Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000186.1 Hibiscus syriacus cultivar Beakdansim tig00000329_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3152351
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 4 of 17
Found at i:781780 original size:19 final size:19
Alignment explanation
Indices: 781758--781811 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
781748 TATAATTATG
781758 AAAATGTAAATGTAAATGC
1 AAAATGTAAATGTAAATGC
* *
781777 AAAATGTAAATGCAAATGT
1 AAAATGTAAATGTAAATGC
*
781796 AAATATGTGAATGTAA
1 AAA-ATGTAAATGTAA
781812 CAATAAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 20 0.67
20 10 0.33
ACGTcount: A:0.52, C:0.04, G:0.17, T:0.28
Consensus pattern (19 bp):
AAAATGTAAATGTAAATGC
Found at i:781783 original size:13 final size:12
Alignment explanation
Indices: 781759--781799 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
781749 ATAATTATGA
*
781759 AAATGTAAATGT
1 AAATGCAAATGT
781771 AAATGCAAAATGT
1 AAATGC-AAATGT
781784 AAATGCAAATGT
1 AAATGCAAATGT
781796 AAAT
1 AAAT
781800 ATGTGAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 15 0.56
13 12 0.44
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.27
Consensus pattern (12 bp):
AAATGCAAATGT
Found at i:784757 original size:2 final size:2
Alignment explanation
Indices: 784750--784781 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
784740 AAACCTAAGC
784750 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
784782 TTTTCTCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:785975 original size:108 final size:107
Alignment explanation
Indices: 785822--786108 Score: 362
Period size: 107 Copynumber: 2.7 Consensus size: 107
785812 ATTGAACGCA
* * * * * *
785822 ACCTAGTATGTTAATATTTATTTATAACAAAATATGAAATTAACCTATTTTGTTATCGTCGAATT
1 ACCTAATATGTTGATA-ATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTCGAATT
* * *
785887 TCGAAGGCCCCATTAACTTAAACTTTAGTAACATTTTAGGCACT
65 TCTAAGGCCCCATCAACTTAAA-TTTAGTAACATTTTAGACACT
*
785931 ACCTAATATGTTGATAATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTT
1 ACCTAATATGTTGATAATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTCGAATTT
* * * * *
785996 CTAAGACCCCATCAGCTTAAATTTGGTAATATTTTAGACGCT
66 CTAAGGCCCCATCAACTTAAATTTAGTAACATTTTAGACACT
* * * *
786038 ACCTAATATGTTGATAATATTGACAATAAATTAAGTAATTAACCTATTTTGTTAT-GTC-ATATT
1 ACCTAATATGTTGATAATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTCGA-ATT
786101 TCTAAGGC
65 TCTAAGGC
786109 TTCATCACCT
Statistics
Matches: 156, Mismatches: 21, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
106 13 0.08
107 68 0.44
108 61 0.39
109 14 0.09
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (107 bp):
ACCTAATATGTTGATAATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTCGAATTT
CTAAGGCCCCATCAACTTAAATTTAGTAACATTTTAGACACT
Found at i:803703 original size:24 final size:24
Alignment explanation
Indices: 803650--803703 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
803640 GAAATGAAGG
*
803650 TCATT-TCTTCAAGCACACTTGTT
1 TCATTATCTTCAACCACACTTGTT
* *
803673 TTATTATCTTCAACCACGCTTGTT
1 TCATTATCTTCAACCACACTTGTT
*
803697 TCCTTAT
1 TCATTAT
803704 ATTCCACTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.20, C:0.26, G:0.07, T:0.46
Consensus pattern (24 bp):
TCATTATCTTCAACCACACTTGTT
Found at i:812790 original size:15 final size:15
Alignment explanation
Indices: 812767--812800 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
812757 AAGCACTTAG
*
812767 AGGAGAATGAGAAGA
1 AGGAAAATGAGAAGA
812782 AGGAAAATGAGAAGA
1 AGGAAAATGAGAAGA
812797 AGGA
1 AGGA
812801 GGAGGAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.06
Consensus pattern (15 bp):
AGGAAAATGAGAAGA
Found at i:812803 original size:18 final size:17
Alignment explanation
Indices: 812776--812850 Score: 60
Period size: 18 Copynumber: 4.2 Consensus size: 17
812766 GAGGAGAATG
*
812776 AGAAGAAGGAAAATGAGA
1 AGAAGGAGGAAAA-GAGA
*
812794 AGAAGGAGGAGGAAGAGA
1 AGAAGGAGGA-AAAGAGA
* *
812812 AGGAGGAGGAAGAGAAGA
1 AGAAGGAGGAAAAG-AGA
* *
812830 AGAAGGAAGAGGAAGAGA
1 AGAAGGAGGA-AAAGAGA
812848 AGA
1 AGA
812851 TGATGAAGAA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
17 2 0.04
18 39 0.87
19 4 0.09
ACGTcount: A:0.55, C:0.00, G:0.44, T:0.01
Consensus pattern (17 bp):
AGAAGGAGGAAAAGAGA
Found at i:812812 original size:15 final size:15
Alignment explanation
Indices: 812794--812840 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
812784 GAAAATGAGA
812794 AGAAGGAGGAGGAAG
1 AGAAGGAGGAGGAAG
812809 AGAAGGAGGAGGAAG
1 AGAAGGAGGAGGAAG
* *
812824 AGAAGAAGAAGGAAG
1 AGAAGGAGGAGGAAG
812839 AG
1 AG
812841 GAAGAGAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (15 bp):
AGAAGGAGGAGGAAG
Found at i:812821 original size:21 final size:20
Alignment explanation
Indices: 812805--812850 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
812795 GAAGGAGGAG
*
812805 GAAGAGAAGGAGGAGGAAGA
1 GAAGAGAAGGAAGAGGAAGA
812825 GAAGAAGAAGGAAGAGGAAGA
1 GAAG-AGAAGGAAGAGGAAGA
812846 GAAGA
1 GAAGA
812851 TGATGAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (20 bp):
GAAGAGAAGGAAGAGGAAGA
Found at i:812848 original size:15 final size:15
Alignment explanation
Indices: 812794--812864 Score: 63
Period size: 15 Copynumber: 4.5 Consensus size: 15
812784 GAAAATGAGA
*
812794 AGAAGGAGGAGGAAG
1 AGAAGGAAGAGGAAG
*
812809 AGAAGGAGGAGGAAG
1 AGAAGGAAGAGGAAG
812824 AGAA-GAAGAAGGAAG
1 AGAAGGAAG-AGGAAG
* *
812839 AGGAAGAGAAGATGATG
1 A-GAAG-GAAGAGGAAG
812856 AAGAAGGAA
1 -AGAAGGAA
812865 ATAAAACCCT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
14 3 0.06
15 26 0.54
16 6 0.12
17 8 0.17
18 5 0.10
ACGTcount: A:0.52, C:0.00, G:0.45, T:0.03
Consensus pattern (15 bp):
AGAAGGAAGAGGAAG
Found at i:812863 original size:21 final size:20
Alignment explanation
Indices: 812776--812864 Score: 60
Period size: 21 Copynumber: 4.4 Consensus size: 20
812766 GAGGAGAATG
*
812776 AGAA-GAAG-GAAAATGAGA
1 AGAAGGAAGAGAAGATGAGA
* *
812794 AGAAGGAGGAGGAAGA-GAAGG
1 AGAAGGAAGA-GAAGATG-AGA
* *
812815 AGGAGGAAGAGAAGAAGAAGGA
1 AGAAGGAAGAGAAGATG-A-GA
812837 AG-AGGAAGAGAAGATGATGA
1 AGAAGGAAGAGAAGATGA-GA
812857 AGAAGGAA
1 AGAAGGAA
812865 ATAAAACCCT
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
18 4 0.07
19 3 0.05
20 11 0.20
21 35 0.62
22 3 0.05
ACGTcount: A:0.54, C:0.00, G:0.43, T:0.03
Consensus pattern (20 bp):
AGAAGGAAGAGAAGATGAGA
Found at i:821463 original size:20 final size:20
Alignment explanation
Indices: 821436--821487 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
821426 ACCCTGCGAG
**
821436 TATCGATACCTTACCTACAA
1 TATCGATACCCGACCTACAA
*
821456 TATTGATACCCGACCTACAA
1 TATCGATACCCGACCTACAA
821476 TATCGATACCCG
1 TATCGATACCCG
821488 TTTCATGGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.31, G:0.10, T:0.27
Consensus pattern (20 bp):
TATCGATACCCGACCTACAA
Found at i:823343 original size:5 final size:5
Alignment explanation
Indices: 823333--823358 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
823323 GGATTACAAT
823333 TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA T
823359 CTAAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:825298 original size:20 final size:20
Alignment explanation
Indices: 825273--825312 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
825263 ATAAAAAGTA
825273 TATTTA-TAATATTATAAAAG
1 TATTTATTAAT-TTATAAAAG
825293 TATTTATTTAATTTATAAAA
1 TATTTA-TTAATTTATAAAA
825313 TTATATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
TATTTATTAATTTATAAAAG
Found at i:825483 original size:18 final size:18
Alignment explanation
Indices: 825429--825486 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 18
825419 TTGGTCCCAT
*
825429 ATAATATTATTTAAAATTTA
1 ATAATA-TATTTAAAA-TAA
825449 ATAGATA-ATTT--AA-AA
1 ATA-ATATATTTAAAATAA
825464 ATAATATATTTAAAATAA
1 ATAATATATTTAAAATAA
825482 ATAAT
1 ATAAT
825487 TAATATTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
14 3 0.09
15 8 0.25
17 4 0.12
18 7 0.22
19 4 0.12
20 3 0.09
21 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
ATAATATATTTAAAATAA
Found at i:825515 original size:23 final size:23
Alignment explanation
Indices: 825462--825537 Score: 91
Period size: 23 Copynumber: 3.2 Consensus size: 23
825452 GATAATTTAA
825462 AAATAATA-TATTTAAAATAAAT
1 AAATAATATTATTTAAAATAAAT
*
825484 AATTAATATTATTTAAAATAAAT
1 AAATAATATTATTTAAAATAAAT
* *
825507 AAATCATATGATTTTAAAAATTAAAT
1 AAATAATATTA-TTT-AAAA-TAAAT
825533 AAATA
1 AAATA
825538 TTTTTATAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
22 7 0.16
23 22 0.49
24 3 0.07
25 4 0.09
26 9 0.20
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (23 bp):
AAATAATATTATTTAAAATAAAT
Found at i:828000 original size:35 final size:35
Alignment explanation
Indices: 827922--828027 Score: 164
Period size: 35 Copynumber: 3.1 Consensus size: 35
827912 CCTTACAACT
* *
827922 CCCTAG-TTTTTC-CGGGCTAAACTAGAACCTTT-
1 CCCTAGCTTTTACACGGGCTAAGCTAGAACCTTTC
827954 CCCTAGCTTTTACACGGGCTAAGCTAGAACCTTTC
1 CCCTAGCTTTTACACGGGCTAAGCTAGAACCTTTC
*
827989 CCCTAGCTTTTACACGGGCTAAGCTATAACCTTTC
1 CCCTAGCTTTTACACGGGCTAAGCTAGAACCTTTC
828024 CCCT
1 CCCT
828028 TTACAAAAGG
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
32 6 0.09
33 5 0.07
34 19 0.28
35 38 0.56
ACGTcount: A:0.22, C:0.32, G:0.15, T:0.31
Consensus pattern (35 bp):
CCCTAGCTTTTACACGGGCTAAGCTAGAACCTTTC
Found at i:828334 original size:21 final size:21
Alignment explanation
Indices: 828308--828349 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
828298 CCAGAATAGG
*
828308 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
828329 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
828350 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:828515 original size:18 final size:19
Alignment explanation
Indices: 828491--828532 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
828481 ATTTTTGTAA
828491 ATTCAAATAGT-AATTACT
1 ATTCAAATAGTAAATTACT
*
828509 GTTCAAATAGTAAATTACT
1 ATTCAAATAGTAAATTACT
828528 ATTCA
1 ATTCA
828533 TAAAAACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (19 bp):
ATTCAAATAGTAAATTACT
Found at i:828662 original size:32 final size:32
Alignment explanation
Indices: 828597--828687 Score: 161
Period size: 32 Copynumber: 2.9 Consensus size: 32
828587 AAATTTTGAA
828597 TAAATTCAATT-AAGTCCAAAAA-CA-TTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTTG
828626 TAAATTCAATTCAAGTCCAAAAACCATTTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTTG
