGCA-GCATCGTGTAGCTTACATTCCGACCGTC-GCTTGTGTGAG
66 GACACTCATCAGCTTGTGTGAG-AGGCATCATGTAGC-TACATTCCGACCGTCAACTTGTGTGAG
60643327 CAGACCCA
129 CAGACCCA
60643335 TTTTACAGGT
Statistics
Matches: 113, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
137 102 0.90
138 11 0.10
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.32
Consensus pattern (137 bp):
GTTACCATATTTCGGGTCCTGGTCCTGAATGTCCTAACGATGGATGAGGTCCAGCATTAGTTGCA
GACACTCATCAGCTTGTGTGAGAGGCATCATGTAGCTACATTCCGACCGTCAACTTGTGTGAGCA
GACCCAG
Found at i:60649389 original size:33 final size:34
Alignment explanation
Indices: 60649346--60649431 Score: 102
Period size: 34 Copynumber: 2.6 Consensus size: 34
60649336 ACTGTACAGA
* *
60649346 TACTGTAATGGGCTTAGGCCC-CACTGATACTGT
1 TACTGAAATGGGCTAAGGCCCACACTGATACTGT
* * * *
60649379 TACTGAAATGGGCTCACGCCCAGACTGTTACTGT
1 TACTGAAATGGGCTAAGGCCCACACTGATACTGT
*
60649413 TATTGAAATGGGCTAAGGC
1 TACTGAAATGGGCTAAGGC
60649432 TCTAACTGAG
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 18 0.41
34 26 0.59
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCACACTGATACTGT
Found at i:60651353 original size:26 final size:27
Alignment explanation
Indices: 60651247--60651355 Score: 157
Period size: 27 Copynumber: 4.1 Consensus size: 27
60651237 ATATATACTG
* *
60651247 CACATAAGGGCAAAATAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
60651274 CACATAAGGGCAAAATAATCTTTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
60651301 CACATAAGGGCAAAACAGTCATGTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
60651328 CACATAAGGGC-AAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
60651354 CA
1 CA
60651356 TTTAGGGGTC
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 16 0.22
27 58 0.78
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:60662006 original size:41 final size:40
Alignment explanation
Indices: 60661953--60662122 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
60661943 AGTCCGACTC
*
60661953 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
60661992 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * *
60662032 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
60662077 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
60662116 TTTAGAC
1 -TTAGAC
60662123 CCCGATTAGC
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 51 0.48
42 19 0.18
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:60670369 original size:40 final size:41
Alignment explanation
Indices: 60670254--60670424 Score: 136
Period size: 41 Copynumber: 4.2 Consensus size: 41
60670244 GGTGCAACAT
* * * **
60670254 CCTTCGAAA-TAAAGTCCGACTCTTAGCACCAGCTCAAAAGC
1 CCTTCGAAACT-AAGTCCGATTATGAGCACTGGCTCAAAAGC
* * * * *
60670295 CCTTCGAGACCAAGCTCGGATTA-GA-CTACTGGCTCGAAGGC
1 CCTTCGAAACTAAG-TCCGATTATGAGC-ACTGGCTCAAAAGC
* *
60670336 CCTTCGGAACTAAGTCCGGTTATGA-CACTGGCTCTAAAAAGC
1 CCTTCGAAACTAAGTCCGATTATGAGCACTGGCTC--AAAAGC
* *
60670378 CCTTCGAAACTAAGTTCGATTATTAGCA-TGGCTCAAAAGC
1 CCTTCGAAACTAAGTCCGATTATGAGCACTGGCTCAAAAGC
60670418 CCTTCGA
1 CCTTCGA
60670425 GACCAAGCTC
Statistics
Matches: 102, Mismatches: 21, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
40 28 0.27
41 36 0.35
42 36 0.35
43 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (41 bp):
CCTTCGAAACTAAGTCCGATTATGAGCACTGGCTCAAAAGC
Found at i:60670383 original size:42 final size:40
Alignment explanation
Indices: 60670285--60670424 Score: 124
Period size: 42 Copynumber: 3.4 Consensus size: 40
60670275 CTTAGCACCA
* * *
60670285 GCTCAAAAGCCCTTCGAGACCAAGCTCGGATTA-GA-CTACTG
1 GCTCAAAAGCCCTTCGAAACTAAG-TCCGATTATGAGC-A-TG
* * * *
60670326 GCTCGAAGGCCCTTCGGAACTAAGTCCGGTTATGA-CACTG
1 GCTCAAAAGCCCTTCGAAACTAAGTCCGATTATGAGCA-TG
* *
60670366 GCTCTAAAAAGCCCTTCGAAACTAAGTTCGATTATTAGCATG
1 GCTC--AAAAGCCCTTCGAAACTAAGTCCGATTATGAGCATG
60670408 GCTCAAAAGCCCTTCGA
1 GCTCAAAAGCCCTTCGA
60670425 GACCAAGCTC
Statistics
Matches: 82, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
40 27 0.33
41 22 0.27
42 31 0.38
43 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
GCTCAAAAGCCCTTCGAAACTAAGTCCGATTATGAGCATG
Found at i:60675872 original size:40 final size:40
Alignment explanation
Indices: 60675816--60675972 Score: 185
Period size: 40 Copynumber: 3.9 Consensus size: 40
60675806 CGAACGATAA
*
60675816 CTGGACTAAGATCCGAAGGCATTTGTGCTAG-TGACTACAT
1 CTGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CTACAT
* *
60675856 TTGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CTGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTACAT
* * *
60675896 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTGCTAAAT
1 CTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTGCTACAT
* * *
60675936 CCGGGCTAAG-TCCCAAAGGCATTTGTGCGAGTTGCTA
1 CTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTGCTA
60675973 TATCCGGCTA
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 104 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CTGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTACAT
Found at i:60675955 original size:80 final size:79
Alignment explanation
Indices: 60675828--60675993 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 79
60675818 GGACTAAGAT
* * ** *
60675828 CCGAAGGCATTTGTGCTAGTGACTACATTTGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTA
1 CCGAAGGCATTTGTGCGAGTGACTAAATCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTGCTA
*
60675893 TATCCGGGCTAAGTC
66 TATCC-GGCTAAATC
*
60675908 CCGAAGGCATTTGTGCGAGTTG-CTAAATCCGGGCTAAG-TCCCAAAGGCATTTGTGCGAGTTGC
1 CCGAAGGCATTTGTGCGAG-TGACTAAATCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTGC
60675971 TATATCCGGCTAAATC
64 TATATCCGGCTAAATC
*
60675987 CCAAAGG
1 CCGAAGG
60675994 TACTTGGGTT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 15 0.20
80 59 0.78
81 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTGACTAAATCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTGCTA
TATCCGGCTAAATC
Found at i:60675993 original size:39 final size:40
Alignment explanation
Indices: 60675871--60675993 Score: 212
Period size: 40 Copynumber: 3.1 Consensus size: 40
60675861 CTAAGATCCG
*
60675871 AAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCG
1 AAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCA
*
60675911 AAGGCATTTGTGCGAGTTGCTAAATCCGGGCTAAGTCCCA
1 AAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCA
*
60675951 AAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCA
1 AAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCA
60675990 AAGG
1 AAGG
60675994 TACTTGGGTT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 15 0.19
40 64 0.81
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
AAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCA
Found at i:60687948 original size:27 final size:27
Alignment explanation
Indices: 60687916--60688009 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 27
60687906 GTCAAGAAAG
* *
60687916 TAAACATGGGGTAGTTCACCGGGACAG
1 TAAACATGGGGTAGTTCACCGAGACAA
* *
60687943 TTAACAT-GGGTA-TTCCACCTAGACAA
1 TAAACATGGGGTAGTT-CACCGAGACAA
* * *
60687969 TAAACACGGGGTAGTTCACCAAGATAA
1 TAAACATGGGGTAGTTCACCGAGACAA
* *
60687996 GAAACACGGGGTAG
1 TAAACATGGGGTAG
60688010 CTTCCTGGGA
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
25 2 0.04
26 18 0.33
27 33 0.60
28 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (27 bp):
TAAACATGGGGTAGTTCACCGAGACAA
Found at i:60699956 original size:13 final size:13
Alignment explanation
Indices: 60699938--60699963 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60699928 GCTCGGCAGG
60699938 GACACGCCCGTGT
1 GACACGCCCGTGT
60699951 GACACGCCCGTGT
1 GACACGCCCGTGT
60699964 ACGATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:60704843 original size:13 final size:13
Alignment explanation
Indices: 60704825--60704849 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60704815 GCTAGAAGGG
60704825 TTCTCTCGTTTTC
1 TTCTCTCGTTTTC
60704838 TTCTCTCGTTTT
1 TTCTCTCGTTTT
60704850 TGTTCCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.64
Consensus pattern (13 bp):
TTCTCTCGTTTTC
Found at i:60721975 original size:27 final size:26
Alignment explanation
Indices: 60721927--60721986 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
60721917 GCGAGGCTGC
*
60721927 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
60721954 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
60721980 CAGATAT
1 CAGATAT
60721987 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:60737790 original size:14 final size:14
Alignment explanation
