Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 239 of 343
Found at i:78698371 original size:44 final size:45
Alignment explanation
Indices: 78698163--78698385 Score: 162
Period size: 45 Copynumber: 4.8 Consensus size: 45
78698153 AAATTTTTAG
* * * * * * *
78698163 CTTCAATCTACTCCACTACAACTTCAGGGAAATAAGATCTACTAT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAGCTGCTAA
* * * *
78698208 TTTCAGTCTGCTCCTACTGCAACTTCAAGGAGATAAGACCCATAGCTTGTAG
1 CTTCAATCTGCTCC-ACTGCAACTTCAAGGAGATAAGA-GC-T-GC---TAA
* * * ** * *
78698260 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATGAGATTTTCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAGCTGCTAA
* * *
78698305 CTTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAG-GCTGGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAGCTGCTAA
*
78698349 CTTCAATCTGCTCCACTACAACTTC-AGGAAGATAAGA
1 CTTCAATCTGCTCCACTGCAACTTCAAGG-AGATAAGA
78698386 TTCACCATAA
Statistics
Matches: 138, Mismatches: 31, Indels: 18
0.74 0.17 0.10
Matches are distributed among these distances:
43 3 0.02
44 32 0.23
45 44 0.32
46 20 0.14
47 1 0.01
48 2 0.01
49 2 0.01
51 20 0.14
52 14 0.10
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAGCTGCTAA
Found at i:78698418 original size:143 final size:142
Alignment explanation
Indices: 78698209--78698673 Score: 630
Period size: 143 Copynumber: 3.3 Consensus size: 142
78698199 ATCTACTATT
* ** * *
78698209 TTCAGTCTGCTCCTACTGCAACTTCAAGG-AGATAAGA--CCCATAGCTTGTAGCTTCAATCTGC
1 TTCAATCTGCTCC-ACTGCAACTTC-AGGAAGATAAGATTCCCATAATTTGTAGCTTTAATCTGT
* ** * * *
78698271 TCCACTGCAACTTCAGGGAAATGAGATTTTCTATCTTCAGTCTGCTCCGCTGCAACTTCAAGGAG
64 TCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGAAACTTCAGGGAG
**
78698336 ATAAGGCTGGTAAC
129 ATAAGGCTGGTGGC
* *
78698350 TTCAATCTGCTCCACTACAACTTCAGGAAGATAAGATTCACCATAATTTGTAGCTTTAGTCTGTT
1 TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTC-CCATAATTTGTAGCTTTAATCTGTT
* **
78698415 CCACTACAACGCCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGAAACTTCAGGGAGA
65 CCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGAAACTTCAGGGAGA
*
78698480 TAAGGCTGGTGGG
130 TAAGGCTGGTGGC
* *
78698493 TTCAATATGCTCCACTGCAACTTCAGGAAGATAAGATATGCCATAATTTGTAGCTTTAATCTGTT
1 TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT-TCCCATAATTTGTAGCTTTAATCTGTT
* *
78698558 CCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGAAACTTTAGGGAGA
65 CCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGAAACTTCAGGGAGA
78698623 TAAGGCTGGTGGC
130 TAAGGCTGGTGGC
* * * *
78698636 TTCAATCTGCTCCACTGCTACTTTAGGGAGATGAGATT
1 TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATT
78698674 TGTGGATTCA
Statistics
Matches: 285, Mismatches: 34, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
139 3 0.01
140 18 0.06
141 12 0.04
142 2 0.01
143 249 0.87
144 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (142 bp):
TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCCCATAATTTGTAGCTTTAATCTGTTC
CACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGAAACTTCAGGGAGAT
AAGGCTGGTGGC
Found at i:78698476 original size:45 final size:45
Alignment explanation
Indices: 78698427--78698652 Score: 127
Period size: 44 Copynumber: 4.9 Consensus size: 45
78698417 ACTACAACGC
* *
78698427 CAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGAAACTT
1 CAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGAAACTT
* ** * *** * *
78698472 CAGGGAGATAAGGCT-GGTGGGTTCAATATGCTCCACTGCAACTT
1 CAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGAAACTT
* * *
78698516 CA-GGAAGATAAGATAT-GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTT
1 CAGGGAA-ATAAGAT-TCG-C-T-A----T--CTTCAATCTGCTCCACTGAAACTT
*
78698570 CAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGAAACTT
1 CAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGAAACTT
* * ** * **
78698615 TAGGGAGATAAGGCT-GGTGGCTTCAATCTGCTCCACTG
1 CAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTG
78698653 CTACTTTAGG
Statistics
Matches: 135, Mismatches: 33, Indels: 27
0.69 0.17 0.14
Matches are distributed among these distances:
43 3 0.02
44 47 0.35
45 45 0.33
47 2 0.01
51 1 0.01
52 1 0.01
53 2 0.01
54 30 0.22
55 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (45 bp):
CAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGAAACTT
Found at i:78703380 original size:43 final size:42
Alignment explanation
Indices: 78703330--78703429 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
78703320 GTCCCAGACA
*
78703330 TGGTCTTACATGTAATCAAATATCGATGCC-ACTGTCCCAAAAAG
1 TGGTCTTACACGTAATCAAATA-CGATGCCAAC-GTCCC-AAAAG
* *
78703374 -GGTCTTACACGAAATCAAATACGATGCCAACGTCCCAAACG
1 TGGTCTTACACGTAATCAAATACGATGCCAACGTCCCAAAAG
78703415 TGGTCTTACACGTAA
1 TGGTCTTACACGTAA
78703430 ATCATAAGTG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
41 4 0.08
42 25 0.50
43 21 0.42
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (42 bp):
TGGTCTTACACGTAATCAAATACGATGCCAACGTCCCAAAAG
Found at i:78703432 original size:43 final size:43
Alignment explanation
Indices: 78703315--78703468 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 43
78703305 TTGTACAATT
* * * *
78703315 CCAATGTCCCAGACATGGTCTTACATGT-AATCAAATATCGATG
1 CCAACGTCCCAAACGTGGTCTTACACGTAAATCAAATA-CGATG
*
78703358 CC-ACTGTCCCAAAAAG-GGTCTTACACG-AAATCAAATACGATG
1 CCAAC-GTCCC-AAACGTGGTCTTACACGTAAATCAAATACGATG
78703400 CCAACGTCCCAAACGTGGTCTTACACGTAAATCATAAGT--GATG
1 CCAACGTCCCAAACGTGGTCTTACACGTAAATCA-AA-TACGATG
* * * *
78703443 CCAATGTGCCAGACGTGATCTTACAC
1 CCAACGTCCCAAACGTGGTCTTACAC
78703469 AATAACACAT
Statistics
Matches: 93, Mismatches: 10, Indels: 16
0.78 0.08 0.13
Matches are distributed among these distances:
41 4 0.04
42 24 0.26
43 60 0.65
44 4 0.04
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
CCAACGTCCCAAACGTGGTCTTACACGTAAATCAAATACGATG
Found at i:78707129 original size:28 final size:28
Alignment explanation
Indices: 78707066--78707163 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
78707056 ATATTAAGTC
*
78707066 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
78707093 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
78707121 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
78707150 CGCACACTTAGTGC
1 CGCACACTTAGTGC
78707164 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:78715413 original size:28 final size:28
Alignment explanation
Indices: 78715350--78715446 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
78715340 ATATTAAGTC
*
78715350 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
78715377 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
78715405 CGCACACTTAGTGCTGACA-ATTTAAACC
1 CGCACACTTAGTGCT-ATATAATCAAACT
78715433 CGCACACTTAGTGC
1 CGCACACTTAGTGC
78715447 CAATCTCATG
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 22 0.35
28 39 0.62
29 2 0.03
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:78720767 original size:26 final size:26
Alignment explanation
Indices: 78720738--78720845 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
78720728 TGGTACAAAT
78720738 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
78720764 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78720790 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78720816 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
78720842 TGAT
1 TGAT
78720846 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:78722499 original size:27 final size:27
Alignment explanation
Indices: 78722459--78722572 Score: 160
Period size: 27 Copynumber: 4.2 Consensus size: 27
78722449 AGGACGCGTC
78722459 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
78722486 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
78722513 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
*
78722540 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
78722567 CTGGTG
1 CTGGTG
78722573 ACTTCGTCAC
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
26 8 0.10
27 68 0.87
28 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:78722541 original size:54 final size:54
Alignment explanation
Indices: 78722459--78722572 Score: 203
Period size: 54 Copynumber: 2.1 Consensus size: 54
78722449 AGGACGCGTC
78722459 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACA-ATATCTGTAT
*
78722513 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACAATATCTGTAT
78722567 CTGGTG
1 CTGGTG
78722573 ACTTCGTCAC
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
53 8 0.14
54 50 0.86
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.34
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACAATATCTGTAT
Found at i:78722583 original size:27 final size:26
Alignment explanation
Indices: 78722459--78722590 Score: 158
Period size: 27 Copynumber: 4.9 Consensus size: 26
78722449 AGGACGCGTC
*
78722459 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
*
78722486 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
* *
78722513 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-AATATCTGAT
78722540 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG-AT
* *
78722567 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
78722591 GCAGCCTCGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
26 8 0.09
27 82 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:78734518 original size:33 final size:32
Alignment explanation
Indices: 78734481--78734542 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
78734471 TTCATGCTTG
*
78734481 AAACATATACCAAATCATATCATTCTATAAGCC
1 AAACACATACCAAATCATATCATT-TATAAGCC
* *
78734514 AAACACATACCAAATTATATGATTTATAA
1 AAACACATACCAAATCATATCATTTATAA
78734543 CCTTGATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 5 0.19
33 21 0.81
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.29
Consensus pattern (32 bp):
AAACACATACCAAATCATATCATTTATAAGCC
Found at i:78746265 original size:12 final size:12
Alignment explanation
Indices: 78746231--78746289 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
78746221 TTTTCCTTTT
78746231 TTTATACTATAT-
1 TTTATA-TATATA
78746243 TTTA-ATATATA
1 TTTATATATATA
78746254 TTTATATATATA