828658 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATTCAAGTCCAAAAACCATTTT
828688 GCCTTAAATT
Statistics
Matches: 59, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
29 11 0.19
30 11 0.19
31 2 0.03
32 35 0.59
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (32 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTTG
Found at i:833051 original size:2 final size:2
Alignment explanation
Indices: 833038--833086 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
833028 TTTAAAGAAA
833038 AT AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
833078 AT AT AT AT A
1 AT AT AT AT A
833087 ACATATTTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:834882 original size:13 final size:14
Alignment explanation
Indices: 834866--834915 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 14
834856 ATTAATTATT
834866 TAAT-ATAATAATA
1 TAATAATAATAATA
*
834879 TAATAATAA-AACA
1 TAATAATAATAATA
*
834892 AAATAATAATAATA
1 TAATAATAATAATA
834906 -AATAA-AATAA
1 TAATAATAATAA
834916 ATGAAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 5 0.16
13 20 0.62
14 7 0.22
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:835375 original size:113 final size:113
Alignment explanation
Indices: 835238--835798 Score: 847
Period size: 113 Copynumber: 5.0 Consensus size: 113
835228 AGAATCATGT
* *
835238 AAAAGGTTGAACAAGTTCTTCTCATTGTGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * ** *
835303 TATGAACTCTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCAAAC
66 TATGAACTCTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
* ** * * * *
835351 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGACGAATTCTTCTCAT
1 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
835416 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
66 TATGAACTCTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
*
835464 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
835529 TATAAACTTTCTCTGAAAAAGCTGATCCATCAAGTAATGGATTTGAGC
66 TATGAACTCTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
*
835577 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
835642 TATGAACTCTTTCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAGC
66 TATGAACTCTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
*
835690 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
835755 TATGAACTCTTTCTGGAAATGTTGATCCAT--TGTGATGGATTTGA
66 TATGAACTCTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
835799 ATCTTTGCTA
Statistics
Matches: 411, Mismatches: 37, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
111 13 0.03
113 398 0.97
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC
Found at i:839609 original size:23 final size:23
Alignment explanation
Indices: 839583--839627 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
839573 CACCACAGCT
*
839583 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* * *
839606 CGTAGAATTGCATCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
839628 ATATAATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:841433 original size:21 final size:21
Alignment explanation
Indices: 841409--841451 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
841399 TTTTGTTCGT
* *
841409 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
841430 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
841451 T
1 T
841452 GCCCAGAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:844895 original size:25 final size:25
Alignment explanation
Indices: 844867--844935 Score: 120
Period size: 25 Copynumber: 2.8 Consensus size: 25
844857 TATATATATA
*
844867 TCCCGAAAGACCGCGTAGAATATTG
1 TCCCGAAGGACCGCGTAGAATATTG
*
844892 TCCCGAAGGACCGCATAGAATATTG
1 TCCCGAAGGACCGCGTAGAATATTG
844917 TCCCGAAGGACCGCGTAGA
1 TCCCGAAGGACCGCGTAGA
844936 CCCTCTACTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (25 bp):
TCCCGAAGGACCGCGTAGAATATTG
Found at i:845210 original size:70 final size:70
Alignment explanation
Indices: 845130--845272 Score: 286
Period size: 70 Copynumber: 2.0 Consensus size: 70
845120 AACATATATC
845130 ACAAAGTGCACATAATCACACATATCATATCATATAGCTTAGATCATTTCTCAGATATTCATATA
1 ACAAAGTGCACATAATCACACATATCATATCATATAGCTTAGATCATTTCTCAGATATTCATATA
845195 AACAT
66 AACAT
845200 ACAAAGTGCACATAATCACACATATCATATCATATAGCTTAGATCATTTCTCAGATATTCATATA
1 ACAAAGTGCACATAATCACACATATCATATCATATAGCTTAGATCATTTCTCAGATATTCATATA
845265 AACAT
66 AACAT
845270 ACA
1 ACA
845273 TATCATATCT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (70 bp):
ACAAAGTGCACATAATCACACATATCATATCATATAGCTTAGATCATTTCTCAGATATTCATATA
AACAT
Found at i:846658 original size:20 final size:20
Alignment explanation
Indices: 846635--846676 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
846625 TTTTGTTCGT
* *
846635 TTGAAGGGGTATCGGTTCCC
1 TTGAAGGGGTACCGATTCCC
*
846655 TTGAATGGGTACCGATTCCC
1 TTGAAGGGGTACCGATTCCC
846675 TT
1 TT
846677 TGCCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (20 bp):
TTGAAGGGGTACCGATTCCC
Found at i:849400 original size:15 final size:15
Alignment explanation
Indices: 849380--849443 Score: 67
Period size: 15 Copynumber: 4.2 Consensus size: 15
849370 TTCCTTTTTC
849380 TTTTCTTTTTTCTTT
1 TTTTCTTTTTTCTTT
*
849395 TTTTCTTTTTTCTCAT
1 TTTTCTTTTTTCT-TT
* *
849411 TTTTCCTTTTTCATCT
1 TTTTCTTTTTTC-TTT
*
849427 TTTT-TGTTTTCTTT
1 TTTTCTTTTTTCTTT
849441 TTT
1 TTT
849444 CCTTCTTCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
14 5 0.12
15 18 0.44
16 17 0.41
17 1 0.02
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTCTTTTTTCTTT
Found at i:849413 original size:16 final size:16
Alignment explanation
Indices: 849380--849436 Score: 71
Period size: 15 Copynumber: 3.6 Consensus size: 16
849370 TTCCTTTTTC
849380 TTTTCTTTTTTCT-TT
1 TTTTCTTTTTTCTCTT
*
849395 TTTTCTTTTTTCTCAT
1 TTTTCTTTTTTCTCTT
*
849411 TTTTCCTTTTTCATCTT
1 TTTTCTTTTTTC-TCTT
*
849428 TTTTGTTTT
1 TTTTCTTTT
849437 CTTTTTTCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
15 13 0.37
16 12 0.34
17 10 0.29
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTCTTTTTTCTCTT
Found at i:849443 original size:7 final size:7
Alignment explanation
Indices: 849360--849454 Score: 70
Period size: 7 Copynumber: 13.3 Consensus size: 7
849350 AATTTCTCCA
*
849360 TTTTTCC
1 TTTTTCT
*
849367 TTTTTCC
1 TTTTTCT
849374 TTTTTC-
1 TTTTTCT
849380 -TTTTCT
1 TTTTTCT
849386 TTTTTCTT
1 TTTTTC-T
849394 TTTTTCT
1 TTTTTCT
849401 TTTTTCT
1 TTTTTCT
*
849408 CATTTTTCC
1 --TTTTTCT
849417 TTTTTCAT
1 TTTTTC-T
849425 CTTTTT-T
1 -TTTTTCT
*
849432 GTTTTCT
1 TTTTTCT
*
849439 TTTTTCC
1 TTTTTCT
*
849446 TTCTTCT
1 TTTTTCT
849453 TT
1 TT
849455 GTTTGCTGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
5 5 0.07
6 4 0.05
7 46 0.63
8 7 0.10
9 11 0.15
ACGTcount: A:0.02, C:0.20, G:0.01, T:0.77
Consensus pattern (7 bp):
TTTTTCT
Found at i:854244 original size:28 final size:26
Alignment explanation
Indices: 854189--854246 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
854179 AAACATTAAT
*
854189 AAAATAATATACATATAAATATTATG
1 AAAATAATATACATATAAAAATTATG
* *
854215 AAAATAATAAGTATATATAAAAATTTTG
1 AAAATAAT-A-TACATATAAAAATTATG
854243 AAAA
1 AAAA
854247 GAAGAATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 8 0.30
27 1 0.04
28 18 0.67
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAATAATATACATATAAAAATTATG
Found at i:854752 original size:2 final size:2
Alignment explanation
Indices: 854739--854776 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
854729 TTTAAAGAAA
854739 AT AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
854777 TTAAATAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:854973 original size:112 final size:113
Alignment explanation
Indices: 854786--854989 Score: 302
Period size: 112 Copynumber: 1.8 Consensus size: 113
854776 TTTAAATAAC
* * **
854786 ATATTTATTTATTTAGAAATATCAGAAAAGGGCTTTTAGGTACTTTAAGACAGCTATTTCCTTTG
1 ATATTTATTTATTTAAAAATATCAGAAAAGGGCTTCTAGGTACTTTAAGACAGCTATTTCCTTCA
854851 ATATTAAAAAATAAATAAATAA-TAAAAAATTATTTTAATGTAGTAAG
66 ATATTAAAAAATAAATAAATAACTAAAAAATTATTTTAATGTAGTAAG
* * * ** *
854898 ATATTTATTTATTTAAAAATATTAGAAAATGGCTTCTAGTTGTTTTAAGACAGCTCTTTCCTTCA
1 ATATTTATTTATTTAAAAATATCAGAAAAGGGCTTCTAGGTACTTTAAGACAGCTATTTCCTTCA
*
854963 ATATTTAAAAATAAATAAATAACTAAA
66 ATATTAAAAAATAAATAAATAACTAAA
854990 CATAATAATA
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
112 76 0.95
113 4 0.05
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (113 bp):
ATATTTATTTATTTAAAAATATCAGAAAAGGGCTTCTAGGTACTTTAAGACAGCTATTTCCTTCA
ATATTAAAAAATAAATAAATAACTAAAAAATTATTTTAATGTAGTAAG
Found at i:855242 original size:13 final size:13
Alignment explanation
Indices: 855224--855276 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
855214 ACTCTACTTC
855224 ATTAAAATAAAAT
1 ATTAAAATAAAAT
855237 ATTAAAACTTACAAAT
1 ATTAAAA--TA-AAAT
* *
855253 ATTTAATTAAAAT
1 ATTAAAATAAAAT
*
855266 ATTAATATAAA
1 ATTAAAATAAA
855277 TGTATTAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
13 19 0.59
14 2 0.06
15 2 0.06
16 9 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (13 bp):
ATTAAAATAAAAT
Found at i:856495 original size:16 final size:16
Alignment explanation
Indices: 856469--856513 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
856459 TTAATTATTT
* *
856469 AATAATTATAATATAA
1 AATAATAATAATACAA
* *
856485 TATAATAATAAAACAA
1 AATAATAATAATACAA
856501 AATAATAATAATA
1 AATAATAATAATA
856514 AATGAAATAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAATAATAATACAA
Found at i:857182 original size:95 final size:95
Alignment explanation
Indices: 857071--857332 Score: 359
Period size: 95 Copynumber: 2.7 Consensus size: 95
857061 ATATTATAAT
*
857071 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTA
1 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTA
857136 TGGATAAGATTCAGCTAGACTGATAAAGGTG
66 TGGATAAGATTCAGCTAGACTGAT-AAGGTG
*
857167 ATTATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGTCTTTA
1 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTA
* * *
857231 TGGATAATATTCAGTTAGCCTGATAAGGTG
66 TGGATAAGATTCAGCTAGACTGATAAGGTG
* * * * * *
857261 ATTATAATACCTATACAATGATA--TTAAGCTGTCCCTCTAGAGAAATTAGTTAAACGCCCCGGT
1 ATTAT-ATA--TATACAAT-AAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGC
857324 TTTATGGAT
62 TTTATGGAT
857333 TCAGCTAGCC
Statistics
Matches: 149, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
94 11 0.07
95 78 0.52
96 7 0.05
97 43 0.29
98 8 0.05