Indices: 60737771--60737797 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60737761 ATTTAACAAA
60737771 TAAAAATAAAAATC
1 TAAAAATAAAAATC
60737785 TAAAAATAAAAAT
1 TAAAAATAAAAAT
60737798 AAAAAACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAAAATAAAAATC
Found at i:60737795 original size:5 final size:6
Alignment explanation
Indices: 60737768--60737802 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
60737758 ATAATTTAAC
60737768 AAATAA AAATAA AAATCTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAA
60737803 ACATATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 21 0.78
8 6 0.22
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:60737836 original size:9 final size:9
Alignment explanation
Indices: 60737822--60737916 Score: 122
Period size: 9 Copynumber: 10.6 Consensus size: 9
60737812 TTTATACAAA
60737822 TAATTCGGT
1 TAATTCGGT
60737831 TAATTCGGT
1 TAATTCGGT
60737840 TAATTCGGT
1 TAATTCGGT
*
60737849 TAA-TCTGGG
1 TAATTC-GGT
60737858 TAATTCAGG-
1 TAATTC-GGT
60737867 TAATTCGGT
1 TAATTCGGT
*
60737876 TAATTCGAT
1 TAATTCGGT
*
60737885 TAATTCGAT
1 TAATTCGGT
*
60737894 TAATTCTGT
1 TAATTCGGT
60737903 TAATTCGGT
1 TAATTCGGT
60737912 TAATT
1 TAATT
60737917 TTATTCTTAT
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
8 4 0.05
9 69 0.90
10 4 0.05
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:60752857 original size:14 final size:14
Alignment explanation
Indices: 60752838--60752869 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
60752828 CACGTGGTCT
60752838 TACACAAAATCACA
1 TACACAAAATCACA
*
60752852 TACACAAAATCTCA
1 TACACAAAATCACA
60752866 TACA
1 TACA
60752870 AAATCATAGA
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:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (14 bp):
TACACAAAATCACA
Found at i:60756001 original size:28 final size:28
Alignment explanation
Indices: 60755919--60756020 Score: 116
Period size: 28 Copynumber: 3.7 Consensus size: 28
60755909 CTATTAAGAT
* * *
60755919 TCCA-CAAAAAATAACTTGAGCGGGAAG
1 TCCACCAAAAACTATCTTAAGCGGGAAG
* **
60755946 TTCACCAAAAACTATCTTAAGCAAGAAG
1 TCCACCAAAAACTATCTTAAGCGGGAAG
*
60755974 TCCACCAAAAACTATCTTAAGTGGGAAG
1 TCCACCAAAAACTATCTTAAGCGGGAAG
**
60756002 TCCACCAATGACTATCTTA
1 TCCACCAAAAACTATCTTA
60756021 CGTAGGGAGT
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
27 3 0.05
28 59 0.95
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.22
Consensus pattern (28 bp):
TCCACCAAAAACTATCTTAAGCGGGAAG
Found at i:60756037 original size:28 final size:27
Alignment explanation
Indices: 60755984--60756103 Score: 100
Period size: 28 Copynumber: 4.3 Consensus size: 27
60755974 TCCACCAAAA
* ** *
60755984 ACTATCTTAAGTGGGAAGTCCACCAATG
1 ACTATCTTACGTGGG-AGTCTGCCAAGG
60756012 ACTATCTTACGTAGGGAGTCTGCCAAGG
1 ACTATCTTACGT-GGGAGTCTGCCAAGG
* *
60756040 ATTGTCTTACACG-GGGAGTCTGCCAAGG
1 ACTATCTT--ACGTGGGAGTCTGCCAAGG
* *
60756068 ACTATCTTATGTGGAATGTCTGCCATAGG
1 ACTATCTTACGTGGGA-GTCTGCCA-AGG
60756097 -CTATCTT
1 ACTATCTT
60756104 GAAGACAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
26 2 0.03
27 3 0.04
28 62 0.82
29 6 0.08
30 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (27 bp):
ACTATCTTACGTGGGAGTCTGCCAAGG
Found at i:60758878 original size:24 final size:24
Alignment explanation
Indices: 60758773--60758877 Score: 158
Period size: 24 Copynumber: 4.4 Consensus size: 24
60758763 CTAGAGGCCT
* *
60758773 AGCCTCTTATAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
60758798 AGCCCTTTTAATAACAGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
60758822 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
60758846 AGCTCTTTTAATAA-TGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
60758869 AGCCCTTTT
1 AGCCCTTTT
60758878 TGCACTTCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
23 17 0.23
24 53 0.72
25 4 0.05
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:60758954 original size:20 final size:20
Alignment explanation
Indices: 60758929--60758967 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
60758919 TATGTATACA
60758929 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
60758949 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
60758968 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:60758973 original size:20 final size:20
Alignment explanation
Indices: 60758930--60758974 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
60758920 ATGTATACAT
**
60758930 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
60758950 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
60758970 CATGT
1 CATGT
60758975 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:60759057 original size:25 final size:25
Alignment explanation
Indices: 60759011--60759058 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
60759001 ATTTATAAAC
* * * *
60759011 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
60759036 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
60759059 CATGTTATAA
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:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:60766670 original size:24 final size:24
Alignment explanation
Indices: 60766639--60766714 Score: 134
Period size: 24 Copynumber: 3.2 Consensus size: 24
60766629 GCCTAGCCTT
*
60766639 TTTTAATAACTGGGGCATAAGCCT
1 TTTTAATAACTGGGGCATAAGCCC
60766663 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
*
60766687 TTTTAATAACTGGGGTATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
60766711 TTTT
1 TTTT
60766715 GCACTTCCTC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (24 bp):
TTTTAATAACTGGGGCATAAGCCC
Found at i:60766789 original size:20 final size:20
Alignment explanation
Indices: 60766764--60766830 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
60766754 TTATGAATAC
60766764 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
60766784 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
60766804 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
60766824 ACCATGT
1 ATCATGT
60766831 TTATTAGAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:60766795 original size:11 final size:11
Alignment explanation
Indices: 60766764--60766819 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
60766754 TTATGAATAC
60766764 ATCATGTGCAT
1 ATCATGTGCAT
*
60766775 ATCA--TACAT
1 ATCATGTGCAT
60766784 ATCATGTGCAT
1 ATCATGTGCAT
*
60766795 ATCA--TACAT
1 ATCATGTGCAT
*
60766804 GTCATGTGCAT
1 ATCATGTGCAT
60766815 ATCAT
1 ATCAT
60766820 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:60782249 original size:56 final size:56
Alignment explanation
Indices: 60782180--60782481 Score: 426
Period size: 56 Copynumber: 5.4 Consensus size: 56
60782170 ATCCCAATAG
* *
60782180 GGTCTTACTCGCACACATATATCGAAGTCACATATCGACGCCAATGTATAAAACAT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACAT
*
60782236 GGTCTTACCCGCACACATATATATCTG-AGTCACATATCGATGCCAACGTATAAAACAT
1 GGTCTTACTCGCACAC--ATATATC-GAAGTCACATATCGATGCCAACGTATAAAACAT
**
60782294 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAATGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACAT
* * * *
60782350 AGTCTTACTCGTACACATTTATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACAT
** * *
60782406 GGTCTTACTTACACACATATATCGATGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACAT
* * *
60782462 AGCCTTAGTCGCACACATAT
1 GGTCTTACTCGCACACATAT
60782482 CGGAATCCTA
Statistics
Matches: 221, Mismatches: 21, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
55 1 0.00
56 168 0.76
58 51 0.23
59 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACAT
Found at i:60783897 original size:19 final size:20
Alignment explanation
Indices: 60783850--60783893 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
60783840 TAGGTTACTT
*
60783850 TGGGCCATGATGGGCCGAGA
1 TGGGCCATGATGGGCCCAGA
60783870 TGGGCCATG-TGGGCCCA-A
1 TGGGCCATGATGGGCCCAGA
60783888 TGGGCC
1 TGGGCC
60783894 CATGGGCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
19 7 0.30
20 9 0.39
ACGTcount: A:0.16, C:0.25, G:0.43, T:0.16
Consensus pattern (20 bp):
TGGGCCATGATGGGCCCAGA
Found at i:60783993 original size:27 final size:27
Alignment explanation
Indices: 60783963--60784043 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
60783953 AATCTCATAT
* * * *
60783963 CTGTAGGCTAGCATTACTGAAGTACCC
1 CTGTAGGGTAGAATTACTAAAATACCC
*
60783990 CTGTAGGGTAGAATTACTAAAATGCCC
1 CTGTAGGGTAGAATTACTAAAATACCC
*
60784017 CTGTAGGGTAGAATTACCAAAATACCC
1 CTGTAGGGTAGAATTACTAAAATACCC