1 TTTATATATATA
* * * * *
78746266 GTTAAAAAAATC
1 TTTATATATATA
78746278 TTTATATATATA
1 TTTATATATATA
78746290 CATAAACAGT
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
10 5 0.14
11 5 0.14
12 25 0.71
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (12 bp):
TTTATATATATA
Found at i:78746328 original size:14 final size:14
Alignment explanation
Indices: 78746304--78746337 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
78746294 AACAGTTTCG
78746304 AAAAG-AAAAAATA
1 AAAAGAAAAAAATA
*
78746317 AAGAGAAAAAAATA
1 AAAAGAAAAAAATA
78746331 AAAAGAA
1 AAAAGAA
78746338 CCTTTGCACG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (14 bp):
AAAAGAAAAAAATA
Found at i:78746912 original size:23 final size:23
Alignment explanation
Indices: 78746885--78746932 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
78746875 GAAGTGATTA
* * *
78746885 ATGGCTCTCTAGAGCTTCCCGAT
1 ATGGCTCGCTAGAACTTCCCAAT
*
78746908 ATGGCTCGCTTGAACTTCCCAAT
1 ATGGCTCGCTAGAACTTCCCAAT
78746931 AT
1 AT
78746933 AAGGCTATCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (23 bp):
ATGGCTCGCTAGAACTTCCCAAT
Found at i:78747071 original size:25 final size:25
Alignment explanation
Indices: 78747005--78747112 Score: 137
Period size: 25 Copynumber: 4.3 Consensus size: 25
78746995 TCTTTCTGAT
**
78747005 TATGGCTCTTATGAGCTTCCCGTTA
1 TATGGCTCACATGAGCTTCCCGTTA
* * * *
78747030 TACAGAC-CAGATAAGCTTCCCGTTA
1 TA-TGGCTCACATGAGCTTCCCGTTA
*
78747055 CATGGCTCACATGAGCTTCCCGTTA
1 TATGGCTCACATGAGCTTCCCGTTA
78747080 TATGGCTCACATGAGCTTCCCGTTA
1 TATGGCTCACATGAGCTTCCCGTTA
78747105 TATGGCTC
1 TATGGCTC
78747113 GAGAGAGAGC
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
24 2 0.03
25 66 0.94
26 2 0.03
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.31
Consensus pattern (25 bp):
TATGGCTCACATGAGCTTCCCGTTA
Found at i:78755268 original size:37 final size:37
Alignment explanation
Indices: 78755214--78755287 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
78755204 TTTTTTAAAC
* * *
78755214 AATGTTAAAAAACTTGAATCAAAAACTGTAACAAAAA
1 AATGTTAAAAAAATTGAATAAAAAACTATAACAAAAA
78755251 AATGTTAAAAAAATTGAATAAAAAACTATAACAAAAA
1 AATGTTAAAAAAATTGAATAAAAAACTATAACAAAAA
78755288 TTACTTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.64, C:0.08, G:0.07, T:0.22
Consensus pattern (37 bp):
AATGTTAAAAAAATTGAATAAAAAACTATAACAAAAA
Found at i:78756261 original size:15 final size:15
Alignment explanation
Indices: 78756225--78756268 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
78756215 AATATATGAT
* *
78756225 ATGATATGATATGAT
1 ATGATATGATATAAC
78756240 ATGATATGATATAAC
1 ATGATATGATATAAC
* *
78756255 ATTATATAATATAA
1 ATGATATGATATAA
78756269 TAGAAGGGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (15 bp):
ATGATATGATATAAC
Found at i:78756270 original size:5 final size:5
Alignment explanation
Indices: 78756218--78756251 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
78756208 AACTATTAAT
78756218 ATATG ATATG ATATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATAT
78756252 AACATTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:78767179 original size:100 final size:100
Alignment explanation
Indices: 78767006--78767193 Score: 342
Period size: 100 Copynumber: 1.9 Consensus size: 100
78766996 TATTGTGAGG
*
78767006 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGTACT
78767071 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
*
78767106 TCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACC-AGATTATTGGTCGCATGTGTAGTAC
1 TCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCGA-ATAATTGGTCGCATGTGTAGTAC
78767170 TAAGTGCAGGCTACTATGCGTACC
65 TAAGTGCAGGCTACTATGCGTACC
78767194 AGATAGCTTC
Statistics
Matches: 85, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
99 1 0.01
100 84 0.99
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:78767193 original size:49 final size:49
Alignment explanation
Indices: 78767011--78767198 Score: 243
Period size: 49 Copynumber: 3.8 Consensus size: 49
78767001 TGAGGTCACG
*
78767011 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG-ATAATTGGTCGCA
* * * * * *
78767060 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-T-TGGTCGCA
* * *
78767111 TGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
*
78767160 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
78767199 GCTTCGGCTA
Statistics
Matches: 117, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
49 75 0.64
50 3 0.03
51 39 0.33
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
Found at i:78771110 original size:14 final size:14
Alignment explanation
Indices: 78771091--78771118 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
78771081 AAGCTCAGTG
78771091 TGAGTTTTAAGCAT
1 TGAGTTTTAAGCAT
78771105 TGAGTTTTAAGCAT
1 TGAGTTTTAAGCAT
78771119 ACTTAACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (14 bp):
TGAGTTTTAAGCAT
Found at i:78773349 original size:6 final size:6
Alignment explanation
Indices: 78773330--78773445 Score: 153
Period size: 6 Copynumber: 19.3 Consensus size: 6
78773320 ACCAACACTT
* * * *
78773330 ATATAC ATAGAC ATATAC ATATAT ATATAC ATATAT ATATAC ATGTAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
* *
78773378 ATGTAC ATGTAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
*
78773426 ATATAC ACATAAC ATA-AC AT
1 ATATAC ATAT-AC ATATAC AT
78773446 TCAAAATGCA
Statistics
Matches: 99, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
5 4 0.04
6 91 0.92
7 4 0.04
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:78776553 original size:46 final size:46
Alignment explanation
Indices: 78776483--78776655 Score: 265
Period size: 46 Copynumber: 3.8 Consensus size: 46
78776473 TATATCTCGA
* * *
78776483 GGCCAATGCATGTCCCAGATATATCTTACACTGGCTTTCATAATGT
1 GGCCGATGCATGTCCCAGACATATCTTACACTGGCTCTCATAATGT
* *
78776529 GGCCGATGTATGTCCCAGACATATCTTACACTTGCTCTCATAATGT
1 GGCCGATGCATGTCCCAGACATATCTTACACTGGCTCTCATAATGT
* *
78776575 GGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATGT
1 GGCCGATGCATGTCCCAGACATATCTTACACTGGCTCTCATAATGT
* *
78776621 GGCTGATGCATGTCCCAGACATGTCTTACACTGGC
1 GGCCGATGCATGTCCCAGACATATCTTACACTGGC
78776656 ACACATGCCA
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 116 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATATCTTACACTGGCTCTCATAATGT
Found at i:78778015 original size:18 final size:18
Alignment explanation
Indices: 78777975--78778044 Score: 72
Period size: 18 Copynumber: 3.8 Consensus size: 18
78777965 GTTCCCAACT
78777975 CATTTCACAATTTCATATTC
1 CATTTCAC-ATTTCA-ATTC
*
78777995 CATTTCACATTTCACTTC
1 CATTTCACATTTCAATTC
*
78778013 CATTTCACA--TCATTTCC
1 CATTTCACATTTCAATT-C
*
78778030 CATTTCCCATTTCAA
1 CATTTCACATTTCAA
78778045 ATATCAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
16 5 0.12
17 9 0.21
18 12 0.28
19 9 0.21
20 8 0.19
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.43
Consensus pattern (18 bp):
CATTTCACATTTCAATTC
Found at i:78783748 original size:13 final size:13
Alignment explanation
Indices: 78783730--78783754 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78783720 TTTTTTTTTT
78783730 GGGGGGGGGGGGA
1 GGGGGGGGGGGGA
78783743 GGGGGGGGGGGG
1 GGGGGGGGGGGG
78783755 GTATGAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.00, G:0.96, T:0.00
Consensus pattern (13 bp):
GGGGGGGGGGGGA
Found at i:78791077 original size:29 final size:29
Alignment explanation
Indices: 78791042--78791115 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
78791032 GTTGTGAGAT
* *
78791042 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
78791071 TGGCACTAAGTGTGTGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
78791100 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
78791116 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:78799530 original size:3 final size:3
Alignment explanation
Indices: 78799522--78799565 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
78799512 TTGTGATGCT
78799522 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
78799566 GTTTGTTCAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:78804212 original size:40 final size:41
Alignment explanation
Indices: 78804156--78804299 Score: 123
Period size: 41 Copynumber: 3.5 Consensus size: 41
78804146 CAAAAATTGT
* * *
78804156 AAAAACACATAGCAATAGTGGCATTTTA-CCAAAAACGCCAC
1 AAAAA-ACAGAGCAATAGCGGCATTTTAGCAAAAAACGCCAC
* * * *
78804197 GAAAAACAGAGCAATAGCGGCGTTTTAGTAAAAAACGCCGC
1 AAAAAACAGAGCAATAGCGGCATTTTAGCAAAAAACGCCAC
* * * *
78804238 AAAAAACAGAGCATTAGCGGCGCTTTT-G-GAAAAACGCCGC
1 AAAAAACAGAGCAATAGCGGC-ATTTTAGCAAAAAACGCCAC
* *
78804278 TAAAAACCAGAGCATTAGCGGC
1 -AAAAAACAGAGCAATAGCGGC
78804300 GCTTTTGGTA
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
40 30 0.34
41 54 0.61
42 4 0.05
ACGTcount: A:0.42, C:0.22, G:0.21, T:0.15
Consensus pattern (41 bp):
AAAAAACAGAGCAATAGCGGCATTTTAGCAAAAAACGCCAC
Found at i:78804243 original size:41 final size:41
Alignment explanation
Indices: 78804186--78804364 Score: 249
Period size: 41 Copynumber: 4.4 Consensus size: 41
78804176 GCATTTTACC
* * * *
78804186 AAAAACGCCACGAAAAACAGAGCAATAGCGGCG-TTTTAGT
1 AAAAACGCCGCAAAAAACAGAGCATTAGCGGCGCTTTTGGT
78804226 AAAAAACGCCGCAAAAAACAGAGCATTAGCGGCGCTTTTGG-
1 -AAAAACGCCGCAAAAAACAGAGCATTAGCGGCGCTTTTGGT
*
78804267 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAAACGCCGC-AAAAAACAGAGCATTAGCGGCGCTTTTGGT
*
78804309 -AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAAACGCCGC-AAAAAACAGAGCATTAGCGGCGCTTTTGGT
78804350 -AAAACGCCGCAAAAA
1 AAAAACGCCGCAAAAA
78804365 GTCATATAAC
Statistics
Matches: 130, Mismatches: 5, Indels: 7
0.92 0.04 0.05
Matches are distributed among these distances:
40 16 0.12
41 109 0.84
42 5 0.04
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (41 bp):
AAAAACGCCGCAAAAAACAGAGCATTAGCGGCGCTTTTGGT
Found at i:78804543 original size:14 final size:14
Alignment explanation
Indices: 78804521--78804625 Score: 57
Period size: 14 Copynumber: 7.2 Consensus size: 14
78804511 TTAATTATCA
* *
78804521 TTATAGTTTATGGT
1 TTATGGTTTAAGGT
*
78804535 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* **