99 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (95 bp):
ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTA
TGGATAAGATTCAGCTAGACTGATAAGGTG
Found at i:857700 original size:25 final size:25
Alignment explanation
Indices: 857672--857731 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
857662 AACATTTGTC
857672 AAAGAGCTATAACTCTGAAAGCTGT
1 AAAGAGCTATAACTCTGAAAGCTGT
*
857697 AAAGAGCTATAACTCTGAAAGTTGT
1 AAAGAGCTATAACTCTGAAAGCTGT
857722 AAAGAGCTAT
1 AAAGAGCTAT
857732 TGTTTTGATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (25 bp):
AAAGAGCTATAACTCTGAAAGCTGT
Found at i:858156 original size:64 final size:64
Alignment explanation
Indices: 858055--858218 Score: 222
Period size: 64 Copynumber: 2.6 Consensus size: 64
858045 TTTTGCAGCT
*** *
858055 TTTAAAGTCAATTTCAACTTCACGGTGAAGGATATTAGACTCAACAAACAACTTTCCAGTTTCA
1 TTTAAAGTCAATTTCAACTTCACAACGAGGGATATTAGACTCAACAAACAACTTTCCAGTTTCA
* *
858119 TTTAAAGTCAATTTCAACTTCACAACGAGGGATATTAGACTCAACAAACAACTTTCTAGTTTTA
1 TTTAAAGTCAATTTCAACTTCACAACGAGGGATATTAGACTCAACAAACAACTTTCCAGTTTCA
* * * *
858183 TTCAGAGTCAATTTCAATTTCATAACGAAGGG-TATT
1 TTTAAAGTCAATTTCAACTTCACAACG-AGGGATATT
858219 GAACTCGAAG
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 85 0.96
65 4 0.04
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (64 bp):
TTTAAAGTCAATTTCAACTTCACAACGAGGGATATTAGACTCAACAAACAACTTTCCAGTTTCA
Found at i:858373 original size:122 final size:121
Alignment explanation
Indices: 858247--858514 Score: 356
Period size: 122 Copynumber: 2.2 Consensus size: 121
858237 ATTCTTATAT
* * *
858247 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTTACAATGAAGGGGCTAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* ** * * *
858312 CCACGATTTCAACTTCACGATGGAGGATATCGTGCCCACAAAGCAACAATGCAACCC
66 CCACGATTTCAACTCCACGACAGAGGACATCATGCCCAC-AAGCAACAATACAACCC
* * * *
858369 TTGGATTTCAACTTCACGACGAATGATATCTAATTCGAGGCTCAACTTCACGACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
* * * * *
858434 CTACGATTTCAACTCCATGACAGAGGACATCATTCCCACAAGCAGCAATACAACTC
66 CCACGATTTCAACTCCACGACAGAGGACATCATGCCCACAAGCAACAATACAACCC
*
858490 TTGGATTTCAACTTTACGACGAAGG
1 TTGGATTTCAACTTCACGACGAAGG
858515 GGCCATTCAT
Statistics
Matches: 126, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
121 37 0.29
122 89 0.71
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (121 bp):
TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCAT
CCACGATTTCAACTCCACGACAGAGGACATCATGCCCACAAGCAACAATACAACCC
Found at i:858649 original size:207 final size:209
Alignment explanation
Indices: 858288--858721 Score: 602
Period size: 207 Copynumber: 2.1 Consensus size: 209
858278 AATTCAAGGC
* * * * * *
858288 TCAACTTTACAATGAAGGGGCTATCCACGATTTCAACTTCACGATGGAGGATATCGTGCCCACAA
1 TCAACTTTACGACGAAGGGGCCATCCACAATTTCAACTTCACGACGAAGGATATCGTGCCCACAA
* * * * *
858353 AGCAACAATGCAACCCTTGGATTTCAACTTCACGACGAATGATATCTAATTCGAGGCTCAACTTC
66 AGCAACAATACAACACTTGCATTTCAACTTCACGACGAATGATATCCAATTCGAGCCTCAACTTC
* * *
858418 ACGACGAAGGGGCCATCTACGATTTCAACTCCATGACAGAGGACATCATTCCCACAAGCAGCAAT
131 ACGACGAAGGGGCCATCCACGATTTCAACTCCACGACAGAGGACATCATACCCACAAGCAGCAAT
*
858483 ACAACTCTTGGATT
196 ACAACCCTTGGATT
* * ** *
858497 TCAACTTTACGACGAAGGGGCCATTCATAATTTCAACTTCACGACGAAGGATATCGTGTTCACCA
1 TCAACTTTACGACGAAGGGGCCATCCACAATTTCAACTTCACGACGAAGGATATCGTGCCCACAA
* *
858562 A-CAAC-ATACAATACTTGCATTTCAACTTCATGACGAATGATATCCAATTCGAGCCTCAACTTC
66 AGCAACAATACAACACTTGCATTTCAACTTCACGACGAATGATATCCAATTCGAGCCTCAACTTC
* * * *
858625 ACGACGAATGGGCCATCCACGATTTCAACTCCACGACGGAGGACATCGTACCCACAAGCATCAAT
131 ACGACGAAGGGGCCATCCACGATTTCAACTCCACGACAGAGGACATCATACCCACAAGCAGCAAT
*
858690 GCAACCCTTGGATT
196 ACAACCCTTGGATT
*
858704 TCAACTTCACGACGAAGG
1 TCAACTTTACGACGAAGG
858722 ATATCCAATT
Statistics
Matches: 197, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
207 138 0.70
208 4 0.02
209 55 0.28
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (209 bp):
TCAACTTTACGACGAAGGGGCCATCCACAATTTCAACTTCACGACGAAGGATATCGTGCCCACAA
AGCAACAATACAACACTTGCATTTCAACTTCACGACGAATGATATCCAATTCGAGCCTCAACTTC
ACGACGAAGGGGCCATCCACGATTTCAACTCCACGACAGAGGACATCATACCCACAAGCAGCAAT
ACAACCCTTGGATT
Found at i:858650 original size:120 final size:120
Alignment explanation
Indices: 858497--859397 Score: 1115
Period size: 120 Copynumber: 7.5 Consensus size: 120
858487 CTCTTGGATT
* * ** *
858497 TCAACTTTACGACGAAGGGGCCATTCATAATTTCAACTTCACGACGAAGGATATCGTGTTCACCA
1 TCAACTTCACGACGAAGGGGCCATCCACGATTTCAACTCCACGACGAAGGATATCGTGTTCACCA
* * * * *
858562 ACAACATACAATACTTGCATTTCAACTTCATGACGAATGATATCCAATTCGAGCC
66 ACAACATACAATACTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGC
* * * ***
858617 TCAACTTCACGACGAATGGGCCATCCACGATTTCAACTCCACGACGGAGGACATCGTACCCA-CA
1 TCAACTTCACGACGAAGGGGCCATCCACGATTTCAACTCCACGACGAAGGATATCGTGTTCACCA
* * ** *
858681 AGCATCAATGCAACCCTTGGATTTCAACTTCACGACGAAGGATATCCAATTCGAGGC
66 A-CAAC-ATACAATACTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGC
*
858738 TCAACTTCACGACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGTTCACCA
1 TCAACTTCACGACGAAGGGGCCATCCACGATTTCAACTCCACGACGAAGGATATCGTGTTCACCA
* * * *
858803 GCAACATACAATACTTGGATTTCAACTTCACGACGAATGATATCCAATTCGAGCC
66 ACAACATACAATACTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGC
* * * **
858858 TCAACTTCATGACGAAGGGGCCATCCACGATTTCAACTCCACGACGGAGGACATCGTGCCCA-CA
1 TCAACTTCACGACGAAGGGGCCATCCACGATTTCAACTCCACGACGAAGGATATCGTGTTCACCA
* * ** *
858922 AGCATCAATGCAACCCTTGGATTTTAACTTCACGACGAAGGATATCCAATTCAAGGC
66 A-CAAC-ATACAATACTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGC
* * * * *
858979 TCAACTTCATGATGAAGGGGCCATCAACGATTTCAACTTCACGACGAAGGGTATCGTGTTCACCA
1 TCAACTTCACGACGAAGGGGCCATCCACGATTTCAACTCCACGACGAAGGATATCGTGTTCACCA
* * * *
859044 GCAACATATAATACTTGGATTTTAACTTCACGACGAAAGATATCCAATTCAAGGC
66 ACAACATACAATACTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGC
* * * * ** *
859099 TTAACATCACAACGAAGGGGCCATCCACGATTTCAACTCCACGACGAAGGATATCATGCCCA-AA
1 TCAACTTCACGACGAAGGGGCCATCCACGATTTCAACTCCACGACGAAGGATATCGTGTTCACCA
* * ** * * *
859163 AGCAGCAATATAACCCTTGGATTTTAACTTCACGATGAATGATATCCAATTCAAGGC
66 A-CAAC-ATACAATACTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGC
* * * *
859220 TCAACTTCACGACGAATGGGCCATCCACGATTACAACTTCACGACGAAGGATATCATGTTCACCA
1 TCAACTTCACGACGAAGGGGCCATCCACGATTTCAACTCCACGACGAAGGATATCGTGTTCACCA
* * *
859285 GCAACATACAATACTTGGATTTCAACTTCATGATGAAGGATATCCAATTCAAGGC
66 ACAACATACAATACTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGC
* *
859340 TCAACTTCACAACGAAGGGGCCATCCACGATTTCAACTCCACGATGAAGGATATCGTG
1 TCAACTTCACGACGAAGGGGCCATCCACGATTTCAACTCCACGACGAAGGATATCGTG
859398 CCCACAAGCA
Statistics
Matches: 668, Mismatches: 104, Indels: 18
0.85 0.13 0.02
Matches are distributed among these distances:
119 6 0.01
120 353 0.53
121 304 0.46
122 5 0.01
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.23
Consensus pattern (120 bp):
TCAACTTCACGACGAAGGGGCCATCCACGATTTCAACTCCACGACGAAGGATATCGTGTTCACCA
ACAACATACAATACTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGC
Found at i:858782 original size:66 final size:64
Alignment explanation
Indices: 858700--859033 Score: 188
Period size: 66 Copynumber: 5.4 Consensus size: 64
858690 GCAACCCTTG
858700 GATTTCAACTTCACGACGAAGGATATCCAATTCGAGGCTCAACTTCACGACGAAGGGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCGA-GCTCAACTTCA-GACGAAGGGGCCATCCA
858765 C
64 C
*** * ** * * ***
858766 GATTTCAACTTCACGACGAAGGATATCGTGTTC-A-C-CAGCAACATAC-AA-----TA-CTTG
1 GATTTCAACTTCACGACGAAGGATATCCAATTCGAGCTCAACTTCAGACGAAGGGGCCATCCAC
*
858820 GATTTCAACTTCACGACGAATGATATCCAATTCGAGCCTCAACTTCATGACGAAGGGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCGAG-CTCAACTTCA-GACGAAGGGGCCATCCA
858885 C
64 C
* * * * ** * * * **
858886 GATTTCAACTCCACGACGGAGGACAT-C--GT-GCCCACAAGCATCA-ATGCAA----CC--CTT
1 GATTTCAACTTCACGACGAAGGATATCCAATTCGAGCTCAA-CTTCAGACG-AAGGGGCCATCCA
*
858940 G
64 C
* * * *
858941 GATTTTAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCATGATGAAGGGGCCATCAA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCGA-GCTCAACTTCA-GACGAAGGGGCCATCCA
859006 C
64 C
*
859007 GATTTCAACTTCACGACGAAGGGTATC
1 GATTTCAACTTCACGACGAAGGATATC
859034 GTGTTCACCA
Statistics
Matches: 190, Mismatches: 51, Indels: 54
0.64 0.17 0.18
Matches are distributed among these distances:
54 30 0.16
55 25 0.13
56 1 0.01
57 3 0.02
58 6 0.03
59 6 0.03
60 12 0.06
61 11 0.06
62 10 0.05
63 2 0.01
64 2 0.01
65 3 0.02
66 79 0.42
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (64 bp):
GATTTCAACTTCACGACGAAGGATATCCAATTCGAGCTCAACTTCAGACGAAGGGGCCATCCAC
Found at i:858799 original size:241 final size:241
Alignment explanation
Indices: 858497--859412 Score: 1418
Period size: 241 Copynumber: 3.8 Consensus size: 241
858487 CTCTTGGATT
* * **
858497 TCAACTTTACGACGAAGGGGCCATTCATAATTTCAACTTCACGACGAAGGATATCGTGTTCACCA
1 TCAACTTCACGACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGTTCACCA
* * * *
858562 ACAACATACAATACTTGCATTTCAACTTCATGACGAATGATATCCAATTCGAGCCTCAACTTCAC
66 GCAACATACAATACTTGGATTTCAACTTCACGACGAATGATATCCAATTCAAGCCTCAACTTCAC
* * * * *
858627 GACGAATGGGCCATCCACGATTTCAACTCCACGACGGAGGACATCGTACCCACAAGCATCAATGC
131 AACGAAGGGGCCATCCACGATTTCAACTCCACGACGAAGGACATCGTGCCCACAAGCAGCAATGC
* *
858692 AACCCTTGGATTTCAACTTCACGACGAAGGATATCCAATTCGAGGC
196 AACCCTTGGATTTTAACTTCACGACGAAGGATATCCAATTCAAGGC
858738 TCAACTTCACGACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGTTCACCA
1 TCAACTTCACGACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGTTCACCA
* *
858803 GCAACATACAATACTTGGATTTCAACTTCACGACGAATGATATCCAATTCGAGCCTCAACTTCAT
66 GCAACATACAATACTTGGATTTCAACTTCACGACGAATGATATCCAATTCAAGCCTCAACTTCAC
* * *
858868 GACGAAGGGGCCATCCACGATTTCAACTCCACGACGGAGGACATCGTGCCCACAAGCATCAATGC
131 AACGAAGGGGCCATCCACGATTTCAACTCCACGACGAAGGACATCGTGCCCACAAGCAGCAATGC
858933 AACCCTTGGATTTTAACTTCACGACGAAGGATATCCAATTCAAGGC
196 AACCCTTGGATTTTAACTTCACGACGAAGGATATCCAATTCAAGGC
* * * *
858979 TCAACTTCATGATGAAGGGGCCATCAACGATTTCAACTTCACGACGAAGGGTATCGTGTTCACCA
1 TCAACTTCACGACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGTTCACCA
* * * * * *
859044 GCAACATATAATACTTGGATTTTAACTTCACGACGAAAGATATCCAATTCAAGGCTTAACATCAC
66 GCAACATACAATACTTGGATTTCAACTTCACGACGAATGATATCCAATTCAAGCCTCAACTTCAC
* * * **
859109 AACGAAGGGGCCATCCACGATTTCAACTCCACGACGAAGGATATCATGCCCAAAAGCAGCAATAT
131 AACGAAGGGGCCATCCACGATTTCAACTCCACGACGAAGGACATCGTGCCCACAAGCAGCAATGC
* *
859174 AACCCTTGGATTTTAACTTCACGATGAATGATATCCAATTCAAGGC