60784044 TTGGTTTACA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTAAAATACCC
Found at i:60784133 original size:27 final size:27
Alignment explanation
Indices: 60784084--60784319 Score: 208
Period size: 27 Copynumber: 8.7 Consensus size: 27
60784074 TTTGTAACCA
*
60784084 AAATACCCTTTGATTTGTGAAATTATCG
1 AAATACCC-TTGATTTGTAAAATTATCG
**
60784112 AAATACCCTTGACCTGTAAAATTA-CTG
1 AAATACCCTTGATTTGTAAAATTATC-G
*
60784139 AAATA-CCTTCGACTTGTAAAATTATCG
1 AAATACCCTT-GATTTGTAAAATTATCG
* * * *
60784166 AAATACCCTCGATTTGTAAAGTTACCA
1 AAATACCCTTGATTTGTAAAATTATCG
* * *
60784193 AAACACCCTTGATTTGGAAAAGTATCG
1 AAATACCCTTGATTTGTAAAATTATCG
* *
60784220 AAATACCCTTAATTTGGAAAATTA-CAG
1 AAATACCCTTGATTTGTAAAATTATC-G
** *
60784247 AAATACCCTTGACTTTCAAAAATTATAG
1 AAATACCCTTGA-TTTGTAAAATTATCG
* * * *
60784275 AAATACCATTGCTTTGCAAAATTATTG
1 AAATACCCTTGATTTGTAAAATTATCG
* *
60784302 AAATACCATTGGTTTGTA
1 AAATACCCTTGATTTGTA
60784320 GATTTACCGA
Statistics
Matches: 171, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
26 6 0.04
27 132 0.77
28 33 0.19
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (27 bp):
AAATACCCTTGATTTGTAAAATTATCG
Found at i:60784399 original size:27 final size:27
Alignment explanation
Indices: 60784369--60784460 Score: 103
Period size: 27 Copynumber: 3.4 Consensus size: 27
60784359 TACCTTACTA
* *
60784369 GGTAAAAAGACCGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * *
60784396 GGTAAAATGACCATAAAGCCCCTGTGG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * * *
60784423 GGTAAAGTGACCGTAATACCCCTATAT
1 GGTAAAATGACCGTAATGCCCCTGTAG
60784450 GGTAAAATGAC
1 GGTAAAATGAC
60784461 AATTATGCCC
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:60784687 original size:27 final size:27
Alignment explanation
Indices: 60784627--60784696 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
60784617 ACATTCACTA
60784627 TTTCTGGTGGCTTTGCCACAATTACTG
1 TTTCTGGTGGCTTTGCCACAATTACTG
* * * *
60784654 ATACTGGTGGCTTTGCCACATTTATTG
1 TTTCTGGTGGCTTTGCCACAATTACTG
**
60784681 TTTCTGGCAGCTTTGC
1 TTTCTGGTGGCTTTGC
60784697 TGCGATATTG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.14, C:0.21, G:0.23, T:0.41
Consensus pattern (27 bp):
TTTCTGGTGGCTTTGCCACAATTACTG
Found at i:60798369 original size:55 final size:54
Alignment explanation
Indices: 60798282--60798532 Score: 259
Period size: 55 Copynumber: 4.7 Consensus size: 54
60798272 ATTAGGGTTT
* *
60798282 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * *
60798337 AAGGATATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * * *
60798392 AGAGG-TCCCATGTGAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 A-AGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
60798445 AAGGATACCATGTAAAACCATGTCAAGACATGGCAA-TGGTAAGTTTC--A-G-
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* **
60798494 AAGGATACCATGTAAGACCATGACAAGTTATGGCAATTG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTG
60798533 TGAGGTACCC
Statistics
Matches: 164, Mismatches: 24, Indels: 21
0.78 0.11 0.10
Matches are distributed among these distances:
49 32 0.20
50 3 0.02
51 1 0.01
52 4 0.02
53 40 0.24
54 12 0.07
55 69 0.42
56 3 0.02
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:60798488 original size:108 final size:110
Alignment explanation
Indices: 60798289--60798489 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
60798279 TTTAAGGATA
* * *
60798289 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGTAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAAA
*
60798354 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAGAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAGAGGTC
* *
60798399 CCATGTGAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAA
*
60798461 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
60798490 TCAGAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAAA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAGAGGTC
Found at i:60798749 original size:16 final size:16
Alignment explanation
Indices: 60798728--60798758 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60798718 ATAAATTTGA
60798728 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
60798744 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
60798759 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:60802223 original size:47 final size:47
Alignment explanation
Indices: 60802169--60802409 Score: 374
Period size: 47 Copynumber: 5.1 Consensus size: 47
60802159 TTAGGATTTT
** * *
60802169 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
60802216 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
60802263 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
60802310 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
60802357 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
60802404 ATGTGA
1 ATGTGA
60802410 AATATGTATG
Statistics
Matches: 180, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 180 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:60802269 original size:22 final size:22
Alignment explanation
Indices: 60802198--60802316 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
60802188 GTATATATGA
60802198 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
60802220 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
60802245 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
60802267 GATGAATGTG-AGCAT-GCATATATGT
1 GAT-AA-G-GCCGAATGGC-CA-ATGT
60802292 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
60802314 GAT
1 GAT
60802317 GAATGTGAGC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 19 0.27
23 18 0.25
24 18 0.25
25 16 0.23
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:60802761 original size:37 final size:37
Alignment explanation
Indices: 60802617--60802760 Score: 243
Period size: 37 Copynumber: 3.9 Consensus size: 37
60802607 GAAATATATC
60802617 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
60802654 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
** *
60802691 CCGGGTAAGACCCGATGACTACGTACGGAGATTTTGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
* *
60802728 CCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATT
60802761 TCGTTTGAGC
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
Found at i:60805657 original size:27 final size:26
Alignment explanation
Indices: 60805627--60805698 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
60805617 CCCCTAGTTG
60805627 TAAAATTACCAAAGTACCCCCGATTTA
1 TAAAATTACCAAA-TACCCCCGATTTA
* * *
60805654 TAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTA-CCAAATACCCCCGATTTA
60805681 TAAAATTACCGAAATACC
1 TAAAATTACC-AAATACC
60805699 ACTATAAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 2 0.05
27 32 0.82
28 5 0.13
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.28
Consensus pattern (26 bp):
TAAAATTACCAAATACCCCCGATTTA
Found at i:60805714 original size:27 final size:27
Alignment explanation
Indices: 60805684--60805985 Score: 290
Period size: 27 Copynumber: 11.3 Consensus size: 27
60805674 CGATTTGTAA
* * * *
60805684 AATTACCGAAATACCACTATAAGGTAC
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
60805711 AATTACTGAAATACCTCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
60805738 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
60805765 AATTACTAAAATA-CCCTAGTAAGGTAG
1 AATTACCGAAATACCCCT-GTAGGGTAG
* *
60805792 AATTACCG-AATACCCCTATAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
60805818 AATTA-CTAGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
60805845 AATTACCGAAATACCTCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
60805872 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
60805899 AATTACTAAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
60805926 AATTA-CTACAATACCCCTGTAGGGTGG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* * * * *
60805953 AATTATCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
60805979 AATTACC
1 AATTACC
60805986 ATTTTGCCCC
Statistics
Matches: 229, Mismatches: 39, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.00
26 34 0.15
27 190 0.83
28 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:60805742 original size:54 final size:53
Alignment explanation
Indices: 60805684--60805967 Score: 338
Period size: 54 Copynumber: 5.3 Consensus size: 53
60805674 CGATTTGTAA
* * * * *
60805684 AATTACCGAAATACCACTATAAGGTACAATTACTGAAATACCTCTGTAAGGTAG
1 AATTACCGAAATACCCCTATAGGGTAGAATTACT-AAATACCCCTGTAGGGTAG
* * * *
60805738 AATTACCAAAATACCCTTGTAGGGTAGAATTACTAAAATA-CCCTAGTAAGGTAG