78804549 ATATGGTTTCGGGT
1 TTATGGTTTAAGGT
* *
78804563 TTAAGGTTTATGAGTT
1 TTATGGTTTA--AGGT
* *
78804579 AATTATAGTTTAAGAT
1 --TTATGGTTTAAGGT
* *
78804595 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
*
78804609 TTAGGGTTTAAGGT
1 TTATGGTTTAAGGT
78804623 TTA
1 TTA
78804626 GGAGTTAACT
Statistics
Matches: 65, Mismatches: 22, Indels: 8
0.68 0.23 0.08
Matches are distributed among these distances:
14 52 0.80
16 5 0.08
18 8 0.12
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:78804553 original size:21 final size:21
Alignment explanation
Indices: 78804529--78804611 Score: 76
Period size: 21 Copynumber: 3.8 Consensus size: 21
78804519 CATTATAGTT
*
78804529 TATGGTTTATGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
* * *
78804550 TATGGTTTCGGGTTTAAGGTT
1 TATGGTTTAGGGTTTAAGATA
**
78804571 TATGAGTTAATTATAGTTTAAGATA
1 TATG-G-T--TTAGGGTTTAAGATA
78804596 TATGGTTTAGGGTTTA
1 TATGGTTTAGGGTTTA
78804612 GGGTTTAAGG
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
21 29 0.62
22 1 0.02
23 2 0.04
24 1 0.02
25 14 0.30
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.47
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Found at i:78804790 original size:7 final size:7
Alignment explanation
Indices: 78804663--78804791 Score: 66
Period size: 7 Copynumber: 18.1 Consensus size: 7
78804653 GATGAATTAT
78804663 GGGTTTA
1 GGGTTTA
*
78804670 GGGATTA
1 GGGTTTA
* *
78804677 TGATTTA
1 GGGTTTA
*
78804684 GAGTTTA
1 GGGTTTA
*
78804691 GGGGTTA
1 GGGTTTA
78804698 GGG-TT-
1 GGGTTTA
78804703 GGAGTTTA
1 GG-GTTTA
* *
78804711 AGGTGTAA
1 GGGT-TTA
*
78804719 GGGTTTG
1 GGGTTTA
*
78804726 GGGTTAA
1 GGGTTTA
*
78804733 GGGTTAA
1 GGGTTTA
78804740 GGGTTTA
1 GGGTTTA
*
78804747 GAGTTTA
1 GGGTTTA
*
78804754 GTGTTTA
1 GGGTTTA
*
78804761 TGGG-ATA
1 -GGGTTTA
*
78804768 GGGGTTAA
1 -GGGTTTA
78804776 GAGGTTTA
1 G-GGTTTA
78804784 GGGTTTA
1 GGGTTTA
78804791 G
1 G
78804792 ATTAATTAGT
Statistics
Matches: 90, Mismatches: 25, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
5 2 0.02
6 3 0.03
7 70 0.78
8 15 0.17
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.37
Consensus pattern (7 bp):
GGGTTTA
Found at i:78806092 original size:15 final size:15
Alignment explanation
Indices: 78806072--78806102 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
78806062 TTGAAGGTAA
78806072 CCTACTGGTTTTCTT
1 CCTACTGGTTTTCTT
78806087 CCTACTGGTTTTCTT
1 CCTACTGGTTTTCTT
78806102 C
1 C
78806103 TAATTCAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.29, G:0.13, T:0.52
Consensus pattern (15 bp):
CCTACTGGTTTTCTT
Found at i:78807303 original size:12 final size:12
Alignment explanation
Indices: 78807286--78807335 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
78807276 AGTTGCTGGA
78807286 AATTGAGATGTT
1 AATTGAGATGTT
*
78807298 AATTGAGGTGTAT
1 AATTGAGATGT-T
* *
78807311 AAAT--GTTGTT
1 AATTGAGATGTT
78807321 AATTGAGATGTT
1 AATTGAGATGTT
78807333 AAT
1 AAT
78807336 ATGTGTGTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
10 4 0.13
11 4 0.13
12 18 0.60
13 4 0.13
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (12 bp):
AATTGAGATGTT
Found at i:78807339 original size:23 final size:23
Alignment explanation
Indices: 78807294--78807339 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
78807284 GAAATTGAGA
*
78807294 TGTTAATTGAGGTGTATAAATGT
1 TGTTAATTGAGATGTATAAATGT
78807317 TGTTAATTGAGATGT-TAATATGT
1 TGTTAATTGAGATGTATAA-ATGT
78807340 GTGTGTGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (23 bp):
TGTTAATTGAGATGTATAAATGT
Found at i:78807745 original size:23 final size:23
Alignment explanation
Indices: 78807719--78808164 Score: 378
Period size: 23 Copynumber: 19.4 Consensus size: 23
78807709 AAATGTTGTT
78807719 AATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAG-TGTTAAAGTGCTGCA
*
78807742 AATTGAAGTGTTTAAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
*
78807765 AATTGAACTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* **
78807788 AATTGAAGTGTTAGAGTGCTATA
1 AATTGAAGTGTTAAAGTGCTGCA
* * *
78807811 AATTGGAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* *
78807834 AATTGAAGTGTT-TAGTTGCTGGA
1 AATTGAAGTGTTAAAG-TGCTGCA
* **
78807857 AATTG-AGATGTTTAAA-TGTTGTT
1 AATTGAAG-TG-TTAAAGTGCTGCA
*
78807880 AATTGAAATGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* *
78807903 AATTGAAGTGTTTTAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
78807926 AATTG-AGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* **
78807948 AATTGAAGTGTTTAAA-TGTTGTT
1 AATTGAAGTG-TTAAAGTGCTGCA
* *
78807971 AATTGAAATGTTAAAGTGCCGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* *
78807994 AATTGAAGTGTTTGAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
*
78808017 AATTGAAGTGCTTAAA-TGTTGCA
1 AATTGAAGTG-TTAAAGTGCTGCA
** **
78808040 AATTGAAGTGCTATAAA-TATTGTT
1 AATTGAAGTG-T-TAAAGTGCTGCA
* *
78808064 AATTGAAATGTTTAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* *
78808087 AATTGAAGTGTTTTAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
78808110 AATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* *
78808133 AATTGAAGTGTTTGAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
78808156 AATTGAAGT
1 AATTGAAGT
78808165 TGTGGATTGA
Statistics
Matches: 342, Mismatches: 61, Indels: 40
0.77 0.14 0.09
Matches are distributed among these distances:
21 4 0.01
22 41 0.12
23 247 0.72
24 49 0.14
25 1 0.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (23 bp):
AATTGAAGTGTTAAAGTGCTGCA
Found at i:78807777 original size:46 final size:45
Alignment explanation
Indices: 78807729--78808164 Score: 446
Period size: 46 Copynumber: 9.5 Consensus size: 45
78807719 AATTGAGATG
* * *
78807729 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAACTG-
1 TTAAA-TGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGT
* * ** *
78807775 TTAAAGTGCTGCAAATTGAAGTGTTAGAGTGCTATAAATTGGAGTGT
1 TTAAA-TGCTGTAAATTGAAGTGTTA-AATGCTGCAAATTGAAGTGT
* * * ** *
78807822 TTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTG-AGATGT
1 TTAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAG-TGT
* * *
78807868 TTAAATGTTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGT
*
78807914 TTTAATGCTGTAAATTG-AGTGTTAAAGTGCTGCAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGT
* * * *
78807959 TTAAATGTTGTTAATTGAAATGTTAAAGTGCCGCAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGT
* *
78808005 TTGAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGCT
1 TTAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTG-T
* ** * * *
78808052 ATAAATATTGTTAATTGAAATGTTTAAGTGCTGCAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGT
*
78808098 TTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGT
*
78808144 TTGAATGCTGTAAATTGAAGT
1 TTAAATGCTGTAAATTGAAGT
78808165 TGTGGATTGA
Statistics
Matches: 329, Mismatches: 51, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
45 53 0.16
46 225 0.68
47 51 0.16
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (45 bp):
TTAAATGCTGTAAATTGAAGTGTTAAATGCTGCAAATTGAAGTGT
Found at i:78808081 original size:93 final size:92
Alignment explanation
Indices: 78807735--78808162 Score: 510
Period size: 92 Copynumber: 4.7 Consensus size: 92
78807725 GATGTTAAAG
* * * * ** *
78807735 TGCTGCAAATTGAAGTGTTTAAA-TGCTGTAAATTGAACTGT-TAAAGTGCTGCAAATTGAAGTG
1 TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTATAAA-TGTTGTTAATTGAAATG
* ** *
78807798 TTAGAGTGCTATAAATTGGAGTG-TTTAA
64 TTAAAGTGCTGCAAATTGAAGTGTTTTAA
* * * * *
78807826 GTACTGCAAATTGAAGTGTT-TAGTTGCTGGAAATTG-AGATGTTTAAATGTTGTTAATTGAAAT
1 -TGCTGTAAATTGAAGTGTTAAAG-TGCTGCAAATTGAAG-TGTATAAATGTTGTTAATTGAAAT
78807889 GTTAAAGTGCTGCAAATTGAAGTGTTTTAA
63 GTTAAAGTGCTGCAAATTGAAGTGTTTTAA
*
78807919 TGCTGTAAATTG-AGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTTAATTGAAATGTT
1 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTATAAATGTTGTTAATTGAAATGTT
* *
78807983 AAAGTGCCGCAAATTGAAGTGTTTGAA
66 AAAGTGCTGCAAATTGAAGTGTTTTAA
* *
78808010 TGCTGTAAATTGAAGTGCTTAAA-TGTTGCAAATTGAAGTGCTATAAATATTGTTAATTGAAATG
1 TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTG-TATAAATGTTGTTAATTGAAATG
*
78808074 TTTAAGTGCTGCAAATTGAAGTGTTTTAA
64 TTAAAGTGCTGCAAATTGAAGTGTTTTAA
* * * *
78808103 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAA
1 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTATAAATGTTGTTAATTGAA
78808163 GTTGTGGATT
Statistics
Matches: 295, Mismatches: 30, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
90 1 0.00
91 84 0.28
92 116 0.39
93 94 0.32
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (92 bp):
TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTATAAATGTTGTTAATTGAAATGTT
AAAGTGCTGCAAATTGAAGTGTTTTAA
Found at i:78808175 original size:13 final size:13
Alignment explanation
Indices: 78808157--78808199 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
78808147 AATGCTGTAA
78808157 ATTGAAGTTGTGG
1 ATTGAAGTTGTGG
* **
78808170 ATTGAATGCTGTAA
1 ATTGAA-GTTGTGG
78808184 ATTGAAGTTGTGG
1 ATTGAAGTTGTGG
78808197 ATT
1 ATT
78808200 ATTACCTCTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.28, C:0.02, G:0.30, T:0.40
Consensus pattern (13 bp):
ATTGAAGTTGTGG
Found at i:78808182 original size:27 final size:27
Alignment explanation
Indices: 78808144--78808199 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
78808134 ATTGAAGTGT
78808144 TTGAATGCTGTAAATTGAAGTTGTGGA
1 TTGAATGCTGTAAATTGAAGTTGTGGA
78808171 TTGAATGCTGTAAATTGAAGTTGTGGA
1 TTGAATGCTGTAAATTGAAGTTGTGGA
78808198 TT
1 TT
78808200 ATTACCTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.39
Consensus pattern (27 bp):
TTGAATGCTGTAAATTGAAGTTGTGGA
Found at i:78808189 original size:14 final size:14
Alignment explanation
Indices: 78808144--78808189 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
78808134 ATTGAAGTGT
78808144 TTGAATGCTGTAAA
1 TTGAATGCTGTAAA
* **
78808158 TTGAA-GTTGTGGA
1 TTGAATGCTGTAAA
78808171 TTGAATGCTGTAAA
1 TTGAATGCTGTAAA
78808185 TTGAA
1 TTGAA
78808190 GTTGTGGATT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (14 bp):
TTGAATGCTGTAAA
Found at i:78809837 original size:19 final size:19