196 AACCCTTGGATTTTAACTTCACGACGAAGGATATCCAATTCAAGGC
* * *
859220 TCAACTTCACGACGAATGGGCCATCCACGATTACAACTTCACGACGAAGGATATCATGTTCACCA
1 TCAACTTCACGACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGTTCACCA
* * * *
859285 GCAACATACAATACTTGGATTTCAACTTCATGATGAAGGATATCCAATTCAAGGCTCAACTTCAC
66 GCAACATACAATACTTGGATTTCAACTTCACGACGAATGATATCCAATTCAAGCCTCAACTTCAC
* *
859350 AACGAAGGGGCCATCCACGATTTCAACTCCACGATGAAGGATATCGTGCCCACAAGCAGCAAT
131 AACGAAGGGGCCATCCACGATTTCAACTCCACGACGAAGGACATCGTGCCCACAAGCAGCAAT
859413 ACAAATATAA
Statistics
Matches: 624, Mismatches: 51, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
241 624 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.23
Consensus pattern (241 bp):
TCAACTTCACGACGAAGGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGTTCACCA
GCAACATACAATACTTGGATTTCAACTTCACGACGAATGATATCCAATTCAAGCCTCAACTTCAC
AACGAAGGGGCCATCCACGATTTCAACTCCACGACGAAGGACATCGTGCCCACAAGCAGCAATGC
AACCCTTGGATTTTAACTTCACGACGAAGGATATCCAATTCAAGGC
Found at i:860701 original size:25 final size:23
Alignment explanation
Indices: 860672--860723 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
860662 GTATGATATG
860672 TGATATGACATGTGATATGAGA-ACA
1 TGATATGA-A-GTG-TATGAGATACA
860697 TGATATGAAGTGTATGAGATACA
1 TGATATGAAGTGTATGAGATACA
860720 TGAT
1 TGAT
860724 CACAAGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.27
23 10 0.38
24 1 0.04
25 8 0.31
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (23 bp):
TGATATGAAGTGTATGAGATACA
Found at i:867551 original size:12 final size:12
Alignment explanation
Indices: 867533--867568 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
867523 TATATATGTT
867533 CATGTGATATGA
1 CATGTGATATGA
*
867545 TATGTGATATGA
1 CATGTGATATGA
867557 CATGTGATATGA
1 CATGTGATATGA
867569 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:867590 original size:23 final size:26
Alignment explanation
Indices: 867533--867601 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
867523 TATATATGTT
**
867533 CATGTGATAT--GATATGTGATATGA
1 CATGTGATATGAGATACATGATATGA
867557 CATGTGATATGAGA-ACATGATATGA
1 CATGTGATATGAGATACATGATATGA
867582 -A-GTGATATGAGATACATGAT
1 CATGTGATATGAGATACATGAT
867602 CACAAGAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 9 0.22
26 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (26 bp):
CATGTGATATGAGATACATGATATGA
Found at i:868477 original size:32 final size:32
Alignment explanation
Indices: 868435--868515 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
868425 TTCAAGGCTT
* * * *
868435 AACTTTACAACGAAGGGGTCATCCACTATTTC
1 AACTTCACAACGAAGGAGCCATCCACGATTTC
868467 AACTTCACAACGAAGGAGCCATCCACGATTTC
1 AACTTCACAACGAAGGAGCCATCCACGATTTC
* *
868499 AACTTCACGACAAAGGA
1 AACTTCACAACGAAGGA
868516 TATCGTGCCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.21
Consensus pattern (32 bp):
AACTTCACAACGAAGGAGCCATCCACGATTTC
Found at i:868702 original size:3 final size:3
Alignment explanation
Indices: 868686--868727 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
868676 TCTACAAAAA
*
868686 TAT T-T TAT TA- TAT TATT TAT TAT TAT TAT TAT TAT TAA TAT T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT T
868728 TTTTTTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.12
3 27 0.79
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:870026 original size:13 final size:13
Alignment explanation
Indices: 870008--870037 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
869998 GAATCGAATG
870008 TTTTAAATTTTAA
1 TTTTAAATTTTAA
*
870021 TTTTAATTTTTAA
1 TTTTAAATTTTAA
870034 TTTT
1 TTTT
870038 TCACAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:874834 original size:31 final size:31
Alignment explanation
Indices: 874792--874850 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
874782 AACTTAAAAG
* *
874792 AGTTTTGCAATAATGAGATTTAAATAATTTT
1 AGTTTTACAATAATGAAATTTAAATAATTTT
*
874823 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATAATGAAATTTAAATAAT
874851 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATAATGAAATTTAAATAATTTT
Found at i:874901 original size:22 final size:22
Alignment explanation
Indices: 874875--874917 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
874865 TAATGAATTA
874875 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
874897 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
874918 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:874926 original size:22 final size:22
Alignment explanation
Indices: 874877--874925 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
874867 ATGAATTATT
**
874877 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
874899 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
874922 TAAA
1 TAAA
874926 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:874934 original size:54 final size:54
Alignment explanation
Indices: 874865--875262 Score: 340
Period size: 54 Copynumber: 7.4 Consensus size: 54
874855 ACAACTACAA
*
874865 TAATGAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * ** *
874919 TAATAAATTATTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCTATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** ** *
874976 TTTTAAAATAAAT-CAATTTATACTAATAAAT-TATTTAAAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATA--C
* * * * *
875033 TAAAATAAATCAATTCATACT-AATAAAT---TA-TTTAAAATAAATCAATCCATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
875085 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
875133 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
875187 TAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
875241 TAATAAATTATTTAAAATAAAT
1 TAATAAATTATTTAAAATAAAT
875263 TATTTTAAAA
Statistics
Matches: 276, Mismatches: 40, Indels: 56
0.74 0.11 0.15
Matches are distributed among these distances:
43 2 0.01
44 6 0.02
47 3 0.01
48 25 0.09
49 4 0.01
50 4 0.01
52 1 0.00
54 176 0.64
55 4 0.01
56 5 0.02
57 14 0.05
58 23 0.08
59 4 0.01
60 3 0.01
61 2 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.36
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:875016 original size:32 final size:31
Alignment explanation
Indices: 874977--875262 Score: 114
Period size: 32 Copynumber: 9.4 Consensus size: 31
874967 CAATCTATAT
874977 TTTAAAATAAATCAATTTATACTAATAAATTA
1 TTTAAAATAAATCAA-TTATACTAATAAATTA
*
875009 TTTAAAATAAATC-A--AT-C-CAT--A-T-
1 TTTAAAATAAATCAATTATACTAATAAATTA
875031 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATT-ATACTAATAAATTA
*
875063 TTTAAAATAAATCAATCCATAC-AACTACAA-TA
1 TTTAAAATAAATCAAT-TATACTAA-TA-AATTA
* * * * *
875095 -AT-AAATCAATCCATATTTTA-AAATAAATCAA
1 TTTAAAATAAAT-CA-ATTATACTAATAAAT-TA
* * * * * * *
875126 TCCATACTAATAAATTATTTAAAATAAATCAATTCATA
1 T--TTA-AAATAAATCAATTATACT-AAT-AAAT--TA
*
875164 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAAT-TATACTAATAAATTA
875197 TTTAAAATAAATC-A--ATAC--AT--A-T-
1 TTTAAAATAAATCAATTATACTAATAAATTA
875219 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAAT-TATACTAATAAATTA
875251 TTTAAAATAAAT
1 TTTAAAATAAAT
875263 TATTTTAAAA
Statistics
Matches: 189, Mismatches: 26, Indels: 78
0.65 0.09 0.27
Matches are distributed among these distances:
22 26 0.14
23 4 0.02
24 2 0.01
26 10 0.05
27 2 0.01
28 10 0.05
29 2 0.01
30 11 0.06
31 14 0.07
32 64 0.34
33 4 0.02
34 5 0.03
35 4 0.02
36 21 0.11
37 8 0.04
38 1 0.01
39 1 0.01
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (31 bp):
TTTAAAATAAATCAATTATACTAATAAATTA
Found at i:875017 original size:14 final size:15
Alignment explanation
Indices: 874977--875024 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
874967 CAATCTATAT
874977 TTTAAAATAAATCAA
1 TTTAAAATAAATCAA
*
874992 TTTATACTAATAAAT-TA
1 TTTA-A--AATAAATCAA
875009 TTTAAAATAAATCAA
1 TTTAAAATAAATCAA
875024 T
1 T
875025 CCATATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 7 0.26
15 6 0.22
16 2 0.07
17 5 0.19
18 7 0.26
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (15 bp):
TTTAAAATAAATCAA
Found at i:875019 original size:134 final size:134
Alignment explanation
Indices: 874865--875217 Score: 634
Period size: 134 Copynumber: 2.6 Consensus size: 134
874855 ACAACTACAA
*
874865 TAATGAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* * **
874930 TTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATTT
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
874995 ATAC
131 ATAC
*
874999 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
875064 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
875129 ATAC
131 ATAC
*
875133 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
875198 TTAAAATAAATCAATACATA
66 TTAAAATAAATCAATCCATA
875218 TTTTAAAATA
Statistics
Matches: 210, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 210 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (134 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
ATAC
Found at i:875035 original size:22 final size:22
Alignment explanation
Indices: 875009--875051 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
874999 TAATAAATTA
875009 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
875031 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
875052 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:875060 original size:22 final size:22
Alignment explanation
Indices: 875011--875059 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
875001 ATAAATTATT
**
875011 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
875033 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
875056 TAAA
1 TAAA
875060 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:875098 original size:80 final size:80
Alignment explanation
Indices: 875014--875163 Score: 282
Period size: 80 Copynumber: 1.9 Consensus size: 80
875004 AATTATTTAA
*
875014 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
875079 CCATACAACTACAAT
66 CCATACAACTACAAT
875094 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
875159 TCATA
66 CCATA
875164 TTTTAAAATA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:875140 original size:22 final size:23
Alignment explanation
Indices: 875065--875139 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
875055 ATAAATTATT
875065 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
875087 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
875113 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
875136 TAAA
1 TAAA
875140 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:875169 original size:22 final size:22