1 AATTACCGAAATACCCCTATAGGGTAGAATTACT-AAATACCCCT-GTAGGGTAG
*
60805792 AATTACCG-AATACCCCTATAGAGTAGAATTACTAGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAGAATTACTA-AATACCCCTGTAGGGTAG
*
60805845 AATTACCGAAATACCTCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAGAATTACT-AAATACCCCTGTAGGGTAG
** * * *
60805899 AATTACTAAAATACCCCTGTAGGGTAAAATTACTACAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTATAGGGTAGAATTACTA-AATACCCCTGTAGGGTAG
* *
60805953 AATTATCGAGATACC
1 AATTACCGAAATACC
60805968 TTGTGGGGTA
Statistics
Matches: 199, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
52 1 0.01
53 46 0.23
54 151 0.76
55 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (53 bp):
AATTACCGAAATACCCCTATAGGGTAGAATTACTAAATACCCCTGTAGGGTAG
Found at i:60805977 original size:134 final size:134
Alignment explanation
Indices: 60805684--60805985 Score: 353
Period size: 134 Copynumber: 2.3 Consensus size: 134
60805674 CGATTTGTAA
* * * * * *
60805684 AATTACCGA-AATACCACTATAAGGTACAATTACTGAAATACCTCTGTAAGGTAGAATTACCAAA
1 AATTA-CGAGAATACCCCTGTAGGGTAAAATTACCGAAATACCTCTATAAGGTAGAATTACCAAA
* *
60805748 ATACCCTTGTAGGGTAGAATTACTAAAATACCCTAGTAAGGTAGAATTACCGAATACCCCTATAG
65 ATACCCCTGTAGGGTAGAATTACTAAAATACCCTAGTAAGGTAAAATTACCGAATACCCCTATAG
60805813 AGTAG
130 AGTAG
* * * **
60805818 AATTACTAGAATACCCCTGTAGGGTAGAATTACCGAAATACCTCTATAGGGTAGAATTACTGAAA
1 AATTACGAGAATACCCCTGTAGGGTAAAATTACCGAAATACCTCTATAAGGTAGAATTACCAAAA
* *
60805883 TACCCCTGTAGGGTAGAATTACTAAAATACCCCT-GTAGGGTAAAATTACTAC-AATACCCCTGT
66 TACCCCTGTAGGGTAGAATTACTAAAATA-CCCTAGTAAGGTAAAATTAC--CGAATACCCCTAT
* *
60805946 AGGGTGG
128 AGAGTAG
* *
60805953 AATTATCGAG-ATA-CCTTGTGGGGTAAAATTACC
1 AATTA-CGAGAATACCCCTGTAGGGTAAAATTACC
60805986 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
133 2 0.01
134 110 0.77
135 27 0.19
136 4 0.03
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (134 bp):
AATTACGAGAATACCCCTGTAGGGTAAAATTACCGAAATACCTCTATAAGGTAGAATTACCAAAA
TACCCCTGTAGGGTAGAATTACTAAAATACCCTAGTAAGGTAAAATTACCGAATACCCCTATAGA
GTAG
Found at i:60806446 original size:31 final size:31
Alignment explanation
Indices: 60806393--60806503 Score: 141
Period size: 31 Copynumber: 3.5 Consensus size: 31
60806383 TTGCATTCGC
* *
60806393 ATTCTGATTTTTTATTTTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
60806425 ATTCTGGTTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * *
60806456 ATTTTGATTCTGATTCTGTCACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
60806487 ATTCTAATTCTGATTCT
1 ATTCTGATTTTGATTCT
60806504 AGTTCTGGTA
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
31 64 0.91
32 6 0.09
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:60813701 original size:40 final size:40
Alignment explanation
Indices: 60813657--60813881 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
60813647 CTTGCACAAG
* * * * * *
60813657 GCCTTCGAGTCTTAGCTCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
*
60813697 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
60813737 GCCTTCGGGTTTTAGCTCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * **
60813777 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTTGCATGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* * * * *
60813817 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
*
60813858 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
60813882 CATTCGAATA
Statistics
Matches: 153, Mismatches: 30, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 123 0.80
41 29 0.19
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:60813755 original size:80 final size:80
Alignment explanation
Indices: 60813621--60813881 Score: 287
Period size: 80 Copynumber: 3.3 Consensus size: 80
60813611 CTCAAGTAAT
* * * * * * * *
60813621 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGAGTCTTAGCTCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCTCGGATATAGT
*
60813684 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
60813699 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCTCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCTCGGATATAG
*
60813763 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * ** * *
60813779 CTTCGGGTCTTAGCCCGGATATAGCAACTTGCATGAATGCCTTCGGATCTTAG-TCCGGTTATAG
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCT-CGGATATAG
*
60813843 TCACCTAGCACAAAAGC
65 TCA-CTAGCACAAATGC
60813860 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
60813882 CATTCGAATA
Statistics
Matches: 153, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
78 12 0.08
79 17 0.11
80 91 0.59
81 33 0.22
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCTCGGATATAGT
CACTAGCACAAATGC
Found at i:60816234 original size:55 final size:53
Alignment explanation
Indices: 60816167--60816400 Score: 228
Period size: 55 Copynumber: 4.4 Consensus size: 53
60816157 ATTAGTGTTT
*
60816167 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * * *
60816222 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * *
60816277 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGAATTAGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
* * * *
60816330 AAGGATACCATCTAAAACCATGTCAAGACATGGAAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
*
60816379 AAGGATACCACGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
60816401 AGAAGTCATG
Statistics
Matches: 145, Mismatches: 28, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
49 19 0.13
52 7 0.05
53 39 0.27
54 11 0.08
55 65 0.45
56 4 0.03
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:60816373 original size:108 final size:110
Alignment explanation
Indices: 60816174--60816374 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
60816164 TTTAAGGATA
* * * *
60816174 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATCTAAAA
* *
60816239 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTC
* *
60816284 CCATGTAAGACCATGCCAAGGCATGG-AATTAGTGA-G-TTCATAAGGCAAGGATACCATCTAAA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTC-TAAGGCAAGGAAACCATCTAAA
*
60816346 ACCATGTCAAGACATGGAAATGGTAAGTT
65 ACCATGTCAAGACATGGAAATGATAAGTT
60816375 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.56
109 7 0.09
110 26 0.32
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATCTAAAA
CCATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:60816419 original size:17 final size:17
Alignment explanation
Indices: 60816397--60816430 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
60816387 CACGTAAGAC
60816397 CATGAGAAGTCATGGCA
1 CATGAGAAGTCATGGCA
60816414 CATGAGAAGTCATGGCA
1 CATGAGAAGTCATGGCA
60816431 ATGGTAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (17 bp):
CATGAGAAGTCATGGCA
Found at i:60816628 original size:16 final size:16
Alignment explanation
Indices: 60816607--60816637 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60816597 ATACATTTGA
60816607 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
60816623 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
60816638 ACTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:60829318 original size:18 final size:19
Alignment explanation
Indices: 60829290--60829325 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
60829280 ATACCAATAC
60829290 CATATCAACATCTATCATA
1 CATATCAACATCTATCATA
*
60829309 CATA-CAACATTTATCAT
1 CATATCAACATCTATCAT
60829326 GCCATAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (19 bp):
CATATCAACATCTATCATA
Found at i:60830518 original size:42 final size:42
Alignment explanation
Indices: 60830402--60830565 Score: 204
Period size: 42 Copynumber: 3.9 Consensus size: 42
60830392 TACCATACCA
* * *
60830402 ATGCCATATCCCAGATATGGTCTTACACGTAACCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
60830444 ATGCCAATAGCCCAGTTATGGTCTTACGCGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
** *
60830487 ATGCCATATCTTAGATATGGTCTTACACGAAATCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
60830529 ATGTCATATCTCAGATATGGTCTTACAC-ATAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGA-AATCTCA
60830566 GAAACCCCAA
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
41 1 0.01
42 69 0.65
43 36 0.34
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:60831721 original size:40 final size:40
Alignment explanation
Indices: 60831642--60831818 Score: 164
Period size: 40 Copynumber: 4.5 Consensus size: 40
60831632 CGGATGATAA
* * * ***
60831642 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTCCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
* * *