Alignment explanation
Indices: 78809814--78809860 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
78809804 ATTTAATCTA
*
78809814 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
78809832 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
78809852 ATTTTTATT
1 ATTTTTATT
78809861 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:78810202 original size:12 final size:12
Alignment explanation
Indices: 78810187--78810211 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78810177 TTTCAACATT
78810187 ACTATGATTATG
1 ACTATGATTATG
78810199 ACTATGATTATG
1 ACTATGATTATG
78810211 A
1 A
78810212 GTAAATCAAT
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:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ACTATGATTATG
Found at i:78811667 original size:12 final size:12
Alignment explanation
Indices: 78811650--78811683 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
78811640 GGAGAAGTAA
78811650 GAATACATACTT
1 GAATACATACTT
78811662 GAATACATACTT
1 GAATACATACTT
*
78811674 GCATACATAC
1 GAATACATAC
78811684 ATATAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (12 bp):
GAATACATACTT
Found at i:78813250 original size:19 final size:21
Alignment explanation
Indices: 78813226--78813276 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
78813216 TTATTTTTAA
78813226 TCTATTTTTTT-CTTTCATAT
1 TCTATTTTTTTCCTTTCATAT
* *
78813246 T-TATTTTTTTCCTTTCTTTT
1 TCTATTTTTTTCCTTTCATAT
78813266 TCTATTTTTTT
1 TCTATTTTTTT
78813277 TTCTTTCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 9 0.33
20 9 0.33
21 9 0.33
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (21 bp):
TCTATTTTTTTCCTTTCATAT
Found at i:78813545 original size:27 final size:27
Alignment explanation
Indices: 78813511--78813562 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
78813501 TAGGTTACAA
78813511 AAAAGAAAA-ATAAG-GAGAACGAGAGAG
1 AAAAGAAAAGA-AAGAGAGAA-GAGAGAG
78813538 AAAAGAAAAGAAAGAGAGAAGAGAG
1 AAAAGAAAAGAAAGAGAGAAGAGAG
78813563 TTTTGGTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.65, C:0.02, G:0.31, T:0.02
Consensus pattern (27 bp):
AAAAGAAAAGAAAGAGAGAAGAGAGAG
Found at i:78815796 original size:40 final size:40
Alignment explanation
Indices: 78815752--78815860 Score: 209
Period size: 40 Copynumber: 2.7 Consensus size: 40
78815742 GCTACTTGCT
78815752 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
78815792 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
78815832 CAATTGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
78815861 CATCCGAATA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:78824299 original size:37 final size:39
Alignment explanation
Indices: 78824235--78824339 Score: 162
Period size: 38 Copynumber: 2.7 Consensus size: 39
78824225 GCTACTTGCT
78824235 CAAATGCCTTCGGGAC-TAGCCCGGTTATAG-AACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGTTATAGTAACTCGCA
78824273 CAAATGCCTTCGGACTTAGCCC-GTTATAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCA
*
78824311 CAATTGCCTTCGGACCTTAGCCCGGTTAT
1 CAAATGCCTTCGGA-CTTAGCCCGGTTAT
78824340 CATTCGAATA
Statistics
Matches: 62, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
37 11 0.18
38 38 0.61
39 8 0.13
40 5 0.08
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:78834382 original size:42 final size:42
Alignment explanation
Indices: 78834326--78834406 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
78834316 CAGCAATCTT
78834326 TTTTCAAAAATACTGGCACATAGTAGGAACTGAGGTAATATC
1 TTTTCAAAAATACTGGCACATAGTAGGAACTGAGGTAATATC
*
78834368 TTTTCAAAACTACTGGCACATAGTAGGAACTGAGGTAAT
1 TTTTCAAAAATACTGGCACATAGTAGGAACTGAGGTAAT
78834407 GTGTTTTTGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (42 bp):
TTTTCAAAAATACTGGCACATAGTAGGAACTGAGGTAATATC
Found at i:78837624 original size:23 final size:23
Alignment explanation
Indices: 78837577--78837624 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
78837567 CCTAGTATAA
*
78837577 AAATATGAATATTTTAATTATAT
1 AAATATGAATATTTTAATTAAAT
* **
78837600 AAATATGAGTATTTTGTTTAAAT
1 AAATATGAATATTTTAATTAAAT
78837623 AA
1 AA
78837625 CGCTTAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (23 bp):
AAATATGAATATTTTAATTAAAT
Found at i:78844750 original size:18 final size:18
Alignment explanation
Indices: 78844727--78844765 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
78844717 ATATAATTGT
78844727 TCTCATTTAACTTTACAA
1 TCTCATTTAACTTTACAA
78844745 TCTCATTTAACTTTACAA
1 TCTCATTTAACTTTACAA
78844763 TCT
1 TCT
78844766 TATGCTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (18 bp):
TCTCATTTAACTTTACAA
Found at i:78845082 original size:16 final size:17
Alignment explanation
Indices: 78845061--78845093 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
78845051 CATATTGAAG
78845061 TGTTTT-TCGAAAACCT
1 TGTTTTATCGAAAACCT
78845077 TGTTTTCATCGAAAACC
1 TGTTTT-ATCGAAAACC
78845094 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.39
Consensus pattern (17 bp):
TGTTTTATCGAAAACCT
Found at i:78846473 original size:29 final size:29
Alignment explanation
Indices: 78846407--78846497 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 29
78846397 AAGTCTACAT
* * *
78846407 ACATGCATATGGCCCACTAGG-CCTAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
78846435 TCATTTATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
78846464 ACATTCATATGGCCCATCT-GGCCCGAATC
1 ACATTCATATGGCCCAT-TAGGCCCAAATC
78846493 A-ATTC
1 ACATTC
78846498 CAAGCCATGT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 21 0.40
29 31 0.58
30 1 0.02
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:78847485 original size:5 final size:5
Alignment explanation
Indices: 78847476--78847509 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
78847466 GGTATTTGCA
* *
78847476 AAAAA AAAAA AAAAC AAAAC AAAAC AAAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
78847510 GAGTCAATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:78848467 original size:23 final size:24
Alignment explanation
Indices: 78848437--78848484 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
78848427 TTCAAGTCTA
78848437 AAACCAAT-TATTGTCCCTTAAAT
1 AAACCAATATATTGTCCCTTAAAT
78848460 AAACCAATCATATTGTCCCTTAAAT
1 AAACCAAT-ATATTGTCCCTTAAAT
78848485 GGACCCTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 8 0.35
25 15 0.65
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (24 bp):
AAACCAATATATTGTCCCTTAAAT
Found at i:78864993 original size:37 final size:37
Alignment explanation
Indices: 78864943--78865032 Score: 117
Period size: 37 Copynumber: 2.4 Consensus size: 37
78864933 ACTGAAAGTA
* * *
78864943 TGCTCAAATGAGCAATATCTAATGAATATATTGAATG
1 TGCTCAAAAGAGCAATATCCAATGAATATACTGAATG
* * *
78864980 TGCTCAAACGAGCAATATCCACTGAATATACTGATTG
1 TGCTCAAAAGAGCAATATCCAATGAATATACTGAATG
*
78865017 AGCTCAAAAGAGCAAT
1 TGCTCAAAAGAGCAAT
78865033 GTTTATTGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (37 bp):
TGCTCAAAAGAGCAATATCCAATGAATATACTGAATG
Found at i:78867628 original size:42 final size:44
Alignment explanation
Indices: 78867580--78867680 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
78867570 TCCCAGATAG
* *
78867580 GGTCTTACAC-AAAATCA-AA-TATGATTCCAACGTCCCAGACGT
1 GGTCTTACACGAAAATCATAAGT-CGATGCCAACGTCCCAGACGT
* * *
78867622 GGTCTTACACGTAAATCATAAGTCGATGCCAACGTCCTAGAGGT
1 GGTCTTACACGAAAATCATAAGTCGATGCCAACGTCCCAGACGT
*
78867666 GGTCTTACATGAAAA
1 GGTCTTACACGAAAA
78867681 CACATATTGG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
42 10 0.20
43 6 0.12
44 32 0.65
45 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (44 bp):
GGTCTTACACGAAAATCATAAGTCGATGCCAACGTCCCAGACGT
Found at i:78867638 original size:43 final size:43
Alignment explanation
Indices: 78867530--78867674 Score: 122
Period size: 43 Copynumber: 3.4 Consensus size: 43
78867520 GGCAACATCT
* *
78867530 CAGATGTGGTCTTACATGT-AATCAAATATCGATGT-C-ACTGTCC
1 CAGAAGTGGTCTTACACGTAAATCAAATAT-GAT-TCCAAC-GTCC
*
78867573 CAGATAG-GGTCTTACAC-AAAATCAAATATGATTCCAACGTCC
1 CAGA-AGTGGTCTTACACGTAAATCAAATATGATTCCAACGTCC
* * *
78867615 CAGACGTGGTCTTACACGTAAATCATAAGT-CGATGCCAACGTCC
1 CAGAAGTGGTCTTACACGTAAATCA-AA-TATGATTCCAACGTCC
* *
78867659 TAGAGGTGGTCTTACA
1 CAGAAGTGGTCTTACA
78867675 TGAAAACACA
Statistics
Matches: 85, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
41 2 0.02
42 22 0.26
43 31 0.36
44 29 0.34
45 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (43 bp):
CAGAAGTGGTCTTACACGTAAATCAAATATGATTCCAACGTCC
Found at i:78874933 original size:42 final size:42
Alignment explanation
Indices: 78874821--78874977 Score: 131
Period size: 44 Copynumber: 3.7 Consensus size: 42
78874811 AGCTCGTACA
* * * * *
78874821 ATGCCAATGT-CCATACGTGGTCTTACATGTAATAAAATATCA
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATA-CG
* * * *
78874863 ATACCACTATCCCAGACAG-GGACTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCAAATACG
* *
78874905 ATGCCAATGTCCCAGACGTGGTCCTACACATAAATCATAAGT-CG
1 ATGCCAATGTCCCAGACGTGGTCTTACAC-GAAATCA-AA-TACG
* *
78874949 ATGCCAACGTCCCAGATGTGGTCTTACAC
1 ATGCCAATGTCCCAGACGTGGTCTTACAC
78874978 AAAAACACAT
Statistics
Matches: 91, Mismatches: 18, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 30 0.33
43 28 0.31
44 31 0.34
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATACG
Found at i:78878802 original size:47 final size:47
Alignment explanation
Indices: 78878731--78879082 Score: 580
Period size: 47 Copynumber: 7.4 Consensus size: 47
78878721 TATCACAGTT
* * * * *
78878731 ATACACTTCCAC-TTCCATCCCATTGACCATTCGGCCTTATCATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATAC
*
78878778 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
78878825 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
78878872 ATACACTTTCACATTCTTCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
78878921 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
78878968 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
78879015 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
78879064 ATACACTTTCACATTCATC
1 ATACACTTTCACATTCATC
78879083 GTAACAAAAT
Statistics