Alignment explanation
Indices: 875143--875185 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
875133 TAATAAATTA
*
875143 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
875165 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
875186 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:875194 original size:22 final size:22
Alignment explanation
Indices: 875145--875193 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
875135 ATAAATTATT
* **
875145 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
875167 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
875190 TAAA
1 TAAA
875194 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:875213 original size:22 final size:22
Alignment explanation
Indices: 875188--875234 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
875178 AATCCATACT
875188 AATAAAT-TATTTAAAATAAATC
1 AATAAATAT-TTTAAAATAAATC
*
875210 AATACATATTTTAAAATAAATC
1 AATAAATATTTTAAAATAAATC
875232 AAT
1 AAT
875235 CTATACTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAAATATTTTAAAATAAATC
Found at i:875261 original size:14 final size:15
Alignment explanation
Indices: 875242--875276 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
875232 AATCTATACT
875242 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
875256 AATAAATTATTTTAA
1 AATAAATTATTTTAA
875271 AATAAA
1 AATAAA
875277 ACAATCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:875780 original size:31 final size:31
Alignment explanation
Indices: 875744--875802 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
875734 AACTTAAAAG
* *
875744 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
875775 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
875803 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:875878 original size:22 final size:22
Alignment explanation
Indices: 875829--875877 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
875819 ATAAATTATT
**
875829 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
875851 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
875874 TAAA
1 TAAA
875878 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:875881 original size:54 final size:54
Alignment explanation
Indices: 875817--876067 Score: 292
Period size: 54 Copynumber: 4.6 Consensus size: 54
875807 ACAACTACAA
*
875817 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
875871 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
875928 TTTTAAAATAAAT-CAATCCATACAAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
875983 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
876037 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
876068 CAACTAAAAT
Statistics
Matches: 160, Mismatches: 27, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
54 104 0.65
55 13 0.08
56 10 0.06
57 13 0.08
58 20 0.12
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:875922 original size:80 final size:80
Alignment explanation
Indices: 875832--876294 Score: 574
Period size: 80 Copynumber: 5.8 Consensus size: 80
875822 AATTATTTAA
*
875832 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
875897 CCATACAACTACAAT
66 CCATACAACTAAAAT
*
875912 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
875977 CCATACTAA-TAAATTATTT
66 CCATAC-AACTAAA--A--T
875996 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
876061 ATCCATACAACTAAAAT
64 ATCCATACAACTAAAAT
876078 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
***
876143 CCATA-TTTTAAAAT
66 CCATACAACTAAAAT
* * * * *
876157 AAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATAC-AGCTACA--A--T--AAT
1 -AATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATACTA-ATAAATTATTTAAAAT
* **
876215 AAATCAATCCAT---ATTTTAA-
58 AAATCAATCCATACAACTAAAAT
876234 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
876295 TATTTTAAAA
Statistics
Matches: 340, Mismatches: 20, Indels: 50
0.83 0.05 0.12
Matches are distributed among these distances:
70 25 0.07
71 2 0.01
72 2 0.01
74 3 0.01
75 1 0.00
76 16 0.05
78 4 0.01
79 6 0.02
80 166 0.49
81 3 0.01
82 5 0.01
84 4 0.01
85 4 0.01
86 99 0.29
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTAAAAT
Found at i:875958 original size:22 final size:22
Alignment explanation
Indices: 875885--875958 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
875875 AAATTATTTA
*
875885 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
875910 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
875932 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
875955 AAAT
1 AAAT
875959 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:875968 original size:32 final size:32
Alignment explanation
Indices: 875929--876202 Score: 262
Period size: 32 Copynumber: 9.7 Consensus size: 32
875919 CAATCCATAT
*
875929 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
875961 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
875993 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
876015 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
876047 TTTAAAATAAATCAATCCATAC-AACTAAA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
876077 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
876095 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
876127 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
876149 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
876181 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAATCCATAC
876203 AGCTACAATA
Statistics
Matches: 203, Mismatches: 3, Indels: 72
0.73 0.01 0.26
Matches are distributed among these distances:
20 1 0.00
22 46 0.23
23 4 0.02
24 4 0.02
25 1 0.00
26 21 0.10
28 7 0.03
30 3 0.01
31 6 0.03
32 110 0.54
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:876004 original size:166 final size:167
Alignment explanation
Indices: 875817--876294 Score: 666
Period size: 166 Copynumber: 2.9 Consensus size: 167
875807 ACAACTACAA
*
875817 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
875882 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
*
875947 ATACAAATAAATTATTTAAAATAAATCAATCCATA-C
131 ATACTAATAAATTATTTAAAATAAATCAATCCATATC
875983 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
876048 TTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
*
876113 ATACTAATAAATTATTTAAAATAAATCAATCCATATTT
131 ATACTAATAAATTATTTAAAATAAATCAATCCATA-TC
* * * * * * *
876151 TAAAATAAATCAATCTATACT-AATAAAT---TA-TTTAAAATAAATCAATCCATAC-AGCTACA
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTA-ATAAA
* **
876210 --A--T--AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATATTTTAAAATAAATCA
62 TTATTTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCCATATTTTAAAATAAATCA
876265 ATCCATACTAATAAATTATTTAAAATAAAT
127 ATCCATACTAATAAATTATTTAAAATAAAT
876295 TATTTTAAAA
Statistics
Matches: 292, Mismatches: 14, Indels: 22
0.89 0.04 0.07
Matches are distributed among these distances:
156 61 0.21
157 4 0.01
160 15 0.05
162 1 0.00
164 1 0.00
165 1 0.00
166 187 0.64
167 2 0.01
168 1 0.00
170 13 0.04
171 6 0.02
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (167 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
ATACTAATAAATTATTTAAAATAAATCAATCCATATC
Found at i:876019 original size:22 final size:22
Alignment explanation
Indices: 875993--876035 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
875983 TAATAAATTA
875993 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
876015 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
876036 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:876019 original size:134 final size:131
Alignment explanation
Indices: 875961--876249 Score: 479
Period size: 134 Copynumber: 2.2 Consensus size: 131
875951 AAATAAATTA
875961 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
876026 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCC
66 TCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATACAACTAAAATAATAAATCAATCA
876091 ATAT
128 ATAT
876095 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
* * * *
876160 TCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACAGCTACAATAATAAATCAATCC
66 TCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATACAACTAAAATAATAAATCAATCA
876225 ATAT
128 ATAT
876229 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
876250 TTTTAAAATA
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 152 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (131 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATACTAATAAATATTAAATAAATCAATCCATACAACTAAAATAATAAATCAATCAATA
T
Found at i:876044 original size:22 final size:22
Alignment explanation
Indices: 875995--876043 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
875985 ATAAATTATT
**
875995 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
876017 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
876040 TAAA
1 TAAA
876044 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:876124 original size:22 final size:22
Alignment explanation
Indices: 876051--876124 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
876041 AAATTATTTA
*
876051 AAATAAATCAATCCATACAACTAAA
1 AAATAAATCAATCCAT---ACTAAT
**
876076 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACTAAT
876098 AAAATAAATCAATCCATACTAAT
1 -AAATAAATCAATCCATACTAAT
876121 AAAT
1 AAAT
876125 TATTTAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
22 21 0.51
23 4 0.10
25 1 0.02
26 15 0.37
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.28
Consensus pattern (22 bp):
AAATAAATCAATCCATACTAAT
Found at i:876147 original size:54 final size:53
Alignment explanation
Indices: 875881--876294 Score: 337
Period size: 54 Copynumber: 7.8 Consensus size: 53
875871 TAATAAATTA
*
875881 TTTAAAATAAATCAATCCATACAACTACA--A--T--AATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACAA-TAAATTATTTAAAATAAATCAATCCATAT
875929 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCCATAC-AATAAATTATTTAAAATAAATCAATCCATA-T
** * ** * ** **
875984 AATAAATTATTTAAAATAAAT-CAATCCA-TATTTTAAAATAAATCAATCCATACTAATAAATT
1 TTTAAAATAAAT-CAATCCATACAATAAATTA-TTTAAAATAAATCAAT-C---C--AT--A-T
876046 ATTTAAAATAAATCAATCCATACAACTAAA--A--T--AATAAATCAATCCATAT
1 -TTTAAAATAAATCAATCCATACAA-TAAATTATTTAAAATAAATCAATCCATAT
876095 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAC-AATAAATTATTTAAAATAAATCAATCCATAT
* *
876149 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACA
1 TTTAAAATAAATCAATCCATAC-AATAAATTATTTAAAATAAATCAATCCATA-T
** * * * *
876204 GCTACAAT-AATAAATCAAT-CCAT--A-T-TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACAATAAATTATTTAAAATAAATCAATCCATAT
876251 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 TTTAAAATAAATCAATCCATAC-AATAAATTATTTAAAATAAAT
876295 TATTTTAAAA
Statistics
Matches: 293, Mismatches: 37, Indels: 66
0.74 0.09 0.17
Matches are distributed among these distances:
47 5 0.02
48 81 0.28
49 7 0.02
50 6 0.02
52 7 0.02
53 4 0.01
54 127 0.43
55 15 0.05
56 5 0.02
57 1 0.00
58 12 0.04
60 3 0.01
62 7 0.02
63 11 0.04
64 2 0.01
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (53 bp):
TTTAAAATAAATCAATCCATACAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:876178 original size:22 final size:22
Alignment explanation
Indices: 876129--876177 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
876119 ATAAATTATT
**
876129 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
876151 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
876174 TAAA
1 TAAA
876178 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:876237 original size:22 final size:22
Alignment explanation
Indices: 876212--876331 Score: 123
Period size: 22 Copynumber: 5.3 Consensus size: 22
876202 CAGCTACAAT
876212 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATTTTAA
876234 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATTTTAA
**
876256 AATAAATCAATCCATACTAATAA
1 AATAAATCAATCCATA-TTTTAA
* ** * **
876279 ATTATTTAAAATAAATTATTTTAA
1 AATAAAT-CAATCCA-TATTTTAA
* *
876303 AATAAATCAATCTATATTTTAT
1 AATAAATCAATCCATATTTTAA
876325 AATAAAT
1 AATAAAT
876332 TATTTTAAAA
Statistics
Matches: 78, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
22 52 0.67
23 12 0.15
24 12 0.15
25 2 0.03
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (22 bp):
AATAAATCAATCCATATTTTAA
Found at i:876302 original size:47 final size:49
Alignment explanation
Indices: 876248--876361 Score: 160
Period size: 52 Copynumber: 2.3 Consensus size: 49
876238 AATCAATCCA
*
876248 TATTTTAAAATAAATCAATCCATA-CTAATAAATTA-TTTAAAATAAAT
1 TATTTTAAAATAAATCAATCCATATATAATAAATTATTTTAAAATAAAT
*
876295 TATTTTAAAATAAATCAATCTATATTTTATAATAAATTATTTTAAAATAAAT
1 TATTTTAAAATAAATCAATCCATA---TATAATAAATTATTTTAAAATAAAT
*
876347 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
876362 TATTTTAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
47 23 0.39
51 10 0.17
52 26 0.44
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (49 bp):
TATTTTAAAATAAATCAATCCATATATAATAAATTATTTTAAAATAAAT
Found at i:876303 original size:15 final size:15
Alignment explanation
Indices: 876274--876391 Score: 139
Period size: 15 Copynumber: 7.5 Consensus size: 15
876264 AATCCATACT
876274 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
876288 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
876303 AATAAATCAATCTATATTTTAT
1 AAT--A--AA--T-TATTTTAA
876325 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
876340 AATAAATTATTTTAT
1 AATAAATTATTTTAA
876355 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
876370 AATAAATTATTTTAT
1 AATAAATTATTTTAA
876385 AATAAAT
1 AATAAAT
876392 AACCTTATTA
Statistics
Matches: 91, Mismatches: 5, Indels: 15
0.82 0.05 0.14
Matches are distributed among these distances:
14 9 0.10
15 64 0.70
16 1 0.01
17 1 0.01
18 2 0.02
19 2 0.02
20 1 0.01
21 1 0.01
22 10 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:880468 original size:2 final size:2
Alignment explanation
Indices: 880461--880489 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
880451 TGAAAAATTA
880461 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
880490 AATAACTCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:892489 original size:60 final size:60
Alignment explanation
Indices: 892364--892490 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 60
892354 CTAAAGATGC
* * * * * * *
892364 AAAAGTTTAGGGACTAATTTAGAATGATATTCATAGTTTGGGGGATGAAATTGAAATGTT
1 AAAAGTTCAAGGACTAATTTAAAATAATAGTCATAGTTTGGGAGATAAAATTGAAATGTT
* * *
892424 CAAAGTTCAAGGACTAATTTAAAATAATAGTCATAGTTT-TGAGATAAAATTGGAATGTTT
1 AAAAGTTCAAGGACTAATTTAAAATAATAGTCATAGTTTGGGAGATAAAATTGAAATG-TT
892484 AAAAGTT
1 AAAAGTT
892491 TAAAAATTAA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
59 14 0.25
60 41 0.75
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (60 bp):
AAAAGTTCAAGGACTAATTTAAAATAATAGTCATAGTTTGGGAGATAAAATTGAAATGTT
Found at i:893289 original size:2 final size:2
Alignment explanation
Indices: 893282--893311 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
893272 AAAAATTTTA
893282 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
893312 TTTTAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:894943 original size:2 final size:2
Alignment explanation
Indices: 894936--894967 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
894926 TTACTCAGAT
894936 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
894968 ACGACAGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:898799 original size:20 final size:20
Alignment explanation
Indices: 898774--898811 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
898764 TGATGTGTTT
898774 GGAACATTTGAATATTCAGG
1 GGAACATTTGAATATTCAGG
898794 GGAACATTTGAATATTCA
1 GGAACATTTGAATATTCA
898812 AGTGATCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
GGAACATTTGAATATTCAGG
Found at i:905348 original size:25 final size:25
Alignment explanation
Indices: 905289--905339 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
905279 CATGTCGCTA
905289 ATAATCATTTGTTGATTTAATCGTC
1 ATAATCATTTGTTGATTTAATCGTC
905314 ATAATCATTTGTTGATTTAATCGTC
1 ATAATCATTTGTTGATTTAATCGTC
905339 A
1 A
905340 AATATATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (25 bp):
ATAATCATTTGTTGATTTAATCGTC
Found at i:905430 original size:22 final size:22
Alignment explanation
Indices: 905389--905430 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
905379 TAACGAAATC
* *
905389 ATTTTTTTATATATAATTATAT
1 ATTTTTTTAGAAATAATTATAT
*
905411 ATTTTTTTAGAAATATTTAT
1 ATTTTTTTAGAAATAATTAT
905431 TATACTCGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTTTTTTAGAAATAATTATAT
Found at i:906400 original size:2 final size:2
Alignment explanation
Indices: 906393--906418 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
906383 GAATCCGGAG
906393 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
906419 CCTTCCCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:906744 original size:18 final size:18
Alignment explanation
Indices: 906721--906782 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
906711 TGATTTGGTC
*
906721 AGAAGAAGAGCCTGGTTG
1 AGAAGAAGAGCTTGGTTG
906739 AGAAGAAG-G-TTGTCGTTG
1 AGAAGAAGAGCTTG--GTTG
*
906757 AGAAGAAAAGCTTGGTTG
1 AGAAGAAGAGCTTGGTTG
906775 AGAAGAAG
1 AGAAGAAG
906783 GTTGTCGTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 2 0.05
17 1 0.03
18 30 0.81
19 1 0.03
20 3 0.08
ACGTcount: A:0.37, C:0.06, G:0.37, T:0.19
Consensus pattern (18 bp):
AGAAGAAGAGCTTGGTTG
Found at i:906773 original size:36 final size:36
Alignment explanation
Indices: 906721--906798 Score: 138
Period size: 36 Copynumber: 2.2 Consensus size: 36
906711 TGATTTGGTC
*
906721 AGAAGAAGAGCCTGGTTGAGAAGAAGGTTGTCGTTG
1 AGAAGAAAAGCCTGGTTGAGAAGAAGGTTGTCGTTG
*
906757 AGAAGAAAAGCTTGGTTGAGAAGAAGGTTGTCGTTG
1 AGAAGAAAAGCCTGGTTGAGAAGAAGGTTGTCGTTG
906793 AGAAGA
1 AGAAGA
906799 CTCGCACCTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.35, C:0.06, G:0.37, T:0.22
Consensus pattern (36 bp):
AGAAGAAAAGCCTGGTTGAGAAGAAGGTTGTCGTTG
Found at i:906792 original size:18 final size:18
Alignment explanation
Indices: 906735--906798 Score: 87
Period size: 18 Copynumber: 3.6 Consensus size: 18
906725 GAAGAGCCTG
906735 GTTGAGAAGAAGGTTGTC
1 GTTGAGAAGAAGGTTGTC
*
906753 GTTGAGAAGAAAAGCTTG--
1 GTTGAGAAG--AAGGTTGTC
906771 GTTGAGAAGAAGGTTGTC
1 GTTGAGAAGAAGGTTGTC
906789 GTTGAGAAGA
1 GTTGAGAAGA
906799 CTCGCACCTC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 6 0.15
18 28 0.70
20 6 0.15
ACGTcount: A:0.33, C:0.05, G:0.38, T:0.25
Consensus pattern (18 bp):
GTTGAGAAGAAGGTTGTC
Found at i:907107 original size:19 final size:18
Alignment explanation
Indices: 907067--907108 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
907057 TAATGATGAC
907067 AAAAAACATGCGTAATTT
1 AAAAAACATGCGTAATTT
907085 AAAAAACATGCGTAATTT
1 AAAAAACATGCGTAATTT
907103 AAAAAA
1 AAAAAA
907109 TGTATCGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.24
Consensus pattern (18 bp):
AAAAAACATGCGTAATTT
Found at i:907134 original size:21 final size:22
Alignment explanation
Indices: 907098--907141 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
907088 AAACATGCGT
907098 AATTTAAAAAATGTATCGATAC
1 AATTTAAAAAATGTATCGATAC
907120 AATTTAAAAAA-GTATCGATAC
1 AATTTAAAAAATGTATCGATAC
907141 A
1 A
907142 TTATGTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (22 bp):
AATTTAAAAAATGTATCGATAC
Found at i:907454 original size:200 final size:200
Alignment explanation
Indices: 907103--908066 Score: 1414
Period size: 200 Copynumber: 4.8 Consensus size: 200
907093 TGCGTAATTT
*
907103 AAAAAATGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAA
1 AAAAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAA
** * * *
907168 TTGATATATTTTTACCGGTTACATTGTAAATTTACATATTACTTTATAATAATCGGTTTCAATGT
66 CCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGT
* * *
907233 TTTGAGGATCGATGCTTATAATAAATGTATCAACACTTTATGCGTGCATCTCGTTGGGCATTCAT
131 TTTGAGGATCGATACTTATAATAAATGTATCAACACTTTATGCGTGCATCTCGTTTGACATTCAT
907298 TCTGG
196 TCTGG
* * *
907303 ACAAAAAA-TATCGATATAATTTAAAAAAGTATCAATACATTATGGTTACCTATTCTCTCATTAA
1 A-AAAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAA
** * * * *
907367 ACCAATATATTTTTACAGGTTACAATGTAAATTTACCTATTACTTTATAATAATCAGTTTCAATG
65 ACCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATG
* * * *
907432 TTCTAAGAATCGATACTTATAATAAATGTATCGACACTTTATGCGTGCATCTCGTTTGACATTCA
130 TTTTGAGGATCGATACTTATAATAAATGTATCAACACTTTATGCGTGCATCTCGTTTGACATTCA
907497 TTCTGG
195 TTCTGG
* *
907503 AAAAAAAGTATCGATACAATTTAAACAAGTATCGCTACATTATGTTTACCTATTCTCTCATTAAA
1 AAAAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAA
* * *
907568 CCTGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACATTATAATAATCGATTTCGATGT
66 CCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGT
* *
907633 TCTT-AGGATCGATACTTATAATAAATGTATCGACACTTTATGCGTGCATCTTGTTTGACATTCA