60831682 CCGGGCTATA-TCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTA-AGACCCGAAGGCATTTGTGCGAGTGATTATAT
* * *
60831722 CCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
* * *
60831762 CCAGGCTAAGACCTGAAGGCATTTGTACGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATAT
60831802 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
60831819 ATACTTGAGT
Statistics
Matches: 111, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
38 1 0.01
39 13 0.12
40 95 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
Found at i:60831800 original size:80 final size:80
Alignment explanation
Indices: 60831642--60831818 Score: 202
Period size: 80 Copynumber: 2.2 Consensus size: 80
60831632 CGGATGATAA
* * * *
60831642 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTCCTATATCCGGGCTATATCCCGAAGGCATTTA
1 CCGGGCTAAGATCCGAAGGCATTCGTGCGAGTTACTATATCCAGGCTATAACCCGAAGGCATTTA
* *
60831707 TGCTAGTGATTATAT
66 TACGAGTGATTATAT
* *
60831722 CCGGGCTAAGA-CTCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTA-AGACCTGAAGGCATT
1 CCGGGCTAAGATC-CGAAGGCATTCGTGCGAGTTACTATATCCAGGCTATA-ACCCGAAGGCATT
*
60831785 TGTACGAGTTG-TTATAT
64 TATACGAG-TGATTATAT
60831802 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGAT-CCGAAG
60831819 ATACTTGAGT
Statistics
Matches: 83, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
78 1 0.01
79 13 0.16
80 67 0.81
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGATCCGAAGGCATTCGTGCGAGTTACTATATCCAGGCTATAACCCGAAGGCATTTA
TACGAGTGATTATAT
Found at i:60833331 original size:30 final size:30
Alignment explanation
Indices: 60833318--60833474 Score: 226
Period size: 30 Copynumber: 5.2 Consensus size: 30
60833308 AACCAAAATG
*
60833318 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
60833348 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
* *
60833378 AAAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
60833409 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* *
60833439 AGAATCAGAATTAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
60833470 AGAAT
1 AGAAT
60833475 ATGAATACAA
Statistics
Matches: 114, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
29 1 0.01
30 70 0.61
31 43 0.38
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:60833418 original size:61 final size:60
Alignment explanation
Indices: 60833320--60833474 Score: 247
Period size: 61 Copynumber: 2.5 Consensus size: 60
60833310 CCAAAATGAG
* *
60833320 AATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAA
1 AATCAGAATCAGAATTAGTGACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAA
* *
60833380 AATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAG
1 AATCAGAATCAGAATTA-GTGACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAA
*
60833441 AATCAGAATTAGAATTACGTGACAGAATCAGAAT
1 AATCAGAATCAGAATTA-GTGACAGAATCAGAAT
60833475 ATGAATACAA
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
60 16 0.18
61 72 0.82
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (60 bp):
AATCAGAATCAGAATTAGTGACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAA
Found at i:60833474 original size:6 final size:6
Alignment explanation
Indices: 60833318--60833455 Score: 124
Period size: 6 Copynumber: 22.8 Consensus size: 6
60833308 AACCAAAATG
*
60833318 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
60833366 AGTAA-C AGAATC AAAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
60833415 AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATT AGAAT
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAAT
60833456 TACGTGACAG
Statistics
Matches: 108, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
5 8 0.07
6 92 0.85
7 6 0.06
8 2 0.02
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:60833672 original size:27 final size:27
Alignment explanation
Indices: 60833616--60833673 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
60833606 ATGACAAAGT
* * * *
60833616 CACCAGATACAGATATTGTGGTAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
60833643 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
60833670 CACC
1 CACC
60833674 TAACAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:60833878 original size:22 final size:22
Alignment explanation
Indices: 60833830--60833888 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
60833820 GTAAATACAT
*
60833830 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
60833852 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
60833874 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
60833889 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:60834058 original size:27 final size:26
Alignment explanation
Indices: 60833979--60834058 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 26
60833969 ATCAGTCAAT
* * *
60833979 AGATATTGTGACAGAGTCACCAGATAA
1 AGATATTGTGGCAGAGCCACCAGA-AC
60834006 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
60834032 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAC
60834059 GCTTCCTCCG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 6 0.12
27 42 0.88
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:60834306 original size:27 final size:27
Alignment explanation
Indices: 60834282--60834562 Score: 357
Period size: 27 Copynumber: 10.4 Consensus size: 27
60834272 CAAGGGTATC
*
60834282 TCTGTAAATCAAGGGTAAAACGGTAAT
1 TCTGTAAATCGAGGGTAAAACGGTAAT
* ** *
60834309 TTTACAAATCGGGGGTAAAACGGTAAT
1 TCTGTAAATCGAGGGTAAAACGGTAAT
60834336 TCTGTAAATCGAGGGTAAAACGGTAAT
1 TCTGTAAATCGAGGGTAAAACGGTAAT
* *
60834363 TCTGTAAATTGAGGGTAAAATGGTAAT
1 TCTGTAAATCGAGGGTAAAACGGTAAT
*
60834390 TCTATAAATCGAGGGTAAAACGGTAAT
1 TCTGTAAATCGAGGGTAAAACGGTAAT
*
60834417 TCTGTAAA-CTGAGGATAAAACGGTAAT
1 TCTGTAAATC-GAGGGTAAAACGGTAAT
*
60834444 TCTGTAAATTGAGGGTAAAACGGTAAT
1 TCTGTAAATCGAGGGTAAAACGGTAAT
* *
60834471 TCTGTAAATTGAGGGTAAAATGGTAAT
1 TCTGTAAATCGAGGGTAAAACGGTAAT
* ** **
60834498 TTTAAAAATTAAGGGTAAAACGGTAAT
1 TCTGTAAATCGAGGGTAAAACGGTAAT
* * *
60834525 TCTATAAATCAAGGGTAAAATGGTAAT
1 TCTGTAAATCGAGGGTAAAACGGTAAT
*
60834552 TCTATAAATCG
1 TCTGTAAATCG
60834563 GGAGTACTTT
Statistics
Matches: 223, Mismatches: 29, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.00
27 222 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
TCTGTAAATCGAGGGTAAAACGGTAAT
Found at i:60836622 original size:30 final size:30
Alignment explanation
Indices: 60836588--60836675 Score: 131
Period size: 30 Copynumber: 2.9 Consensus size: 30
60836578 TGAGAATGAG
*
60836588 AATCAAAATCAGTAACAGAATCAGAATCAA
1 AATCAAAATTAGTAACAGAATCAGAATCAA
* *
60836618 AATCAATATTAGTAACAGAATCAAAATCAA
1 AATCAAAATTAGTAACAGAATCAGAATCAA
*
60836648 AATCAAAATTAGGTGACAGAATCAGAAT
1 AATCAAAATTA-GTAACAGAATCAGAAT
60836676 TAGAATCAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 37 0.73
31 14 0.27
ACGTcount: A:0.55, C:0.14, G:0.11, T:0.20
Consensus pattern (30 bp):
AATCAAAATTAGTAACAGAATCAGAATCAA
Found at i:60836636 original size:24 final size:24
Alignment explanation
Indices: 60836580--60836647 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
60836570 AACCAAAATG
* *
60836580 AGAATGAGAATCAAAATCAGTAAC
1 AGAATCAGAATCAAAATCAATAAC
**
60836604 AGAATCAGAATCAAAATCAATATT
1 AGAATCAGAATCAAAATCAATAAC
60836628 AGTAA-CAGAATCAAAATCAA
1 AG-AATCAGAATCAAAATCAA
60836648 AATCAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 37 0.95
25 2 0.05
ACGTcount: A:0.56, C:0.13, G:0.12, T:0.19
Consensus pattern (24 bp):
AGAATCAGAATCAAAATCAATAAC
Found at i:60836682 original size:73 final size:73
Alignment explanation
Indices: 60836604--60836747 Score: 200
Period size: 73 Copynumber: 2.0 Consensus size: 73
60836594 AATCAGTAAC
60836604 AGAATCAG-AATCAAAATCAATATTAGTAACAGAATCAAAATCAAAATCAAAATTAGGTGACAGA
1 AGAATCAGTAA-CAAAATCAATATTAGTAACAGAATCAAAATCAAAATCAAAATTAGGTGACAGA
60836668 ATCAGAATT
65 ATCAGAATT
* * * * * * * *
60836677 AGAATCAGTAACAGAATCAGTATTAGTAACAGAATTAGAATTAGAATCAGAATTATGTGACAGAA
1 AGAATCAGTAACAAAATCAATATTAGTAACAGAATCAAAATCAAAATCAAAATTAGGTGACAGAA
60836742 TCAGAA
66 TCAGAA
60836748 CCAGAATGTG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
73 60 0.97
74 2 0.03
ACGTcount: A:0.51, C:0.11, G:0.15, T:0.23
Consensus pattern (73 bp):
AGAATCAGTAACAAAATCAATATTAGTAACAGAATCAAAATCAAAATCAAAATTAGGTGACAGAA
TCAGAATT
Found at i:60836693 original size:18 final size:18
Alignment explanation
Indices: 60836670--60836731 Score: 81
Period size: 18 Copynumber: 3.4 Consensus size: 18
60836660 GTGACAGAAT
*
60836670 CAGAATTAGAATCAGTAA
1 CAGAATTAGAATTAGTAA
* *
60836688 CAGAATCAGTATTAGTAA