Matches: 290, Mismatches: 10, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
47 220 0.76
48 2 0.01
49 68 0.23
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.34
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:78878975 original size:143 final size:143
Alignment explanation
Indices: 78878731--78879082 Score: 620
Period size: 143 Copynumber: 2.5 Consensus size: 143
78878721 TATCACAGTT
* * * *
78878731 ATACACTTCCAC-TTCCATCCCATTGACCATTCGGCCTTAT--CATATATATATACTTTCACATT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATT
78878793 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCG
65 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCG
78878858 GCCTTATCACATAC
130 GCCTTATCACATAC
* *
78878872 ATACACTTTCACATTCTTCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTC
78878937 ATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGG
66 ATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGG
78879002 CCTTATCACATAC
131 CCTTATCACATAC
78879015 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTC
78879080 ATC
66 ATC
78879083 GTAACAAAAT
Statistics
Matches: 200, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
141 33 0.17
142 2 0.01
143 165 0.82
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.34
Consensus pattern (143 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTC
ATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGG
CCTTATCACATAC
Found at i:78879054 original size:190 final size:191
Alignment explanation
Indices: 78878731--78879079 Score: 603
Period size: 190 Copynumber: 1.8 Consensus size: 191
78878721 TATCACAGTT
* * * *
78878731 ATACACTTCCACTTCCATCCCATTGACCATTCGGCCTTATCATATATATATACTTTCACATTCAT
1 ATACACTTCCACTTCCATCACATTGACCATTCGGCCTTATCACATACATACACTTTCACATTCAT
78878796 CACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCC
66 CACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCC
78878861 TTATCAC-ATACATACACTTTCACATTCTTCACATTGGCCATTCGGCCTTATCACATATAC
131 TTATCACAATACATACACTTTCACATTCTTCACATTGGCCATTCGGCCTTATCACATATAC
* *
78878921 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCA
1 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCACATACATACACTTTCACATTCA
78878985 TCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGC
65 TCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGC
*
78879050 CTTATCACATATATATACACTTTCACATTC
130 CTTATCACA-ATACATACACTTTCACATTC
78879080 ATCGTAACAA
Statistics
Matches: 149, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
190 128 0.86
191 2 0.01
192 19 0.13
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.34
Consensus pattern (191 bp):
ATACACTTCCACTTCCATCACATTGACCATTCGGCCTTATCACATACATACACTTTCACATTCAT
CACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCC
TTATCACAATACATACACTTTCACATTCTTCACATTGGCCATTCGGCCTTATCACATATAC
Found at i:78888900 original size:21 final size:21
Alignment explanation
Indices: 78888874--78888919 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
78888864 AATTTTATGG
*
78888874 AGAAAAATAA-ATAATAAAAGA
1 AGAAAAATAAGA-AAGAAAAGA
78888895 AGAAAAATAAGAAAGAAAAGA
1 AGAAAAATAAGAAAGAAAAGA
78888916 AGAA
1 AGAA
78888920 GACCTAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (21 bp):
AGAAAAATAAGAAAGAAAAGA
Found at i:78901393 original size:56 final size:56
Alignment explanation
Indices: 78901303--78901457 Score: 240
Period size: 56 Copynumber: 2.8 Consensus size: 56
78901293 GATGATCATG
* * * *
78901303 CAGAGCTACAGTAGTCCACAACATATGCGGAATACTACCAATCCTAGATGCTTACA
1 CAGAGCTACGGTAGTCCATAACATATGCGAAATACTACCAATCCTAGATGCTCACA
*
78901359 CAGAGCTACGGTAGTCCATAACATATGCGAAATACTACCAATCCTCGATGCTCACA
1 CAGAGCTACGGTAGTCCATAACATATGCGAAATACTACCAATCCTAGATGCTCACA
*
78901415 CAGAGCTACGGTAGTCCATAACTTATGC-AGAATACTACCAATC
1 CAGAGCTACGGTAGTCCATAACATATGCGA-AATACTACCAATC
78901458 ACTATACTCA
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
55 1 0.01
56 91 0.99
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (56 bp):
CAGAGCTACGGTAGTCCATAACATATGCGAAATACTACCAATCCTAGATGCTCACA
Found at i:78902345 original size:16 final size:16
Alignment explanation
Indices: 78902324--78902354 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
78902314 TTCCCTTTCC
78902324 TTTTTCTTTCTTTCTG
1 TTTTTCTTTCTTTCTG
78902340 TTTTTCTTTCTTTCT
1 TTTTTCTTTCTTTCT
78902355 TTCCCCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTTCTTTCTTTCTG
Found at i:78902432 original size:18 final size:18
Alignment explanation
Indices: 78902409--78902507 Score: 74
Period size: 18 Copynumber: 5.2 Consensus size: 18
78902399 TGCTTTGTTT
78902409 TATATT-TAATGATAAAAA
1 TATATTATAAT-ATAAAAA
78902427 TATATTATAATATAATAATA
1 TATATTATAATATAA-AA-A
*
78902447 TAATAATATAATAATAATATAA
1 T-ATATTATAAT-ATAA-A-AA
* * *
78902469 TATAATATAATATAATAT
1 TATATTATAATATAAAAA
* *
78902487 TATATTATATTATAATAA
1 TATATTATAATATAAAAA
78902505 TAT
1 TAT
78902508 TATTCTTTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
18 29 0.42
19 6 0.09
20 6 0.09
21 19 0.28
22 8 0.12
23 1 0.01
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (18 bp):
TATATTATAATATAAAAA
Found at i:78902440 original size:5 final size:5
Alignment explanation
Indices: 78902425--78902507 Score: 87
Period size: 5 Copynumber: 16.0 Consensus size: 5
78902415 TAATGATAAA
*
78902425 AATAT ATTAT AATAT AATA- ATATAAT AATAT AATAAT AATAT AATAT
1 AATAT AATAT AATAT AATAT A-AT-AT AATAT AAT-AT AATAT AATAT
* * *
78902472 AATAT AATAT AATAT TATAT TATAT TATAAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AAT-AT AATAT
78902508 TATTCTTTAT
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
4 1 0.01
5 55 0.80
6 12 0.17
7 1 0.01
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
AATAT
Found at i:78902444 original size:8 final size:8
Alignment explanation
Indices: 78902428--78902507 Score: 81
Period size: 8 Copynumber: 9.5 Consensus size: 8
78902418 TGATAAAAAT
*
78902428 ATATTATA
1 ATATAATA
78902436 ATATAATA
1 ATATAATA
78902444 ATATAATA
1 ATATAATA
78902452 ATATAATA
1 ATATAATA
78902460 ATA-ATATA
1 ATATA-ATA
78902468 ATATAATATA
1 ATAT-A-ATA
78902478 ATATAATA
1 ATATAATA
*
78902486 TTATATTATA
1 --ATATAATA
*
78902496 TTATAATA
1 ATATAATA
78902504 ATAT
1 ATAT
78902508 TATTCTTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
7 1 0.02
8 44 0.71
9 1 0.02
10 16 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
ATATAATA
Found at i:78902448 original size:13 final size:13
Alignment explanation
Indices: 78902420--78902507 Score: 83
Period size: 13 Copynumber: 6.8 Consensus size: 13
78902410 ATATTTAATG
* *
78902420 ATAAAAATATATT
1 ATAATAATATAAT
78902433 ATAAT-ATAATAAT
1 ATAATAAT-ATAAT
78902446 ATAATAATAT-A-
1 ATAATAATATAAT
78902457 ATAATAATATAAT
1 ATAATAATATAAT
78902470 ATAATATAATATAAT
1 AT-A-ATAATATAAT
* * *
78902485 ATTATATTATATT
1 ATAATAATATAAT
78902498 ATAATAATAT
1 ATAATAATAT
78902508 TATTCTTTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
11 10 0.16
12 4 0.06
13 33 0.53
14 3 0.05
15 12 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:78902506 original size:3 final size:3
Alignment explanation
Indices: 78902433--78902485 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
78902423 AAAATATATT
78902433 ATA AT- ATA ATA AT- ATA ATA AT- ATA ATA ATA AT- ATA AT- ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
78902475 ATA AT- ATA ATA
1 ATA ATA ATA ATA
78902486 TTATATTATA
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
2 14 0.33
3 29 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:78903042 original size:6 final size:6
Alignment explanation
Indices: 78903028--78903061 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
78903018 TAGGTACAGT
* *
78903028 TTCAGA TTCAAA TTCAGA TCCAGA TTCAGA TTCA
1 TTCAGA TTCAGA TTCAGA TTCAGA TTCAGA TTCA
78903062 AATTACAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (6 bp):
TTCAGA
Found at i:78903043 original size:12 final size:12
Alignment explanation
Indices: 78903028--78903070 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
78903018 TAGGTACAGT
78903028 TTCAGATTCAAA
1 TTCAGATTCAAA
* *
78903040 TTCAGATCCAGA
1 TTCAGATTCAAA
78903052 TTCAGATTCAAA
1 TTCAGATTCAAA
78903064 TTACAGA
1 TT-CAGA
78903071 AGTAGATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 22 0.85
13 4 0.15
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.30
Consensus pattern (12 bp):
TTCAGATTCAAA
Found at i:78904454 original size:12 final size:12
Alignment explanation
Indices: 78904437--78904468 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
78904427 TAGACACATG
78904437 CCCGTGTGTCTA
1 CCCGTGTGTCTA
78904449 CCCGTGTGTCTA
1 CCCGTGTGTCTA
78904461 CCCGTGTG
1 CCCGTGTG
78904469 GACAACTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.06, C:0.34, G:0.28, T:0.31
Consensus pattern (12 bp):
CCCGTGTGTCTA
Found at i:78905368 original size:30 final size:29
Alignment explanation
Indices: 78905334--78905401 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 29
78905324 ATGAATCAGA
*
78905334 AGCTTTGGCACTAAGTGTGTGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTT-AACT
78905364 AGCTTTGGCACTAAGTGTGCGATTTAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAACT
78905393 AGCTTTGGC
1 AGCTTTGGC
78905402 TACTTGAGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 13 0.35
30 24 0.65
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACT
Found at i:78912151 original size:16 final size:16
Alignment explanation
Indices: 78912130--78912160 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
78912120 TTTAATACCT
78912130 TTAGCTACTAGAACTA
1 TTAGCTACTAGAACTA
78912146 TTAGCTACTAGAACT
1 TTAGCTACTAGAACT
78912161 CAACTTTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (16 bp):
TTAGCTACTAGAACTA
Found at i:78925587 original size:13 final size:13
Alignment explanation
Indices: 78925547--78925587 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
78925537 GCTTGGCAGG
*
78925547 GACACGCCCGTGT
1 GACATGCCCGTGT
*
78925560 GACATGCTCGTGT
1 GACATGCCCGTGT
*
78925573 GACATGCCCGAGT
1 GACATGCCCGTGT
78925586 GA
1 GA
78925588 ATCGTGCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.20, C:0.29, G:0.32, T:0.20