131 T-TTGAGGATCGATACTTATAATAAATGTATCAACACTTTATGCGTGCATCTCGTTTGACATTCA
907697 TTCTGG
195 TTCTGG
* * * *
907703 AAAAAAAGTATAGATACAATTTAAATAAGTATTGCTACATTATGTTTACCTATTAATCTCTCATT
1 AAAAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTA-T--TCTCTCATT
*
907768 AAACTGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGA
63 AAACCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGA
* *
907833 TGTTTTGAGGATCGATACTTATAATAAATGTATCGAA-ACTTTATGCATGCATCTCGTTTGGCAT
128 TGTTTTGAGGATCGATACTTATAATAAATGTATC-AACACTTTATGCGTGCATCTCGTTTGACAT
907897 TCATTCTGG
192 TCATTCTGG
*
907906 ACAAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAA
1 AAAAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAA
* * * * * * * * *
907971 TCGGTATATTTTTACGGGTTATATTATAAATTTACATATTATTTTATAATTATCGGTTTTGATAT
66 CCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGAT-G
*
908036 TTTTG-GGATCGATACTTATAATACATGTATC
130 TTTTGAGGATCGATACTTATAATAAATGTATC
908067 GATACCTCTA
Statistics
Matches: 694, Mismatches: 61, Indels: 18
0.90 0.08 0.02
Matches are distributed among these distances:
199 6 0.01
200 491 0.71
201 12 0.02
202 3 0.00
203 181 0.26
204 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (200 bp):
AAAAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAA
CCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGGTTTCGATGT
TTTGAGGATCGATACTTATAATAAATGTATCAACACTTTATGCGTGCATCTCGTTTGACATTCAT
TCTGG
Found at i:907947 original size:403 final size:398
Alignment explanation
Indices: 907103--908068 Score: 1439
Period size: 403 Copynumber: 2.4 Consensus size: 398
907093 TGCGTAATTT
*
907103 AAAAAATGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAA
1 AAAAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAA
* *
907168 TTGATATATTTTTACCGGTTACATTGTAAATTTACATATTACTTTATAATAATCGGTTTCAATGT
66 CTG-TATATTTTTACCGGTTACATTGTAAATTTACATATTACTTTATAATAATCGGTTTCGATGT
* * *
907233 TTTGAGGATCGATGCTTATAATAAATGTATCAACACTTTATGCGTGCATCTCGTTGGGCATTCAT
130 TTT-AGGATCGATACTTATAATAAATGTATCGACACTTTATGCGTGCATCTCGTTGGACATTCAT
* *
907298 TCTGGACAAAAAATATCGATATAATTTAAAAAAGTATCAATACATTATGGTTACCTATTCTCTCA
194 TCTGGACAAAAAATATAGATACAATTTAAAAAAGTATCAATACATTATGGTTACCTATTCTCTCA
907363 TTAAACCAATATATTTTTACAGGTTACAATGTAAATTTACCTATTACTTTATAATAATCAGTTTC
259 TTAAACCAATATATTTTTACAGGTTACAATGTAAATTTACCTATTACTTTATAATAATCAGTTTC
* *
907428 AATGTTCTAAGAATCGATACTTATAATAAATGTATCGACACTTTATGCGTGCATCTCGTTTGACA
324 AATGTTCTAAGAATCGATACTTATAATAAATGTATCGAAACTTTATGCATGCATCTCGTTTGACA
907493 TTCATTCTGG
389 TTCATTCTGG
* *
907503 AAAAAAAGTATCGATACAATTTAAACAAGTATCGCTACATTATGTTTACCTATTCTCTCATTAAA
1 AAAAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAA
* * *
907568 CCTGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACATTATAATAATCGATTTCGATGT
66 -CTGTATATTTTTACCGGTTACATTGTAAATTTACATATTACTTTATAATAATCGGTTTCGATGT
* *
907633 TCTTAGGATCGATACTTATAATAAATGTATCGACACTTTATGCGTGCATCTTGTTTGACATTCAT
130 T-TTAGGATCGATACTTATAATAAATGTATCGACACTTTATGCGTGCATCTCGTTGGACATTCAT
* *** *
907698 TCTGGA-AAAAAAGTATAGATACAATTTAAATAAGTATTGCTACATTATGTTTACCTATTAATCT
194 TCTGGACAAAAAA-TATAGATACAATTTAAAAAAGTATCAATACATTATGGTTACCTA-T--TCT
*** * * *
907762 CTCATTAAACTGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCGG
255 CTCATTAAACCAATATATTTTTACAGGTTACAATGTAAATTTACCTATTACTTTATAATAATCAG
* * * *
907827 TTTCGATGTTTTGAGGATCGATACTTATAATAAATGTATCGAAACTTTATGCATGCATCTCGTTT
320 TTTCAATGTTCTAAGAATCGATACTTATAATAAATGTATCGAAACTTTATGCATGCATCTCGTTT
*
907892 GGCATTCATTCTGG
385 GACATTCATTCTGG
*
907906 ACAAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAA
1 AAAAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAA
* * * * * * * *
907971 TCGGTATATTTTTACGGGTTATATTATAAATTTACATATTATTTTATAATTATCGGTTTTGATAT
66 -CTGTATATTTTTACCGGTTACATTGTAAATTTACATATTACTTTATAATAATCGGTTTCGAT-G
* *
908036 TTTTGGGATCGATACTTATAATACATGTATCGA
129 TTTTAGGATCGATACTTATAATAAATGTATCGA
908069 TACCTCTAGT
Statistics
Matches: 509, Mismatches: 50, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
399 6 0.01
400 219 0.43
401 5 0.01
403 277 0.54
404 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (398 bp):
AAAAAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAA
CTGTATATTTTTACCGGTTACATTGTAAATTTACATATTACTTTATAATAATCGGTTTCGATGTT
TTAGGATCGATACTTATAATAAATGTATCGACACTTTATGCGTGCATCTCGTTGGACATTCATTC
TGGACAAAAAATATAGATACAATTTAAAAAAGTATCAATACATTATGGTTACCTATTCTCTCATT
AAACCAATATATTTTTACAGGTTACAATGTAAATTTACCTATTACTTTATAATAATCAGTTTCAA
TGTTCTAAGAATCGATACTTATAATAAATGTATCGAAACTTTATGCATGCATCTCGTTTGACATT
CATTCTGG
Found at i:912294 original size:17 final size:18
Alignment explanation
Indices: 912251--912293 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
912241 TTCTTCTTCA
912251 TATTTTTTCAATTCATCG
1 TATTTTTTCAATTCATCG
912269 TATTTTTTCAATTCATCG
1 TATTTTTTCAATTCATCG
912287 TATTTTT
1 TATTTTT
912294 CCTCCACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.21, C:0.14, G:0.05, T:0.60
Consensus pattern (18 bp):
TATTTTTTCAATTCATCG
Found at i:922890 original size:14 final size:14
Alignment explanation
Indices: 922871--922899 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
922861 ATATATATAG
922871 TTTTTGAAAACATA
1 TTTTTGAAAACATA
922885 TTTTTGAAAACATA
1 TTTTTGAAAACATA
922899 T
1 T
922900 AATATAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (14 bp):
TTTTTGAAAACATA
Found at i:922910 original size:36 final size:38
Alignment explanation
Indices: 922860--922956 Score: 116
Period size: 36 Copynumber: 2.6 Consensus size: 38
922850 AAAACTATAT
922860 AATAT-ATATAGTTTTTGAAAACAT-ATTTTTGAAAAC
1 AATATAATATAGTTTTTGAAAACATGATTTTTGAAAAC
*
922896 -ATATAATATAGTTTTT--AAA-ATGGTTTTTGAAAAC
1 AATATAATATAGTTTTTGAAAACATGATTTTTGAAAAC
922930 ATATATAATATAGTTTTTTTGAAAACA
1 A-ATATAATATAG--TTTTTGAAAACA
922957 GAGCCCAATC
Statistics
Matches: 51, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
33 2 0.04
34 14 0.27
35 4 0.08
36 22 0.43
38 5 0.10
40 3 0.06
41 1 0.02
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (38 bp):
AATATAATATAGTTTTTGAAAACATGATTTTTGAAAAC
Found at i:924436 original size:19 final size:19
Alignment explanation
Indices: 924412--924450 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
924402 AAAGGTAAGT
924412 AATTCGAATTTAACTTTTA
1 AATTCGAATTTAACTTTTA
924431 AATTCGAATTTAACTTTTA
1 AATTCGAATTTAACTTTTA
924450 A
1 A
924451 TTTTTGCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.46
Consensus pattern (19 bp):
AATTCGAATTTAACTTTTA
Found at i:925622 original size:3 final size:3
Alignment explanation
Indices: 925616--925749 Score: 103
Period size: 3 Copynumber: 44.7 Consensus size: 3
925606 TCAAGGGAAA
* * * *
925616 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTAT -TA CTA CTA CTA
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT-T CTT CTT CTT CTT
* * * * * * *
925661 CTA CTA CTA CTA CTT CTT CTT ATT CTT TTT C-T CATT CTT TTT C-T
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT
* *
925705 CATT CTT TTT CTT CTT CTT CTT CTT CTT CTT CTT CTC CTT CTT CT
1 C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
925750 ACAGATTATT
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
2 4 0.04
3 104 0.92
4 5 0.04
ACGTcount: A:0.09, C:0.31, G:0.00, T:0.60
Consensus pattern (3 bp):
CTT
Found at i:926411 original size:2 final size:2
Alignment explanation
Indices: 926404--926476 Score: 61
Period size: 2 Copynumber: 40.0 Consensus size: 2
926394 TGAGTTTTAG
* *
926404 TA TA TA TA TA TA TA TA -A T- TA T- TT TA TA T- TG TA T- TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
926440 TT TA AA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
926477 ATTTAATGGA
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
1 7 0.12
2 52 0.88
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (2 bp):
TA
Found at i:927435 original size:31 final size:31
Alignment explanation
Indices: 927391--927476 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 31
927381 TCGGTTTAAA
* * *
927391 AAAAATAAAAGTTTAGGTACTAAAACGGATC
1 AAAACTAATAGTTTAGGTACTAAAACGAATC
* * * *
927422 AAAATTGATAGTTTAGGTATTAAAATGAATC
1 AAAACTAATAGTTTAGGTACTAAAACGAATC
*
927453 AAAACTAATAGTTTAAGTACTAAA
1 AAAACTAATAGTTTAGGTACTAAA
927477 CAAGTAAGTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (31 bp):
AAAACTAATAGTTTAGGTACTAAAACGAATC
Found at i:927700 original size:31 final size:31
Alignment explanation
Indices: 927640--927718 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
927630 TAATAAATTA
* * * *
927640 GTCACTAACGTTATCGAGTTGTAATAAAATG
1 GTCACTACCATTATCGAGTTATAACAAAATG
*
927671 GTCACTACCATTATCGATTTATAACAAAATG
1 GTCACTACCATTATCGAGTTATAACAAAATG
927702 GTCACTCCACCATTATC
1 GTCACT--ACCATTATC
927719 TCTGTTAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
31 32 0.78
33 9 0.22
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.32
Consensus pattern (31 bp):
GTCACTACCATTATCGAGTTATAACAAAATG
Found at i:928512 original size:31 final size:31
Alignment explanation
Indices: 928470--928548 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
928460 ATAATAGTGG
*
928470 AGTAACTATTTTGTTACAAATCGATAACGTT
1 AGTAACCATTTTGTTACAAATCGATAACGTT
* *
928501 AGTTACCATTTTGTTACAAATCGATAATGTT
1 AGTAACCATTTTGTTACAAATCGATAACGTT
*
928532 AGTAACCAATTTGTTAC
1 AGTAACCATTTTGTTAC
928549 TTTTGAAACT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (31 bp):
AGTAACCATTTTGTTACAAATCGATAACGTT
Found at i:935281 original size:20 final size:20
Alignment explanation
Indices: 935187--935555 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
935177 GATTTTCCAT
* ** *
935187 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
935207 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
935227 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
935247 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
935267 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
935287 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
935307 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
935327 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
935347 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
935367 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
935387 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
935407 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
935427 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
935447 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