1 CAGAATTAGAATTAGTAA
60836706 CAGAATTAGAATTAG-AA
1 CAGAATTAGAATTAGTAA
60836723 TCAGAATTA
1 -CAGAATTA
60836732 TGTGACAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
17 2 0.05
18 36 0.95
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (18 bp):
CAGAATTAGAATTAGTAA
Found at i:60836747 original size:6 final size:6
Alignment explanation
Indices: 60836580--60836729 Score: 69
Period size: 6 Copynumber: 24.8 Consensus size: 6
60836570 AACCAAAATG
* * * *
60836580 AGAATG AGAATC AAAATC AGTAA-C AGAATC AGAATC AAAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * * * * *
60836628 AGTAA-C AGAATC AAAATC AAAATC AAAATT AG-GTGAC AGAATC AGAATT
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
60836677 AGAATC AGTAA-C AGAATC AGTATT AGTAA-C AGAATT AGAATT AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
60836725 AGAAT
1 AGAAT
60836730 TATGTGACAG
Statistics
Matches: 111, Mismatches: 20, Indels: 26
0.71 0.13 0.17
Matches are distributed among these distances:
5 10 0.09
6 91 0.82
7 8 0.07
8 2 0.02
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:60836754 original size:73 final size:72
Alignment explanation
Indices: 60836594--60836754 Score: 198
Period size: 73 Copynumber: 2.2 Consensus size: 72
60836584 TGAGAATCAA
60836594 AATCAGTAACAGAATCAGAATCAAAATCAATATTAGTAACAGAATCAAAATCAAAATCAAAATTA
1 AATCAG-AACAGAATCAGAATCAAAATCAATATTAGTAACAGAATCAAAATCAAAATCAAAATTA
60836659 GGTGACAG
65 GGTGACAG
* * * * * * * *
60836667 AATCAGAATTAGAATCAGTAA-CAGAATCAGTATTAGTAACAGAATTAGAATTAGAATCAGAATT
1 AATCAGAA-CAGAATCAG-AATCAAAATCAATATTAGTAACAGAATCAAAATCAAAATCAAAATT
*
60836731 ATGTGACAG
64 AGGTGACAG
60836740 AATCAGAACCAGAAT
1 AATCAGAA-CAGAAT
60836755 GTGAATGCAA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
72 2 0.03
73 71 0.95
74 2 0.03
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.22
Consensus pattern (72 bp):
AATCAGAACAGAATCAGAATCAAAATCAATATTAGTAACAGAATCAAAATCAAAATCAAAATTAG
GTGACAG
Found at i:60836909 original size:27 final size:26
Alignment explanation
Indices: 60836872--60836937 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
60836862 AGCATGGCTG
*
60836872 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
60836898 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
60836925 CCAGAATCAGATA
1 CCAGAA-CAGATA
60836938 ATGAGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:60836945 original size:27 final size:27
Alignment explanation
Indices: 60836890--60836945 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
60836880 GATATCGTGA
* * *
60836890 CAGAGTCACCAGATACAGATATTGTGG
1 CAGAGCCACCAGATACAGATAATGAGG
60836917 CAGAGCCACCAGA-ATCAGATAATGAGG
1 CAGAGCCACCAGATA-CAGATAATGAGG
60836944 CA
1 CA
60836946 AACCCACCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (27 bp):
CAGAGCCACCAGATACAGATAATGAGG
Found at i:60836952 original size:27 final size:27
Alignment explanation
Indices: 60836896--60836953 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
60836886 GTGACAGAGT
* * * *
60836896 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGAGGCAAACC
60836923 CACCAGA-ATCAGATAATGAGGCAAACC
1 CACCAGATA-CAGATAATGAGGCAAACC
60836950 CACC
1 CACC
60836954 TAATAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.38, C:0.28, G:0.21, T:0.14
Consensus pattern (27 bp):
CACCAGATACAGATAATGAGGCAAACC
Found at i:60837158 original size:22 final size:22
Alignment explanation
Indices: 60837110--60837168 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
60837100 GTAAATACGT
*
60837110 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
60837132 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
60837154 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
60837169 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:60837300 original size:27 final size:26
Alignment explanation
Indices: 60837259--60837337 Score: 95
Period size: 27 Copynumber: 3.0 Consensus size: 26
60837249 ATCGGTCAAC
* *
60837259 AGATATTGTGACAGAGTCACCAGATAA
1 AGATATTGTGGCAGAGCCACCAGA-AA
*
60837286 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAA
* *
60837312 AGATATTTGTGGCATAACCACCAGAA
1 AGATA-TTGTGGCAGAGCCACCAGAA
60837338 CGCTTCCTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 6 0.13
27 40 0.87
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAA
Found at i:60837386 original size:16 final size:16
Alignment explanation
Indices: 60837365--60837395 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60837355 ATCCCAACCC
*
60837365 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
60837381 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
60837396 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:60837591 original size:18 final size:17
Alignment explanation
Indices: 60837568--60837621 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
60837558 TATCTCGGTA
60837568 ATTCTACCCTACAGGGGT
1 ATTCTACCCTACA-GGGT
*
60837586 ATTCTACCCTAC--GAT
1 ATTCTACCCTACAGGGT
60837601 AATTCTACCCTACAGGGT
1 -ATTCTACCCTACAGGGT
60837619 ATT
1 ATT
60837622 TCAGTAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 2 0.06
16 12 0.39
17 3 0.10
18 14 0.45
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (17 bp):
ATTCTACCCTACAGGGT
Found at i:60837683 original size:27 final size:27
Alignment explanation
Indices: 60837600--60837737 Score: 156
Period size: 27 Copynumber: 5.2 Consensus size: 27
60837590 TACCCTACGA
*
60837600 TAATTCTACCCTACA-GGGTATTTCAG
1 TAATTCTACCCTATAGGGGTATTTCAG
*
60837626 TAATTCTACCCTAT-GGGGTATTTCGG
1 TAATTCTACCCTATAGGGGTATTTCAG
* * *
60837652 AAATTCTATCCTATAAGGGTATTTCAG
1 TAATTCTACCCTATAGGGGTATTTCAG
*
60837679 TAATTCTACCCTATAGGGGTATTT-TG
1 TAATTCTACCCTATAGGGGTATTTCAG
* * * *
60837705 AAAATTCTATCCTACAGGGGTATTTGAG
1 -TAATTCTACCCTATAGGGGTATTTCAG
60837733 TAATT
1 TAATT
60837738 TCACAATCAA
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
26 36 0.39
27 56 0.60
28 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (27 bp):
TAATTCTACCCTATAGGGGTATTTCAG
Found at i:60837726 original size:54 final size:52
Alignment explanation
Indices: 60837601--60837737 Score: 202
Period size: 54 Copynumber: 2.6 Consensus size: 52
60837591 ACCCTACGAT
* *
60837601 AATTCTACCCTACAGGGTATTTCAGTAATTCTACCCTATGGGGTATTTCGGA
1 AATTCTATCCTACAGGGTATTTCAGTAATTCTACCCTATGGGGTATTTCGAA
* *
60837653 AATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTTGAA
1 AATTCTATCCTA-CAGGGTATTTCAGTAATTCTACCCTAT-GGGGTATTTCGAA
*
60837707 AATTCTATCCTACAGGGGTATTTGAGTAATT
1 AATTCTATCCTACA-GGGTATTTCAGTAATT
60837738 TCACAATCAA
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
52 11 0.14
53 27 0.36
54 38 0.50
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (52 bp):
AATTCTATCCTACAGGGTATTTCAGTAATTCTACCCTATGGGGTATTTCGAA
Found at i:60837772 original size:27 final size:27
Alignment explanation
Indices: 60837742--60838259 Score: 542
Period size: 27 Copynumber: 19.2 Consensus size: 27
60837732 GTAATTTCAC
* *
60837742 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
60837769 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
60837796 AA-CTAAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* ** * **
60837823 AATCTAGGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
60837850 AATTGAGGGTAAAACGGTAATTCCATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
60837877 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
60837904 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
60837931 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
60837958 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
60837985 AATTGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
60838012 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*** *
60838039 AATCGAGGGTAAAATAATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
60838066 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
60838093 AATCAAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
60838120 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
60838147 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
60838174 AATTGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
60838201 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
60838228 AATCAATGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
60838255 AATCG
1 AATCG
60838260 GGAGTACTTT
Statistics
Matches: 414, Mismatches: 67, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
26 5 0.01
27 405 0.98
28 4 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:60839983 original size:13 final size:13