Consensus pattern (13 bp):
GACATGCCCGTGT
Found at i:78939035 original size:30 final size:30
Alignment explanation
Indices: 78938977--78939035 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
78938967 ATTTTCACGC
* **
78938977 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
78939007 CTAGGGGCAAAATGGTCATTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
78939036 ATGTGAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:78939480 original size:46 final size:47
Alignment explanation
Indices: 78939336--78939546 Score: 189
Period size: 46 Copynumber: 4.5 Consensus size: 47
78939326 ATTGTGGGCT
* ** * *
78939336 AGTGTAAGACATGTCTAGGACATGCATCAGCC-ACATTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTACAAGACGAGAGCC
* ** * * *
78939382 AGTGTAAGACCATGTCTGGGACATGGCATCGGAAT-CGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTACAAGACGAGAGCC
78939430 AGTGTAAGACATGTCTGGGACATGCATCAGCCTA-AAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTACAAGACG-AGAGCC
* ** * * * *
78939476 AGTGTAAGACATGTTTGGGACATGCATC-GGTTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTACAAGACGAGAGCC
78939522 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
78939547 GCATTGACAT
Statistics
Matches: 135, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
45 4 0.03
46 66 0.49
47 42 0.31
48 23 0.17
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTACAAGACGAGAGCC
Found at i:78939561 original size:47 final size:50
Alignment explanation
Indices: 78939380--78939600 Score: 168
Period size: 47 Copynumber: 4.7 Consensus size: 50
78939370 ATTATGAGAG
*
78939380 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGA-ATCGAGACG--AGT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGACATAGAGACGTAAGT
* * *
78939427 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CCTAAAGACGTAAG-
1 -CTAGTGTAAGACCATGTCTGGGACATGGCATCGGACATAGAGACGTAAGT
* * * *
78939474 CCAGTGTAAGA-CATGTTTGGGACAT-GCATCGG--TTACGAGATG-ATAGT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGACATA-GAGACGTA-AGT
* ** *
78939521 C-AGTGTAAGACCATGTCTGGGACATGGCAT-TGACAT-GAGATATGAG-
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGACATAGAGACGTAAGT
* * *
78939567 CTAGTGTAAGACCGTGTCTAGGATATGGCATCGG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGG
78939601 CACCTTACCC
Statistics
Matches: 141, Mismatches: 19, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
45 3 0.02
46 57 0.40
47 62 0.44
48 18 0.13
49 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (50 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGACATAGAGACGTAAGT
Found at i:78939573 original size:93 final size:93
Alignment explanation
Indices: 78939333--78939600 Score: 230
Period size: 94 Copynumber: 2.9 Consensus size: 93
78939323 GTTATTGTGG
* * *
78939333 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTATG--A-GAGCTAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG---CATAAAGACATGAGCTAGTGTAAGA-CAT
78939395 GTCTGGGACATGGCATCGGAATCGAGACGAGT
62 GTCTGGGACATGGCATCGGAATCGAGACGAGT
* * * * *
78939427 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTAAAGACGTAAGCCAGTGTAAGACATGTTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATAAAGACATGAGCTAGTGTAAGACATGTCT
* *
78939492 GGGACAT-GCATCGG-TTACGAGATGA-T
66 GGGACATGGCATCGGAAT-CGAGACGAGT
* * *
78939518 AG-TCAGTGTAAGACCATGTCTGGGACATGGCAT-TGACAT-GAGATATGAGCTAGTGTAAGACC
1 -GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CATAAAGACATGAGCTAGTGTAAGA-C
* * *
78939580 GTGTCTAGGATATGGCATCGG
60 ATGTCTGGGACATGGCATCGG
78939601 CACCTTACCC
Statistics
Matches: 142, Mismatches: 21, Indels: 21
0.77 0.11 0.11
Matches are distributed among these distances:
91 7 0.05
92 24 0.17
93 44 0.31
94 60 0.42
95 7 0.05
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATAAAGACATGAGCTAGTGTAAGACATGTCT
GGGACATGGCATCGGAATCGAGACGAGT
Found at i:78944816 original size:55 final size:55
Alignment explanation
Indices: 78944749--78944861 Score: 145
Period size: 55 Copynumber: 2.1 Consensus size: 55
78944739 CAAGCCTGCC
* * *
78944749 AAAACAACACGGGCGTGCGACACGCTCGGGTGGAAGAACCGTGGGCGAACCTGTT
1 AAAACAACACGGGAGTGCGACACGCCCGGGTGGAACAACCGTGGGCGAACCTGTT
** * * * *
78944804 AAAACAACACGGGAGTTTGACACGCCCGTGTGGAACACCCGTGGTCGAACTTGTT
1 AAAACAACACGGGAGTGCGACACGCCCGGGTGGAACAACCGTGGGCGAACCTGTT
78944859 AAA
1 AAA
78944862 TTAACACGAG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.29, C:0.25, G:0.30, T:0.16
Consensus pattern (55 bp):
AAAACAACACGGGAGTGCGACACGCCCGGGTGGAACAACCGTGGGCGAACCTGTT
Found at i:78950064 original size:28 final size:28
Alignment explanation
Indices: 78950024--78950081 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 28
78950014 CACATGGGTT
78950024 AGGACACGAGCGTGT-CATGGCCGTGTGA
1 AGGACACGAGCGTGTCCA-GGCCGTGTGA
*
78950052 AGGACACGGGCGTGTGCCAGGCCGTGTGA
1 AGGACACGAGCGTGT-CCAGGCCGTGTGA
78950081 A
1 A
78950082 AACCCTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 14 0.52
29 11 0.41
30 2 0.07
ACGTcount: A:0.21, C:0.22, G:0.41, T:0.16
Consensus pattern (28 bp):
AGGACACGAGCGTGTCCAGGCCGTGTGA
Found at i:78951866 original size:23 final size:24
Alignment explanation
Indices: 78951840--78951884 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
78951830 AAAATTAAAT
*
78951840 GAGC-ACAAAGACAAAATTTAGCA
1 GAGCAACAAACACAAAATTTAGCA
*
78951863 GAGCAACAGACACAAAATTTAG
1 GAGCAACAAACACAAAATTTAG
78951885 TTGAACGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.13
Consensus pattern (24 bp):
GAGCAACAAACACAAAATTTAGCA
Found at i:78953260 original size:3 final size:3
Alignment explanation
Indices: 78953254--78953310 Score: 68
Period size: 3 Copynumber: 20.3 Consensus size: 3
78953244 TTTTTCTTTT
*
78953254 TTC TTC TTC -TC TTC TTC TTC TT- TTT TTC TTC TTC -TC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
78953299 TT- TTT TTC TTC T
1 TTC TTC TTC TTC T
78953311 CCTTTCTCTC
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
2 8 0.17
3 40 0.83
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:78953268 original size:11 final size:11
Alignment explanation
Indices: 78953255--78953334 Score: 69
Period size: 11 Copynumber: 7.5 Consensus size: 11
78953245 TTTTCTTTTT
78953255 TCTTCTTC-TC
1 TCTTCTTCTTC
*
78953265 TTCTTCTTCTTT
1 -TCTTCTTCTTC
*
78953277 TTTTCTTCTTC
1 TCTTCTTCTTC
78953288 TCTTCTTCTTC
1 TCTTCTTCTTC
* *
78953299 TTTTTTTCTTC
1 TCTTCTTCTTC
*
78953310 TCCT-TTC-TC
1 TCTTCTTCTTC
78953319 TCTT-TTCTTTC
1 TCTTCTTC-TTC
78953330 TCTTC
1 TCTTC
78953335 CAGTGTGTGG
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
9 8 0.14
10 3 0.05
11 44 0.79
12 1 0.02
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (11 bp):
TCTTCTTCTTC
Found at i:78953273 original size:14 final size:14
Alignment explanation
Indices: 78953254--78953334 Score: 82
Period size: 14 Copynumber: 6.0 Consensus size: 14
78953244 TTTTTCTTTT
78953254 TTCTTCTTCTCTTC
1 TTCTTCTTCTCTTC
78953268 TTCTTCTT-T-TT-
1 TTCTTCTTCTCTTC
78953279 TTCTTCTTCTCTTC
1 TTCTTCTTCTCTTC
* *
78953293 TTCTTCTTTTTTTC
1 TTCTTCTTCTCTTC
*
78953307 TTCTCCTT-TCTCTC
1 TTCTTCTTCTCT-TC
78953321 TT-TTCTTTCTCTTC
1 TTCTTC-TTCTCTTC
78953335 CAGTGTGTGG
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
11 8 0.14
12 3 0.05
13 7 0.12
14 35 0.62
15 3 0.05
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTCTTCTTCTCTTC
Found at i:78953283 original size:25 final size:25
Alignment explanation
Indices: 78953250--78953334 Score: 124
Period size: 25 Copynumber: 3.5 Consensus size: 25
78953240 CTTTTTTTTC
78953250 TTTTTTCTTCTTCTCTTCTTCTTCT
1 TTTTTTCTTCTTCTCTTCTTCTTCT
78953275 TTTTTTCTTCTTCTCTTCTTCTTCT
1 TTTTTTCTTCTTCTCTTCTTCTTCT
*
78953300 TTTTTTCTTCTCCT-TTC-TC-TCT
1 TTTTTTCTTCTTCTCTTCTTCTTCT
78953322 TTTCTTTC-TCTTC
1 TTT-TTTCTTCTTC
78953335 CAGTGTGTGG
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
22 10 0.18
23 6 0.11
24 3 0.05
25 38 0.67
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTTTTCTTCTTCTCTTCTTCTTCT
Found at i:78953579 original size:13 final size:14
Alignment explanation
Indices: 78953561--78953589 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78953551 AAAATAATAT
78953561 TTTATT-TAAAAAA
1 TTTATTATAAAAAA
78953574 TTTATTATAAAAAA
1 TTTATTATAAAAAA
78953588 TT
1 TT
78953590 AAATCGAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTATTATAAAAAA
Found at i:78960852 original size:43 final size:42
Alignment explanation
Indices: 78960782--78960918 Score: 116
Period size: 43 Copynumber: 3.2 Consensus size: 42
78960772 ATATCGTACA
* * * **
78960782 ATGCCAACGTCCTAGAC-GTGGTATTACATGTAATCACACGTCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATG-AATCACAAATCG
* * * *
78960825 ATGCCACTGTCGCAGACAGGGTCTTACACGAATCACAATTACG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGAATCACAAAT-CG
* *
78960868 ATGCCAATGTCCCAGACATGGTCTTAC-TCGAAATCACATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACAT-G-AATCACAAATCG
78960911 ATGCCAAT
1 ATGCCAAT
78960919 ATCTCAGAAC
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
42 8 0.11
43 59 0.78
44 9 0.12
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGAATCACAAATCG
Found at i:78965953 original size:43 final size:42
Alignment explanation
Indices: 78965808--78965978 Score: 161
Period size: 43 Copynumber: 4.0 Consensus size: 42
78965798 ATATCGTACA
* * * * *
78965808 ATGCCAACGCCCAGACGTGGTCTTACATGTAATCACATGTCG
1 ATGCCAACGTCCAGACATGGTCTTACACGAAATCACATATCG
*
78965850 ATGCC-ACTGTCGCAGACAGGGTCTTACACG-AATCACA-ATTACG
1 ATGCCAAC-GTC-CAGACATGGTCTTACACGAAATCACATA-T-CG
* *
78965893 ATGCCAATGTCCCAGACATGGTCTTACTCGAAATCACATATCG
1 ATGCCAACGT-CCAGACATGGTCTTACACGAAATCACATATCG
* *
78965936 ATGCCAACATCCTAGACATGGTATTACACGAGAA-CACATATCG
1 ATGCCAACGTCC-AGACATGGTCTTACACGA-AATCACATATCG
78965979 GAAATCCTAT
Statistics
Matches: 107, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
41 2 0.02
42 17 0.16
43 75 0.70
44 12 0.11
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCAGACATGGTCTTACACGAAATCACATATCG
Found at i:78965963 original size:86 final size:85
Alignment explanation
Indices: 78965808--78965966 Score: 198
Period size: 86 Copynumber: 1.9 Consensus size: 85
78965798 ATATCGTACA