935467 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
935487 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
935507 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
935527 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
935547 AATCACAAC
1 AATCGCAAC
935556 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:936268 original size:24 final size:24
Alignment explanation
Indices: 936229--936275 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
936219 AAATTTGGTC
936229 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
936253 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
936276 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:936467 original size:12 final size:12
Alignment explanation
Indices: 936450--936474 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
936440 ATATAATCCT
936450 GAAGAAGAAAAA
1 GAAGAAGAAAAA
936462 GAAGAAGAAAAA
1 GAAGAAGAAAAA
936474 G
1 G
936475 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:938797 original size:19 final size:19
Alignment explanation
Indices: 938775--939081 Score: 342
Period size: 19 Copynumber: 17.4 Consensus size: 19
938765 CGGAAAATAC
*
938775 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
938794 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
938808 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
938828 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
938842 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
938861 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
938879 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
938893 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
938912 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
938931 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
938945 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
938964 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
938983 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
939002 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
939021 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
939035 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
939055 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
939074 AATCGCAA
1 AATCGCAA
939082 CGAGATAATC
Statistics
Matches: 247, Mismatches: 13, Indels: 56
0.78 0.04 0.18
Matches are distributed among these distances:
13 1 0.00
14 44 0.18
15 3 0.01
16 14 0.06
17 16 0.06
18 15 0.06
19 130 0.53
20 24 0.10
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:938847 original size:14 final size:15
Alignment explanation
Indices: 938828--938905 Score: 52
Period size: 14 Copynumber: 4.8 Consensus size: 15
938818 CGGAAATGAA
938828 AATCGCAA-CGAGAG
1 AATCGCAAGCGAGAG
*
938842 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCG--A-GAG
*
938861 AATCGCAATGCGAAATG
1 AATCGCAA-GCGAGA-G
938878 AAATCGCAA-CGAGAG
1 -AATCGCAAGCGAGAG
938893 AATCGCAATGCGA
1 AATCGCAA-GCGA
938906 AATGAAAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
14 16 0.31
15 1 0.02
16 10 0.20
17 1 0.02
18 9 0.18
19 14 0.27
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (15 bp):
AATCGCAAGCGAGAG
Found at i:938862 original size:33 final size:34
Alignment explanation
Indices: 938775--939103 Score: 267
Period size: 33 Copynumber: 9.5 Consensus size: 34
938765 CGGAAAATAC
* *
938775 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
938808 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
938842 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
938879 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
* *
938912 AATCGCAATGCGAAATGAAAATCG-AACCGA-CAT
1 AATCGCAATGCGAAATGAAAATCGCAA-CGATGAA
*
938945 AATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGC-A-ACG--ATGAA
938983 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
939021 AATCGCAA--CGAAA-G--AATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C-G--ATGAA
*
939055 AATCGCAATGCGAAATGAAAATCGCAACGA-GAT
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
939088 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
939104 TATAAACGCA
Statistics
Matches: 255, Mismatches: 14, Indels: 54
0.79 0.04 0.17
Matches are distributed among these distances:
32 19 0.07
33 89 0.35
34 47 0.18
35 11 0.04
36 15 0.06
37 16 0.06
38 50 0.20
39 8 0.03
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:938958 original size:103 final size:108
Alignment explanation
Indices: 938803--939081 Score: 339
Period size: 103 Copynumber: 2.6 Consensus size: 108
938793 AAATCCCAAC
*
938803 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCA
* *
938868 ATGCGAAATG-AAATCGCAA-CG-A-GAGAATCGCAATGCGAA
66 ATACGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
* *
938907 ATGAAAATCGCAATGC-GAAATGAAAATCG-AACCGACATAATCGCAATGCGAAATTAAAATCGC
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CGACAGAATCGCAATGCGAAATGAAAATCGC
938970 AATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
65 AATACGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
*
939016 ATGAAAATCGCAA--C-GAAA-G--AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA--C-GACA-G--AATCGCAATGCGAAATGAAA
939075 ATCGCAA
60 ATCGCAA
939082 CGAGATAATC
Statistics
Matches: 153, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
102 2 0.01
103 51 0.33
104 30 0.20
105 2 0.01
106 4 0.03
107 8 0.05
108 1 0.01
109 29 0.19
110 26 0.17
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (108 bp):
ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCA
ATACGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
Found at i:939157 original size:143 final size:141
Alignment explanation
Indices: 938775--939113 Score: 489
Period size: 143 Copynumber: 2.4 Consensus size: 141
938765 CGGAAAATAC
* * * *
938775 AATCGCAACGCGAAATGAAAATCCCAACATGA-A-AATCGCAATGCGGAAATGAAAATCGC-A-A
1 AATCGCAATGCGAAATGAAAAT-CGAAC-CGACATAATCGCAATGC-GAAATTAAAATCGCAATA
* *
938836 CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAACGAGAGAATCG
63 CGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAACGAAAGAATCG
938898 CAATGCGAAATGAA
128 CAATGCGAAATGAA
938912 AATCGCAATGCGAAATGAAAATCGAACCGACATAATCGCAATGCGAAATTAAAATCGCAATACGA
1 AATCGCAATGCGAAATGAAAATCGAACCGACATAATCGCAATGCGAAATTAAAATCGCAATACGA
938977 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
66 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-AAATCGCAACGAAAGAATCGCA
939042 ATGCGGAAATGAA
130 ATGC-GAAATGAA
*
939055 AATCGCAATGCGAAATGAAAATCGCAA-CGAGATAATCGCAATGCGAAATTATAAA-CGCA
1 AATCGCAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCGAAATTA-AAATCGCA
939114 TTGCGATTTC
Statistics
Matches: 184, Mismatches: 7, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
135 2 0.01
136 18 0.10
137 33 0.18
138 3 0.02
140 1 0.01
141 38 0.21
142 25 0.14
143 59 0.32
144 5 0.03
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (141 bp):
AATCGCAATGCGAAATGAAAATCGAACCGACATAATCGCAATGCGAAATTAAAATCGCAATACGA
AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAACGAAAGAATCGCAA
TGCGAAATGAA
Found at i:939218 original size:19 final size:19
Alignment explanation
Indices: 939110--939210 Score: 142
Period size: 19 Copynumber: 5.6 Consensus size: 19
939100 AAATTATAAA
939110 CGCATTGCGA-TTTCATTT
1 CGCATTGCGATTTTCATTT
939128 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
939148 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
939164 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
939181 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
939200 CGCATTGCGAT
1 CGCATTGCGAT
939211 AGTCATTTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 46 0.62
20 8 0.11
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:939336 original size:14 final size:14
Alignment explanation
Indices: 939317--939353 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
939307 CATCAATTAC
939317 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
939331 ACAAATCATCTTTT
1 ACAAATCAACTTTT
939345 ACAAATCAA
1 ACAAATCAA
939354 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:939365 original size:12 final size:12
Alignment explanation
Indices: 939348--939420 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
939338 ATCTTTTACA
939348 AATCAATTAAAC
1 AATCAATTAAAC
*
939360 AATCAA--AAATTG
1 AATCAATTAAA--C
**
939372 AATCAACTTTTAC
1 AATCAA-TTAAAC
939385 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
939398 AATCAA-AAAAC
1 AATCAATTAAAC
939409 AATCAATTAAAC
1 AATCAATTAAAC
939421 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:939382 original size:38 final size:38
Alignment explanation
Indices: 939334--939406 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
939324 AACTTTTACA
*
939334 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
939372 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
939407 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:941298 original size:14 final size:14
Alignment explanation
Indices: 941279--941335 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
941269 GCGAAATGAA
*
941279 AATCGCAACGACAG
1 AATCGCAACGAAAG
941293 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
941310 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
941326 AATCGCAACG
1 AATCGCAACG
941336 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:941306 original size:33 final size:33
Alignment explanation
Indices: 941260--941352 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
941250 GCGAAACCAA
*
941260 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
941293 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
941326 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
941353 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:941317 original size:19 final size:19
Alignment explanation
Indices: 941223--941357 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
941213 TAGTTTACTT
* *
941223 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
941243 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
941262 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
941281 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
941295 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
941314 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
941328 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
941347 TCGCAATGCGA
1 TCGCAACGCGA
941358 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Done.