Alignment explanation
Indices: 60839965--60839991 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60839955 TATCAAACTT
60839965 TCATAATCTATCA
1 TCATAATCTATCA
60839978 TCATAATCTATCA
1 TCATAATCTATCA
60839991 T
1 T
60839992 TAAACATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (13 bp):
TCATAATCTATCA
Found at i:60845812 original size:21 final size:20
Alignment explanation
Indices: 60845784--60845822 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
60845774 GCATGTTTTT
*
60845784 TGAAGTTTCTTGATAGATTA
1 TGAAGTTTCTTAATAGATTA
*
60845804 TGAATGTTTGTTAATAGAT
1 TGAA-GTTTCTTAATAGAT
60845823 ATACAAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (20 bp):
TGAAGTTTCTTAATAGATTA
Found at i:60857272 original size:46 final size:46
Alignment explanation
Indices: 60857215--60857390 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
60857205 TATTTGGGCA
*
60857215 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCG
* *** * * * *
60857261 TCCAAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-ACTTATGGATGCGA-GCG
*
60857308 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAG-G
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCG-AGCG
*
60857354 -CTCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
60857391 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.64
47 36 0.34
48 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCG
Found at i:60857370 original size:93 final size:93
Alignment explanation
Indices: 60857211--60857382 Score: 276
Period size: 93 Copynumber: 1.8 Consensus size: 93
60857201 GGGATATTTG
60857211 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCAAACTCGTTGAG
60857276 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCTGAGTTCGAGAGATGTAACTA
* * * *
60857304 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAG-G-CTCGAGCTCGTTG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AGCGTC-CAAACTCGTTG
60857367 AGTTGAGTCTGAGTTC
64 AGTTGAGTCTGAGTTC
60857383 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 1 0.01
93 70 0.96
94 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCAAACTCGTTGAG
TTGAGTCTGAGTTCGAGAGATGTAACTA
Found at i:60869365 original size:40 final size:40
Alignment explanation
Indices: 60869321--60869423 Score: 154
Period size: 40 Copynumber: 2.5 Consensus size: 40
60869311 CGACAATTTA
* *
60869321 GCTATGTATGGCACTTAATGTGCGACTT-GAGATAGCTTCG
1 GCTATGTATGGCACTTAGTGTGC-AATTCGAGATAGCTTCG
60869361 GCTATGTATGGCACTTAGTGTGCAATTCGAGATAGCTTCG
1 GCTATGTATGGCACTTAGTGTGCAATTCGAGATAGCTTCG
*
60869401 GCTATGTATTAGCACTTAGTGTG
1 GCTATGTA-TGGCACTTAGTGTG
60869424 TTAGAATTTG
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
39 3 0.05
40 42 0.72
41 13 0.22
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (40 bp):
GCTATGTATGGCACTTAGTGTGCAATTCGAGATAGCTTCG
Found at i:60879319 original size:27 final size:27
Alignment explanation
Indices: 60879289--60879341 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
60879279 GACCCCAGTT
* *
60879289 TGTAAAATCACTGAAATACCCTTGTAG
1 TGTAAAATCACCGAAATACCCCTGTAG
* *
60879316 TGTAAAATGACCGTAATACCCCTGTA
1 TGTAAAATCACCGAAATACCCCTGTA
60879342 TGGTAGAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (27 bp):
TGTAAAATCACCGAAATACCCCTGTAG
Found at i:60882001 original size:135 final size:135
Alignment explanation
Indices: 60881757--60882001 Score: 348
Period size: 135 Copynumber: 1.8 Consensus size: 135
60881747 ATCGCTCGTG
* * * * **
60881757 GGGTAAACTGAGCCCATAAAATGTGGGCGTATGTCGAGGAAGGCCACCATGTGCGATCTCATGGG
1 GGGTAAACTGAACCCACAAAATGTGGGCATACGTCGAGGAAGGCCACCATGAACGATCTCATGGG
* *
60881822 CCTAGGCTGGAATGGGTCGTATGGGCCCAATAGGCCTGTGGGCCCACTGGGTAAACTTCACTGTT
66 CCTAGGCTGGAATGGGTCGTATGGGCCCAATAGGCCGGTCGGCCCACTGGGTAAACTTCACTGTT
60881887 AAGTA
131 AAGTA
* *
60881892 GGGTAAATTGAACCCACGAAATGTGGGCATACGTCGAGGAAGGCCACCATGAACGATCTCATGGG
1 GGGTAAACTGAACCCACAAAATGTGGGCATACGTCGAGGAAGGCCACCATGAACGATCTCATGGG
* * * *
60881957 CCT-GGGTAGTAATGGGTCGTATGGGCCCAATGGGTCGGTCGGCCC
66 CCTAGGCT-GGAATGGGTCGTATGGGCCCAATAGGCCGGTCGGCCC
60882002 GCATGAGAAA
Statistics
Matches: 95, Mismatches: 14, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
134 3 0.03
135 92 0.97
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.21
Consensus pattern (135 bp):
GGGTAAACTGAACCCACAAAATGTGGGCATACGTCGAGGAAGGCCACCATGAACGATCTCATGGG
CCTAGGCTGGAATGGGTCGTATGGGCCCAATAGGCCGGTCGGCCCACTGGGTAAACTTCACTGTT
AAGTA
Found at i:60882108 original size:19 final size:19
Alignment explanation
Indices: 60882084--60882121 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
60882074 TGGGCCACGT
60882084 TGGGCCTAGATGGG-TCGTG
1 TGGGCCTA-ATGGGCTCGTG
60882103 TGGGCCTAATGGGCTCGTG
1 TGGGCCTAATGGGCTCGTG
60882122 GGCCTCACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.11, C:0.18, G:0.45, T:0.26
Consensus pattern (19 bp):
TGGGCCTAATGGGCTCGTG
Found at i:60882124 original size:17 final size:18
Alignment explanation
Indices: 60882084--60882126 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
60882074 TGGGCCACGT
60882084 TGGGCCTAGATGGGTCGTG
1 TGGGCCTAGATGGGTCG-G
60882103 TGGGCCTA-ATGGGCTC-G
1 TGGGCCTAGATGGG-TCGG
60882120 TGGGCCT
1 TGGGCCT
60882127 CACACTGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.35
18 5 0.22
19 10 0.43
ACGTcount: A:0.09, C:0.21, G:0.44, T:0.26
Consensus pattern (18 bp):
TGGGCCTAGATGGGTCGG
Found at i:60884452 original size:21 final size:21
Alignment explanation
Indices: 60884428--60884481 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
60884418 ACTCCCTTTG
*
60884428 ATGTCGCGACATAAGACTACT
1 ATGTCGTGACATAAGACTACT
*
60884449 ATGTCGTGACATATGACTACT
1 ATGTCGTGACATAAGACTACT
60884470 ATGTCGTGACAT
1 ATGTCGTGACAT
60884482 CGACTATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (21 bp):
ATGTCGTGACATAAGACTACT
Found at i:60899480 original size:51 final size:50
Alignment explanation
Indices: 60899421--60899530 Score: 195
Period size: 50 Copynumber: 2.2 Consensus size: 50
60899411 TGAATATAAT
*
60899421 ATTTTATGTCTAAAATATGTGATCATGCATGTGTGAAATTTGAATGCTTTG
1 ATTTTATGTCT-AAATATGTGATAATGCATGTGTGAAATTTGAATGCTTTG
60899472 ATTTTATGTCTAAATATGTGATAATGCATGTGTGAAATTTGAATGCTTTG
1 ATTTTATGTCTAAATATGTGATAATGCATGTGTGAAATTTGAATGCTTTG
60899522 ATTTT-TGTC
1 ATTTTATGTC
60899531 AATTTGAATG
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
49 4 0.07
50 43 0.74
51 11 0.19
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.45
Consensus pattern (50 bp):
ATTTTATGTCTAAATATGTGATAATGCATGTGTGAAATTTGAATGCTTTG
Found at i:60902032 original size:47 final size:47
Alignment explanation
Indices: 60901966--60902487 Score: 834
Period size: 47 Copynumber: 11.1 Consensus size: 47
60901956 GAAATGATAG
60901966 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
60902013 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
60902062 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
60902109 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60902156 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60902203 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
60902252 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
60902299 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
60902346 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
60902392 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** * * * * * * * *
60902438 -CGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
60902484 TAAG
1 TAAG
60902488 TCCCGAAGGG
Statistics
Matches: 451, Mismatches: 17, Indels: 14
0.94 0.04 0.03
Matches are distributed among these distances:
45 9 0.02
46 106 0.24
47 242 0.54
49 94 0.21
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:60902245 original size:143 final size:140
Alignment explanation
Indices: 60901966--60902487 Score: 859
Period size: 143 Copynumber: 3.7 Consensus size: 140
60901956 GAAATGATAG
60901966 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
60902031 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAG
60902096 TGTATATGTGTGA
128 TGTATATGTGTGA
* *
60902109 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
60902174 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTG
*
60902239 TATATATATGTGA
130 --TATATGTGTGA
60902252 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
60902317 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGT
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGT
60902382 ATATGTGTGA
131 ATATGTGTGA
* ** * * * *
60902392 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA-CGGGCCGAGTGGCCAAC