* * * * *
78965808 ATGCCAACGCCCAGACGTGGTCTTACATGTAATCACATGTCGATGCCACTGTCGCAGACAGGGTC
1 ATGCCAACGCCCAGACATGGTCTTACATGAAATCACATATCGATGCCACTATCGCAGACAGGGTA
78965873 TTACACGAATCACAATTACG
66 TTACACGAATCACAATTACG
* *
78965893 ATGCCAATGTCCCAGACATGGTCTTAC-TCGAAATCACATATCGATGCCAAC-ATC-CTAGACAT
1 ATGCCAACG-CCCAGACATGGTCTTACAT-GAAATCACATATCGATGCC-ACTATCGC-AGACAG
78965955 GGTATTACACGA
62 GGTATTACACGA
78965967 GAACACATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
85 10 0.16
86 51 0.81
87 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (85 bp):
ATGCCAACGCCCAGACATGGTCTTACATGAAATCACATATCGATGCCACTATCGCAGACAGGGTA
TTACACGAATCACAATTACG
Found at i:78967123 original size:14 final size:15
Alignment explanation
Indices: 78967106--78967134 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
78967096 GCACAAAAAT
78967106 TTCACACAT-ATAAA
1 TTCACACATAATAAA
78967120 TTCACACATAATAAA
1 TTCACACATAATAAA
78967135 CACTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:78970702 original size:44 final size:44
Alignment explanation
Indices: 78970648--78970732 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
78970638 ATTTCACTAG
* * *
78970648 AACTGACCTTATTACCAA-TCTAAATCGAGTTTAAGTACATCAAA
1 AACTAACCTTATTACCAATTC-AAATCGAATTCAAGTACATCAAA
*
78970692 AACTAACCTTATTATCAATTCAAATCGAATTCAAGTACATC
1 AACTAACCTTATTACCAATTCAAATCGAATTCAAGTACATC
78970733 GAGAAGGGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 34 0.94
45 2 0.06
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (44 bp):
AACTAACCTTATTACCAATTCAAATCGAATTCAAGTACATCAAA
Found at i:78984585 original size:25 final size:25
Alignment explanation
Indices: 78984557--78984661 Score: 78
Period size: 24 Copynumber: 4.4 Consensus size: 25
78984547 GAGTCATGGT
*
78984557 CAGTAAGCTCCT-CTGAGCTGATAAA
1 CAGTAAGCTCCTACTAAGCTGA-AAA
*
78984582 CAGTAAGCT-CTATTAAGCTGAAAA
1 CAGTAAGCTCCTACTAAGCTGAAAA
* * * *
78984606 CAGTAAGCTCTTTC-GAGCTGAATA
1 CAGTAAGCTCCTACTAAGCTGAAAA
* * *
78984630 -GGTAAGCTCC-AATAAGCTG-AAG
1 CAGTAAGCTCCTACTAAGCTGAAAA
78984652 CAGTAAGCTC
1 CAGTAAGCTC
78984662 TTTTGAGCTA
Statistics
Matches: 61, Mismatches: 15, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
22 1 0.02
23 21 0.34
24 22 0.36
25 17 0.28
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (25 bp):
CAGTAAGCTCCTACTAAGCTGAAAA
Found at i:78984670 original size:23 final size:24
Alignment explanation
Indices: 78984557--78984670 Score: 97
Period size: 23 Copynumber: 4.8 Consensus size: 24
78984547 GAGTCATGGT
* *
78984557 CAGTAAGCTCCTCTGAGCTGATAAA
1 CAGTAAGCTCTTTTGAGCTGA-AAA
* *
78984582 CAGTAAGCTCTATTAAGCTGAAAA
1 CAGTAAGCTCTTTTGAGCTGAAAA
* *
78984606 CAGTAAGCTCTTTCGAGCTGAATA
1 CAGTAAGCTCTTTTGAGCTGAAAA
* *** * *
78984630 -GGTAAGCTCCAATAAGCTG-AAG
1 CAGTAAGCTCTTTTGAGCTGAAAA
78984652 CAGTAAGCTCTTTTGAGCT
1 CAGTAAGCTCTTTTGAGCT
78984671 ATGGTGAGTC
Statistics
Matches: 67, Mismatches: 21, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
22 1 0.01
23 26 0.39
24 23 0.34
25 17 0.25
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (24 bp):
CAGTAAGCTCTTTTGAGCTGAAAA
Found at i:78984670 original size:46 final size:49
Alignment explanation
Indices: 78984557--78984670 Score: 135
Period size: 46 Copynumber: 2.4 Consensus size: 49
78984547 GAGTCATGGT
* * * *
78984557 CAGTAAGCTCCTCTGAGCTGATAAACAGTAAGCTCTATTAAGCTGAAAA
1 CAGTAAGCTCTTTTGAGCTGATAAACAGTAAGCTCCAATAAGCTGAAAA
* * * *
78984606 CAGTAAGCTCTTTCGAGCTGA-ATA-GGTAAGCTCCAATAAGCTG-AAG
1 CAGTAAGCTCTTTTGAGCTGATAAACAGTAAGCTCCAATAAGCTGAAAA
78984652 CAGTAAGCTCTTTTGAGCT
1 CAGTAAGCTCTTTTGAGCT
78984671 ATGGTGAGTC
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
46 20 0.36
47 16 0.29
48 2 0.04
49 18 0.32
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (49 bp):
CAGTAAGCTCTTTTGAGCTGATAAACAGTAAGCTCCAATAAGCTGAAAA
Found at i:78987836 original size:22 final size:22
Alignment explanation
Indices: 78987810--78987866 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 22
78987800 TAAAACTAAC
78987810 ATAGAATCAAAAATCATGATTT
1 ATAGAATCAAAAATCATGATTT
*
78987832 ATAGATGGAATAAAAAATCATGATTT
1 AT--A--GAATCAAAAATCATGATTT
78987858 ATA-AATCAA
1 ATAGAATCAA
78987867 TTTGTACCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
21 5 0.17
22 2 0.07
24 2 0.07
26 20 0.69
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.30
Consensus pattern (22 bp):
ATAGAATCAAAAATCATGATTT
Found at i:78990534 original size:26 final size:26
Alignment explanation
Indices: 78990505--78990555 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
78990495 ACATGGGATA
78990505 TAAGAAATTAACATCAAAATATAAAT
1 TAAGAAATTAACATCAAAATATAAAT
* *
78990531 TAAGAAATTAACATTAGAATATAAA
1 TAAGAAATTAACATCAAAATATAAA
78990556 ACAAATCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (26 bp):
TAAGAAATTAACATCAAAATATAAAT
Found at i:78990943 original size:50 final size:52
Alignment explanation
Indices: 78990866--78990970 Score: 169
Period size: 50 Copynumber: 2.1 Consensus size: 52
78990856 CAAATATAAA
* * *
78990866 AAAATTATATATACAAATATAATTCATTTATAAAAGAATATGCGTTAGTATG
1 AAAATTATATATACAAATATAATTCATTGATAAAAGAATAAGAGTTAGTATG
78990918 AAAATT-T-TATACAAATATAATTCATTGATAAAAGAATAAGAGTTAGTATG
1 AAAATTATATATACAAATATAATTCATTGATAAAAGAATAAGAGTTAGTATG
78990968 AAA
1 AAA
78990971 TAAACTTGTG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
50 43 0.86
51 1 0.02
52 6 0.12
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.34
Consensus pattern (52 bp):
AAAATTATATATACAAATATAATTCATTGATAAAAGAATAAGAGTTAGTATG
Found at i:78999224 original size:8 final size:8
Alignment explanation
Indices: 78999211--78999241 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
78999201 ATTTTAAAGA
78999211 AAGGGCAT
1 AAGGGCAT
78999219 AAGGGCAT
1 AAGGGCAT
78999227 AAGGGCAT
1 AAGGGCAT
*
78999235 GAGGGCA
1 AAGGGCA
78999242 ATTTGGTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.35, C:0.13, G:0.42, T:0.10
Consensus pattern (8 bp):
AAGGGCAT
Found at i:79004027 original size:43 final size:43
Alignment explanation
Indices: 79003947--79004117 Score: 209
Period size: 43 Copynumber: 4.0 Consensus size: 43
79003937 TCTGAACTCA
* * ** *
79003947 TTCACTGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCTCGATATCAT
* * * *
79003989 TTCACCAGCATTATAGCCTGCTACGCCCGAGGCTCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCTCGATATCAT
* * *
79004032 CTCACTGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCTCGATATCAT
*
79004075 TTCACCGGCATTACAGCCTGCTAGGCCCGAAGCTCGAATATCA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCTCG-ATATCA
79004118 CATTTCGATA
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
42 10 0.09
43 91 0.85
44 6 0.06
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCTCGATATCAT
Found at i:79004057 original size:86 final size:85
Alignment explanation
Indices: 79003948--79004111 Score: 256
Period size: 86 Copynumber: 1.9 Consensus size: 85
79003938 CTGAACTCAT
* ** *
79003948 TCACTGGCATTTCGCCTGCTAGGCTTGAAGCCCGATATCATTTCACCAGCATTATAGCCTGCTAC
1 TCACTGGCATTTAGCCTGCTAGGCCCGAAGCCCGATATCATTTCACCAGCATTACAGCCTGCTAC
*
79004013 GCCCGAGGCTCGATATTATC
66 GCCCGAAGCTCGATATTATC
*
79004033 TCACTGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCATTTCACCGGCATTACAGCCTGCTA
1 TCACTGGCATT-TAGCCTGCTAGGCCCGAAGCCCGATATCATTTCACCAGCATTACAGCCTGCTA
*
79004098 GGCCCGAAGCTCGA
65 CGCCCGAAGCTCGA
79004112 ATATCACATT
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
85 11 0.15
86 60 0.85
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (85 bp):
TCACTGGCATTTAGCCTGCTAGGCCCGAAGCCCGATATCATTTCACCAGCATTACAGCCTGCTAC
GCCCGAAGCTCGATATTATC
Found at i:79004955 original size:39 final size:39
Alignment explanation
Indices: 79004896--79004974 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
79004886 TAATATAAAC
79004896 ATACGGCTATTTATCACCATATAACTAACTCATTAACTA
1 ATACGGCTATTTATCACCATATAACTAACTCATTAACTA
*
79004935 ATACGGCTATTTATCTCCATATAACTAACTCATTAACTA
1 ATACGGCTATTTATCACCATATAACTAACTCATTAACTA
79004974 A
1 A
79004975 CACTTAATCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (39 bp):
ATACGGCTATTTATCACCATATAACTAACTCATTAACTA
Found at i:79006897 original size:40 final size:40
Alignment explanation
Indices: 79006842--79007023 Score: 314
Period size: 40 Copynumber: 4.6 Consensus size: 40
79006832 TATTCGAATG
79006842 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
79006882 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
79006922 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
79006962 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
79007002 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
79007024 TACTTGGGTT
Statistics
Matches: 137, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 14 0.10
40 121 0.88
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:79010656 original size:26 final size:26
Alignment explanation
Indices: 79010617--79010666 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
79010607 ACAAAAATTC
79010617 CTTCTGAAATTAAACTGT-CACATATA
1 CTTCTGAAATTAAA-TGTACACATATA
79010643 CTTCTGAAGA-TAAATGTACACATA
1 CTTCTGAA-ATTAAATGTACACATA
79010667 GAATGCCCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 3 0.14
26 18 0.82
27 1 0.05
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (26 bp):
CTTCTGAAATTAAATGTACACATATA
Found at i:79012105 original size:29 final size:29
Alignment explanation
Indices: 79012063--79012121 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
79012053 CTAGGTTAGT
79012063 CTGAGAATCGACTAAACCATGCTCTGATA
1 CTGAGAATCGACTAAACCATGCTCTGATA
*
79012092 CTGAGAATCGACTAAACCATGCTTTGATA
1 CTGAGAATCGACTAAACCATGCTCTGATA
79012121 C
1 C
79012122 CACTAAATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (29 bp):
CTGAGAATCGACTAAACCATGCTCTGATA
Found at i:79013980 original size:43 final size:42
Alignment explanation
Indices: 79013834--79014023 Score: 167
Period size: 43 Copynumber: 4.6 Consensus size: 42
79013824 TTTATCAAAA
* * * *
79013834 CACCGGCATT-TAGCCTGCTAGGTTTTAAACCCGAATTCA-T
1 CACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGAACTCATT
* ** * * * *
79013874 CACCAGCACGA-AGCCTGCTAGACTTTAAGTCTGAACTCATT
1 CACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGAACTCATT
* *
79013915 CACTGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGA-ACTCA-TT
**
79013957 CACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGA-ACTCA-TT
79014000 CACCGGCATTATAGCCTGCTAGGC
1 CACCGGCATTATAGCCTGCTAGGC
79014024 CCGAAGCTCG
Statistics
Matches: 122, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
40 29 0.24
41 28 0.23
42 12 0.10
43 53 0.43
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (42 bp):
CACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGAACTCATT
Found at i:79014024 original size:43 final size:43
Alignment explanation
Indices: 79013913--79014040 Score: 195
Period size: 43 Copynumber: 3.0 Consensus size: 43
79013903 TCTGAACTCA
* * **
79013913 TTCACTGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
79013955 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
*
79013998 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCTCGAATATCA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATATCA
79014041 CATTTCGATA
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
42 11 0.14
43 62 0.78
44 6 0.08
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:79018313 original size:28 final size:28
Alignment explanation
Indices: 79018264--79018319 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
79018254 AATGAAAATT
79018264 AAAAGAAAAATAAAAATAAAAAAATAAA
1 AAAAGAAAAATAAAAATAAAAAAATAAA
*
79018292 AAAAGAATAAATAATAAT-AAAAAATAAA
1 AAAAGAA-AAATAAAAATAAAAAAATAAA
79018320 TAGGAGGAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.14
Consensus pattern (28 bp):
AAAAGAAAAATAAAAATAAAAAAATAAA
Found at i:79024005 original size:42 final size:42
Alignment explanation
Indices: 79023959--79024044 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
79023949 GTTTCACCCT
79023959 AATTCGGTAAAATCTCGTAACCCTATTTCTAGGCGTTCGATC
1 AATTCGGTAAAATCTCGTAACCCTATTTCTAGGCGTTCGATC
*
79024001 AATTCGGTAAAATCTCGTAACCCTATTTTTAGGCGTTCGATC
1 AATTCGGTAAAATCTCGTAACCCTATTTCTAGGCGTTCGATC
79024043 AA
1 AA
79024045 CTCCGCTTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (42 bp):
AATTCGGTAAAATCTCGTAACCCTATTTCTAGGCGTTCGATC
Found at i:79054731 original size:46 final size:47
Alignment explanation
Indices: 79054663--79054751 Score: 153
Period size: 46 Copynumber: 1.9 Consensus size: 47
79054653 ATAGGGAGAC
79054663 CAAAATTCGAATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATTCAT
1 CAAAATTCGAATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATTCAT
* *
79054710 CAAAATTCG-ATCTGCTTCGCTCCTGCTCAGTGAAGATAAGAT
1 CAAAATTCGAATCTGCTCCGCTCCTGCTCAGCGAAGATAAGAT
79054752 CTAGTATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
46 31 0.77
47 9 0.22
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (47 bp):
CAAAATTCGAATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATTCAT
Found at i:79054917 original size:132 final size:132
Alignment explanation
Indices: 79054697--79055065 Score: 517
Period size: 132 Copynumber: 2.8 Consensus size: 132
79054687 TGCTCAGCGA
* *
79054697 AGATAAGATTCATCAAAATTCGATCTGCTTCGCTCCTGCTCAGTGAAGATAAGATCTAGTATTTA
1 AGATAAAATTCATCAAAATTCGATCTGCTTCACTCCTG-TCAGTGAAGATAAGATCTAGTATTTA
* *
79054762 GCCTGCTCCACTCCTGCTCAGTGAAGA-AATGGCTGATGATTGGAATCTGCTCCATCGCCGGTAC
65 GCCTGCTCCACTCCTGCTCAGTGAAGATAA-GGCTGATGATTGAAATCTGCTCCATCGCCGATAC
*
79054826 GTGG
129 ATGG
* * *
79054830 AGATAAAATTCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTGGTGTTTAG
1 AGATAAAATTCATCAAAATTCGATCTGCTTCACTCCTGTCAGTGAAGATAAGATCTAGTATTTAG
* * ** **
79054895 CCTGCTCCACTCCTACTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTTCCGATACAT
66 CCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGAAATCTGCTCCATCGCCGATACAT
79054960 GG
131 GG
* * * * * *
79054962 AGATAAGACTT-GTCAAAATTTGATCTGCTTCACTCCTGTCAGTGAAGGTAAGATCTAGTCTATA
1 AGATAA-AATTCATCAAAATTCGATCTGCTTCACTCCTGTCAGTGAAGATAAGATCTAGTATTTA
79055026 GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGAT
65 GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGAT
79055066 ATCTGTAATC
Statistics
Matches: 208, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
132 168 0.81
133 40 0.19
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (132 bp):
AGATAAAATTCATCAAAATTCGATCTGCTTCACTCCTGTCAGTGAAGATAAGATCTAGTATTTAG
CCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGAAATCTGCTCCATCGCCGATACAT
GG
Found at i:79062177 original size:54 final size:55
Alignment explanation
Indices: 79062039--79062185 Score: 287
Period size: 55 Copynumber: 2.7 Consensus size: 55
79062029 GTAAGAAGGA
79062039 AAAAAAAAATTGTTCATCTTTTATCATCCTTGGCCGAATGTTCTAAAGAAGAAAG
1 AAAAAAAAATTGTTCATCTTTTATCATCCTTGGCCGAATGTTCTAAAGAAGAAAG
79062094 AAAAAAAAATTGTTCATCTTTTATCATCCTTGGCCGAATGTTCTAAAGAAGAAAG
1 AAAAAAAAATTGTTCATCTTTTATCATCCTTGGCCGAATGTTCTAAAGAAGAAAG
79062149 AAAAAAAAATTGTTCATC-TTTATCATCCTTGGCCGAA
1 AAAAAAAAATTGTTCATCTTTTATCATCCTTGGCCGAA
79062186 AATGCTAAGA
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
54 19 0.21
55 73 0.79
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (55 bp):
AAAAAAAAATTGTTCATCTTTTATCATCCTTGGCCGAATGTTCTAAAGAAGAAAG
Found at i:79063257 original size:27 final size:27
Alignment explanation
Indices: 79063226--79063401 Score: 192
Period size: 27 Copynumber: 6.5 Consensus size: 27
79063216 TAAATTGTAC
*
79063226 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
79063253 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
79063279 ATGCACTAAGTGTGTGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
79063307 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
79063334 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
79063362 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
79063389 AGCACTGAGTGTG
1 AGCACTAAGTGTG
79063402 TGGACTTAAT
Statistics
Matches: 126, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 101 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:79071721 original size:46 final size:46
Alignment explanation
Indices: 79071670--79071757 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
79071660 ATAGGGAGAC
79071670 CAAAATTCGAATCTGC-TCGCTCCTGCTCAGCGAAGATAAGATTCAT
1 CAAAATTCG-ATCTGCTTCGCTCCTGCTCAGCGAAGATAAGATTCAT
*
79071716 CAAAATTCGATCTGCTTCGCTCCTGCTCAGTGAAGATAAGAT
1 CAAAATTCGATCTGCTTCGCTCCTGCTCAGCGAAGATAAGAT
79071758 CTAGTATTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
45 6 0.15
46 34 0.85
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (46 bp):
CAAAATTCGATCTGCTTCGCTCCTGCTCAGCGAAGATAAGATTCAT
Found at i:79071859 original size:133 final size:132
Alignment explanation
Indices: 79071703--79072072 Score: 510
Period size: 133 Copynumber: 2.8 Consensus size: 132
79071693 TGCTCAGCGA
* *
79071703 AGATAAGATTCATCAAAATTCGATCTGCTTCGCTCCTGCTCAGTGAAGATAAGATCTAGTATTTA
1 AGATAAAATTCATCAAAATTCGATCTGCTTCACTCCTG-TCAGTGAAGATAAGATCTAGTATTTA
* *
79071768 GCCTGCTCCACTCCTGCTCAGTGAAGA-AATGGCTGATGATTGGAATCTGCTCCATCGCCGGTAC
65 GCCTGCTCCACTCCTGCTCAGTGAAGATAA-GGCTGATGATTGAAATCTGCTCCATCGCCGATAC
*
79071832 GTGG
129 ATGG
* * *
79071836 AGATAAAATTCATCAAAATTCGATCTGCTCCACTCCTTGTCAGTGAAGATAAGATCTGGTGTTTA
1 AGATAAAATTCATCAAAATTCGATCTGCTTCACTCC-TGTCAGTGAAGATAAGATCTAGTATTTA
* * ** **
79071901 GCCTGCTCCACTCCTACTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTTCCGATACA
65 GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGAAATCTGCTCCATCGCCGATACA
79071966 TGG
130 TGG
* * * * * *
79071969 AGATAAGACTT-GTCAAAATTTGATCTGCTTCACTCCTGTCAGTGAAGGTAAGATCTAGTCTATA
1 AGATAA-AATTCATCAAAATTCGATCTGCTTCACTCCTGTCAGTGAAGATAAGATCTAGTATTTA
79072033 GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGAT
65 GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGAT
79072073 ATCTGTAATC
Statistics
Matches: 208, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
132 60 0.29
133 141 0.68
134 7 0.03
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (132 bp):
AGATAAAATTCATCAAAATTCGATCTGCTTCACTCCTGTCAGTGAAGATAAGATCTAGTATTTAG
CCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGAAATCTGCTCCATCGCCGATACAT
GG
Found at i:79079210 original size:54 final size:55
Alignment explanation
Indices: 79079050--79079196 Score: 287
Period size: 54 Copynumber: 2.7 Consensus size: 55
79079040 GTAAGAAGGA
79079050 AAAAAAAAATTGTTCATCTTTTATCATCCTTGGCCGAATGTTCTAAAGAAGAAAG
1 AAAAAAAAATTGTTCATCTTTTATCATCCTTGGCCGAATGTTCTAAAGAAGAAAG
79079105 AAAAAAAAA-TGTTCATCTTTTATCATCCTTGGCCGAATGTTCTAAAGAAGAAAG
1 AAAAAAAAATTGTTCATCTTTTATCATCCTTGGCCGAATGTTCTAAAGAAGAAAG
79079159 AAAAAAAAATTGTTCATCTTTTATCATCCTTGGCCGAA
1 AAAAAAAAATTGTTCATCTTTTATCATCCTTGGCCGAA
79079197 AATGCTAAGA
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
54 54 0.59
55 37 0.41
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (55 bp):
AAAAAAAAATTGTTCATCTTTTATCATCCTTGGCCGAATGTTCTAAAGAAGAAAG
Found at i:79080271 original size:27 final size:27
Alignment explanation
Indices: 79080240--79080417 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
79080230 TAAATTGTAC
*
79080240 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
79080267 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
79080293 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
79080321 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
79080348 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
79080376 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
79080403 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79080418 GACTTAATAT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:79080301 original size:54 final size:55
Alignment explanation
Indices: 79080240--79080417 Score: 227
Period size: 54 Copynumber: 3.3 Consensus size: 55
79080230 TAAATTGTAC
* **
79080240 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
79080295 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* *
79080348 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
79080403 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79080418 GACTTAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 45 0.42
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Done.