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * *
60902455 GTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAG
60902488 TCCCGAAGGG
Statistics
Matches: 360, Mismatches: 17, Indels: 9
0.93 0.04 0.02
Matches are distributed among these distances:
138 41 0.11
139 44 0.12
140 11 0.03
141 46 0.13
142 24 0.07
143 194 0.54
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (140 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGT
ATATGTGTGA
Found at i:60902289 original size:190 final size:190
Alignment explanation
Indices: 60901966--60902433 Score: 868
Period size: 190 Copynumber: 2.5 Consensus size: 190
60901956 GAAATGATAG
60901966 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
60902031 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
* *
60902096 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
131 TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
60902156 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
60902221 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
*
60902286 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
131 TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
60902346 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATGTGTGAT-AGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
60902409 GTGATGAATGTGAAAGTGTATATAT
66 GTGATGAATGTGAAAGTGTATATAT
60902434 GTGACGGGCC
Statistics
Matches: 271, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
188 40 0.15
189 35 0.13
190 196 0.72
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (190 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:60902662 original size:37 final size:37
Alignment explanation
Indices: 60902606--60902684 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
60902596 CCGAGCTCTA
* *
60902606 AAGACCCGATGACTACGTGT-GAGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
60902643 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
60902680 AAGAC
1 AAGAC
60902685 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 35 0.92
38 3 0.08
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:60904491 original size:40 final size:40
Alignment explanation
Indices: 60904387--60904492 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
60904377 TACTCGAATT
* * **
60904387 CTCGCACATTAAGTGCCAATACATAGCCGAAGCTATTTTAA
1 CTCGCACACTAAGTGCC-ATACATAGCCAAAGCTATTCGAA
* *
60904428 TCTCGCACACTAAGTGTCGTACATAGCCAAAGCTATCTCGAA
1 -CTCGCACACTAAGTGCCATACATAGCCAAAGCTAT-TCGAA
60904470 -TCGCACACTAAGTGCCATACATA
1 CTCGCACACTAAGTGCCATACATA
60904493 ATCGAATTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 21 0.38
41 16 0.29
42 18 0.33
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (40 bp):
CTCGCACACTAAGTGCCATACATAGCCAAAGCTATTCGAA
Found at i:60905938 original size:20 final size:19
Alignment explanation
Indices: 60905911--60905948 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
60905901 AAGTAACTTA
60905911 ATGATATT-TATATGATATG
1 ATGATATTAT-TATGATATG
60905930 ATGATTATTATTATGATAT
1 ATGA-TATTATTATGATAT
60905949 ATTATGCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 12 0.71
21 1 0.06
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (19 bp):
ATGATATTATTATGATATG
Found at i:60906167 original size:20 final size:20
Alignment explanation
Indices: 60906144--60906212 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 20
60906134 AGTTCCGAAC
60906144 TCGTTGAGTTGAGTCCGAGT
1 TCGTTGAGTTGAGTCCGAGT
*
60906164 TCG-TGAGATGTAAGTAGGCATCCGAGC
1 TCGTTGAG-T-T--G-A-G--TCCGAGT
60906191 TCGTTGAGTTGAGTCCGAGT
1 TCGTTGAGTTGAGTCCGAGT
60906211 TC
1 TC
60906213 ACTTATGGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
19 4 0.11
20 12 0.32
21 1 0.03
22 1 0.03
23 2 0.05
24 2 0.05
25 1 0.03
26 1 0.03
27 10 0.26
28 4 0.11
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.30
Consensus pattern (20 bp):
TCGTTGAGTTGAGTCCGAGT
Found at i:60909997 original size:39 final size:39
Alignment explanation
Indices: 60909741--60909978 Score: 370
Period size: 39 Copynumber: 6.1 Consensus size: 39
60909731 GCTCTGGTAA
* *
60909741 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAACACTTCTGT
1 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
60909780 GCTTCAGTCAGCCTTTGGGCTTCCGTTTAGGACTTATGT
1 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTATGT
60909819 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTCA-GT
1 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTT-ATGT
*
60909858 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
60909897 GCTTCAGTTAGCCTTTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * *
60909936 GCTTCAATTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTATGT
60909975 GCTT
1 GCTT
60909979 TAGCTAAACT
Statistics
Matches: 184, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 183 0.99
40 1 0.01
ACGTcount: A:0.13, C:0.27, G:0.23, T:0.37
Consensus pattern (39 bp):
GCTTCAGTCAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:60916799 original size:13 final size:13
Alignment explanation
Indices: 60916783--60916812 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
60916773 ATTGTCATGT
60916783 AATTGTTTTTCTG
1 AATTGTTTTTCTG
60916796 AATTGTTTTTCTG
1 AATTGTTTTTCTG
60916809 AATT
1 AATT
60916813 TAGCTGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
AATTGTTTTTCTG
Found at i:60917858 original size:157 final size:157
Alignment explanation
Indices: 60917692--60918001 Score: 523
Period size: 157 Copynumber: 2.0 Consensus size: 157
60917682 ATAAGAATAT
*
60917692 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
*
60917757 AAATATGATTAA-ATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACA
66 AAATATGATTAAGA-TATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACA
60917821 ATAATAATTTACCAAAACAAATTTCTGG
130 ATAATAATTTACCAAAACAAATTTCTGG
* *
60917849 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* * *
60917914 AAATATGATTAAGATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACTA
66 AAATATGATTAAGATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
* *
60917979 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
60918002 ATGCTAAGGG
Statistics
Matches: 143, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
157 142 0.99
158 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAGATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:60918152 original size:16 final size:16
Alignment explanation
Indices: 60918131--60918198 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
60918121 GATTTGCTAT
60918131 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
60918147 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
60918163 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
60918179 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
60918195 TACA
1 TACA
60918199 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:60922672 original size:21 final size:20
Alignment explanation
Indices: 60922638--60922676 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
60922628 AAACTTGTAT
*
60922638 ATCTATTAACAAACATTCATA
1 ATCTATCAACAAAC-TTCATA
*
60922659 ATCTATCAAGAAACTTCA
1 ATCTATCAACAAACTTCA
60922677 AAACACATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (20 bp):
ATCTATCAACAAACTTCATA
Found at i:60924672 original size:49 final size:49
Alignment explanation
Indices: 60924603--60924920 Score: 298
Period size: 49 Copynumber: 6.4 Consensus size: 49
60924593 GTCATGTGTA
* * * *
60924603 TAGTACTAAATGCAGGCTACTACGTGTACCAGATAATTGGCCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTG
* *** * * * *
60924652 TAGTACTAAGTGCAGACTACTATACGTACCCGATAACTTCGATCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATAA-TT-GGTCACATGTG
* **** *
60924703 TAGTACTAAGTGCAGGCTACTA-GTGTATTAGATGGCCAGGTCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-AATTGGTCACATGTG
* * *
60924752 TAGTACTAAGTGCAAGCTACTACGTGTATCGGATAATTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTG
* * **** *
60924801 TAGTTCTAAGTGCAGGCTACTA-GTGTATTAGATGGCCAGGTCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-AATTGGTCACATGTG
* * *
60924850 TAGTACTAAGTGCAAGCTACTACGTGTATCGGATAATTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTG
*
60924899 TAGTTCTAAGTGCAGGCTACTA
1 TAGTACTAAGTGCAGGCTACTA
60924921 TGCGTACCAG
Statistics
Matches: 211, Mismatches: 52, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
48 9 0.04
49 148 0.70
50 26 0.12
51 28 0.13
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTG
Done.